Awesome Artificial General Intelligence and Computational Cognitive Sciences

An awesome & curated list for Artificial General Intelligence, an emerging inter-discipline field that combines artificial intelligence and computational cognitive sciences as majority, alone with probability and statistics, formal logic, cognitive and developmental psychology, computational philosophy, cognitive neuroscience, and computational sociology. We are promoting high-level machine intelligence by getting inspirations from the way that human learns and thinks, while obtaining a deeper understanding of human cognition simultaneously. We believe that this kind of reciprocative research is a potential way towards our big picture: building human-level intelligent systems with capabilities such as abstracting, explaining, learning, planning, and making decisions. And such intelligence may generally help people improve scientific research, engineering, and the arts, which are the hallmarks of human intelligence.

Awesome AGI & CoCoSci is an all-in-one collection, consisting of recources from basic courses and tutorials, to papers and books around diverse topics in mutiple perspectives. Both junior and senior researchers, whether learning, working on, or working around AGI and CoCoSci, meet their interest here.

Contributing

Contributions are greatly welcomed! Please refer to Contribution Guidelines before taking any action.

Contents

• Papers
  • Abduction
    • Explanation
    • Scientific Discovery
    • Rationalization
    • Applications in AI
  • Bayesian Modeling
    • Bayesian Induction
    • Generative Model
    • Nonparametric Model
    • Bayesian Optimization
  • Concepts
    • Theory of Concepts
    • Human Concept Represenataion
    • AI Concept Representation
  • Complexity & Information Theory
    • Theory
    • Dimensionality Reduction
    • Visual Complexity
  • Communications
    • Non-Verbal Communication
    • Pragmatics
    • Language Compositionality
    • Coordination
  • Domain Specific Language
    • Design Theory
    • Design Practises
    • Design Automation
    • Imperative DSL Applications
    • Declarative DSL Applications
    • Logic DSL Applications
    • DSL Program Synthesis
  • Problem Solving
    • Human-Level Problem Solving
    • Planning
    • Intrinsic Motivation
    • Reinforcement Learning
    • Inverse Reinforcement Learning
  • System 1 & System 2
    • Dual-Coding Theory
    • Neural-Symbolic AI
  • Explainability
    • Trustworthy AI
    • Strong Machine Learning
    • Explainable Deep Learning
  • Embodied Intelligence
  • Evolutionary Intelligence
  • Methodologies for Experiments
    • Quantitative Analysis
    • Scaling Up Behavioral Studies
    • Decision Making
    • Question Answering
    • Human-Machine Comparison
    • Association Test
    • Virtual Reality
  • Meta-Level Considerations
    • Meta Learning
    • Marr's Levels of Analysis
    • Gestalt
    • The Aha! Moment
    • Rationality
    • Cognitive Architecture
  • Science Logology
    • Philosophy of Science
    • Science of Science
    • Literature Mining
    • Scientific Writing
    • Science Education
    • Democratization of Science
    • Laboratory Automation
    • AI Assisted Research
  • Theory of Mind
  • Analogy
  • Causality
  • Commonsense
    • Intuitive Physics
    • AI Commonsense Reasoning
    • Commonsense Knowledgebase
  • Inductive Logic & Program Synthesis
  • Knowledge Representation
  • Cognitive Development
  • Learning in the Open World
  • Learning with Cognitive Plausibility
• Academic Tools
  • Courses
  • Programming
  • Paper Writing
  • Paper Reading
  • Literature Management
  • Knowledge Management
• Institute & Researcher
  • MIT
  • Stanford
  • Princeton
  • Harvard
  • UCLA
  • UC Berkeley
  • BNU
  • PKU
  • UCSD
  • NYU
  • JHU
  • SIT
• People & Book
  • John Hopcroft
  • Ulf Grenander
  • David Marr
  • Michael Tomasello
  • Judea Pearl
  • Susan Carey
  • Daniel Kahneman
  • Karl Popper
• About

Papers

Abduction

Explanation

• Abduction - Plato Stanford. A computational philosophy account on Abduction, one of the three thinking patterns besides Induction and Deduction, being unique for its potential to introduce new ideas into current knowledge.

• Scientific Explanation - Plato Stanford. A computational philosophy account on Scientific Explanation, a canonical application of Abduction.

• Scientific Reduction - Plato Stanford. A computational philosophy account on Scientific Reduction, which comes with no explicit boundary with Explanation.

• Non-monotonic Logic - Plato Stanford. A computational philosophy account on Non-monotonic Logic, a family of formal frameworks devised to capture and represent defeasible inference.

• Philosophical Writings of Peirce - Courier Corporation, 1955. [All Versions]. Original writings by C. S. Peirce, the philosopher who first introduces the concept of Abduction.

• Inference to the Best Explanation - Routledge, 1991. [All Versions]. Lipton's original paper on Inference to the Best Explanation as a specialized condition of Abduction.

• Abductive Reasoning and Learning - Springer, 2000. [All Versions]. This book contains leading survey papers on the various aspects of Abduction, both logical and numerical approaches.

• Abductive Cognition: The Epistemological and Eco-Cognitive Dimensions of Hypothetical Reasoning - Springer, 2009. [All Versions]. Most philosophers of science in the twentieth century have concluded that no logic of creative processes exists and, moreover, that a rational model of discovery is impossible. In short, scientific creative inferences are irrational and there is no “reasoning” to hypotheses. On the other hand, some research in the area of artificial intelligence has shown that methods for discovery could be found that are computationally adequate for rediscovering – or discovering for the first time – empirical or theoretical laws and theorems.

• Explanation and Abductive Inference - The Oxford Handbook of Thinking and Reasoning, 2012. [All Versions]. This chapter reviews evidence from cognitive psychology and cognitive development concerning the structure and function of explanations, with a focus on the role of explanations in learning and inference. The findings highlight the value of understanding explanation and abductive inference both as phenomena in their own right and for the insights they provide concerning foundational aspects of human cognition, such as representation, learning, and inference.

• Probabilistic models of cognition: Conceptual foundations - Trends in Cognitive Sciences, 2006. [All Versions]. Remarkable progress in the mathematics and computer science of probability has led to a revolution in the scope of probabilistic models. In particular, ‘sophisticated’ probabilistic methods apply to structured relational systems such as graphs and grammars, of immediate relevance to the cognitive sciences. This review outlines progress in this rapidly developing field, which provides a potentially unifying perspective across a wide range of domains and levels of explanation.

• The structure and function of explanations - Trends in Cognitive Sciences, 2006. [All Versions]. Generating and evaluating explanations is spontaneous, ubiquitous and fundamental to our sense of understanding. Recent evidence suggests that in the course of an individual's reasoning, engaging in explanation can have profound effects on the probability assigned to causal claims, on how properties are generalized and on learning. These effects follow from two properties of the structure of explanations: explanations accommodate novel information in the context of prior beliefs, and do so in a way that fosters generalization.

• Explanatory Preferences Shape Learning and Inference - Trends in Cognitive Sciences, 2016. [All Versions]. People often learn by seeking explanations, and they assess the viability of hypotheses by considering how well they explain the data. An emerging body of work reveals that both children and adults have strong and systematic intuitions about what constitutes a good explanation, and that these explanatory preferences have a systematic impact on explanation-based processes. In particular, people favor explanations that are simple and broad, with the consequence that engaging in explanation can shape learning and inference by leading people to seek patterns and favor hypotheses that support broad and simple explanations.

• The Role of Explanatory Considerations in Updating - Cognition, 2015. [All Versions]. This paper investigates experimentally controversy in philosophy about the connection between explanation and inference, of whether judgments of the explanatory goodness of hypotheses do play a role when people revise their degrees of belief in those hypotheses upon the receipt of new evidence.

• Explanation, updating, and accuracy - Journal of Cognitive Psychology, 2016. [All Versions].

• Best, second-best, and good-enough explanations: How they matter to reasoning - Journal of Experimental Psychology, 2018. [All Versions]. There is a wealth of evidence that people’s reasoning is influenced by explanatory considerations. Three experiments investigate the descriptive adequacy of a precise proposal to be found in the philosophical literature, to wit, that we should infer to the best explanation, provided certain additional conditions are met. The main conslusions are that (a) the quality of an explanation is a good predictor of people’s willingness to accept that explanation, and a better predictor than the prior probability of the explanation, and (b) if more than one possible explanation is given, people are the less willing to infer the best explanation the better they deem the second-best explanation.

• How explanation guides belief change - Trends in Cognitive Sciences, 2021. [All Versions]. Philosophers have argued that people ought to change their graded beliefs via Bayes’ rule. Recent work in psychology indicates that people sometimes violate that rule by attending to explanatory factors. Results from computational modeling suggest that such violations may actually be rational.

• Use of current explanations in multicausal abductive reasoning - Cognitive Science, 2001. [All Versions].

• Kinematic mental simulations in abduction and deduction - Proceedings of the National Academy of Sciences, 2013. [All Versions]. This paper presents a theory, and its computer implementation, of how mental simulations underlie the abductions of informal algorithms and deductions from these algorithms. Three experiments tested the theory’s predictions, using an environment of a single railway track and a siding. The results corroborated the use of a kinematic mental model in creating and testing informal algorithms and showed that individuals differ reliably in the ability to carry out these tasks.

• Patterns of abduction - Synthese, 2007. [All Versions]. A categorization for Abduction in the account of pure philosophy.

• Abduction: A categorical characterization - Journal of Applied Logic, 2015. [All Versions].

• Defending Abduction - Philosophy of Science, 1999. [All Versions].

• On the distinction between Peirce's abduction and Lipton's Inference to the best explanation - Synthese, 2011. [All Versions].

• Abduction − the context of discovery + underdetermination = inference to the best explanation - Synthese, 2019. [All Versions].

• Towards an Architecture for Cognitive Vision Using Qualitative Spatio-temporal Representations and Abduction - Spatial Cognition, 2002. [All Versions].

• Abductive inference within a pragmatic framework - Synthese, 2018. [All Versions].

• Disjunctive Abduction - New Generation Computing, 2019. [All Versions].

• Probabilistic alternatives to Bayesianism: the case of explanationism - Frontiers in Psychology, 2015. [All Versions]. A non-Bayesian account of Abduction.

• A Probabilistic Theory of Abductive Reasoning - ICAART, 2021. [All Versions]. A probabilistic perspective for interpreting Abductive Reasoning.

• The order effect in human abductive reasoning: an empirical and computational study - Journal of Experimental & Theoretical Artificial Intelligence, 2006. [All Versions].

• Abduction, Induction, and Analogy - Model-Based Reasoning in Science and Technology, 2010. [All Versions]. The distinctions and relations between Abduction, Induction, and Analogy.

• Remembrance of inferences past: Amortization in human hypothesis generation - Cognition, 2018. [All Versions]. A rational account of human hypothesis generation.

• The AHA! Experience: Creativity Through Emergent Binding in Neural Networks - Cognitive Science, 2012. [All Versions].

• Explanation-seeking curiosity in childhood - Current Opinion in Behavioral Sciences, 2020. [All Versions]. A piece of developmental pshchological evidence for Abduction in young children.

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Scientific Discovery

• Scientific Discovery - Plato Stanford. A computational philosophy account on Scientific Discovery, the process or product of successful scientific inquiry, sometimes an Abduction-like (Explanation) thinking pattern.

• Models of Discovery: And Other Topics in the Methods of Science - Springer, 1977. [All Versions]. The original book on search as scientific thinking.

• Scientific discovery: Computational explorations of the creative processes - MIT Press, 1987. [All Versions]. The book is divided into four parts. Part I introduces the subject of discovery, defines the scope of our work, and discusses some of the issues that have surrounded and still surround our topic. Parts II and III contain the main body of our results, largely in the form of accounts of the performance of computer programs that simulate human thought processes to make scientific discoveries. Part II is devoted largely to the processes for inducing quantitative theories from data. Part III is devoted mainly to the processes for inducing qualitative descriptive and structural theories from data. In Part IV, on the basis of our experience, we discuss at a lower level of precision how the programs described in the preceding chapters could be combined into a single, more general discovery system, and we describe a wide range of the other component processes that enter into scientific discovery.

• Exploring science: The cognition and development of discovery processes - MIT Press, 2000. [All Versions]. In this book, D. Klahr sets out to describe the cognitive and developmental processes that have enabled scientists to make the discoveries that comprise the body of information we call "scientific knowledge." Over the past decade, Klahr and his colleagues have conducted laboratory experiments in which they create discovery contexts, computer-based environments, to evoke the kind of thinking characteristic of scientific discovery in the "real world." In attempting to solve the problems posed by the discovery tasks, experiment participants (from preschoolers to university students) use many of the same higher-order cognitive processes used by practicing scientists. Through his work, Klahr integrates two disparate approaches–the content-based approach and the process-based approach– to present a comprehensive model of the psychology of scientific discovery.

• Dual Space Search During Scientific Reasoning - Cognitive Science, 1988. [All Versions]. The original paper on the dual space search as scientific thinking theory.

• Complexity Management in a Discovery Task - CogSci'92, 1992. [All Versions]. Advanced experiments on dual space search.

• A dual-space model of iteratively deepening exploratory learning - International Journal of Human-Computer Studies, 1996. [All Versions]. This paper describes a cognitive model of exploratory learning, which covers both trial-and-error and instruction-taking activities. The model, implemented in Soar, is grounded in empirical data of subjects in a task-oriented, trial-and-error exploratory learning situation. A key empirical finding reflected in the model is the repeated scanning of a subset of the available menu items, with increased attention to items on each successive scan. This is explained in terms of dual search spaces, the external interface and the user's internal knowledge, both of which must be tentatively explored with attention to changing costs and benefits.

• Heuristics for Scientific Experimentation: A Developmental Study - Cognitive Psychology, 1993. [All Versions]. A piece of evidence on children have basic scientific thinking skills.

• A 4-Space Model of Scientific Discovery - CogSci'95, 1995. [All Versions]. Extending the dual space search.

• When to trust the data: Further investigations of system error in a scientific reasoning task - Memory & Cognition, 1996. [All Versions]. A behavioral account on the shift between bottom-up observation and top-down reasoning.

• Confirmation, disconfirmation, and information in hypothesis testing - Psychological Review, 1987. [All Versions]. A psychological account on hypothesis testing.

• Hypothesis generation, sparse categories, and the positive test strategy - Psychological Review, 2011. [All Versions].

• Children and adults as intuitive scientists - Psychological Review, 1989. [All Versions]. A perspective against search as scientific thinking.

• Abduction and styles of scientific thinking - Synthese, 2021. [All Versions]. A computational philosophy account connecting Abduction and scientific thinking.

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Rationalization

• Imagination and the generation of new ideas - Cognitive Development, 2015. [All Versions]. A piece of evidence for rationalization in childhood.

• Coalescing the Vapors of Human Experience into a Viable and Meaningful Comprehension - CogSci'16, 2016. [All Versions]. Constrainted thinking as rationalization.

• How We Know What Not To Think - Trends in Cognitive Sciences, 2019. [All Versions]. A comprehensive review on rationalization.

• Rationalization is rational - Behavioral and Brain Sciences, 2020. [All Versions]. A rationality account on rationalization.

• Rationalizing constraints on the capacity for cognitive control - Trends in Cognitive Sciences, 2021. [All Versions].

• Why Imaginary Worlds? The psychological foundations and cultural evolution of fictions with imaginary worlds - Behavioral and Brain Sciences, 2021. [All Versions]. A review of rationalization as imaginary worlds in fictions. The perspective proposes that imaginary worlds co-opt our preferences for exploration, which have evolved in humans and nonhuman animals alike, to propel individuals toward new environments and new sources of reward.

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Applications in AI

• Functional genomic hypothesis generation and experimentation by a robot scientist - Nature, 2004. [All Versions]. A canonical application of logical abduction on biodesign.

• Interpretation as abduction - Artificial Intelligence, 1993. [All Versions]. A computational account on interpretation as Abduction.

• Probabilistic Horn abduction and Bayesian networks - Artificial Intelligence, 1993. [All Versions]. Casual abduction in Bayesian networks.

• Abductive Inference in Bayesian Networks: A Review - Advances in Bayesian Networks, 2004. [All Versions].

• Abductive Logic Programming - Journal of Logic Computation, 1992. [All Versions]. The original paper in ALP.

• ACLP: Abductive Constraint Logic Programming - The Journal of Logic Programming, 1999. [All Versions]. The original paper in ACLP.

• Abduction in Logic Programming - Computational Logic, 2002. [All Versions]. The revised version of the ALP paper.

• Bayesian Abductive Logic Programs: A Probabilistic Logic for Abductive Reasoning - IJCAI'11, 2011. [All Versions].

• Abductive Plan Recognition by Extending Bayesian Logic Programs - ECML'11, 2011. [All Versions].

• An Approach to Abductive Reasoning in Equational Logic - IJCAI'13, 2013. [All Versions].

• Abduction-Based Explanations for Machine Learning Models - AAAI'19, 2019. [All Versions].

• Probabilistic Sufficient Explanations - IJCAI'21, 2021. [All Versions].

• Machine Translation Using Abductive Inference - COLING, 1990. [All Versions]. An application of abduction in language translating.

• Anomaly detection through explanations - Ph.D Dissertation MIT, 2018. [All Versions]. An application of abduction in anomaly detection.

• Automated Biodesign Engineering by Abductive Meta-Interpretive Learning - AAAI Spring Symposium Series 2021 on Artificial Intelligence for Synthetic Biology, 2021. [All Versions]. This work proposes an automated biodesign engineering framework empowered by Abductive Meta-Interpretive Learning (MetaAbd), a novel machine learning approach that combines symbolic and sub-symbolic machine learning, to further enhance the design-build-test-learn cycle by enabling the learning machine to 1) exploit domain knowledge and learn human-interpretable models that are expressed by formal languages such as first-order logic; 2) simultaneously optimise the structure and parameters of the models to make accurate numerical predictions; 3) reduce the cost of experiments and effort on data annotation by actively generating hypotheses and examples.

• Human Comprehensible Active Learning of Genome-Scale Metabolic Networks - AAAI Spring Symposium Series 2023 on Computational Scientific Discovery, 2023. [All Versions]. [Extended Abstract]. [Slides]. This work introduces a novel machine learning framework ILP-iML1515 based on Inductive Logic Programming (ILP) that performs abductive logical reasoning and actively learns from training examples. The ILP-iML1515 framework 1) allows high-throughput simulations and 2) actively selects experiments that reduce the experimental cost of learning gene functions in comparison to randomly selected experiments.

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Bayesian Modeling

Bayesian Induction

• Bayesian Epistemology - Plato Stanford. A computational philosophy account on the nature of uncertainty modeling in Bayesian Epistemology.

• Probabilistic machine learning and artificial intelligence - Nature, 2015. [All Versions]. Zoubin Ghahramani's review on Bayesian machine learning.

• Generalization, similarity, and Bayesian inference - Behavioral and Brain Sciences, 2001. [All Versions]. Josh Tenenbaum's review on Bayesian generalization.

• Bayesian modeling of human concept learning - NeurIPS'98, 1998. [All Versions]. Original paper on Bayesian generalization.

• Rules and Similarity in Concept Learning - NeurIPS'99, 1999. [All Versions]. Unifying rule-based and similarity-based generalization via Bayesian generalization.

• Theory-based Bayesian models of inductive learning and reasoning - Trends in Cognitive Sciences, 2006. [All Versions]. Josh Tenenbaum's review on Bayesian theory induction.

• Word learning as Bayesian inference - Psychological Review, 2007. [All Versions]. [APA]. Fei Xu's review on Bayesian word learning.

• How to Grow a Mind: Statistics, Structure, and Abstraction - Science, 2011. [All Versions]. Josh Tenenbaum's review on Bayesian theory induction.

• Human-level concept learning through probabilistic program induction. - Science, 2015. [All Versions]. [Supplementary Material]. Bayesian program induction for few-shot learning.

• Building Machines That Learn and Think Like People - Behavioral and Brain Sciences, 2017. [All Versions]. Brenden Lake and Josh Tenenbaum's review on Bayesian modeling.

• The rational basis of representativeness - CogSci'01, 2001. [All Versions].

• Testing a Bayesian Measure of Representativeness Using a Large Image Database - NeurIPS'11, 2011. [All Versions].

• Constructing a hypothesis space from the Web for large-scale Bayesian word learning - CogSci'12, 2012. [All Versions].

• Modeling rules and similarity in colexification - CogSci'21, 2021. [All Versions]. Rule- and similarity-based generalization in colexification.

• Human-level few-shot concept induction through minimax entropy learning - Science Advances, 2024. [All Versions]. This paper introduces a computational model designed to emulate human inductive reasoning on abstract reasoning tasks, such as those in IQ tests, using a minimax entropy approach. This method combines identifying the most effective constraints on data via minimum entropy with determining the best combination of them via maximum entropy.

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Generative Model

• Generative Modeling Explained - Statistical Machine Learning Tutorials, 2022. This tutorial on generative modeling is in part of Statistical Machine Learning Tutorial by Ying Nian Wu at UCLA Statistics. The tutorial goes over the key equations and algorithms for learning recent generative models, including energy-based models, diffusion/score-based models, autoregressive/flow-based models, VAEs, and GANs, and explains the connections between these models.

• Bayesian Data Analysis - Chapman and Hall/CRC, 1995. [All Versions]. Don Rubin's introductory book on Bayesian models.

• Filters, random fields and maximum entropy (FRAME): Towards a unified theory for texture modeling - International Journal of Computer Vision, 1998. [All Versions]. Song-Chun Zhu's original paper on energy-based generative texture modeling.

• Object Perception as Bayesian Inference - Annual Review of Psychology, 2004. [All Versions]. Alan Yuille's review on Bayesian object perception.

• A tale of three probabilistic families: Discriminative, descriptive, and generative models - Quarterly of Applied Mathematics, 2018. [All Versions]. Ying Nian Wu's review on three families of statistical modeling.

• From information scaling of natural images to regimes of statistical models - Quarterly of Applied Mathematics, 2008. [All Versions]. A statistical account for the shift from textons to texture.

• A Theory of Generative ConvNet - ICML'16, 2016. [All Versions].

• Cooperative Training of Descriptor and Generator Networks - IEEE Transactions on Pattern Analysis and Machine Intelligence, 2018. [All Versions].

• Learning Latent Space Energy-Based Prior Model - NeurIPS'20, 2020. [All Versions]. [Project]. [Code]. A milestone paper on Latent Energy-Based Model.

• Learning Energy-Based Models by Diffusion Recovery Likelihood - ICLR'21, 2021. [All Versions]. [Code].

• Score-Based Generative Modeling through Stochastic Differential Equations - ICLR'21, 2021. [All Versions].

• Latent Space Factorisation and Manipulation via Matrix Subspace Projection - ICML'20, 2020. [All Versions].

• Minimax entropy principle and its application to texture modeling - Neural Computing, 1997. [All Versions].

• Parameter Expansion for Data Augmentation - Journal of the American Statistical Association, 1999. [All Versions].

• Image segmentation by data-driven markov chain monte carlo - IEEE Transactions on Pattern Analysis and Machine Intelligence, 2002. [All Versions]. Classic method for image segmentation via generative modeling.

• Efficient Learning of Sparse Representations with an Energy-Based Model - NeurIPS'06, 2006. [All Versions].

• A Tutorial on Energy-Based Learning - Predicting Structured Data, MIT Press, 2006. [All Versiosn]. Yann LeCun's tutorial on energy-based learning.

• Unsupervised Representaton Learning with Deep Convolutional Generative Adversarial Networks - ICLR'16, 2016. [All Versions].

• Analysis of Langevin Monte Carlo via Convex Optimization - Journal of Machine Learning Research, 2019. [All Versions].

• A generative vision model that trains with high data efficiency and breaks text-based CAPTCHAs - Science, 2017. [All Versions].

• Where do hypotheses come from? - Cognitive Psychology, 2017. [All Versions]. A Bayesian account for modeling basic rules as the hypothesis space.

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Nonparametric Model

• A Bayesian Analysis of Some Non-parametric Problems - The Annals of Statistics, 1973. [All Versions]. A classic review on non-parametric problems.

• Mixtures of Dirichlet Process with Applications to Bayesian Nonparametric Problems - The Annals of Statistics, 1974. [All Versions]. The original paper on Dirichlet Process modeling for non-parametric problems.

• Latent Semantic Indexing: A Probabilistic Analysis - Journal of Computer and System Sciences, 2000. [All Versions]. The original paper on hierarchical topic model.

• Nonparametric Bayesian Data Analysis - Statistical Science, 2004. [All Versions].

• Finding scientific topics - Proceedings of the National Academy of Sciences, 2004. [All Versions]. Application on scientific paper ananlysis for hierarchical topic model.

• Hierarchical topic models and the nested Chinese restaurant process - NeurIPS'03, 2003. [All Versions]. The original paper for nested Chinese restaurant process.

• Learning Systems of Concepts with an Infinite Relational Model - AAAI'06, 2006. [All Versions].

• The nested chinese restaurant process and bayesian nonparametric inference of topic hierarchies - Journal of the ACM, 2010. [All Versions].

• Infinite Latent Feature Models and the Indian Buffet Process - Gatsby Computational Neuroscience Unit Technical Report 2005-001, 2005. [All Versions].

• The Indian Buffet Process: An Introduction and Review - Journal of Machine Learning Research, 2011. [All Versions]. Tom Griffiths and Zoubin Ghahramani's review on infinite models, including the Chinese Restaurant Process (CRP) and the Indian Buffet Process (IBP).

• Nonparametric Bayesian Logic - UAI'05, 2005. [All Versions]. The first paper integrating logic into non-parametric model.

• Infinite Hidden Relational Models - UAI'06, 2006. [All Versions].

• Statistical Predicate Invention - ICML'07, 2007. [All Versions]. Treating predicate invention as a non-parametric problem, in the account of statistics.

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Bayesian Optimization

• Taking the Human Out of the Loop: A Review of Bayesian Optimization - Proceedings of the IEEE, 2015. [All Versions].

• Practical Bayesian Optimization of Machine Learning Algorithms - NeurIPS'12, 2012. [All Versions]. The original paper for applying Bayesian optimization to machine learning hyperparameter selection.

• A Tutorial on Bayesian Optimization - 2018. [All Versions].

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Concepts

Theory of Concepts

• Concepts - Plato Stanford. A collection of the computational philosophical debates about the concepts.

• Theory-theory - Wikipedia. Wikipedia for the Theory theory, a perspective that contextualizes concepts in theoretical (or empirical) systems.

• Conceptual Change in Childhood - MIT Press, 1985. [All Versions]. Susan Carey's book on the theory theory of concepts in child development.

• Words, thoughts, and theories - MIT Press, 1997. [All Versions]. Alison Gopnik's book that articulates and defends the "theory theory" of cognitive and semantic development, the idea that infants and young children, like scientists, learn about the world by forming and revising theories-a view of the origins of knowledge and meaning that has broad implications for cognitive science.

• The Theory Theory - Mapping the mind: Domain specificity in cognition and culture, Cambridge University Press, 1994. [All Versions]. Alison Gopnik's original paper on the theory theory.

• The Origin of Concepts - Oxford University Press, 2009. [All Versions]. Susan Carey's extended book on the theory theory of concepts in child development.

• What we mean when we say semantic: A Consensus statement on the nomenclature of semantic memory - 2023. [All Versions]. The aim of this multidisciplinary workgroup was to establish consensus definitions for some of the major recurring constructs in semantic research (e.g., concept, amodal, abstract). These efforts yielded a glossary consisting of succinct definitions, agreement, subjective confidence ratings, relevant theoretical background, and principled dissenting views. These core definitions will potentially yield benchmarks for aligning perspectives and improving cross-disciplinary communication in semantic research.

• Reconstructing constructivism: Causal models, Bayesian learning mechanisms, and the theory theory - Psychological Bulletin, 2012. [All Versions]. Alison Gopnik's review on the constructivism idea of developmental research, including the theory theory of concepts.

• Similarity involving attributes and relations: Judgments of similarity and difference are not inverses - Psychological Science, 1990. [All Versions]. Theory on similarity judgement by attributes and relations.

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Human Concept Representation

• Organizing conceptual knowledge in humans with a gridlike code - Science, 2016. [All Versions]. Original findings suggest that global relational codes may be used to organize nonspatial conceptual representations and that these codes may have a hexagonal gridlike pattern when conceptual knowledge is laid out in two continuous dimensions.

• Navigating cognition: Spatial codes for human thinking - Science, 2018. [All Versions]. A framework that operates across information domains to support a wide spectrum of cognitive functions, where place and grid cell population codes provide a representational format to map variable dimensions of cognitive spaces.

• Structuring Knowledge with Cognitive Maps and Cognitive Graphs - Trends in Cognitive Sciences, 2021. [All Versions]. Russel Epstein's review on evidence suggesting that both map-like and graph-like representations exist in the mind/brain that rely on partially overlapping neural systems.

• Natural speech reveals the semantic maps that tile human cerebral cortex - Nature, 2016. [All Versions]. [Code & Tutorial]. Systematically mapping semantic selectivity across the cortex using voxel-wise modelling of functional MRI data collected while subjects listened to hours of narrative stories, showing that the semantic system is organized into intricate patterns that seem to be consistent across individuals.

• Idiosyncratic Tower of Babel: Individual differences in word-meaning representation increase as word abstractness increases - Psychological Science, 2021. [All Versions]. Uncovering the cognitive and neural origins of word-meaning disagreements across individuals.

• Semantic projection recovers rich human knowledge of multiple object features from word embeddings - Nature Human Behavior, 2022. [All Versions]. Proposing a domain-general method to extract context-dependent relationships from word embeddings: ‘semantic projection’ of word-vectors onto lines that represent multiple dimensions of features, which recovers human judgements across various object categories and properties.

• Using a high-dimensional graph of semantic space to model relationships among words - Frontiers in Psychology, 2014. [All Versions]. First-order similarity and second-order relation metrics for word embedding.

• Simple shape feature computation across modalities: convergence and divergence between the ventral and dorsal visual streams - Cerebral Cortex, 2023. [All Versions]. Visual and haptic shape perception fMRI experiments suggesting that mid-level shape features are represented in a modality-independent manner in both the ventral and dorsal streams.

• The Database of Cross-Linguistic Colexifications, reproducible analysis of cross-linguistic polysemies - Scientific Data, 2020. [All Versions]. [Project]. CLICS tackles interconnected interdisciplinary research questions about the colexifcation of words across semantic categories in the world’s languages, and show-cases best practices for preparing data for cross-linguistic research.

• Locating what comes to mind in empirically derived representational spaces - Cognition, 2023. [All Versions]. An evidence-based study concluding that people call category members to mind according to their location in representational space, specifically based on the predicted usefulness of considering category members with particular features.

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AI Concept Representation

• A principal odor map unifies diverse tasks in olfactory perception - Science, 2023. [All Versions]. [Code]. [Data (Reproduced)]. [Preprint]. [GoodScents Database]. [Leffingwell Database]. A Principal Odor Map (POM) that preserves perceptual relationships and enables odor quality prediction for novel odorants.

• Metabolic activity organizes olfactory representations - eLife, 2023. [All Versions]. [Code & Data]. Odorous compounds with similar POM representations are more likely to co-occur within a substance and be metabolically closely related; metabolic reaction sequences also follow smooth paths in POM despite large jumps in molecular structure.

• A Review of Tactile Information: Perception and Action Through Touch - IEEE Transactions on Robotics, 2020. [All Versions]. [ResearchGate]. A hierarchy consisting of raw, contact, object, and action levels to structure the tactile information.

• ImageBind: One Embedding Space To Bind Them All - CVPR'23, 2023. [All Versions]. [Project]. Cross-modality representation fusion by aligning all other modalities to the visual modality.

• Semantic features of object concepts generated with GPT-3 - CogSci'22, 2022. [All Versions]. Testing the semantic attributes of the concepts generated by the large language model GPT-3.

• Connecting Touch and Vision via Cross-Modal Prediction - CVPR'19, 2019. [All Versions]. [Project].

• Unit Testing for Concepts in Neural Networks - Transactions of the Association for Computational Linguistics, 2022. [All Versions]. Testing the concept representation by neural networks through Fodor's theory of concepts.

• Do Llamas Work in English? On the Latent Language of Multilingual Transformers - 2024. [All Versions]. A preliminary work empirically showing that the intermediate embeddings of multilingual Transformers (1) start far away from output token embeddings; (2) already allow for decoding a semantically correct next token in the middle layers, but give higher probability to its version in English than in the input language; (3) finally move into an input-language-specific region of the embedding space. Also, the embedding of abstract concept space lies closer to English than to other languages.

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Complexity & Information Theory

Theory

• A Mathematical Theory of Communication - The Bell System Technical Journal, 1948. [All Versions]. Shannon's original paper on Information Theory.

• An introduction to Kolmogorov complexity and its applications - Springer, 2008. [All Versions]. The introductory book for Algorithmic Information Theory, especially the Kolmogorov complexity theory.

• Complexity and the representation of patterned sequences of symbols - Psychological Review, 1972. [All Versions]. Herbert Simon's review on subjective complexity.

• Visual Pattern Discrimination - IRE Transactions on Information Theory, 1962. [All Versions].

• Algorithmic Information Theory - IBM Journal of Research and Development, 1977. [All Versions]. Chaitin's original paper on Algorithmic Information Theory.

• From Algorithmic to Subjective Randomness - NeurIPS'03, 2003. [All Versions].

• On the Complexity of Bayesian Generalization - ICML'23, 2023. [All Versions]. [Code]. [Models]. This work studies the two computation modes of concept generalization in the natural visual spectrum, i.e., rule-based and similarity-based generalization, when the problem space scales up and when the complexity of concepts becomes diverse.

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Dimensionality Reduction

• A global geometric framework for nonlinear dimensionality reduction - Science, 2000. [All Versions]. The original paper on spectrum clustering.

• Reducing the dimensionality of data with neural networks - Science, 2006. [All Versions]. The original paper on Variational Autoencoder.

• Representation Learning: A Review and New Perspectives - IEEE Transactions on Pattern Analysis and Machine Intelligence, 2013. [All Versions]. Yoshua Bengio's review on representation learning.

• Representation Learning: A Statistical Perspective - Annual Review of Statistics and Its Application, 2020. [All Versions]. Song-Chun Zhu and Ying Nian Wu's review on representation learning, in an account of statistics.

• Deep Learning and the Information Bottleneck Principle - IEEE Information Theory Workshop'15, 2015. [All Versions]. The first paper identifying the problem of information bottleneck in representation learning.

• On the information bottleneck theory of deep learning - Journal of Statistical Mechanics: Theory and Experiment, 2019. [All Versions].

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Visual Complexity

• Visual complexity: a review - Psychological Bulletin, 2006. [All Versions]. [APA]. A psychological account on visual complexity.

• Compressed File Length Predicts Search Time and Errors on Visual Displays - Displays, 2005. [All Versions]. Compressed file size, an objective, easily obtained measure of display complexity, predicts both subjective complexity judgments and objective search performance. It is analogous to algorithmic complexity, a theoretical but impractical measure of bit string complexity. The data suggest that it may be possible to use the compressed file size measure to predict display performance in applied tasks.

• Image complexity and spatial information - International Workshop on Quality of Multimedia Experience, 2013. [All Versions].

• Seeing and speaking: How verbal “description length” encodes visual complexity - Journal of Experimental Psychology, 2022. [All Versions]. [APA]. Empirical evidencs showing the relation between visual complexity and description length.

• How variability shapes learning and generalization - Trends in Cognitive Sciences, 2022. [All Versions]. A comprehensive review on the trade-off between variability and generalization ability.

• Identifying concept libraries from language about object structure - CogSci'22, 2022. [All Versions].

• Show or tell? Exploring when (and why) teaching with language outperforms demonstration - Cognition, 2023. [All Versions]. The findings of this paper suggest that language communicates complex concepts by directly transmitting abstract rules. In contrast, demonstrations transmit examples, requiring the learner to infer the rules.

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Communications

Non-Verbal Communication

• The Interactive Evolution of Human Communication Systems - Cognitive Science, 2010. [All Versions]. Nicolas Fay's original paper on iconicity.

• Iconicity: From sign to system in human communication and language - Pragmatics & Cognition, 2014. [All Versions]. This paper explores the role of iconicity in spoken language and other human communication systems.

• The Picture Exchange Communication System - Behavior Modification, 1994. [All Versions].

• Graphical Language Games: Interactional Constraints on Representational Form - Cognitive Science, 2007. [All Versions]. The first paper introducing the graphical language game.

• A multimodal discourse theory of visual narrative - Journal of Pragmatics, 2014. [All Versions].

• Pixelor: A Competitive Sketching AI Agent. So you think you can beat me? - ACM SIGGRAPH'20, 2020. [All Versions]. [Project]. Rationality in feature sketching.

• Pragmatic Inference and Visual Abstraction Enable Contextual Flexibility During Visual Communication - Computational Brain & Behavior, 2020. [All Versions]. A computational account on the rational behavior in graphical language games.

• Emergent Graphical Conventions in a Visual Communication Game - NeurIPS, 2022. [All Versions]. A computational account on the emergence of iconic language.

• AI Nüshu: An Exploration of Language Emergence in Sisterhood Through the Lens of Computational Linguistics - ACM SIGGRAPH Asia'23, 2023. [All Versions]. By continually observing their environment and communicating, AI agents trained in the Chinese dictionary and the Nüshu corpus collaborate towards creating a standard writing system to encode Chinese.

• Communicating artificial neural networks develop efficient color-naming systems - Proceedings of the National Academy of Sciences, 2021. [All Versions]. Simulating the emergence of code as the communication bottleneck in color learning task.

• Bridging cultural and cognitive perspectives on similarity reasoning - CogSci'22, 2022. [All Versions].

• Twelve-month-olds communicate helpfully and appropriately for knowledgeable and ignorant partners - Cognition, 2008. [All Versions]. The original paper on child pointing.

• 12- and 18-Month-Olds Point to Provide Information for Others - Journal of Cognition and Development, 2009. [All Versions].

• Toward understanding the importance of gesture in distributed scientific collaboration - Knowledge and Information Systems, 2006. [All Versions].

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Pragmatics

• Pragmatics - Plato Stanford. A computational philosophy account of Pragmatics, whilch studies utterances in specific contexts.

• Predicting Pragmatic Reasoning in Language Games - Science, 2012. [All Versions]. The original paper on Rational Speech Act (RSA).

• Pragmatic Language Interpretation as Probabilistic Inference - Trends in Cognitive Sciences, 2016. [All Versions]. Noah Goodman and Micheal Frank's review on Rational Speech Act.

• Pragmatic Reasoning through Semantic Inference - Semantics & Pragmatics, 2016. [All Versions].

• Processing gradable adjectives in context: A visual world study - Semantics and Linguistic Theory, 2016. [All Versions]. Adjective understanding as a rational inference in the context.

• Colors in Context: A Pragmatic Neural Model for Grounded Language Understanding - Transactions of the Association for Computational Linguistics, 2017. [All Versions].

• Social Pragmatics: Preschoolers Rely on Commonsense Psychology to Resolve Referential Underspecification - Child Development, 2019. [All Versions]. A piece of evidence for children's capability on social pragmatics.

• Pragmatically Informative Image Captioning with Character-Level Inference - NAACL'18, 2018. [All Versions].

• Pragmatic Issue-Sensitive Image Captioning - EMNLP Findings'20, 2020. [All Versions]. Application of Rational Speech Act to Image Captioning.

• Disentangling contributions of visual information and interaction history in the formation of graphical conventions - CogSci'19, 2019. [All Versions].

• How young children integrate information sources to infer the meaning of words - Nature Human Behavior, 2021. [All Versions]. Before formal education begins, children typically acquire a vocabulary of thousands of words. This learning process requires the use of many different information sources in their social environment, including their current state of knowledge and the context in which they hear words used. This paper specifies a developmental model according to which children consider information sources in an age-specific way and integrate them via Bayesian inference. This work presents a developmental theory of information integration during language learning and illustrates how formal models can be used to make a quantitative test of the predictive and explanatory power of competing theories.

• Information Structure in Discourse: Towards an Integrated Formal Theory of Pragmatics - Semantics and Pragmatics, 1998. [All Versions].

• When Lingens meets Frege: communication without common ground - Philosophical Studies, 2021. [All Versions].

• The SocialAI School: Insights from Developmental Psychology Towards Artificial Socio-Cultural Agents - ICML'23 Workshop on Theory-of-Mind, 2023. [All Versions]. [Project].

• Language as shaped by the environment: linguistic construal in a collaborative spatial task - Nature Humanities and Social Sciences Communications, 2020. [All Versions]. [Code & Data]. [Dialogue Experimental Toolkit(DiET)].

• Exploring Urban Form Through Openstreetmap Data: A Visual Introduction - Urban Experience and Design: Contemporary Perspectives on Improving the Public Realm, 2020. [All Versions]. [OSMnx Tool]. [OpenStreetMap Website].

• Saying what you mean in dialogue: A study in conceptual and semantic co-ordination - Cognition, 1987. [All Versions].

• Conversation, co-ordination and convention: an empirical investigation of how groups establish linguistic conventions - Cognition, 1994. [All Versions].

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Language Compositionality

• Compositionality - Plato Stanford. A computational philosophy account on compositionality, one of the distinctive feature of language.

• The Principle of Semantic Compositionality - Topoi, 1994. [All Versions]. The original paper on the principle of semantic compositionality.

• On The Emergence Of Compositionality - Proceedings of the Evolution of Language Conference'06, 2006. [All Versions]. The original paper on the emergence of compositionality.

• Multi-Agent Cooperation and the Emergence of (Natural) Language - ICLR'17, 2017. [All Versions]. The original paper on the emergence of language in multi-agent reinforcement learning.

• Emergence of Language with Multi-agent Games: Learning to Communicate with Sequences of Symbols - NeurIPS'18, 2018. [All Versions].

• Emergent communication through negotiation - ICLR'18, 2018. [All Versions].

• The language of generalization - Psychological Review, 2019. [All Versions].

• Compositionality and Generalization in Emergent Languages - ACL'20, 2020. [All Versions].

• Word formation supports efficient communication: The case of compounds - CogSci'22, 2022. [All Versions].

• War and Peace (WarAgent): Large Language Model-based Multi-Agent Simulation of World Wars - 2023. [All Versions].

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Coordination

• In situ bidirectional human-robot value alignment - Science Robotics, 2022. [All Versions]. [Preprint]. This paper proposes an explainable artificial intelligence (XAI) system in which a group of robots predicts users’ values by taking in situ feedback into consideration while communicating their decision processes to users through explanations. To learn from human feedback, the XAI system integrates a cooperative communication model for inferring human values associated with multiple desirable goals. To be interpretable to humans, it simulates human mental dynamics and predicts optimal explanations using graphical models.

• From Explicit Communication to Tacit Cooperation: A Novel Paradigm for Cooperative MARL - AAMAS'24, 2024. [All Versions]. Drawing inspiration from human team cooperative learning, this paper proposes a novel paradigm that facilitates a gradual shift from explicit communication to tacit cooperation.

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Domain Specific Language

Design Theory

• Domain-Specific Language - Wikipedia. Wikipedia encyclopedia entry on Domain Specific Languages.

• Domain Engineering - Wikipedia. Wikipedia encyclopedia entry on Domain Engineering.

• Domain-Specific Languages - Pearson Education, 2010. [All Versions]. [Domain-Specific Languages Guide]. When carefully selected and used, Domain-Specific Languages (DSLs) may simplify complex code, promote effective communication with customers, improve productivity, and unclog development bottlenecks. In Domain-Specific Languages, noted software development expert Martin Fowler first provides the information software professionals need to decide if and when to utilize DSLs. Then, where DSLs prove suitable, Fowler presents effective techniques for building them, and guides software engineers in choosing the right approaches for their applications.

• Comparison of multi-paradigm programming languages - Wikipedia. Programming languages may support multiple programming paradigms. This Wikipedia encyclopedia entry lists a concise reference for the programming paradigms.

• Epigrams on programming - ACM SIGPLAN Notices, 1982. [All Versions].

• The complete guide to (external) Domain Specific Languages. An introduction to Domain Specific Languages (DSL) based on 19 DSL cases.

• When and How to Develop Domain-Specific Languages - ACM Computing Surveys, 2005. [All Versions]. A review on DSL development methodologies that identify patterns in the decision, analysis, design, and implementation phases of DSL development.

• Design Guidelines for Domain Specific Languages - OOPSLA Workshop on Domain-Specific Modeling (DSM' 09), 2009. [All Versions]. Guidelines to support a DSL developer to achieve better quality of the language design and a better acceptance among its users.

• Domain-specific languages: an annotated bibliography - ACM SIGPLAN Notices, 2000. [All Versions]. A survey on the topic of domain-specific languages as used for the construction and maintenance of software systems.

• Usability Evaluation of Domain-Specific Languages - ICQICT'12, 2012. [All Versions]. An initiative arguing that a systematic approach based on User Interface experimental validation techniques should be used to assess the impact of new DSLs.

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Design Practises

• No Grammar to Rule Them All: A Survey of JSON-style DSLs for Visualization - IEEE Transactions on Visualization and Computer Graphics, 2022. [All Versions]. A survey on the design and implementation of 57 JSON-style DSLs for a variety of visualization and visual interaction tasks, suggesting that no one DSL will be able to capture all of them without compromising essential parts of its domain design.

• Quantifying usability of domain-specific languages: An empirical study on software maintenance - Journal of Systems and Software, 2015. [All Versions]. A study to compare the usability of textual DSLs under the perspective of software maintenance, suggesting that the proposed metrics were useful: (1) to early identify DSL usability limitations, (2) to reveal specific DSL features favoring maintenance tasks, and (3) to successfully analyze eight critical DSL usability dimensions.

• Communicating Natural Programs to Humans and Machines - NeurIPS'22, 2022. [All Versions]. While humans readily generate and interpret instructions in a general language, computer systems are shackled to a narrow domain-specific language that they can precisely execute. This makes building intelligent systems that can generalize to novel situations such as ARC difficult. Human-generated instructions are referred as `natural programs'. While they resemble computer programs, they are distinct in two ways: First, they contain a wide range of primitives; Second, they frequently leverage communicative strategies beyond directly executable codes.

• How Domain Experts Use an Embedded DSL - OOPSLA'23, 2023. This work conducts a thematic analysis identified five key themes, including: the interaction between the eDSL and the host language has significant and sometimes unexpected impacts on eDSL user experience, and users preferentially engage with domain-specific communities and code templates rather than host language resources.

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Design Automation

• AutoDSL: Automated domain-specific language design for structural representation of procedures with constraints - ACL'24, 2024. [All Versions]. [Project]. The original paper on the automated design of DSLs. This paper introduces the AutoDSL framework to automate DSL-based constraint design across various domains. Utilizing domain specified experimental protocol corpora, AutoDSL optimizes syntactic constraints and abstracts semantic constraints. Quantitative and qualitative analyses of the DSLs designed by AutoDSL across five distinct domains highlight its potential as an auxiliary module for language models, aiming to improve procedural planning and execution.

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Imperative DSL Applications

• Biocoder: A programming language for standardizing and automating biology protocols - Journal of Biological Engineering, 2010. [All Versions]. [Project]. [Microsoft Page] This paper introduces BioCoder, a C++ library that enables biologists to express the exact steps needed to execute a protocol. In addition to being suitable for automation, BioCoder converts the code into a readable, English-language description for use by biologists.

• Universal chemical programming language for robotic synthesis repeatability - Nature Synthesis, 2024. [All Versions]. [Preprint]. This paper presents an approach that uses a universal chemical programming language (χDL) to encode and execute synthesis procedures for a variety of chemical reactions, including reductive amination, ring formation, esterification, carbon–carbon bond formation and amide coupling on four different hardware systems in two laboratories. With around 50 lines of code per reaction, the approach uses abstraction to efficiently compress chemical protocols.

• Building an Open Representation for Biological Protocols - ACM Journal on Emerging Technologies in Computing Systems, 2023. [All Versions]. There is currently no available protocol representation that is unambiguous enough for precise interpretation and automation, yet simultaneously “human friendly” and abstract enough to enable reuse and adaptation. The Laboratory Open Protocol language (LabOP) is a free and open protocol representation aiming to address this gap, building on a foundation of UML, Autoprotocol, Aquarium, SBOL RDF, and the Provenance Ontology. LabOP provides a linked-data representation both for protocols and for records of their execution and the resulting data, as well as a framework for exporting from LabOP for execution by either humans or laboratory automation.

• KnitScript: A Domain-Specific Scripting Language for Advanced Machine Knitting - UIST'23, 2023. [All Versions]. [Project]. This paper presents KnitScript, a domain-specific machine knitting scripting language that supports computationally driven knitting designs. KnitScript provides a comprehensive virtual model of knitting machines, giving access to machine-level capabilities as they are needed while automating a variety of tedious and error-prone details.

• A domain‑specifc language framework for farm management information systems in precision agriculture - Precision Agriculture, 2020. [All Versions]. This paper proposes a domain-specific language framework for the design and development of precision-agriculture FMISs, which copes with challenges on supporting the understandability, enhancing communication and analysis of the design decisions, and the communication among stakeholders.

• Infinite Photorealistic Worlds Using Procedural Generation - CVPR'23, 2023. [All Versions]. [Website]. [Supplementary Text]. This paper introduces Infinigen, a procedural generator of photorealistic 3D scenes of the natural world. Infinigen is entirely procedural: every asset, from shape to texture, is generated from scratch via randomized mathematical rules, using no external source and allowing infinite variation and composition.

• Corel: A DSL for Cooking Recipes - 2021. [All Versions]. [Corel recipe page]. [International Network of Food Data Systems (INFOODS)]. The Corel DSL for cooking recipes enables understanding of and computation with ingredients, and can construct a nutrition label for the recipe.

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Declarative DSL Applications

• The BioPAX community standard for pathway data sharing - Nature Biotechnology, 2010. [All Versions]. [Preprint]. Biological Pathway Exchange (BioPAX) is a standard language to represent biological pathways at the molecular and cellular level and to facilitate the exchange of pathway data. BioPAX can represent metabolic and signaling pathways, molecular and genetic interactions and gene regulation networks.

• Learning the language of viral evolution and escape - Science, 2021. [All Versions]. Natural language processing with two components: grammar (or syntax) and meaning (or semantics) for predicting which viral mutations may lead to viral escape.

• A high-level programming language for generative protein design - 2022. [All Versions]. A high-level programming language based on modular building blocks that allows a designer to easily compose a set of desired properties. Along with the programming language, there is an energy-based generative model, built on atomic resolution structure prediction with a language model, that realizes all-atom structure designs that have the programmed properties.

• OpenLaw - OpenLaw.io. It is now possible to model all or parts of legal agreements using code (smart contracts), decreasing the cost and friction of creating, securing, and generating binding legal agreements. Lawyers lack basic tools to build these dynamic, “smart” contracts in a way that is enforceable and understandable to a legal professional. OpenLaw is a technology stack to help power next generation "smart" legal agreements, with a domain-specific markup language, a integration framework, and a series of general applications.

• Scenic: a language for scenario specification and data generation - Machine Learning, 2022. [All Versions]. Thie paper proposes a domain-specific language, Scenic, for describing scenarios that are distributions over scenes and the behaviors of their agents over time. Scenic combines concise, readable syntax for spatiotemporal relationships with the ability to declaratively impose hard and soft constraints over the scenario.

• Domain Specific Language for Smart Contract Development - ICBC'20, 2020. [All Versions]. [Preprint]. This research addresses the understanding hardness raised from the conceptual discrepancy between contractual clauses and corresponding code of the Solidity programming language, by the design and study of a domain-specific smart contract language based on higher level of abstraction that can be automatically transformed to an implementation.

• iContractML 2.0: A domain-specific language for modeling and deploying smart contracts onto multiple blockchain platforms - Information and Software Technology, 2022. [All Versions]. A reference model and platform agnostic language for smart contracts.

• PClean: Bayesian Data Cleaning at Scale with Domain-Specific Probabilistic Programming - ICML'21, 2021. [All Versions]. This work presents PClean, a probabilistic programming language (PPL) for leveraging dataset-specific knowledge to automate Bayesian cleaning, automating Bayesian approaches given the diversity of real-world error patterns and the hardness of inference.

• A Language for Counterfactual Generative Models - ICML'21, 2021. [All Versions]. [Project]. This paper presents Omega, a probabilistic programming language with support for counterfactual inference. This feature is accomplished by introducing a new operator to probabilistic programming akin to Pearl’s do.

• Product Line Engineering Using Domain-Specific Languages - ISPLC'11, 2011. [All Versions]. [Preprint]. This paper investigates the application of domain-specific languages in product line engineering (PLE).

• A Domain-Specific Language for Product-Process-Resource Modeling - ETFA'21, 2021. [All Versions]. This paper presents the design of the PPR-DSL to effectively and efficiently represent Product-Process-Resource (PPR) aspects and evaluate constraints defined for modeling PPR views in the Formalized Process Description standard (VDI 3682).

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Logic DSL Applications

• Situation Calculus - Wikipedia. Wikipedia on Situation Calculus, a logic formalism designed for representing and reasoning about dynamical domains.

• Answer Set Programming - ICLPNR'99, 1999. [All Versions]. The original paper on Answer Set Programming (ASP), a form of declarative programming oriented towards difficult search problems, on the use of nonmonotonic reasoning in knowledge representation.

• What is Answer Set Programming? - AAAI'08, 2008. [All Versions]. Lifschitz's tutorial on Answer Set Programming.

• Action Languages, Answer Sets, and Planning - The Logic Programming Paradigms, 1999. [All Versions].

• Qualitative Simulation - Artificial Intelligence, 1986. [All Versions]. Benjamin Kuipers' original paper on qualitative reasoning.

• Qualitative Reasoning: Modeling and Simulation with Incomplete Knowledge - MIT Press, 1994. [All Versions]. Benjamin Kuipers' comprehensive book on qualitative reasoning.

• Qualitative and quantitative simulation: bridging the gap - Artificial Intelligence, 1997. [All Versions].

• A Logic Programming Language for Computational Nucleic Acid Devices - ACS Synthetic Biology, 2018. [All Versions]. This paper presents a logic programming language that allows a broad range of computational nucleic acid systems to be designed and analyzed. The language extends standard logic programming with a novel equational theory to express nucleic acid molecular motifs. It automatically identifies matching motifs present in the full system, in order to apply a specified transformation expressed as a logical rule.

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DSL Program Synthesis

• pix2code: Generating Code from a Graphical User Interface Screenshot - ACM SIGCHI Symposium on Engineering Interactive Computing Systems, 2018. [All Versions]. [Code]. [Website]. This paper shows that deep learning methods can be leveraged to train a model end-to-end to automatically reverse engineer user interfaces and generate code from a single input image with over 77% of accuracy for three different platforms (i.e. iOS, Android and web-based technologies).

• Learning to Infer Graphics Programs from Hand-Drawn Images - NeurIPS'18, 2018. [All Versions]. The method learns a model that uses program synthesis techniques to recover a graphics program from drawing primitives. These programs have constructs like variable bindings, iterative loops, or simple kinds of conditionals. With a graphics program in hand, we can correct errors made by the deep network and extrapolate drawings.

• babble: Learning Better Abstractions with E-Graphs and Anti-unification - POPL'23, 2023. [All Versions]. This paper proposes library learning modulo theory (LLMT), a new library learning algorithm that additionally takes as input an equational theory for a given problem domain. LLMT uses e-graphs and equality saturation to compactly represent the space of programs equivalent modulo the theory, and uses a novel e-graph anti-unification technique to find common patterns in the corpus more directly and efficiently.

• DreamCoder: growing generalizable, interpretable knowledge with wake–sleep Bayesian program learning - Philosophical Transactions of the Royal Society A, 2023. [All Versions]. [Preprint]. This paper presents DreamCoder, a system that learns to solve problems by writing programs. It builds expertise by creating domain-specific programming languages for expressing domain concepts, together with neural networks to guide the search for programs within these languages. A ‘wake–sleep’ learning algorithm alternately extends the language with new symbolic abstractions and trains the neural network on imagined and replayed problems. DreamCoder solves both classic inductive programming tasks and creative tasks such as drawing pictures and building scenes.

• Grammar Prompting for Domain-Specific Language Generation with Large Language Models - NeurIPS'23, 2023. [All Versions]. Grammar prompting is a simple approach to enable LLMs to use external knowledge and domain-specific constraints expressed through a grammar in Backus--Naur Form (BNF) during in-context learning.

• Errors are Useful Prompts: Instruction Guided Task Programming with Verifier-Assisted Iterative Prompting - 2023. [All Versions]. [Code]. [Website]. This paper proposes CLAIRIFY, an approach that combines automatic iterative prompting with program verification to ensure programs written in data-scarce domain-specific language are syntactically valid and incorporate environment constraints.

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Problem Solving

Human-Level Problem Solving

• Elements of a theory of human problem solving - Psychological Review, 1958. [All Versions]. Herbert Simon's original idea on human problem solving.

• Human Problem Solving - Englewood Cliffs, NJ: Prentice-hall, 1972. [All Versions]. Herbert Simon's classic idea of human problem solving as search.

• Learning to Solve Problems: A Handbook for Designing Problem-Solving Learning Environments - Taylorfrancis, 2010. [All Versions].

• Judgment under Uncertainty: Heuristics and Biases: Biases in judgments reveal some heuristics of thinking under uncertainty - Science, 1974. [All Versions]. Daniel Kahneman's classic idea of prospective theory.

• Computational evidence for hierarchically structured reinforcement learning in humans - Proceedings of the National Academy of Sciences, 2020. [All Versions]. A piece of evidence on hierarchical human planning.

• Hierarchical reasoning by neural circuits in the frontal cortex - Science, 2019. [All Versions]. Neuroscience evidence supporting rule switch.

• The importance of mixed selectivity in complex cognitive tasks - Nature, 2013. [All Versions]. The original paper introducing mixed selectivity with high-dimensional neural representations.

• People construct simplified mental representations to plan - Nature, 2022. [All Versions]. A computational account on rational problem representation in human planning.

• Goals, usefulness and abstraction in value-based choice - Trends in Cognitive Sciences, 2023. [All Versions]. A review that outlines the computational and biological principles that enable the brain to compute the usefulness of an option or action by creating abstractions that flexibly adapt to changing goals.

• Value signals guide abstraction during learning - eLife, 2022. [All Versions].

• Learning to perceive and act by trial and error - Machine Learning, 1991. [All Versions].

• Representations in distributed cognitive tasks - Cognitive Science, 1994. [All Versions].

• The nature of external representations in problem solving - Cognitive Science, 1997. [All Versions].

• Rapid trail-and-error learning with simulation supports flexible tool use and physical reasoning. - Proceedings of the National Academy of Sciences, 2020. [All Versions]. [Project]. [Appendix]. A computational account on rapid trail-and-error problem solving with a noisy prior model.

• Abstract strategy learning underlies flexible transfer in physical problem solving - CogSci'20, 2020. [All Versions].

• Physion: Evaluating Physical Prediction from Vision in Humans and Machines - NeurIPS'21, 2021. [All Versions].

• Exploration: from machines to humans - Current Opinion in Behavioral Sciences, 2020. [All Versions].

• Balancing exploration and exploitation with information and randomization - Current Opinion in Behavioral Sciences, 2021. [All Versions].

• Hippocampal neurons construct a map of an abstract value space - Cell, 2021. [All Versions].

• Insightful problem solving and creative tool modification by captive nontool-using rooks - Proceedings of the National Academy of Sciences, 2009. [All Versions]. [Supplementary Material]. A piece of evidence on creative tool use in intelligent animals.

• Learning to act by integrating mental simulations and physical experiments - CogSci'18, 2018. [All Versions]. [Code].

• The successor representation in human reinforcement learning - Nature Human Behavior, 2017. [All Versions].

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Planning

• From Skills to Symbols: Learning Symbolic Representations for Abstract High-Level Planning - Journal of Artificial Intelligence Research, 2018. [All Versions]. Leslie Kaelbling's review on hierarchical Task-and-Motion-Planning (hierarchical TAMP).

• Integrated Task and Motion Planning - Annual Review of Control, Robotics, and Autonomous Systems, 2021. [All Versions]. Leslie Kaelbling's review on Task-and-Motion-Planning (TAMP).

• Differentiable Physics and Stable Modes for Tool-Use and Manipulation Planning - Robotics: Science and Systems, 2018. [All Versions].

• Learning to act by integrating mental simulations and physical experiments - CogSci'21, 2018. [All Versions].

• What Is the Model in Model-Based Planning? - Cognitive Science, 2021. [All Versions].

• Discovering State and Action Abstractions for Generalized Task and Motion Planning - AAAI'22, 2022. [All Versions].

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Intrinsic Motivation

• Intrinsically Motivated Reinforcement Learning - NeurIPS'04, 2004. [All Versions]. A comprehensive review on intrinsic reward functions in classic reinforcement learning.

• What is intrinsic motivation? A typology of computational approaches - Frontiers in Neurorobotics, 2009. [All Versions].

• Adapting Behavior via Intrinsic Reward: A Survey and Empirical Study - Journal of Artificial Intelligence Research, 2020. [All Versions].

• Curiosity-driven Exploration by Self-supervised Prediction - ICML'17, 2017. [All Versions]. The original paper on curiosity as intrinsic motivation.

• UCB Exploration via Q-Ensembles - 2017. [All Versions].

• Causal Curiosity: RL Agents Discovering Self-supervised Experiments for Causal Representation Learning - ICML'21, 2021. [All Versions].

• Variational Information Maximisation for Intrinsically Motivated Reinforcement Learning - NeurIPS'15, 2015. [All Versions]. The original paper on empowerment as intrinsic motivation.

• Intrinsic Exploration as Empowerment in a Richly Structured Online Game - 2022. [All Versions].

• Multi-task reinforcement learning in humans - Nature Human Behavior, 2021. [All Versions].

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Reinforcement Learning

• Reinforcement learning: An introduction - MIT Press, 2018. [All Versions]. Richard Sutton's comprehensive book on reinforcement learning.

• Reinforcement learning: A survey - Journal of Artificial Intelligence Research, 1996. [All Versions]. Leslie Kaelbling's review on reinforcement learning.

• An overview of multi-agent reinforcement learning from game theoretical perspective - 2020. [All Versions]. Yaodong Yang's review on multi-agent reinforcement learning from the perspective of game theory.

• Human-level control through deep reinforcement learning - Nature, 2015. [All Versions]. The original paper on solving Atari games via Deep Q-Network.

• Between MDPs and semi-MDPs: A framework for temporal abstraction in reinforcement learning - Artificial Intelligence, 1999. [All Versions]. The original paper on operation reinforcement learning.

• On Monte Carlo Tree Search and Reinforcement Learning - Journal of Artificial Intelligence Research, 2017. [All Versions].

• Reinforcement Learning and Control as Probabilistic Inference: Tutorial and Review - 2018. [All Versions]. [Slides]. Sergey Levine's tutorial on treating reinforcement learning probabilisticly.

• A Generalized Algorithm for Multi-Objective Reinforcement Learning and Policy Adaptation - NeurIPS'19, 2019. [All Versions].

• Solving Compositional Reinforcement Learning Problems via Task Reduction - ICLR'21, 2021. [All Versions].

• Neural Task Programming: Learning to Generalize Across Hierarchical Tasks - ICRA'18, 2018. [All Versions].

• Learning to act: qualitative learning of deterministic action models - Journal of Logic and Computation, 2017. [All Versions].

• Learning to Act and Observe in Partially Observable Domains - 2021. [All Versions].

• Why Generalization in RL is Difficult: Epistemic POMDPs and Implicit Partial Observability - NeurIPS'21, 2021. [All Versions]. A formal treatment on the generalization problem in reinforcement learning.

• Learning to Perform Physics Experiments via Deep Reinforcement Learning - ICLR'17, 2017. [All Versions].

• Data-Efficient Learning for Complex and Real-Time Physical Problem Solving Using Augmented Simulation - Robotics and Automation Letters, 2021. [All Versions].

• A Survey of Preference-Based Reinforcement Learning Methods - Journal of Machine Learning Research, 2017. [All Versions].

• On the Expressivity of Markov Reward - NeurIPS'21, 2021. [All Versions]. A formal treatment of tasks and rewards in reinforcement learning modeling.

• Trust Region Policy Optimization - ICML'15, 2015. [All Versions]. The original paper introducing TRPO, a method for optimizing control policies, with guaranteed monotonic improvement.

• Constrained Policy Optimization - ICML'17, 2017. [All Versions]. The original paper on constrained reinforcement learning (safe reinforcement learning).

• When to Trust Your Model: Model-Based Policy Optimization - NeurIPS'19, 2019. [All Versions]. [Post].

• SUNRISE: A Simple Unified Framework for Ensemble Learning in Deep Reinforcement Learning - ICML'21, 2021. [All Versions]. [Code].

• The Quest for a Common Model of the Intelligent Decision Maker - Multi-disciplinary Conference on Reinforcement Learning and Decision Making'22, 2022. [All Versions]. Richard Sutton's perspective on the future directions of reinforcement learning research.

• Automatic curriculum learning for deep RL: a short survey - IJCAI'20, 2020. [All Versions].

• TeachMyAgent: a Benchmark for Automatic Curriculum Learning in Deep RL - ICML'21, 2021. [All Versions]. [Project].

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Inverse Reinforcement Learning

• Apprenticeship Learning via Inverse Reinforcement Learning - ICML'04, 2004. [All Versions]. Pieter Abbeel and Andrew Ng's original paper on inverse reinforcement learning (IRL).

• Bayesian Inverse Reinforcement Learning - IJCAI'07, 2007. [All Versions]. A Bayesian account on classic inverse reinforcement learning.

• From Language to Goals: Inverse Reinforcement Learning for Vision-Based Instruction Following - ICLR'19, 2019. [All Versions].

• Few-shot Bayesian imitation learning with logical program policies. - AAAI'20, 2020. [All Versions].

• Generalized Inverse Planning: Learning Lifted non-Markovian Utility for Generalizable Task Representation - 2020. [All Versions].

• Inverse Constrained Reinforcement Learning - ICML'21, 2021. [All Versions].

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System 1 & System 2

Dual-Coding Theory

• Mental Representations: A Dual Coding Approach - Oxford University Press, 1990. [All Versions]. The original book on dual coding theory, in the neuroscience account of mental representation.

• Dual coding of knowledge in the human brain - Trends in Cognitive Sciences, 2021. [All Versions]. Yanchao Bi's review on neuroscience experiments on dual coding theory.

• Two Forms of Knowledge Representations in the Human Brain - Neuron, 2020. [All Versions]. Illustrating language-derived and sensory-derived knowledge.

• Organizational Principles of Abstract Words in the Human Brain - Cerebral Cortex, 2018. [All Versions].

• Different computational relations in language are captured by distinct brain systems - Cerebral Cortex, 2022. [All Versions].

• The Deese-Roediger-McDermott (DRM) task: A simple cognitive paradigm to investigate false memories in the laboratory - Journal of Visualized Experiments, 2017. [All Versions].

• A continuous semantic space describes the representation of thousands of object and action categories across the human brain - Neuron, 2012. [All Versions].

• Rational arbitration between statistics and rules in human sequence processing - Nature Human Behavior, 2022. [All Versions].

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Neural-Symbolic AI

• Regression Analysis for Interval-Valued Data - Data Analysis, Classification, and Related Methods, 2000. [All Versions]. The original paper on symbolic regression.

• Symbolic data analysis: what is it? - Proceedings in Computational Statistics, 2006. [All Versions].

• DeepProbLog: Neural Probabilistic Logic Programming - NeurIPS'18, 2018. [All Versions]. The original paper on neuro-symbolic probabilistic programming.

• Learning Explanatory Rules from Noisy Data - Journal of Artificial Intelligence Research, 2018. [All Versions]. The original paper for differential Inductive Logic Programming.

• Combining Logical Abduction and Statistical Induction: Discovering Written Primitives with Human Knowledge - AAAI'17, 2017. [All Versions].

• Neural Logic Reinforcement Learning - ICML'19, 2019. [All Versions].

• Bridging Machine Learning and Logical Reasoning by Abductive Learning. - NeurIPS'19, 2019. [All Versions]. [Slides]. [Code]. The original paper on Abductive Learning, a derivative-free approach for neuro-symbolic learning.

• Abductive learning: towards bridging machine learning and logical reasoning - Science China Information Sciences, 2019. [All Versions].

• Abductive Knowledge Induction From Raw Data - IJCAI'21, 2021. [All Versions].

• Fast Abductive Learning by Similarity-based Consistency Optimization - NeurIPS'21, 2021. [All Versions]. An approach for accelerating the convergence of Abductive Learning.

• Learning by Abstraction: The Neural State Machine - NeurIPS'19, 2019. [All Versions].

• Making sense of sensory input - Artificial Intelligence, 2021. [All Versions].

• Abstract Spatial-Temporal Reasoning via Probabilistic Abduction and Execution - CVPR'21, 2021. [All Versions].

• Learn to explain efficiently via neural logic inductive learning - ICLR'20, 2020. [All Versions]. [Project].

• Closed Loop Neural-Symbolic Learning via Integrating Neural Perception, Grammar Parsing, and Symbolic Reasoning - ICML'20, 2020. [All Versions].

• Generating new concepts with hybrid neuro-symbolic models. - CogSci'20, 2020. [All Versions].

• Learning Task-General Representations with Generative Neuro-Symbolic Modeling - ICLR'21, 2021. [All Versions].

• Hybrid computing using a neural network with dynamic external memory - Nature, 2016. [All Versions].

• AI Feynman: A physics-inspired method for symbolic regression - Science Advances, 2019. [All Versions]. A general approach for neuro-symbolic formula synthesis.

• Classification-by-Components: Probabilistic Modeling of Reasoning over a Set of Components - NeurIPS'19, 2019. [All Versions].

• Neuro-Symbolic Visual Reasoning: Disentangling “Visual” from “Reasoning” - ICML'20, 2020. [All Versions].

• Understanding Deep Architectures with Reasoning Layer - NeurIPS'20, 2020. [All Versions].

• An Explicitly Relational Neural Network Architecture - ICML'20, 2020. [All Versions].

• Neural Production Systems - ICML'21, 2021. [All Versions]. Yoshua Bengio's perspective on slot attention model as a general production system.

• Compositional Generalization via Neural-Symbolic Stack Machines - NeurIPS'20, 2020. [All Versions].

• Stochastic Optimization of Sorting Networks via Continuous Relaxations - ICLR'19, 2019. [All Versions].

• Program Guided Agent - ICLR'20, 2020. [All Versions].

• Learning Compositional Rules via Neural Program Synthesis - NeurIPS'20, 2020. [All Versions].

• Discovering Symbolic Models from Deep Learning with Inductive Biases - NeurIPS'20, 2020. [All Versions].

• Neural Logic Machines - ICLR'19, 2019. [All Versions].

• The Neuro-Symbolic Concept Learner: Interpreting Scenes, Words, and Sentences From Natural Supervision - ICLR'19, 2019. [All Versions].

• Visual Concept-Metaconcept Learning - NeurIPS'19, 2019. [All Versions].

• Grounding Physical Concepts of Objects and Events Through Dynamic Visual Reasoning - ICLR'21, 2021. [All Versions].

• Temporal and Object Quantification Networks - IJCAI'21, 2021. [All Versions].

• Grounded Language Learning Fast and Slow - ICLR'21, 2021. [All Versions]. [Project].

• Detect, Understand, Act: A Neuro-symbolic Hierarchical Reinforcement Learning Framework - Machine Learning, 2022. [All Versions]. A neuro-symbolic framework that integrates meta-policy learning in inductive logic programming.

• Visual Programming: Compositional Visual Reasoning Without Training - CVPR'23, 2023. [All Versions]. VISPROG, a neuro-symbolic approach to solving complex and compositional visual tasks given natural language instructions, using the in-context learning ability of large language models to generate python-like modular programs, which are then executed to get both the solution and a comprehensive and interpretable rationale.

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Explainability

Trustworthy AI

• Bayesian modeling of human–AI complementarity - Proceedings of the National Academy of Sciences, 2022. [All Versions]. A Bayesian framework for combining the predictions and different types of confidence scores from humans and machines.

• A tale of two explanations: Enhancing human trust by explaining robot behavior - Science Robotics, 2019. [All Versions]. The original paper on human believable robot, a result of the DAPAR-XAI.

• X-ToM: Explaining with Theory-of-Mind for Gaining Justified Human Trust - 2019. [All Versions]. Introducing the idea of AI estimating human users' knowledge in to explainable AI.

• CoCoX: Generating Conceptual and Counterfactual Explanations via Fault-Lines - AAAI'20, 2020. [All Versions].

• CX-ToM: Counterfactual explanations with theory-of-mind for enhancing human trust in image recognition models - iScience, 2022. [All Versions].

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Strong Machine Learning

• Ultra-Strong Machine Learning: comprehensibility of programs learned with ILP - Machine Learning, 2018. [All Versions]. Stephen Muggleton's account of ultra-strong machine learning, which not only learns human understandable knowledge, but also improves human performance on the corresponding tasks.

• Beneficial and harmful explanatory machine learning - Machine Learning, 2021. [All Versions].

• Deep Forest: Towards An Alternative to Deep Neural Networks - IJCAI'17, 2017. [All Versions]. [Project].

• NBDT: Neural-Backed Decision Trees - NeurIPS'20, 2020. [All Versions]. [Code]. Expliciting the decision process of a decision tree through neural networks.

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Explainable Deep Learning

• pytorch-grad-cam - 2021. Class Activation Map methods implemented in Pytorch, with many elegant features.

• Network dissection: Quantifying interpretability of deep visual representations - CVPR'17, 2017. [All Versions]. [Project]. [Dataset: Places365]. The original paper on visualizing the class activation maps to explain convolutional neural networks.

• Understanding the role of Individual Units in a Deep Neural Network - Proceedings of the National Academy of Sciences, 2020. [All Versions]. David Bau's review on network dissection for discriminative and generative models.

• Zoom In: An Introduction to Circuits - Distill, 2020. [All Versions]. A perspective on treating neural networks as circuits.

• Compositional Explanations of Neurons - NeurIPS'20, 2020. [All Versions]. [Project]. A concept-composition version of network dissection.

• This Looks Like That: Deep Learning for Interpretable Image Recognition - NeurIPS'19, 2019. [All Versions].

• Unsupervised learning by competing hidden units - Proceedings of the National Academy of Sciences, 2019. [All Versions].

• Noise or Signal: The Role of Backgrounds in Image Classification - ICLR'21, 2021. [All Versions]. [Code & Data]. [Project]. A perspective on image background provides strong clue for foreground classification.

• Towards Understanding Learning Representations: To What Extent Do Different Neural Networks Learn the Same Representation - NeurIPS'18, 2018. [All Versions]. Maching the learned pattern of neurons in different neural networks.

• Individual differences among deep neural network models - Nature Communications, 2020. [All Versions].

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Embodied Intelligence

• Embodied Cognition - Plato Stanford. A computational philosophy account on Embodied Cognition, which emphasizes the significance of an agent's physical body in cognitive abilities.

• Externalism About the Mind - Plato Stanford. A computational philosophy account on mind externalism, a long-term debate about the boundary of embodied intelligence.

• Cognitive engineering: Human problem solving with tools - Human Factors, 1988. [All Versions]. The original idea of investigating huamn tool use in problem solving.

• Tools, language and cognition in human evolution - Cambridge University Press, 1993. [All Versions]. A classic perspective correlating human tool use with the evolution of civilization.

• The Extended Mind - Analysis, 1998. [All Versions]. The original paper on the debate of mind externalism.

• The neural bases of complex tool use in humans - Trends in Cognitive Sciences, 2004. [All Versions]. A neuroscience account of human tool use.

• Spontaneous Metatool Use by New Caledonian Crows - Current Biology, 2007. [All Versions]. A piece of evidence that intelligent animals can take advantage of matatools to make tools for problem solving.

• Rapid Assimilation of External Objects Into the Body Schema - Psychological Science, 2010. [All Versions].

• The cognitive bases of human tool use - Behavioral and Brain Sciences, 2012. [All Versions].

• The embodied mind extended: using words as social tools - Frontiers in Psychology, 2013. [All Versions].

• Tool use as adaptation - Philosophical Transactions of the Royal Society B: Biological Sciences, 2013. [All Versions].

• Intensive tool-practice and skillfulness facilitate the extension of body representations in humans - Neuropsychologia, 2014. [All Versions].

• Tool use and affordance: Manipulation-based versus reasoning-based approaches - Psychological Review, 2016. [All Versions]. A classic review on human tool use and affordance.

• Meta-strategy learning in physical problem-solving: the effect of embodied experience - CogSci'21, 2021. [All Versions].

• Understanding Tools: Task-Oriented Object Modeling, Learning and Recognition - CVPR'15, 2015. [All Versions]. [Project]. The original paper introducing affordance and physically-grounded tool use into computer vision.

• Robotic hand augmentation drives changes in neural body representation - Science Robotics, 2021. [All Versions].

• Expert Tool Users Show Increased Differentiation between Visual Representations of Hands and Tools - Journal of Neuroscience, 2021. [All Versions].

• Visual scoping operations for physical assembly - CogSci'21, 2021. [All Versions].

• Behavior-grounded representation of tool affordances - ICRA'05, 2005. [All Versions].

• A Relational Approach to Tool-Use Learning in Robots - ILP'12, 2012. [All Versions].

• Relational affordances for multiple-object manipulation - Autonomous Robots, 2017. [All Versions].

• Improvisation through Physical Understanding: Using Novel Objects as Tools with Visual Foresight - RSS'19, 2019. [All Versions].

• Meta-strategy learning in physical problem-solving: the effect of embodied experience - CogSci'21, 2021. [All Versions]. [Preprint]. This paper focuses on how natural embodied experience affects what kinds of abstract physical problem-solving strategies people use in a virtual task. The findings suggest that differences in embodied experience drive the acquisition of different meta-strategies for balancing acting with thinking, deciding what kinds of actions to try, and deciding how persistent to be with a current action plan.

• 3D dynamic scene graphs: Actionable spatial perception with places, objects, and humans - RSS'20, 2020. [All Versions]. A system for modeling 3D dynamic scene graphs on multiple levels (metric-semantic mesh, objects and agents, places and structures, rooms, and buildings).

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Evolutionary Intelligence

• Evolutionary trade-offs, Pareto optimality, and the geometry of phenotype space - Science, 2012. [All Versions]. A classic paper correlating biological trade-offs with the evolution of pareto optimality.

• Pareto optimality in multiobjective problems - Applied Mathematics and Optimization, 1977. [All Versions]. The original paper on the pareto optimality in multiobjective problems.

• Pareto-Based Multiobjective Machine Learning: An Overview and Case Studies - IEEE Transactions on Systems, Man, and Cybernetics, 2008. [All Versions]. A comprehensive review on the application of pareto optimality to multiobjective machine learning.

• Phylogenetic evidence for Sino-Tibetan origin in northern China in the Late Neolithic - Nature, 2019. [All Versions]. A Bayesian phylogenetic analysis on two competing hypotheses of the origin of the Sino-Tibetan language family suggests that the initial expansion of Sino-Tibetan languages occurred approximately 4,000–6,000 years before present (BP; taken as AD 1950) in the Yellow River basin of northern China, and that this expansion is associated with the development of the Yangshao and/or Majiayao Neolithic cultures.

• Triangulation supports agricultural spread of the Transeurasian languages - Nature, 2021. [All Versions]. [Nature News]. A triangulation of linguistic, archaeological and genetic data suggests that the Transeurasian language family originated in a population of grain farmers in China around 9,000 years ago, and that agriculture underpinned its spread.

• From language development to language evolution: A unified view of human lexical creativity - Science, 2023. [All Versions]. [Preprint]. This work supports a unified foundation for human lexical creativity underlying both the fleeting products of individual ontogeny and the evolutionary products of phylogeny across languages.

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Methodologies for Experiments

Quantitative Analysis

• Identification of Causal Effects Using Instrumental Variables - Journal of the American Statistical Association, 1996. [All Versions]. The original paper on Instrumental Variables for natural sociology studies.

• Experiments with More Than One Random Factor: Designs, Analytic Models, and Statistical Power - Annual Review of Psychology, 2017. [All Versions]. A comprehensive review of the quantitative analysis techniques for behavioral studies.

• With or Without U? The Appropriate Test for a U-Shaped Relationship - Oxford Bulletin of Economics and Statistics, 2010. [All Versions]. The original method for testing U-shape relation from the data, which is distinctive from the quadratic regression test.

• Two lines: A valid alternative to the invalid testing of U-shaped relationships with quadratic regressions - Advances in Methods and Practices in Psychological Science, 2018. [All Versions]. An alternative method to test the statistical significance of U-shaped relationships.

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Scaling Up Behavioral Studies

• Scaling up experimental social, behavioral, and economic science - Open Science Foundation Preprints. [All Versions]. A white paper on scaling up social, behavioral, and econimic experiments.

• The weirdest people in the world? - Brain and Behavioral Sciences, 2010. [All Versions]. The original paper on rethinking and tackling the sample bias in behaivoral studies, where most subjects are drawn from Western, Educated, Industrialized, Rich, and Democratic (WEIRD) societies.

• Scaling up psychology via Scientific Regret Minimization - Proceedings of the National Academy of Sciences, 2020. [All Versions]. The statistical and ecological basis for scaling up behavioral studies.

• Machine-generated theories of human decision-making - Science, 2021. [All Versions].

• Using large-scale experiments and machine learning to discover theories of human decision-making - Science, 2021. [All Versions]. A piece of evidence for the merits brought by large-scale behavioral studies in social science.

• Integrating explanation and prediction in computational social science - Nature, 2021. [All Versions].

• Exploring human cognition using large image databases - Topics in Cognitive Sciences, 2016. [All Versions].

• Visual Search at Pinterest - KDD'15, 2015. [All Versions]. Large scale user study in the development of the recommendations system by Pinterest.

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Decision Making

• A computational process-tracing method for measuring people’s planning strategies and how they change over time - Behavior Research Methods, 2022. [All Versions]. Model-based strategy identification.

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Question Answering

• Searching large hypothesis spaces by asking questions - CogSci'16, 2016. [All Versions]. A behavioral study for the 20 questions game.

• Asking and evaluating natural language questions - CogSci'16, 2016. [All Versions]. A behavioral study for the battleship game.

• Do People Ask Good Questions? - Computational Brain & Behavior, 2018. [All Versions].

• Asking goal-oriented questions and learning from answers - CogSci'19, 2019. [All Versions].

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Human-Machine Comparison

• Elimination by aspects: A theory of choice - Psychological Review, 1972. [All Versions]. Herbert Simon's early experiments on computer aided behavioral studies.

• Problem Solving and Rule Induction: A Unified View - Knowledge and cognition, 1974. [All Versions].

• Evidence integration in model-based tree search - Proceedings of the National Academy of Sciences, 2015. [All Versions].

• People Infer Recursive Visual Concepts from Just a Few Examples - Computational Brain & Behavior, 2020. [All Versions].

• One-shot learning of generative speech concepts - CogSci'14, 2014. [All Versions].

• Human few-shot learning of compositional instructions - CogSci'19, 2019. [All Versions].

• Fast and flexible: Human program induction in abstract reasoning tasks - CogSci'21, 2021. [All Versions].

• Investigating Human Priors for Playing Video Games - ICML'18, 2018. [All Versions].

• Tasks for aligning human and machine planning - Current Opinion in Behavioral Sciences, 2019. [All Versions].

• Humans can decipher adversarial images - Nature Communications. 2019. [All Versions].

• Shared computational principles for language processing in humans and deep language models - Nature Neuroscience, 2022. [All Versions].

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Association Test

• Implicit Association Test - Wikipedia. Wikipedia on the Implicit Association Test, a controversial assessment intended to detect subconscious associations between mental representations of objects (concepts) in memory.

• Measuring Individual Differences in Implicit Cognition: The Implicit Association Test - Journal of Personality and Social Psychology, 1998. [All Versions]. The original paper introducing the Implicit Association Test.

• Health of the Implicit Association Test at age 3 - Zeitschrift für Experimentelle Psychologie, 2001. [All Versions]. The 3rd year review for the IAT.

• The Implicit Association Test at Age 7: A Methodological and Conceptual Review - Social psychology and the unconscious: The automaticity of higher mental processes (pp. 265–292), Psychology Press, 2007. [All Versions]. The 7th year review for the IAT.

• A Meta-Analysis on the Correlation Between the Implicit Association Test and Explicit Self-Report Measures - Personality and Social Psychology Bulletin, 2005. [All Versions].

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Virtual Reality

• Virtual reality in behavioral neuroscience and beyond - Nature Neuroscience, 2002. [All Versions]. A classic review on the early applications of Virtual Reality to behavioral studies.

• Virtual reality: A survival guide for the social scientist - Journal of Media Psychology, 2009. [All Versions].

• The psychology of virtual reality - The psychology of technology: Social science research in the age of Big Data (pp. 155–193), American Psychological Association, 2022. [All Versions]. Jeremy Bailenson's review on the applications of Virtual Reality to behavioral studies.

• How Immersive Is Enough? A Meta-Analysis of the Effect of Immersive Technology on User Presence - Media Psychology, 2016. [All Versions]. A meta-analysis on the extent to which technologies need to be immersive in order to generate a sense of presence.

• Towards an Understanding of Distributed Asymmetric Collaborative Visualization on Problem-solving - VR'23, 2023. [All Versions].

• Agent: automatic generation of experimental protocol runtime - VRST'17, 2017. [All Versions]. This paper proposes the use of Domain-Specific Languages (DSLs) to ease the description and generation of VR experiments, thus letting experiment designers focus on their core tasks: designing, conducting, and reporting experiments.

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Meta-Level Considerations

Meta Learning

• Automated Reinforcement Learning (AutoRL): A Survey and Open Problems - 2022. [All Versions]. A comprehensive review on AutoRL.

• Model-Agnostic Meta-Learning for Fast Adaptation of Deep Networks - ICML'17, 2017. [All Versions]. [Post]. Chelsea Finn's original paper on Model-Agnostic Meta-Learning (MAML).

• Bayesian Model-Agnostic Meta-Learning - NeurIPS'18, 2018. [All Versions]. A Bayesian account on MAML.

• Meta-Q-Learning - ICLR'20, 2020. [All Versions]. The milestone paper on context Meta-RL.

• Efficient Off-Policy Meta-Reinforcement Learning via Probabilistic Context Variables - ICML'19, 2019. [All Versions].

• Balancing Constraints and Rewards with Meta-Gradient D4PG - ICLR'21, 2021. [All Versions].

• Metacontrol for Adaptive Imagination-Based Optimization - ICLR'17, 2017. [All Versions].

• On Effective Scheduling of Model-based Reinforcement Learning - NeurIPS'21, 2021. [All Versions].

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Marr's Levels of Analysis

• Vision: A Computational Investigation into the Human Representation and Processing of Visual Information - MIT Press, 1982. [All Versions]. David Marr's original book on the levels of analysis.

• From understanding computation to understanding neural circuitry - Neuroscience Research Program Bulletin, 1979. [All Versions].

• Bridging Levels of Analysis for Probabilistic Models of Cognition - Current Directions in Psychological Science, 2012. [All Versions]. A Marr's paradigm account on probabilistic models.

• Levels of Analysis in Computational Social Science - CogSci'18, 2018. [All Versions]. A Marr's paradigm account on computational social science.

• Levels of Analysis for Machine Learning - ICLR'20 Bridging AI and Cognitive Science Workshop, 2020. [All Versions]. A Marr's paradigm account on machine learning.

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Gestalt

• Gestalt theory - A source book of Gestalt psychology, 1938. [All Versions]. The original book on Gestalt psychology.

• Gestalt Psychology - Psychologische Forschung, 1967. [All Versions]. Wolfgang Köhler's review on Gestalt psychology.

• Restructuring revisited I. Summary and critique of the Gestalt theory of problem solving - Scandinavian Journal of Psychology, 1984. [All Versions].

• Restructuring revisited II. An information processing theory of restructuring and insight - Scandinavian Journal of Psychology, 1984. [All Versions].

• Thoughts beyond words: When language overshadows insight - Journal of Experimental Psychology, 1993. [All Versions].

• Deep Learning: How the Mind Overrides Experience - Cambridge University Press, 2011. [All Versions].

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The Aha! Moment

• Eureka Effect - Wikipedia. Wikipedia on Eureka effect (a.k.a. Aha! moment, insight, and epiphany), the common human experience of suddenly understanding a previously incomprehensible problem or concept.

• Insight - Wikipedia. Wikipedia on insight.

• Epiphany - Wikipedia. Wikipedia on epiphany, the "feeling" when the Aha! moment comes.

• A computational model of scientific insight - The nature of creativity: Contemporary psychological perspectives, 1988. [All Versions]. A computational account on insights for scientific discovery.

• What Makes an Insight Problem? The Roles of Heuristics, Goal Conception, and Solution Recoding in Knowledge-Lean Problems - Journal of Experimental Psychology, 2004. [All Versions]. [APA].

• Constraint relaxation and chunk decomposition in insight problem solving - Journal of Experimental Psychology, 1999. [All Versions]. [APA].

• Dynamics and constraints in insight problem solving - Journal of Experimental Psychology, 2002. [All Versions]. [APA].

• Insight solutions are correct more often than analytic solutions - Thinking & Reasoning, 2016. [All Versions].

• Human Performance on Insight Problem Solving: A Review - The Journal of Problem Solving, 2011. [All Versions].

• Insight Is Not in the Problem: Investigating Insight in Problem Solving across Task Types - Frontiers in Psychology, 2016. [All Versions].

• Multiple Causes of Difficulty in Insight: The Case of the Nine-Dot Problem - Journal of Experimental Psychology, 2004. [All Versions]. [APA].

• Investigating the effect of Mental Set on Insight Problem Solving - Experimental Psychology, 2008. [All Versions].

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Rationality

• Bounded Rationality - Plato Stanford. A computational philosophy account on Bounded Rationality, an elementary hypothesis of human intelligence in psychology and ecology.

• Instrumental Rationality - Plato Stanford. A computational philosophy account on Instrumental Rationality, a dabate on whether an agent's decision is made intentionally or out of rational coherence.

• A Study of Thinking - Routledge, 1956. [All Versions]. This book is a pioneering account of how human beings achieve a measure of rationality in spite of the constraints imposed by time and ignorance.

• The Adaptive Nature of Human Categorization Behavior - Psychological Review, 1991. [All Versions]. The original paper that relates cognitive resource limitation with Bayesian rational analysis, in the case of categorization behavior.

• Task switching - Trends in Cognitive Sciences, 2003. [All Versions]. [Preprint]. The original paper on ``switch cost'', where subjects' responses are substantially slower and, usually, more error-prone immediately after a task switch.

• Computational Rationality: Linking Mechanism and Behavior Through Bounded Utility Maximization - Topics in Cognitive Science, 2014. [All Versions]. Introducing the computational rationality framework for including information-processing bounds in rational analyses, which emphasizes the incorporation of computational mechanism into the definition of rational action.

• Computational rationality: A converging paradigm for intelligence in brains, minds, and machines - Science, 2015. [All Versions]. A comprehensive review on the rationality of Bayesian computational models.

• Resource-rational analysis: Understanding human cognition as the optimal use of limited computational resources - Behavioral and Brain Sciences, 2020. [All Versions]. A resource-rational account on interpreting human intelligence.

• Rational Use of Cognitive Resources: Levels of Analysis Between the Computational and the Algorithmic - Topics in Cognitive Science, 2015. [All Versions]. An earlier version of the paper above.

• Understanding Human Intelligence through Human Limitations - Trends in Cognitive Sciences, 2020. [All Versions]. Tom Griffiths's review on understanding the uniqueness of human intelligence through three aspects of human limitations.

• Foundations of intuitive power analyses in children and adults - Nature Human Behavior, 2022. [All Versions]. Evidences support that people have some of the foundations for 'intuitive power analyses', which help people use intuitive statistical reasoning and metacognitive strategies to estimate how much information they might need to solve different discrimination problems.

• Cognitive Science as a Source of Forward and Inverse Models of Human Decisions for Robotics and Control - Annual Review of Control, Robotics, and Autonomous Systems, 2022. [All Versions]. The review focuses on how cognitive science can provide forward models of human decision-making and inverse models of how humans think about others’ decision-making. The authors highlight relevant recent developments, including approaches that synthesize black box and theory-driven modeling, accounts that recast heuristics and biases as forms of bounded optimality, and models that characterize human theory of mind and communication in decision-theoretic terms.

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Cognitive Architecture

• Epistemology - Plato Stanford.

• The secret life of predictive brains: what's spontaneous activity for? - Trends in Cognitive Sciences, 2021. [All Versions]. A neuroscience account on brain as a generative model.

• SOAR: An architecture for general intelligence - Artificial Intelligence, 1987. [All Versions].

• Is human cognition adaptive? - Behavioral and Brain Sciences, 1991. [All Versions]. The original paper introducing the adaptation perspective of human intelligence, the theoretical basis of the ACT cognitive architecture.

• Metacognition in computation: A selected research review - Artificial Intelligence, 2005. [All Versions].

• Basic functional trade-offs in cognition: An integrative framework - Cognition, 2018. [All Versions].

• What is consciousness, and could machines have it? - Science, 2017. [All Versions]. A perspective on the two levels of consciousness in machine intelligence.

• A Theoretical Computer Science Perspective on Consciousness - Journal of Artificial Intelligence and Consciousness, 2020. [All Versions].

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Science Logology

Philosophy of Science

• The structure of scientific revolutions - University of Chicago Press: Chicago, 1970. [All Versions]. Thomas Kuhn's original book on the emergence and the shift of scientific paradigms.

• The Meaning of "Theory" - Sociological Theory, 2008. [All Versions]. A philosophical account on the definition of "theory" in social science (also can be generalized to natural science).

• The blind men and the elephant: A metaphor to illuminate the role of researchers and reviewers in social science - Methodological Innovations Online, 2013. [All Versions].

• A Computational Inflection for Scientific Discovery - Communications of the ACM, 2023. [All Versions].

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Science of Science

• Metascience - Wikipedia.

• Science of Science - Science, 2018. [All Versions]. A comprehensive large-scale review on the science of science.

• Finding Scientific Topics - Proceedings of the National Academy of Sciences, 2004. [All Versions]. Thomas L. Griffiths's analysis of scientific topics using Bayesian model.

• Meta-assessment of Bias in Science - Proceedings of the National Academy of Sciences, 2017. [All Verisions]. An analysis of bias patterns and risk factors in science.

• Slowed Canonical Progress in Large Fields of Science - Proceedings of the National Academy of Sciences, 2021. [All Verisions]. An analysis of why too many papers published each year in a field can lead to stagnation rather than advance.

• HCI Research as Problem-Solving - ACM SIGCHI'16, 2016. [All Versions]. This essay contributes a meta-scientific account of human-computer interaction (HCI) research as problem-solving. We build on the philosophy of Larry Laudan, who develops problem and solution as the foundational concepts of science. We argue that most HCI research is about three main types of problem: empirical, conceptual, and constructive.

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Literature Mining

• Structured information extraction from scientific text with large language models - Nature Communications, 2024. [All Versions]. This paper presents a simple approach to joint named entity recognition and relation extraction and demonstrate how pretrained large language models can be fine-tuned to extract useful records of complex scientific knowledge. The authors test three representative tasks in materials chemistry: linking dopants and host materials, cataloging metal-organic frameworks, and general composition/phase/morphology/application information extraction.

• Automated extraction of chemical synthesis actions from experimental procedures - Nature Communications, 2020. [All Versions]. This paper presents a method to convert unstructured experimental procedures written in English to structured synthetic steps (action sequences) reflecting all the operations needed to successfully conduct the corresponding chemical reactions.

• Inferring experimental procedures from text-based representations of chemical reactions - Nature Communications, 2021. [All Versions]. This paper presents data-driven models for predicting the entire sequence of synthesis steps starting from a textual representation of a chemical equation, for application in batch organic chemistry.

• Language models and protocol standardization guidelines for accelerating synthesis planning in heterogeneous catalysis - Nature Communications, 2023. [All Versions]. This paper introduces a transformer model for automated synthesis protocol analysis in catalyst discovery, exemplified using single-atom heterogeneous catalysts (SACs), a rapidly expanding catalyst family. The model adeptly converts SAC protocols into action sequences, and this output is used to facilitate statistical inference of their synthesis trends and applications, potentially expediting literature review and analysis.

• Galactica: A Large Language Model for Science - Meta AI, 2022. [All Versions]. A large language model trained on large-scale scientific corpus.

• CORWA: A Citation-Oriented Related Work Annotation Dataset - NAACL'22, 2022. [All Versions].

• ESRA: Explainable Scientific Research Assistant - ACL'21 Demo Track, 2021. [All Versions]. A tool for constructing and visualizing the knowledge graph of a query keyword in literature retrieving.

• cite2vec: Citation-Driven Document Exploration via Word Embeddings - IEEE Transactions on Visualization and Computer Graphics, 2016. [All Versions].

• Galex: Exploring the evolution and intersection of disciplines - IEEE Transactions on Visualization and Computer Graphics, 2019. [All Versions].

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Scientific Writing

• The uses of argument - Cambridge University Press, 1958. [All Versions]. Stephen Toulmin's introduction to the Toulmin argument pattern, which is generally consist of a claim, a justification, and a rebuttal.

• A tagmemic approach to paragraph analysis - College Composition and Communication, 1965. [All Versions]. The original paper on analyzing the structure of expository paragraphs, with the two patterns---the Topic-Restriction-Illustration pattern and the Problem-Solution pattern.

• The uses and complexity of argument structures in expert and student persuasive writing - Written Communication, 1998. [All Versions]. A behaviorial study revealing the argument structures exploited by people in argumentative writing.

• Towards an argument interchange format - The Knowledge Engineering Review, 2006. [All Versions]. The original paper introducing the Argument Interchange Format (AIF) framework for argumentation analysis.

• Speech Acts of Argumentation: Inference Anchors and Peripheral Cues in Dialogue - AAAI'12, 2012. [All Versions]. The original paper introducing the Information Anchoring Theory (IAT) as an alternate for AIF.

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Science Education

• Cognitive Science and Science Education - American Psychologist, 1986. [All Versions]. Susan Carey's review on cognitive-science-based methodologies for science education research.

• PersLEARN: Research Training through the Lens of Perspective Cultivation - ACL'23, 2023. [All Versions]. Scientific research is inherently shaped by its authors’ perspectives, influenced by various factors such as their personality, community, or society. Junior researchers often face challenges in identifying the perspectives reflected in the existing literature and struggle to develop their own viewpoints. To address the problem, this paper introduces PersLEARN, a tool designed to facilitate the cultivation of scientific perspectives, starting from a basic seed idea and progressing to a well-articulated framework.

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Democratization of Science

• Reproducibility - Science, 2014. [All Versions].

• Bridging the information gap in organic chemical reactions - Nature Chemistry, 2024. [All Versions]. This perspective article formulates eight principles to improve data management in scientific publications relating to data standardization, reproducibility and evaluation, and encourage scientists to go beyond current publication standards.

• A manifesto for reproducible science - Nature Human Behavior, 2017. [All Versions].

• 1,500 scientists lift the lid on reproducibility - Nature, 2016. [All Versions].

• How to Make More Published Research True - PLoS Medicine, 2014. [All Versions].

• Six factors affecting reproducibility in life science research and how to handle them - Nature Advertisement.

• Five keys to writing a reproducible lab protocol - Nature, 2021. [All Versions]. This interviewing paper introduces five ways to increase the reproducibility of experimental protocols: (i) documenting protocols as the experiment goes; (ii) providing video illustrations in addition to written protocols; (iii) using electronic lab notebooks (ELNs) for managing experimental resources digitally; (iv) depositing and documenting reagents with understanding the rationale behind every step; and (v) exploiting online platforms to share tips, extensions, methods, and data among researchers.

• The Experimental Design Assistant - PLoS Biology, 2017. [All Versions]. [Nature Methods Correspondence]. [EDA Website]. The EDA is a web-based tool that guides the in vivo researcher through the experimental design and analysis process, providing automated feedback on the proposed design and generating a graphical summary that aids communication with colleagues, funders, regulatory authorities, and the wider scientific community.

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Laboratory Automation

• Reconfigurable system for automated optimization of diverse chemical reactions - Science, 2018. [All Versions]. [Preprint]. This paper describes a plug-and-play, continuous-flow chemical synthesis system that mitigates this challenge with an integrated combination of hardware, software, and analytics. The system software controls the user-selected reagents and unit operations (reactors and separators), processes reaction analytics (high-performance liquid chromatography, mass spectrometry, vibrational spectroscopy), and conducts automated optimizations.

• Organic synthesis in a modular robotic system driven by a chemical programming language - Science, 2019. [All Versions]. [Preprint]. [Perspective: Democratizing synthesis by automation]. This paper develops an autonomous compiler and robotic laboratory platform to synthesize organic compounds on the basis of standardized methods descriptions. The platform comprises conventional equipment such as round-bottom flasks, separatory funnels, and a rotary evaporator to maximize its compatibility with extant literature. The authors showcase the system with short syntheses of three common pharmaceuticals that proceeded comparably to manual synthesis.

• A universal system for digitization and automatic execution of the chemical synthesis literature - Science, 2020. [All Versions]. [Preprint]. [XDL Documentation]. [XDL Schema Database]. This paper reports a software platform that uses natural language processing to translate the organic chemistry literature directly into editable code, which in turn can be compiled to drive automated synthesis of the compound in the laboratory.

• Digitization and validation of a chemical synthesis literature database in the ChemPU - Science, 2022. [All Versions]. [Preprint]. This paper presents an automatically executable chemical reaction database of 100 molecules representative of the range of reactions found in contemporary organic synthesis. The chemical reaction codes or χDLs for the reactions have been stored in a database for version control, validation, collaboration, and data mining. Of these syntheses, more than 50 entries from the database have been downloaded and robotically run in seven modular chemputers with yields and purities comparable to those achieved by an expert chemist.

• Chemputation and the Standardization of Chemical Informatics - Journal of the American Chemical Society (Au), 2021. [All Versions]. This paper describes a standard hardware (the chemical processing programming architecture --- the ChemPU) to encompass all chemical synthesis, an approach which unifies all chemistry automation strategies, from solid-phase peptide synthesis, to HTE flow chemistry platforms, while at the same time establishing a publication standard so that researchers can exchange chemical code (χDL) to ensure reproducibility and interoperability.

• Convergence of multiple synthetic paradigms in a universally programmable chemical synthesis machine - Nature Chemistry, 2020. [All Versions]. [Preprint]. This paper shows how the Chemputer synthesis robot can be programmed to perform many different reactions, including solid-phase peptide synthesis, iterative cross-coupling and accessing reactive, unstable diazirines in a single, unified system with high yields and purity.

• An autonomous portable platform for universal chemical synthesis - Nature Chemistry, 2022. [All Versions]. [Preprint]. This paper presents a portable suitcase-sized chemical synthesis platform containing all the modules required for synthesis and purification. The system uses a chemical programming language coupled to a digital reactor generator to produce reactors and executable protocols based on text-based literature syntheses. Simultaneously, the platform generates a reaction pressure fingerprint, used to monitor processes within the reactors and remotely perform a protocol quality control.

• An integrated self-optimizing programmable chemical synthesis and reaction engine - Nature Communications, 2024. [All Versions]. This paper presents a dynamically programmable system capable of making, optimizing, and discovering new molecules which utilizes seven sensors that continuously monitor the reaction. By developing a dynamic programming language, the work demonstrates the 10-fold scale-up of a highly exothermic oxidation reaction, end point detection, as well as detecting critical hardware failures.

• A mobile robotic chemist - Nature, 2020. [All Versions]. [Preprint]. This work uses a mobile robot to search for improved photocatalysts for hydrogen production from water. The robot operated autonomously over eight days, performing 688 experiments within a ten-variable experimental space, driven by a batched Bayesian search algorithm. This autonomous search identified photocatalyst mixtures that were six times more active than the initial formulations, selecting beneficial components and deselecting negative ones.

• An autonomous laboratory for the accelerated synthesis of novel materials - Nature, 2023. [All Versions]. This paper introduces the A-Lab, an autonomous laboratory for the solid-state synthesis of inorganic powders. This platform uses computations, historical data from the literature, machine learning (ML) and active learning to plan and interpret the outcomes of experiments performed using robotics. Over 17 days of continuous operation, the A-Lab realized 41 novel compounds from a set of 58 targets including a variety of oxides and phosphates that were identified using large-scale ab initio phase-stability data from the Materials Project and Google DeepMind.

• The Internet of Things comes to the lab - Nature, 2017. [All Versions]. The emergence of connected instruments and equipment promises to untether researchers from the laboratory --- letting them fine-tune experiments and analyse data remotely.

• A dynamic knowledge graph approach to distributed self-driving laboratories - Nature Communications, 2024. [All Versions]. This work employs ontologies to capture data and material flows in design-make-test-analyse cycles, utilising autonomous agents as executable knowledge components to carry out the experimentation workflow. Data provenance is recorded to ensure its findability, accessibility, interoperability, and reusability. The architecture is built upon the World Avatar project, which seeks to create an all-encompassing digital twin based on a dynamic knowledge graph.

• Automation isn't automatic - Chemical Science, 2021. [All Versions]. This perspective provides an overview of the current state of automation of synthetic chemistry at the benchtop scale with a particular emphasis on core considerations and the ensuing challenges of deploying a system. The authors aim to reframe automation as decidedly not automatic but rather an iterative process that involves a series of careful decisions (both human and computational) and constant adjustment.

• Balancing act: when to flex and when to stay fixed - Trends in Chemistry, 2023. [All Versions]. This perspective article provides essential insights into the decision-making process for choosing automation platforms, highlighting the suitability of fixed automation for standardized tasks and the strategic use of flexible automation in dynamic research settings.

• What is a minimal working example for a self-driving laboratory? - Matter, 2022. [All Versions]. This paper proposes SDL-Demo: a low-cost “Hello, World!” for self-driving laboratories that combines “Hello, World!” tasks from electronics, physics-based simulations, and optimization. SDL-Demo is modular and extensible, making it an ideal candidate for low-cost teaching and prototyping of self-driving laboratory concepts.

• Robotic search for optimal cell culture in regenerative medicine - eLife, 2022. [All Versions]. This paper develops a robotic AI system with a batch Bayesian optimization algorithm that autonomously induces the differentiation of induced pluripotent stem cell-derived retinal pigment epithelial (iPSC-RPE) cells. From 200 million possible parameter combinations, the system performed cell culture in 143 different conditions in 111 days, resulting in 88% better iPSC-RPE production than that obtained by the pre-optimized culture in terms of the pigmentation scores.

• Cell Culture: Implementing robotics and artificial intelligence - eLife, 2022. [All Versions].

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AI Assisted Research

• Scientific discovery in the age of artificial intelligence - Nature, 2023. [All Versions]. A review article that examines breakthroughs over the past decade that include self-supervised learning, which allows models to be trained on vast amounts of unlabelled data, and geometric deep learning, which leverages knowledge about the structure of scientific data to enhance model accuracy and efficiency.

• The Impact of Large Language Models on Scientific Discovery: a Preliminary Study using GPT-4 - Microsoft Research AI4Science, 2023. [All Versions]. [Project]. A survey on the performance of LLMs within the context of scientific discovery, focusing on GPT-4.

• Highly accurate protein structure prediction with AlphaFold - Nature, 2021. [All Versions]. This paper provides the first computational method that can regularly predict protein structures with atomic accuracy even in cases in which no similar structure is known. This approach is a canonical application of observation- and explanation- based method for protein structure prediction instead of first-principle-based methods.

• Human–machine collaboration for improving semiconductor process development - Nature, 2023. [All Versions]. [Nature News]. This work studies Bayesian optimization algorithms to investigate how artificial intelligence (AI) might decrease the cost of developing complex semiconductor chip processes. In particular, this work create a controlled virtual process game to systematically benchmark the performance of humans and computers for the design of a semiconductor fabrication process. The authors find that human engineers excel in the early stages of development, whereas the algorithms are far more cost-efficient near the tight tolerances of the target.

• A foundation model for generalizable disease detection from retinal images - Nature, 2023. [All Versions]. This paper presents RETFound, a foundation model for retinal images that learns generalizable representations from unlabelled retinal images and provides a basis for label-efficient model adaptation in several applications. Specifically, RETFound is trained on 1.6 million unlabelled retinal images by means of self-supervised learning and then adapted to disease detection tasks with explicit labels.

• Accurate medium-range global weather forecasting with 3D neural networks - Nature, 2023. [All Versions]. This paer introduces an artificial-intelligence-based method for accurate, medium-range global weather forecasting. It shows that three-dimensional deep networks equipped with Earth-specific priors are effective at dealing with complex patterns in weather data, and that a hierarchical temporal aggregation strategy reduces accumulation errors in medium-range forecasting. Trained on 39 years of global data, the program, Pangu-Weather, obtains stronger deterministic forecast results on reanalysis data in all tested variables when compared with the world’s best NWP system, the operational integrated forecasting system of the European Centre for Medium-Range Weather Forecasts.

• Learning skillful medium-range global weather forecasting - Science, 2023. [All Versions].

• Skilful nowcasting of extreme precipitation with NowcastNet - Nature, 2023. [All Versions].

• Autonomous chemical research with large language models - Nature, 2023. [All Versions]. An artificial intelligence system driven by GPT-4 that autonomously designs, plans and performs complex experiments by incorporating large language models empowered by tools such as internet and documentation search, code execution and experimental automation.

• Augmenting large language models with chemistry tools - Nature Machine Intelligence, 2023. [All Versions]. [Preprint]. This paper introduces ChemCrow, an LLM chemistry agent designed to accomplish tasks across organic synthesis, drug discovery and materials design. By integrating 18 expert-designed tools and using GPT-4 as the LLM, ChemCrow augments the LLM performance in chemistry, and new capabilities emerge. The agent autonomously planned and executed the syntheses of an insect repellent and three organocatalysts and guided the discovery of a novel chromophore.

• BioPlanner: Automatic Evaluation of LLMs on Protocol Planning in Biology - EMNLP'23, 2023. [All Versions]. This paper presents an automatic evaluation framework for the task of planning experimental protocols, and introduces BioProt: a dataset of biology protocols with corresponding pseudocode representations.

• A human-machine interface for automatic exploration of chemical reaction networks - Nature Communications, 2024. [All Versions]. Autonomous reaction network exploration algorithms offer a systematic approach to explore mechanisms of complex chemical processes. However, the resulting reaction networks are so vast that an exploration of all potentially accessible intermediates is computationally too demanding. This paper introduces a STEERING WHEEL to guide an otherwise unbiased automated exploration. The STEERING WHEEL algorithm is intuitive, generally applicable, and enables one to focus on specific regions of an emerging network. It also allows for guiding automated data generation in the context of mechanism exploration, catalyst design, and other chemical optimization challenges.

• ChipNeMo: Domain-Adapted LLMs for Chip Design - 2023. [All Versions].

• Single-atom alloy catalysts designed by first-principles calculations and artificial intelligence - Nature Communications, 2021. [All Versions]. This paper addresses the problem of new Single-atom-alloy catalysts (SAACs) discovery by applying a compressed-sensing data-analytics approach parameterized with density-functional inputs.

• Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences - Proceedings of the National Academy of Sciences, 2021. [All Versions].

• Comparability of automated human induced pluripotent stem cell culture: a pilot study - Bioprocess and Biosystems Engineering, 2016. [All Versions].

• Artificial Intelligence for Retrosynthetic Planning Needs Both Data and Expert Knowledge - Journal of the American Chemical Society, 2024. [All Versions]. The development of AI synthesis planners trained solely on reaction-example-data has stagnated and is not on par with the performance of “hybrid” algorithms combining AI with expert knowledge. This Perspective examines possible causes of these shortcomings, extending beyond the established reasoning of insufficient quantities of reaction data. The authors advocate augmenting the unique capabilities of AI with the knowledge base and the reasoning strategies of domain experts.

• Optimizing Spaced Repetition Schedule by Capturing the Dynamics of Memory - IEEE Transactions on Knowledge and Data Engineering, 2023. [All Versions].

• LEGAL-BERT: The Muppets straight out of Law School - EMNLP'20, 2020. [All Versions]. Generating answers to legal questions, analyze contracts, and summarizing legal documents, making legal knowledge more accessible to non-experts.

• BioBERT: a pre-trained biomedical language representation model for biomedical text mining - Bioinformatics, 2020. [All Versions]. Answering medical questions, identifying relevant clinical trials, and diagnosing diseases based on symptoms, making medical information more accessible to the general public.

• Finbert: A pre-trained financial language representation model for financial text mining - IJCAI'20, 2020. [All Versions]. Predicting stock market trends, analyzing financial documents, and generating summaries of economic news articles, helping to disseminate financial knowledge.

• SciBERT: A Pretrained Language Model for Scientific Text - EMNLP'19, 2019. [All Versions]. Searching and synthesizing scientific literature, aiding researchers in hypothesis generation, and assisting with experimental design, making scientific knowledge more accessible.

• CodeBERT: A Pre-Trained Model for Programming and Natural Languages - EMNLP'20, 2020. [All Versions]. Completing code, generating programming documentation, and providing technical support, making programming knowledge more accessible to non-experts.

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Theory of Mind

• Theory of Mind - Wikipedia. Wikipedia on Theory of Mind (ToM), a cognitive capability that estimating others' goal, belief, and desire.

• Intentionality - Plato Stanford.

• The naïve utility calculus: Computational principles underlying commonsense psychology - Trends in Cognitive Sciences, 2016. [All Versions]. [Preprint]. This review article proposes that human social cognition is structured around a basic understanding of ourselves and others as intuitive utility maximizers: from a young age, humans implicitly assume that agents choose goals and actions to maximize the rewards they expect to obtain relative to the costs they expect to incur. This ‘naïve utility calculus’ allows both children and adults observe the behavior of others and infer their beliefs and desires, their longer-term knowledge and preferences, and even their character: who is knowledgeable or competent, who is praiseworthy or blameworthy, who is friendly, indifferent, or an enemy.

• Planning with theory of mind - Trends in Cognitive Sciences, 2022. [All Versions]. [Preprint]. A perspective on understanding Theory of Mind through planning that consists of abstract structured causal representations and supports efficient search and selection from innumerable possible actions. Planning requires that Theory of Mind consists of abstract structured causal representations and supports efficient search and selection from innumerable possible actions. Theory of Mind contrasts with less cognitively demanding alternatives: statistical predictive models of other people’s actions, or model-free reinforcement of actions by their effects on other people. Theory of Mind is likely used to plan novel interventions and predict their effects, for example, in pedagogy, emotion regulation, and impression management.

• Action Understanding as Inverse Planning - Cognition, 2009. [All Versions]. [Appendix]. The original paper on Inverse Planning, a computational implementation of Theory of Mind. Humans are adept at inferring the mental states underlying other agents’ actions, such as goals, beliefs, desires, emotions and other thoughts. This paper proposes a computational framework based on Bayesian inverse planning for modeling human action understanding. The framework represents an intuitive theory of intentional agents’ behavior based on the principle of rationality: the expectation that agents will plan approximately rationally to achieve their goals, given their beliefs about the world. The mental states that caused an agent's behavior are inferred by inverting this model of rational planning using Bayesian inference, integrating the likelihood of the observed actions with the prior over mental states.

• Bayesian Theory of Mind: Modeling Joint Belief-Desire Attribution - CogSci'11, 2011. [All Versions]. [Preprint]. This paper presents a computational framework for understanding Theory of Mind (ToM): the human capacity for reasoning about agents’ mental states such as beliefs and desires. The proposed Bayesian model of ToM (or BToM) expresses the predictive model of belief- and desire-dependent action at the heart of ToM as a partially observable Markov decision process (POMDP), and reconstructs an agent’s joint belief state and reward function using Bayesian inference, conditioned on observations of the agent’s behavior in some environmental context.

• The Signature of All Things: Children Infer Knowledge States from Static Images - CogSci'20, 2020. [All Versions].

• Bayesian Brains without Probabilities - Trends in Cognitive Sciences, 2016. [All Versions]. A perspective on human probabilistic modeling without explicit probabilistic computation.

• Rational quantitative attribution of beliefs, desires and percepts in human mentalizing - Nature Human Behavior, 2017. [All Versions]. [Preprint]. This paper presents a model of core mentalizing computations: inferring jointly an actor’s beliefs, desires and percepts from how they move in the local spatial environment. The proposed Bayesian theory of mind (BToM) model is based on probabilistically inverting artificial-intelligence approaches to rational planning and state estimation, which extend classical expected-utility agent models to sequential actions in complex, partially observable domains.

• Machine theory of mind - ICML'18, 2018. [All Versions]. Theory of mind (ToM) broadly refers to humans’ ability to represent the mental states of others, including their desires, beliefs, and intentions. This work proposes a Theory of Mind neural network --- a ToMnet --- which uses meta-learning to build such models of the agents it encounters. The ToMnet learns a strong prior model for agents’ future behaviour, and, using only a small number of behavioural observations, can bootstrap to richer predictions about agents’ characteristics and mental states.

• Theory of mind as inverse reinforcement learning - Current Opinion in Behavioral Sciences, 2019. [All Versions]. This paper reviews the idea that Theory of Mind --- humans' ability to reason about other people's mental states --- can be formalized as inverse reinforcement learning. Under this framework, expectations about how mental states produce behavior are captured in a reinforcement learning (RL) model. Predicting other people’s actions is achieved by simulating a RL model with the hypothesized beliefs and desires, while mental-state inference is achieved by inverting this model. Although many advances in inverse reinforcement learning (IRL) did not have human Theory of Mind in mind, this paper focuses on what they reveal when conceptualized as cognitive theories.

• Computational Models of Emotion Inference in Theory of Mind: A Review and Roadmap - Topics in Cognitive Science, 2019. [All Versions]. This paper proposes an intuitive theory framework to studying affective cognition—how humans reason about emotions—and derive a taxonomy of inferences within affective cognition. Using this taxonomy, the authors review formal computational modeling work on such inferences, including causal reasoning about how others react to events, reasoning about unseen causes of emotions, reasoning with multiple cues, as well as reasoning from emotions to other mental states. This framework proposes unifying these various types of reasoning as Bayesian inference within a common “intuitive Theory of Emotion.”

• The Naïve Utility Calculus as a unified, quantitative framework for action understanding - Cognitive Psychology, 2021. [All Versions]. [Project]. This paper presents a formal theory of the Naïve Utility Calculus as a probabilistic generative model, which highlights the role of cost and reward tradeoffs in a Bayesian framework for action-understanding. The model predicts with quantitative accuracy how people infer agents’ subjective costs and rewards based on their observable actions. By distinguishing between desires, goals, and intentions, the model extends to complex action scenarios unfolding over space and time in scenes with multiple objects and multiple action episodes.

• AGENT: A Benchmark for Core Psychological Reasoning - ICML'21, 2021. [All Versions]. Inspired by cognitive development studies on intuitive psychology, this paper presents a benchmark consisting of a large dataset of procedurally generated 3D animations, AGENT (Action, Goal, Efficiency, coNstraint, uTility), structured around four scenarios (goal preferences, action efficiency, unobserved constraints, and cost-reward trade-offs) that probe key concepts of core intuitive psychology. The results suggest that to pass the designed tests of core intuitive psychology at human levels, a model must acquire or have built-in representations of how agents plan, combining utility computations and core knowledge of objects and physics.

• Experimental Games and Social Decision Making - Annual Review of Psychology, 2021. [All Versions]. Experimental games model situations in which the future outcomes of individuals and groups depend on their own choices and on those of other (groups of) individuals. Games are a powerful tool to identify the neural and psychological mechanisms underlying interpersonal and group cooperation and coordination. This review article discusses recent developments in how experimental games are used and adapted, with an increased focus on repeated interactions, partner control through sanctioning, and partner (de)selection for future interactions.

• Theory of Minds: Understanding Behavior in Groups through Inverse Planning - AAAI'19, 2019. [All Versions]. Towards the goal of building machine-learning algorithms with human-like social intelligence, this paper develops a generative model of multiagent action understanding based on a novel representation for these latent relationships called Composable Team Hierarchies (CTH). This representation is grounded in the formalism of stochastic games and multi-agent reinforcement learning. This work uses CTH as a target for Bayesian inference yielding a new algorithm for understanding behavior in groups that can both infer hidden relationships as well as predict future actions for multiple agents interacting together.

• Leveraging Facial Expressions and Contextual Information to Investigate Opaque Representations of Emotion - Emotion, 2019. [All Versions].

• Waiting and weighting: Information sampling is a balance between efficiency and error-reduction - Cognition, 2013. [All Versions].

• Natural scene statistics account for the representation of scene categories in human visual cortex - Neuron, 2013. [All Versions].

• Using human brain activity to guide machine learning - Scientific Report, 2018. [All Versions].

• Unit of visual working memory: A Boolean map provides a better account than an object does - Journal of Experimental Psychology, 2020. [All Versions].

• The logic of universalization guides moral judgment - Proceedings of the National Academy of Sciences, 2020. [All Versions].

• Learning Triadic Belief Dynamics in Nonverbal Communication from Videos - CVPR'21, 2021. [All Versions]. [Preprint]. This paper incorporates different nonverbal communication cues (e.g., gaze, human poses, and gestures) to represent, model, learn, and infer agents' mental states from pure visual inputs. Crucially, such a mental representation takes the agent's belief into account so that it represents what the true world state is and infers the beliefs in each agent's mental state, which may differ from the true world states. By aggregating different beliefs and true world states, the model essentially forms "five minds" during the interactions between two agents. This "five minds" model differs from prior works that infer beliefs in an infinite recursion; instead, agents' beliefs are converged into a "common mind". Based on this representation, this work further devises a hierarchical energy-based model that jointly tracks and predicts all five minds. From this new perspective, a social event is interpreted by a series of nonverbal communication and belief dynamics, which transcends the classic keyframe video summary.

• Ten-month-old infants infer the value of goals from the costs of actions - Science, 2017. [All Versions]. A piece of evidence for children's capability on ToM.

• Origins of the concepts cause, cost, and goal in prereaching infants - Proceedings of the National Academy of Sciences, 2019. [All Versions].

• Baby Intuitions Benchmark (BIB): Discerning the goals, preferences, and actions of others - NeurIPS'21, 2021. [All Versions].

• Intentonomy: a Dataset and Study towards Human Intent Understanding - CVPR'21, 2021. [All Versions]. A large-scale database on human intentionally-posted images on social media.

• Adventures in Flatland: Perceiving Social Interactions Under Physical Dynamics - CogSci'20, 2020. [All Versions].

• PHASE: PHysically-grounded Abstract Social Events for Machine Social Perception - AAAI'21, 2021. [All Versions]. [Project].

• Watch-And-Help: A Challenge for Social Perception and Human-AI Collaboration - ICLR'21, 2021. [All Versions].

• Evaluating and Modeling Social Intelligence: A Comparative Study of Human and AI Capabilities - CogSci'24, 2024. [All Versions]. This work eveloped a comprehensive theoretical framework for social dynamics and introduced two evaluation tasks: Inverse Reasoning (IR) and Inverse Inverse Planning (IIP). The approach also encompassed a computational model based on recursive Bayesian inference, adept at elucidating diverse human behavioral patterns. Extensive experiments and detailed analyses revealed that humans surpassed the latest GPT models in overall performance, zero-shot learning, one-shot generalization, and adaptability to multi-modalities.

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Analogy

• Metaphor - Plato Stanford. A computational philosophy account on Metaphor, a poetically or rhetorically ambitious use of words, a figurative as opposed to literal use.

• Analogy and Analogical Reasoning - Plato Stanford. A computational philosophy account on Analogy, a comparison between two objects, or systems of objects, that highlights respects in which they are thought to be similar.

• A Cognitive Theory of Metaphor - MIT Press, 1985. [All Versions]. A cognitive account on Metaphor.

• The structure-mapping engine: Algorithm and examples - Artificial Intelligence, 1989. [All Versions]. A computational implementation of analogy.

• Structure mapping in analogy and similarity - American Psychologist, 1997. [All Versions]. A perspective unifying analogy and similarity judgement.

• A theory of relation learning and cross-domain generalization - Psychological Review, 2022. [All Versions]. A comprehensive review on the perspective of treating analogy as cross-domain generalization.

• Emergence of analogy from relation learning - Proceedings of the National Academy of Sciences, 2019. [All Versions]. Analogy feature in language models.

• Analogies Explained: Towards Understanding Word Embeddings - ICML'19, 2019. [All Versions]. Explaining the analogy capability in word embeddings.

• Skip-Gram − Zipf + Uniform = Vector Additivity - ACL'17, 2017. [All Versions].

• Generalize and Blend: Concept Blending Based on Generalization, Analogy, and Amalgams - ICCC'15, 2015. [All Versions].

• Analogy-preserving Semantic Embedding for Visual Object Categorization - ICML'13, 2013. [All Versions]. The first application of analogy to machine learning.

• VISALOGY: Answering Visual Analogy Questions - NeurIPS'15, 2015. [All Versions].

• Detecting Unseen Visual Relations Using Analogies - CVPR'19, 2019. [All Versions].

• Analogy between concepts - Artificial Intelligence, 2019. [All Versions]. A mathematical account on analogy.

• Learning to Make Analogies by Contrasting Abstract Relational Structure - ICLR'19, 2019. [All Versions].

• Sky + Fire = Sunset. Exploring Parallels between Visually Grounded Metaphors and Image Classifiers - ACL'20, 2020. [All Versions].

• Analogy as Nonparametric Bayesian Inference over Relational Systems - CogSci'20, 2020. [All Versions].

• Visual Analogy: Deep Learning Versus Compositional Models - CogSci'21, 2021. [All Versions]. A human-deep-learning comparison on similarity judgement.

• Preschoolers and adults make inferences from novel metaphors - CogSci'22, 2022. [All Versions]. A piece of evidence that understanding metaphors is capable for different cognitive development phases.

• Similarity involving attributes and relations: Judgments of similarity and difference are not inverses - Psychological Science, 1990. [All Versions].

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Causality

• Causality - Wikipedia. Wikipedia on causality, which is influence by which one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly responsible for the effect, and the effect is partly dependent on the cause.

• Causal Models - Plato Stanford. A computational philosophy account on Causal models, which are mathematical models representing causal relationships within an individual system or population.

• Causal Theories of Mental Content - Plato Stanford. A computational philosophy account on causal theories of mental content, which attempts to explain how thoughts can be about things.

• Identification of Causal Effects Using Instrumental Variables - Journal of the American Statistical Association, 1996. [All Versions].

• Predictive and Diagnostic Learning Within Causal Models: Asymmetries in Cue Competition - Journal of Experimental Psychology, 1992. [All Versions]. Experimental evidences for distincting causality and association.

• Causal Reasoning - The Oxford Handbook of Cognitive Psychology, 2013. [All Versions].

• Reasoning with cause and effect - 1998. Judea Pearl's tutorials on causal reasoning with operations on Bayesian networks.

• The Seven Tools of Causal Inference, with Reflections on Machine Learning - Communications of the ACM, 2019. [All Versions]. Judea Pearl's review on causal inference in probabilistic graph models.

• Toward Causal Representation Learning - Proceedings of the IEEE, 2021. [All Versions]. Yoshua Bengio's review on the perspective of treating causal inference as a representation learning problem.

• Theory-Based Causal Induction - Psychological Review, 2009. [All Versions]. Thomas Griffiths' review on causal Bayesian theory induction.

• Theory-Based Causal Transfer: Integrating Instance-Level Induction and Abstract-Level Structure Learning - AAAI'20, 2020. [All Versions]. A computatinoal account on causal transfer.

• Inferring causal networks from observations and interventions - Cognitive Science, 2010. [All Versions].

• Constraints on Hypothesis Selection in Causal Learning - CogSci'15, 2015. [All Versions].

• Eye-tracking causality - Psychological Science, 2017. [All Versions].

• What happened? Reconstructing the past through vision and sound - 2021. [All Versions].

• How do people generalize causal relations over objects? A non-parametric Bayesian account - Computational Brain & Behavior, 2022. [All Versions]. [Preprint]. How do people decide how general a causal relationship is, in terms of the entities or situations it applies to? What features do people use to decide whether a new situation is governed by a new causal law or an old one? How can people make these difficult judgments in a fast, efficient way? This paper addresses these questions in two experiments that ask participants to generalize from one (Experiment 1) or several (Experiment 2) causal interactions between pairs of objects. In each case, participants see an agent object act on a recipient object, causing some changes to the recipient.

• Causal Reasoning in Rats - Science, 2006. [All Versions]. A piece of evidence for the capability of causal reasoning in intelligent animals.

• Do New Caledonian crows solve physical problems through causal reasoning? - Proceedings of the Royal Society B: Biological Sciences, 2009. [All Versions]. A piece of evidence for the capability of causal reasoning in intelligent animals.

• Do six-month-old infants perceive causality? - Cognition, 1987. [All Versions].

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Commonsense

Intuitive Physics

• Intuitive Physics Reading List - GitHub. A reading list on intuitive physics, maintained actively by Shiqian Li.

• Intuitive Physics: Current Research and Controversies - Trends in Cognitive Sciences, 2018. [All Versions]. Hongjing Lu's review on intuitive physics.

• Simulation as an engine of physical scene understanding - Proceedings of the National Academy of Sciences, 2013. [All Versions]. [Appendix]. The first attempt to computationally simulate intuitive physics.

• Functional neuroanatomy of intuitive physical inference - Proceedings of the National Academy of Sciences, 2016. [All Versions]. A piece of evidence for the functional part of intuitive physics in human brain.

• Mind Games: Game Engines as an Architecture for Intuitive Physics - Trends in Cognitive Sciences, 2017. [All Versions]. Tomer Ullman's review on simulation-based intuitive physics.

• Learning physical parameters from dynamic scenes - Cognitive Psychology, 2017. [All Versions].

• Limits on Simulation Approaches in Intuitive Physics - Cognitive Psychology, 2021. [All Versions]. Ernest Davis's perspective against intuitive physics, that physcial reasoning is logical reasoning instead of intuition.

• Partial Mental Simulation Explains Fallacies in Physical Reasoning - Cognitive Neuropsychology, 2022. [All Versions].

• Intuitive physics learning in a deep-learning model inspired by developmental psychology - Nature Human Behavior, 2022. [All Versions]. A machine-learning dataset designed to evaluate conceptual understanding of intuitive physics, adopting the violation-of-expectation (VoE) paradigm from developmental psychology; a deep-learning system that learns intuitive physics directly from visual data, inspired by studies of visual cognition in children.

• PHYRE: A New Benchmark for Physical Reasoning - NeurIPS'19, 2019. [All Versions]. A benchmark for AI physical reasoning.

• Phy-Q as a measure for physical reasoning intelligence - Nature Machine Intelligence, 2023. [NMI Challenge]. An interactive benchmark for AI physical reasoning.

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AI Commonsense Reasoning

• Representations of Commonsense Knowledge - Morgan Kaufmann, 1990. [All Versions]. A classic book on commonsense knowledge.

• Towards a theory of commonsense visual reasoning - FSTTCS, 1990. [All Versions]. The original paper on visual commonsense.

• Commonsense reasoning and commonsense knowledge in artificial intelligence - Communications of the ACM, 2015. [All Versions]. Gary Marcus's review on commonsense knowledge in AI.

• From Recognition to Cognition: Visual Commonsense Reasoning - CVPR'19, 2019. [All Versions]. [Project].

• PIQA: Reasoning about Physical Commonsense in Natural Language - AAAI'20, 2020. [All Versions].

• Visual Commonsense R-CNN - CVPR'20, 2020. [All Versions].

• Abductive Commonsense Reasoning - ICLR'20, 2020. [All Versions]. Abductive commonsense reasoning on large language models.

• VisualCOMET: Reasoning About the Dynamic Context of a Still Image - ECCV'20, 2020. [All Versions].

• The Abduction of Sherlock Holmes: A Dataset for Visual Abductive Reasoning - ECCV'22, 2022. [All Versions]. [Preprint]. This paper presents Sherlock, an annotated corpus of 103K images for testing machine capacity for abductive reasoning beyond literal image contents. The corpus construction process adopts a free-viewing paradigm: participants first observe and identify salient clues within images (e.g., objects, actions) and then provide a plausible inference about the scene, given the clue.

• UNcommonsense Reasoning: Abductive Reasoning about Uncommon Situations - NAACL'24, 2024. [All Versions]. This paper explores the task of uncommonsense abductive reasoning. Given a piece of context with an unexpected outcome, this task requires reasoning abductively to generate an explanation that makes the unexpected outcome more likely in the context.

• Experience Grounds Language - EMNLP'20, 2020. [All Versions]. A perspective on the furture of computational linguistics research---commonsense-driven and embodied language.

• Broaden the Vision: Geo-Diverse Visual Commonsense Reasoning - EMNLP'21, 2021. [All Versions].

• Human-like property induction is a challenge for large language models - CogSci'22, 2022.

• SwiftSage: A Generative Agent with Fast and Slow Thinking for Complex Interactive Tasks - NeurIPS'23, 2023. [All Versions]. [Project].

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Commonsense Knowledgebase

• wikiHow - wikiHow.com. wikiHow is on website hosting step-by-step "How-to" procedural instructions across various domains and topics.

• The World Avatar - The World Avatar™. A large-scale dynamic knowledge graph connecting concepts with relations to digitalize molecules, buildings, cities, and countries.

• CYC: A Large-Scale Investment in Knowledge Infrastructure - Communications of the ACM, 1995. [All Versions]. The first attempt to build large-scale commonse knoweldgebase from human knowledge.

• ConceptNet 5.5: An Open Multilingual Graph of General Knowledge - AAAI'17, 2017. [All Versions]. Latest version of ConceptNet.

• The Public Acquisition of Commonsense Knowledge - Proceedings of AAAI Spring Symposium on Acquiring (and Using) Linguistic (and World) Knowledge for Information Access, 2002. [All Versions]. The first attempt for acquring commonsense knowlege from humans' activities on the internet.

• Open Mind Common Sense: Knowledge Acquisition from the General Public - OTM Confederated International Conferences'02, 2002. [All Versions]..

• Verbosity: A Game for Collecting Common-Sense Facts - CHI'06, 2006. [All Versions].

• Designing games with a purpose - Communications of the ACM, 2008. [All Versions].

• Acquiring Comparative Commonsense Knowledge from the Web - AAAI'14, 2014. [All Versions].

• Visual Concept Programming: A Visual Analytics Approach to Injecting Human Intelligence at Scale - IEEE Transactions on Visualization and Computer Graphics, 2023. [All Versions]. This paper presents Visual Concept Programming, a first-of-its-kind visual analytics approach of using visual concepts to program image data at scale while requiring a few human efforts.

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Inductive Logic & Program Synthesis

• Inductive Logic - Plato Stanford. A computational philosophy account on Inductive Logic, which is a logic of evidential support.

• First-order Model Theory - Plato Stanford. A computational philosophy account on First-order Model Theory, which is a branch of mathematics that deals with the relationships between descriptions in first-order languages and the structures that satisfy these descriptions.

• Paraconsistent Logic - Plato Stanford. A computational philosophy account on Paraconsistent Logic, where any logic is paraconsistent as long as it is not explosive.

• Logical Consequence - Plato Stanford. A computational philosophy account on Logical Consequence, which is about the relation between premises and conclusions in valid arguments.

• Logic Pluralism - Plato Stanford. A computational philosophy account on Logic Pluralism, which is the view that there is more than one correct logic.

• The Emergence of First-Order Logic - Plato Stanford. A computational philosophy account on the emergence of first-order logic, mainly about first-order logic is natural retrospect.

• Second-order and Higher-order Logic - Plato Stanford.

• Program Synthesis - Foundations and Trends in Programming Languages, 2017. [All Versions]. Sumit Gulwani's comprehensive review on program synthesis.

• The Discovery of the Equator or Concept Driven Learning - IJCAI'83, 1983. [All Versions]. The original paper on second-order metarules.

• Towards combining inductive logic programming with Bayesian networks - ILP'01, 2001. [All Versions].

• Meta-interpretive learning: application to grammatical inference - Machine Learning, 2014. [All Versions]. Stephen Muggleton's original paper on Meta-Interpretive Learning (MIL).

• Learning Efficient Logical Robot Strategies Involving Composable Objects - IJCAI'15, 2015. [All Versions].

• Learning Higher-Order Logic Programs through Abstraction and Invention - IJCAI'16, 2016. [All Versions].

• How Much Can Experimental Cost Be Reduced in Active Learning of Agent Strategies? - ILP'18, 2018. [All Versions].

• Meta-Interpretive Learning from noisy images - Machine Learning, 2018. [All Versions].

• Learning efficient logic programs - Machine Learning, 2018. [All Versions].

• Learning higher-order logic programs - Machine Learning, 2019. [All Versions].

• Logical reduction of metarules - Machine Learning, 2019. [All Versions].

• Playgol: Learning Programs Through Play - IJCAI'19, 2019. [All Versions].

• Machine Discovery of Comprehensible Strategies for Simple Games Using Meta-interpretive Learning - New Generation Computing, 2019. [All Versions].

• Forgetting to Learn Logic Programs - AAAI'20, 2020. [All Versions].

• Turning 30: New Ideas in Inductive Logic Programming - IJCAI'20, 2020. [All Versions].

• Inductive logic programming at 30: a new introduction - Journal of Artificial Intelligence Research, 2020. [All Versions]. A 30-year comprehensive review on Inductive Logic Programming.

• Learning programs by learning from failures - Machine Learning, 2020. [All Versions].

• Complete Bottom-Up Predicate Invention in Meta-Interpretive Learning - IJCAI'20, 2020. [All Versions].

• Meta-Interpretive Learning as Metarule Specialisation - Machine Learning, 2021. [All Versions].

• Qualitative choice logic - Artificial Intelligence, 2004. [All Versions].

• Derivative-free optimization of high-dimensional non-convex functions by sequential random embeddings - IJCAI'16, 2016. [All Versions].

• Finitely Generated Groups and First-Order Logic - Journal of The London Mathematical Society-second Series, 2005. [All Versions].

• Leveraging Language for Abstraction and Program Search - ICML'20, 2020. [All Versions].

• Program Synthesis Guided Reinforcement Learning - NeurIPS'21, 2021. [All Versions].

• Learning Part-Based Abstractions for Visual Object Concepts - CogSci'21, 2021. [All Versions].

• Program Synthesis with Large Language Models - 2021. [All Versions]. This paper explores the limits of the current generation of large language models for program synthesis in general purpose programming languages.

• Combining Functional and Automata Synthesis to Discover Causal Reactive Programs - POPL'23, 2023. [All Versions]. A new algorithm that synthesizes functional reactive programs from observation data, which iterates between a functional synthesis step, which attempts to generate a transition function over observed states, and an automata synthesis step, which adds any additional latent state necessary to fully account for the observations.

• Synthesizing theories of human language with Bayesian program induction - Nature Communications, 2022. [All Versions].

• From Word Models to World Models: Translating from Natural Language to the Probabilistic Language of Thought - 2023. [All Versions]. Rational meaning construction, a computational framework for language-informed thinking that combines neural language models with probabilistic models for rational inference. Linguistic meaning is framed as a context-sensitive mapping from natural language into a probabilistic language of thought (PLoT)--a general-purpose symbolic substrate for generative world modeling.

• Latent Programmer: Discrete Latent Codes for Program Synthesis - ICML'21, 2021. [All Versions]. Paper introducing the Latent Programmer, a two-level program synthesis method that first predicts a discrete latent code from input/output examples, and then generates the program in the target language.

• PAL: Program-aided Language Models - ICML'23, 2023. [All Versions]. Paper presenting an approach that uses the LLM to read natural language problems and generate programs as the intermediate reasoning steps, but offloads the solution step to a runtime such as a Python interpreter. With PAL, decomposing the natural language problem into runnable steps remains the only learning task for the LLM, while solving is delegated to the interpreter.

• Large Language Models Meet NL2Code: A Survey - ACL'23, 2023. [All Versions]. [NL2Code Website]. A paper presenting a comprehensive survey of 27 existing large language models for NL2Code, and also review benchmarks and metrics, suggesting that the key factors contributing to the success of large language models for NL2Code are “Large Size, Premium Data, Expert Tuning”.

• A Large-Scale Survey on the Usability of AI Programming Assistants: Successes and Challenges - ICSE'24, 2024. [All Versions]. A survey finding that developers are most motivated to use AI programming assistants because they help developers reduce key-strokes, finish programming tasks quickly, and recall syntax, but resonate less with using them to help brainstorm potential solutions.

• Large Language Models for Software Engineering: A Systematic Literature Review - 2023. [All Versions]. A systematic literature review on LLM4SE, with a particular focus on understanding how LLMs can be exploited to optimize processes and outcomes.

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Knowledge Representation

• Handbook of Knowledge Representation - Elsevier, 2008. [All Versions]. A pragmatical handbook for all kinds of knowledge representation modes.

• Logic and Ontology - Plato Stanford. A computational philosophy account on logic and ontology, mainly about the intersections of logic and ontology in many significant philosophy problems.

• The Language of Thought Hypothesis - Plato Stanford. A computational philosophy account on the laugnage of though hypothesis, which proposes that thinking occurs in a mental language.

• The Analysis of Knowledge - Plato Stanford.

• Scientific Representation - Plato Stanford. A computational philosophy account on scientific representation, focusing on how scientific models represent their target systems.

• Self-Knowledge - Plato Stanford. A computational philosophy account on self-knowledge, which standardly refers to knowledge of one's own mental states—that is, of what one is feeling or thinking, or what one believes or desires.

• Common Knowledge - Plato Stanford.

• Sense-Data - Plato Stanford.

• Supervenience - Plato Stanford. A computational philosophy account on supervenience, where a set of properties A supervenes upon another set B just in case no two things can differ with respect to A-properties without also differing with respect to their B-properties.

• Dialogical Logic - Plato Stanford. A computational philosophy account on dialogical logic, which is a dialogue-based approach to logic and argumentation rooted in a research tradition that goes back to dialectics in Greek Antiquity, when problems were approached through dialogues in which opposing parties discussed a thesis through questions and answers.

• Temporal Logic - Plato Stanford.

• Modal Logic - Plato Stanford. A computational philosophy account on Modal Logic, which is the study of the deductive behavior of the expressions 'it is necessary that' and 'it is possible that'.

• Epistemic Logic - Plato Stanford. A computational philosophy account on Epistemic Logic, which is a subfield of epistemology concerned with logical approaches to knowledge, belief and related notions.

• Epistemic Modal Logic - Wikipedia.

• The Perception of Relations - Trends in Cognitive Sciences, 2021. [All Versions]. Chaz Firestone's review on the perception of relation, in constrast to the conventional reasoning view.

• Commonsense reasoning about causality: Deriving behavior from structure - Artificial Intelligence, 1984. [All Versions].

• Logics for Epistemic Programs - Synthese, 2004. [All Versions].

• A Translation Approach to Portable Ontology Specifications - Knowledge Acquisition, 1993. [All Versions].

• The Symbolic Grounding Problem - Physica D: Nonlinear Phenomena, 1990. [All Versions].

• Learning overhypotheses with hierarchical Bayesian models - Developmental Science, 2007. [All Versions].

• Learning Causal Schemata - CogSci'07, 2007, [All Versions].

• The discovery of structural form - Proceedings of the National Academy of Sciences, 2008. [All Versions]. Chales Kemp's review on theory induction.

• A Rational Analysis of Rule-Based Concept Learning - Cognitive Science, 2008. [All Versions].

• Modeling semantic cognition as logical dimensionality reduction - CogSci'08, 2008. [All Versions].

• Theory Acquisition and the Language of Thought - CogSci'08, 2008. [All Versions].

• Theory Acquisition as Stochastic Search - CogSci'10, 2010. [All Versions].

• A probabilistic model of theory formation - Cognition, 2010. [All Versions].

• Bootstrapping in a language of thought: A formal model of numerical concept learning - Cognition, 2012. [All Versions].

• Concepts in a Probabilistic Language of Thought - Center for Brains, Minds, and Machines MEMO No.010, 2014. [All Versions].

• Exploring the Conceptual Universe - Psychological Review, 2012. [All Versions].

• A taxonomy of inductive problems - Psychonomic Bulletin & Review, 2014. [All Versions].

• The Logical Primitives of Thought: Empirical Foundations for Compositional Cognitive Models - Psychological Review, 2016. [All Versions].

• The Emergence of Organizing Structure in Conceptual Representation - Cognitive Science, 2018. [All Versions].

• Theory Acquisition as Constraint-Based Program Synthesis - CogSci'21, 2021. [All Versions].

• Connecting perceptual and procedural abstractions in physical construction - CogSci'21, 2021. [All Versions].

• Invariant representation of physical stability in the human brain - 2021. [All Versions].

• Introduction to The Fluent Calculus - Linkoeping University Electronic Press, 1998. [All Versions].

• From situation calculus to fluent calculus: State update axioms as a solution to the inferential frame problem - Artificial Intelligence, 1999. [All Versions].

• Unsupervised Structure Learning of Stochastic And-Or Grammars - NeurIPS'13, 2013. [All Versions].

• Algorithms of Adaptation in Inductive Inference - Cognitive Psychology, 2021. [All Versions].

• A representational analysis of numeration systems - Cognition, 1995. [All Versions].

• Learning Program Representations for Food Images and Cooking Recipes - CVPR'22, 2022. [All Versions].

• Reasoning about Procedures with Natural Language Processing: A Tutorial - 2023. [All Versions].

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Cognitive Development

• Machine Common Sense Concept Paper - DARPA, 2018. [All Versions]. DARPA's perspective on integrating core knowledge from development psychology into machine intelligence systems.

• Cognitive Development - Wikipedia.

• Cognitive development: An information processing approach - B.Blackwell, 1991. [All Versions].

• Reconstructing constructivism: Causal models, Bayesian learning mechanisms, and the theory theory - Psychological Bulletin, 2012. [All Versions]. Alison Gopnik's review on the constructivism idea of developmental research.

• Towards a rational constructivist theory of cognitive development - Psychological Review, 2019. [All Versions]. Fei Xu's review extending Gopnik's view of constructivism, with the rationality as constraint.

• The origins of inquiry: inductive inference and exploration in early childhood - Trends in Cognitive Sciences, 2012. [All Versions]. Laura Schulz's review on children's exploratory play.

• Play, Curiosity, and Cognition - Annual Review of Developmental Psychology, 2020. [All Versions]. Laura Schulz's review on children's exploratory play, which proposes a new perspective on exploratory play to explain the emergence of irrational behaviors in play.

• From exploration to play: A cross-sectional study of infant free play behavior - Developmental Psychology, 1981. [All Versions].

• Detecting Blickets: How Young Children Use Information about Novel Causal Powers in Categorization and Induction - Children Development, 2003. [All Versions].

• Serious fun: Preschoolers engage in more exploratory play when evidence is confounded - Developmental Psychology, 2007. [All Versions].

• Observing the unexpected enhances infants' learning and exploration - Science, 2015. [All Versions].

• Word, thought, and deed: the role of object categories in children's inductive inferences and exploratory play - Developmental Psychology, 2009. [All Versions].

• Where science starts: Spontaneous experiments in preschoolers' exploratory play - Cognition, 2011. [All Versions].

• Scientific thinking in young children: Theoretical advances, empirical research, and policy implications - Science, 2012. [All Versions].

• Finding New Facts; Thinking New Thoughts - Advances in Child Development and Behavior, 2012. [All Versions].

• Theory learning as stochastic search in the language of thought - Cognitive Development, 2012. [All Versions].

• Infants make more attempts to achieve a goal when they see adults persist - Science, 2017. [All Versions].

• Knowing when to quit: Children consider access to solutions when deciding whether to persist - CogSci'20, 2020. [All Versions].

• Bayesian Models of Conceptual Development: Learning as Building Models of the World - Annual Review of Developmental Psychology, 2020. [All Versions].

• Sticking to the Evidence? A Behavioral and Computational Case Study of Micro-Theory Change in the Domain of Magnetism - Cognitive Science, 2019. [All Versions].

• Cognitive pragmatism: Children flexibly choose between facts and conjectures - CogSci'18, 2018. [All Versions].

• Exploratory play, rational action, and efficient search - CogSci'20, 2020. [All Versions].

• Children selectively endorse speculative conjectures - Child Development, 2021. [All Versions].

• Learning higher-order generalizations through free play: Evidence from 2- and 3-year-old children - Developmental Psychology, 2017. [All Versions].

• The Child as Hacker - Trends in Cognitive Sciences, 2020. [All Versions].

• Childhood as a solution to explore–exploit tensions - Philosophical Transactions of the Royal Society B: Biological Sciences, 2020. [All Versions].

• Children's exploratory play tracks the discriminability of hypotheses - Nature Communications, 2021. [All Versions].

• A Developmental Perspective on Executive Function - Child Development, 2010. [All Versions].

• Rethinking Executive Function and Its Development - Psychological Science, 2020. [All Versions].

• Perception of partly occluded objects in infancy - Cognitive Psychology, 1983. [All Versions].

• Age-of-acquisition ratings for 30,000 English words - Behavior Research Methods, 2012. [All Versions]. [Project]. A database for age-of-acquisition ratings for over 30k English words.

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Learning in the Open World

• Online learning of symbolic concepts - Journal of Mathematical Psychology, 2017. [All Versions].

• Zero-Shot Learning—A Comprehensive Evaluation of the Good, the Bad and the Ugly - IEEE Transactions on Pattern Analysis and Machine Intelligence, 2018. [All Versions]. A comprehensive review on zero-shot learning.

• Generalizing from a few examples: A survey on few-shot learning - ACM Computing Survey, 2020. [All Versions].

• Towards Open World Recognition - CVPR'15, 2015. [All Versions]. The first paper introducing the problem of open-world recognition.

• Towards Open Set Deep Networks - CVPR'16, 2016. [All Versions].

• In the Wild: From ML Models to Pragmatic ML Systems - ICLR'20, 2020. [All Versions]. A comprehensive review on incremental machine learning.

• Adversarial Filters of Dataset Biases - ICML'20, 2020. [All Versions].

• A Wholistic View of Continual Learning with Deep Neural Networks: Forgotten Lessons and the Bridge to Active and Open World Learning - 2020. [All Versions].

• Energy-Based Models for Continual Learning - NeurIPS'20, 2020. [All Versions]. [Project].

• Learning to Learn Image Classifiers with Visual Analogy - CVPR'18, 2018. [All Versions].

• Zero-Shot Object Detection - ECCV'18, 2018. [All Versions].

• Towards Open World Object Detection - CVPR'21, 2021. [All Versions]. [Project].

• Learning to Recognise Unseen Classes by A Few Similes - MM'17, 2017. [All Versions].

• Ontology-guided Semantic Composition for Zero-Shot Learning - KR'20, 2020. [All Versions].

• OntoZSL: Ontology-enhanced Zero-shot Learning - WWW'21, 2021. [All Versions].

• Knowledge-aware Zero-Shot Learning: Survey and Perspective - IJCAI'21 2021. [All Versions].

• From Red Wine to Red Tomato: Composition with Context - CVPR'17, 2017. [All Versions].

• Attributes as Operators: Factorizing Unseen Attribute-Object Compositions - ECCV'18, 2018. [All Versions].

• Learning Compositional Representations for Few-Shot Recognition - CVPR'19, 2019. [All Versions].

• Symmetry and Group in Attribute-Object Compositions - CVPR'20, 2020. [All Versions].

• A causal view of compositional zero-shot recognition - NeurIPS'20, 2020. [All Versions].

• Compositional Few-Shot Recognition with Primitive Discovery and Enhancing - MM'20, 2020. [All Versions].

• Learning Unseen Concepts via Hierarchical Decomposition and Composition - CVPR'20, 2020. [All Versions].

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Learning with Cognitive Plausibility

• Accuracy and Precision - Wikipedia. Wikipedia on the distinctions and the trade-off between accuracy and precision.

• Cognitive Science: Definition, Status, and Questions - Annual Review of Psychology, 1989. [All Versions].

• Recognition-by-Components: A Theory of Human Image Understanding - Psychological Review, 1987. [All Versions]. The original paper on the recognition-by-components theory.

• Machine Behaviour - Nature, 2019. [All Versions].

• Dark, Beyond Deep: A Paradigm Shift to Cognitive AI with Humanlike Common Sense - Engineering, 2020. [All Versions]. Yixin Zhu and Song-Chun Zhu's review on visual commonsense.

• Self-supervised Learning Through the eyes of a Child - NeurIPS'20, 2020. [All Versions]. Concept learning through near-natural co-occurrence frequency estimation.

• CLEVRER: CoLlision Events for Video REpresentation and Reasoning - ICLR'20, 2020. [All Versions].

• BONGARD-LOGO: A New Benchmark for Human-Level Concept Learning and Reasoning - NeurIPS'20, 2020. [All Versions].

• The relationship between Precision-Recall and ROC curves - ICML'06, 2006. [All Versions].

• Distributional Generalization: A New Kind of Generalization - 2020. [All Versions].

• Learning and development in networks: The importance of starting small. - Cognition, 1993. [All Versions]. The original paper on the idea of curriculum learning.

• Language acquisition in the absence of explicit negative evidence: how important is starting small? - Cognition, 1999. [All Versions].

• Curriculum Learning - ICML'09, 2009. [All Versions]. The original paper applying the idea of curriculum learning to machine learning.

• Parsing video events with goal inference and intent prediction - ICCV'11, 2011. [All Versions].

• Inferring "Dark Matter" and "Dark Energy" from Videos - ICCV'13, 2013. [All Versions]. The original paper on latent state discovery from videos.

• Explainable and Explicit Visual Reasoning over Scene Graphs - CVPR'19, 2019. [All Versions].

• Attention over Learned Object Embeddings Enables Complex Visual Reasoning - NeurIPS'21, 2021. [All Versions].

• Distributed Representations of Words and Phrases and their Compositionality - NeurIPS'13, 2013. [All Versions].

• Motion Reasoning for Goal-Based Imitation Learning - ICRA'20, 2020. [All Versions].

• Action Genome: Actions as Compositions of Spatio-temporal Scene Graphs - CVPR'20, 2020. [All Versions].

• Refactoring Policy for Compositional Generalizability using Self-Supervised Object Proposals - NeurIPS'20, 2020. [All Versions].

• Something-Else: Compositional Action Recognition with Spatial-Temporal Interaction Networks - CVPR'20, 2020. [All Versions].

• Putting visual object recognition in context - CVPR'20, 2020. [All Versions].

• Multimodal Few-Shot Learning with Frozen Language Models - 2021. [All Versions].

• Describing Objects by their Attributes - CVPR'09, 2009. [All Versions].

• Panoramic Learning with A Standardized Machine Learning Formalism - 2021. [All Versions].

• Graininess of judgment under uncertainty: An accuracy-informativeness trade-off - Journal of Experimental Psychology, 1995. [All Versions].

• Federated Learning via Posterior Averaging: A New Perspective and Practical Algorithms - ICLR'20, 2020. [All Versions].

• Interplay between rule learning and rule switching in a perceptual categorization task - 2022. [All Versions].

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Academic Tools

Courses

• Computational Cognitive Science Courses - MIT. Courses on computational cognitive science from MIT, Harvard, and Stanford.

• Introduction to Program Synthesis - MIT. Armando Solar-Lezama's elementary course on program synthesis.

• Structure and Interpretation of Computer Programs - MIT. [Book: SICP]. [All Versions]. Classic course on applying structural, procedural, and meta-linguistic abstraction to solve computational problems.

• Discrete Mathematics and Its Applications. Classic course on basic discrete mathematics, including matheatical logic, set theory, graph theory, formal language (and automata), basic number theory (e.g., counting), and other related topics.

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Programming

• Probabilistic Models of Cognition - MIT. The probabilistic approach to cognitive science, which models learning and reasoning as inference in complex probabilistic models.

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Paper Writing

• LaTex Configuration - LaTex. LaTex template for configuration file with elegant reference style (gray-colored reference, page backward reference).

• BibTex Template - BibTex. BibTex template for including abbreviations of journals and conferences in AI, Mathematics, and Cognitive Sciences.

• bioRender - bioRender. Create professional science figures in minutes by browsing thousands of pre-made icons and templates from more than 30 fields of life sciences.

• How to construct a Nature summary paragraph - Nature. Nature official guidelines for composing abstracts.

• How to write a superb literature review - Nature, 2020. Nature speaks to old hands and first timers about the work they did to make their reviews sing.

• Scientific Papers - Nature. Nature guidance on writing scientific papers.

• The Machine Learning Reproducibility Checklist - McGill University. Guidelines for introducing a machine learning algorithm with guarantee of reproducibility.

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Paper Reading

• How to Read a Paper - ACM SIGCOMM Computer Communication Review, 2007. [All Versions]. A comprehensive tutorial on reading scientific papers.

• How to (seriously) read a scientific paper - Science, 2016. [All Versions]. Science interview on reading scientific papers.

• It's not just you: science papers are getting harder to read - Nature, 2017. [All Versions]. Nature perspective on reading scientific papers.

• How to navigate a scientific paper with time constraints: a graphics approach - MIT. MIT guidance on strategies for reading papers given different time constraints.

• Text Visualization Browser - ISOVIS group, 2015. [Paper]. [All Versions]. A Hub of Text Visualization Techniques.

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Literature Management

• How to keep up with the scientific literature - Science, 2016. Science interview on organizing scientific papers.

• Scientific literature: Information overload - Nature, 2016. [All Versions]. Perspective on handling overloaded information from scientific literature.

• Microsoft Academic Graph - Microsoft Research. Heterogeneous graph containing scientific publication records, citation relationships between those publications, as well as authors, institutions, journals, conferences, and fields of study.

• An Overview of Microsoft Academic Service (MAS) and Applications - WWW'15, 2015. [All Versios]. Original paper on Microsoft Academic Graph.

• Goodbye, Microsoft Academic – Hello, open research infrastructure? - LSE Impact Blog, 2021. An interpretation of Microsoft's strategy on research infrastructure.

• Semantic Scholar - Allen Institute for AI Research. AI-powered scientific literature research tool.

• Construction of the Literature Graph in Semantic Scholar - NAACL'18, 2018. [All Versions]. Semantic Scholar with extracting feature and metadata from raw paper data.

• S2ORC: The Semantic Scholar Open Research Corpus - ACL'20, 2020. [All Versions]. An open corpus of academic papers released by Semantic Scholar.

• Litmaps - Litmap Ltd. For interactive literature map construction and linked document management.

• VOSviewer - Leiden University. For constructing and visualizing bibliometric networks.

• StateOfTheArt.AI - StateOfTheArtAI. For tracking, collecting and visualizing the development of AI research.

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Knowledge Management

• Library of Congress Classification - Library of Congress. Classification system of USA (PDF only).

• Chinese Library Classification - National Library of China. Classification system of P. R. China (online user interface in Chinese). [English introduction at ISKO]. [Wikipedia-EN].

• DDC at German National Library - Deutsche National Bibliothek. Deway Decimal Classification (DDC) based classification system of Germany (online user interface). [DNB Website].

• National Dite Library Classification - National Diet Library of Japan. Classification system of Japan (PDF only).

• DDC at OCLC (Wikipedia) - Online Computer Library Center (OCLC). [OCLC Website]. [Introduction to DDC]. [DDC Manual]. Dewey Decimal Classification (DDC) system for worldwide library resouce construction. [DDC Class 000 (PDF only)]. [DDC Class 100 (PDF only)]. [DDC Class 200 (PDF only)]. [DDC Class 300 (PDF only)]. [DDC Class 400 (PDF only)]. [DDC Class 500 (PDF only)]. [DDC Class 600 (PDF only)]. [DDC Class 700 (PDF only)]. [DDC Class 800 (PDF only)]. [DDC Class 900 (PDF only)].

• Knowledge organization - Wikipedia. Wikipedia on knowledge organization methods.

• The Zettelkasten Method - Bielefeld University. Relating ideas in graphs and multi-labels.

• Zettelkasten - Wikipedia. Wikipedia on the Zettelkasten method.

• Roam Research - Roam Research. For linked document management, visualization, and sharing.

• Foam - Foambubble. For linked document management, visualization, and sharing, opensourced softward built on VSCode.

• Building a Second Brain - Forte Labs, LLC. Connecting ideas in graphs.

• Zotero - Digital Scholar. For reference management to manage bibliographic data and research related materials.

• Niklas Luhmann's Card Index: Thinking Tool, Communication Partner, Publication Machine - Forgetting Machines: Knowledge Management Evolution in Early Modern Europe, Brill, 2016. [All Versions].

• The card index as creativity machine - Culture Machine, 2010. [All Versions].

• Where Does Niklas Luhmann's Card Index Come From? - Erudition and the Republic of Letters, 2018. [All Versions]. A simplified introduction on Luhmann's Zettelkasten.

• Niklas Luhmann's Card Index: The Fabrication of Serendipity - Sociologica, 2018. [All Versions].

• Communicating with Slip Boxes - 2019. [All Versions].

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Institute & Researcher

MIT

• Center for Brains, Minds and Machines (CBMM) - MIT.

• Josh Tenenbaum - Department of Brain and Cognitive Sciences, CSAIL, MIT, Computational Cognitive Science Group (CoCoSci Group) - MIT.

• Rebecca Saxe - Department of Brain and Cognitive Sciences, MIT, Social Cognitive Neuroscience Laboratory (SaxeLab) - MIT.

• Laura Schulz - Department of Brain and Cognitive Sciences, MIT, Early Childhood Cognition Lab - MIT.

• Leslie Kaelbling - Department of Electrical Engineering and Computer Science, CSAIL, MIT, The Learning & Intelligent Systems Group - MIT.

• Armando Solar-Lezama - Department of Electrical Engineering and Computer Science, CSAIL, MIT, Computer-Aided Programming Group - MIT.

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Stanford

• Li Fei-Fei - Computer Science Department, Human-Centered AI Institute, Stanford, Stanford Vision and Learning Lab - Stanford.

• Noah Goodman - Department of Psychology, Computer Science Department, Stanford, Computation & Cognition Lab (CoCoLab) - Stanford.

• Michael Frank - Department of Psychology, Stanford, The Stanford Language and Cognition Lab - Stanford.

• Tobias Gerstenberg - Department of Psychology, Stanford, Causality in Cognition Lab (CICL) - Stanford.

• Chelsea Finn - Computer Science Department, Stanford, Intelligence through Robotic Interaction at Scale (IRIS Group) - Stanford.

• Jeremy Bailenson - Department of Communication, Stanford, Virtual Human Interaction Lab (VHIL) - Stanford.

• Jiajun Wu - Computer Science Department, Stanford.

• Judith Fan - Department of Psychology, Stanford, Cognitive Tools Lab - Stanford.

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Princeton

• Tania Lombrozo - Department of Psychology, Princeton, Concepts & Cognition Lab - Princeton.

• Thomas Griffiths - Department of Psychology, Department of Computer Science, Princeton, Computational Cognitive Science Lab - Princeton.

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Harvard

• Elizabeth Spelke - Department of Psychology, Harvard, Harvard Laboratory for Developmental Studies - Harvard.

• Tomer Ullman - Department of Psychology, Harvard, Computation, Cognition, and Development Lab (CoCoDev) - Harvard.

• Samuel Gershman - Department of Psychology, Harvard, Computational Cognitive Neuroscience Lab (CCN Lab) - Harvard.

• Fiery Cushman - Department of Psychology, Harvard, Moral Psychology Research Lab - Harvard.

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UCLA

• Center for Vision, Cognition, Learning and Autonomy (VCLA) - Department of Statistics, UCLA.

• Ying Nian Wu - Department of Statistics, UCLA.

• Tao Gao - Department of Statistics, Department of Psychology, UCLA, Visual Intelligence Lab - UCLA.

• Hongjing Lu - Department of Psychology, Department of Statistics, UCLA, Computational Vision and Learning Lab (CVL) - UCLA.

• Guy Van den Broeck - Department of Computer Science, UCLA, StarAI Lab - UCLA.

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UC Berkeley

• Anca Dragan - Department of Electrical Engineering and Computer Science, UC Berkeley, Interactive Autonomy and Collaborative Technologies Laboratory (InterACT) - UC Berkeley.

• Fei Xu - Department of Psychology, UC Berkeley, Berkeley Early Learning Lab (Xu Lab) - UC Berkeley.

• Alison Gopnik - Department of Psychology, UC Berkeley, Cognitive Development & Learning Lab (Gopnik Lab) - UC Berkeley.

• Steve Piantadosi - Department of Psychology, UC Berkeley, The computation and language lab (colala) - UC Berkeley.

• Celeste Kidd - Department of Psychology, UC Berkeley, Kidd Lab - UC Berkeley.

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BNU

• Yanchao Bi - IDG/McGovern Institute for Brain Research and the State Key Laboratory of Cognitive Neuroscience and Learning, Beijing Normal University (BNU), Yanchao Bi's Concept Lab (Bi Lab) - BNU.

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PKU

• Song-Chun Zhu - School of AI and Institute for AI, Peking University (PKU).

• Yixin Zhu - School of AI and Institute for AI, Peking University (PKU), Cognitive Reasoning Lab (CoRe Lab) - PKU.

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UCSD

• Zhuowen Tu - Department of Computer Science, UCSD, Machine Learning, Perception, and Cognition Lab (mlPC) - UCSD.

• Ed Vul - Department of Psychology, UCSD, Computational Cognition Lab - UCSD.

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NYU

• Ernest Davis - Department of Computer Science, Courant Institute of Mathematical Sciences, NYU.

• Gary Marcus - Department of Psychology, NYU.

• Brenden Lake - Department of Psychology, NYU, Human & Machine Learning Lab (Lake Lab) - NYU.

• Todd Gureckis - Department of Psychology, NYU, Computation & Cognition Lab - NYU.

• Wei Ji Ma - Department of Psychology, Center for Neural Science, NYU, Wei Ji Ma Lab - NYU.

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JHU

• Chaz Firestone - Department of Psychological and Brain Sciences, Johns Hopkins University (JHU), Hopkins Perception & Mind Lab - JHU.

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SIT

• Mark Ho - Department of Computer Science, Stevens Institute of Technology (SIT), Computation and Decision-Making Lab - SIT.

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People & Book

John Hopcroft

Theoretical computer scientist.

• Introduction to Automata Theory, Languages, and Computation - Pearson, 2007. [All Versions].

• Foundations of Data Science - Cambridge University Press. [All Versions].

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Ulf Grenander

Applied mathematician, the founder of General Pattern Theory.

• A Calculus of Ideas: A Mathematical Study of Thinking - World Scientific Publishing Company, 2012. [All Versions].

• General Pattern Theory: A Mathematical Study of Regular Structures - Oxford University Press, 1993. [All Versions].

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David Marr

Computational Cognitive Neuroscientist, the establisher of the Levels of Analysis.

• Vision: A Computational Investigation into the Human Representation and Processing of Visual Information - MIT Press, 1982. [All Versions].

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Michael Tomasello

Cognitive scientist, set up the foundations of studying human communications.

• Origins of human communication - MIT Press, 2010. [All Versions].

• The cultural origins of human cognition - Havard University Press, 2000. [All Versions].

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Judea Pearl

Applied mathematician, proposed causal intervention on siamese bayesian networks.

• The Book of Why: The New Science of Cause and Effect - Basic Books, 2018. [All Versions].

• Causality: Models, Reasoning and Inference - Cambridge University Press, 2009. [All Versions].

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Susan Carey

Developmental psychologist, proposed object as a core knowledge of human intelligence.

• The Origin of Concepts - Oxford University Press, 2009. [All Versions].

• Conceptual Change in Childhood - MIT Press, 1985. [All Versions].

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Daniel Kahneman

Computational cognitive scientist and Economist, set up the foundations for Decision Theory.

• Thinking, fast and slow - Farrar Straus Giroux, 2011. [All Versions].

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Karl Popper

Scientific philosophor, the founder of scientific verification theories.

• The logic of scientific discovery - Routledge, 2005. [All Versions].

• All Life is Problem Solving - Routledge, 2001. [All Versions].

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About

The initiator of this repo has been struggling to taxonomize related topics, since there are so many perspectives to follow, such as task-oriented, technique-oriented, and metaphysics-oriented. Finally he decided to focus on the perspective of The Sciences of Intelligence---each topic describes a phenomenon of intelligence, or an intelligent behavior---they show the objectives of reverse-engineering human intelligence for computational methods. These topics are never restricted to specific technical methods or tasks, but are trying to organize the nature of intelligence---from both the software perspective and the hardware perspective.

Obviously, this reading list is far from covering the every aspect of AGI and CoCoSci. Since the list is a by-product of the literature reviews when the initiator is working on Abduction and Bayesian modeling, other topics are also collected with biases, more or less. Abduction may be the way humans explain the world with the known, and discover the unknown, requiring much more investigations into its computational basis, cognitive underpinnings, and applications to AI. Please feel free to reach out!

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