glossary.tex

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Master Thesis 
% Polina Polunina
% November 2022 
%
% License:
% CC-BY-SA 4.0 -- Creative Commons Attribution-ShareAlike 4.0 International
% https://creativecommons.org/licenses/by-sa/4.0/legalcode
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\usepackage[acronyms,nonumberlist,toc]{glossaries}
\makeglossaries

\newglossaryentry{groseq}
{
        name=global run-on sequencing,
        description={deep-sequencing based method to determine the binding sites of transcriptionally active RNA polymerase II}
}

\newacronym{covid19}{COVID-19}{Coronavirus disease 2019}
\newacronym{sarscov2}{SARS-CoV-2}{severe acute raspiratory syndrome coronavirus 2}
\newacronym{who}{WHO}{World Health Organization}
\newacronym{voi}{VOI}{variant of interest}
\newacronym{voc}{VOC}{variant of concern}
\newacronym{vois}{VOIs}{variants of interest}
\newacronym{vocs}{VOCs}{variants of concern}
\newacronym{pcr}{PCR}{polymerase chain reaction}
\newacronym{ont}{ONT}{Oxford Nanopore Technologies}
\newacronym{nanopore}{Nanopore}{Nanopore sequencing technique}
\newacronym{fair}{FAIR}{Findability, Accessibility, Interoperability, and Reusability foundational principles}
\newacronym{vcf}{VCF}{variant calling format}
\newacronym{illumina}{Illumina}{Illumina-based technology}
\newacronym{maf}{MAF}{mutation annotation format}
\newacronym{json}{JSON}{JavaScript Object Notation}
\newacronym{yaml}{YAML}{yet another markup language}
\newacronym{csv}{CSV}{comma-separated values}
\newacronym{tsv}{TSV}{tab-separated values}
\newacronym{html}{HTML}{HyperText Markup Language}
\newacronym{wgs}{WGS}{whole genome sequencing}
\newacronym{wbe}{WBE}{wastewater based epidemiology}
\newacronym{hdf5}{HDF5}{Hierarchical Data Format version 5}
\newacronym{gc}{GC}{guanine-cytosine content}
\newacronym{pca}{PCA}{principal component analysis}
\newacronym{bam}{BAM}{Binary Alignment Map}
\newacronym{sam}{SAM}{Sequence Alignment Map}
\newacronym{xlsx}{XLSX}{Office Open XML spreadsheet}
\newacronym{snv}{SNV}{single nucleotide variant}
\newacronym{snvs}{SNVs}{single nucleotide variants}
\newacronym{vep}{VEP}{Variant Effect Predictor}
\newacronym{txt}{TXT}{text document}
\newacronym{ols}{OLS}{Ordinary least squares}
\newacronym{fastq}{FASTQ}{text-based format for storing both a biological sequence (usually nucleotide sequence) and its corresponding quality scores}
\newacronym{fasta}{FASTA}{text-based format for representing either nucleotide sequences or peptide sequences, in which base pairs or amino acids are represented using single-letter codes}
\newacronym{fda}{FDA}{U.S. Food and Drug Administration}
\newacronym{ngs}{NGS}{next-generation sequencing}
\newacronym{pe}{PE}{paired-end}
\newacronym{se}{SE}{single-end}
\newacronym{bed}{BED}{tab-delimited text file that defines a feature track}
\newacronym{lca}{LCA}{lowest common ancestor}
\newacronym{msa}{MSA}{multiple sequence alignment}