Pre-processing of four temporal multi-modal single-cell datasets. The raw and pre-processed data can be downloaded from here and put in this directory.
| ID | Dataset | Species | # RNA Cells | # RNA Timepoints | # ATAC Cells | # ATAC Timepoints | Co-Assay Data | Source |
|---|---|---|---|---|---|---|---|---|
| HC | human cortex | Homo sapiens | 2277 | 10 | 2277 | 10 | Yes | [1] |
| HO | human organoid | Homo sapiens | 10000 | 11 | 10000 | 11 | Yes | [2] |
| DR | drosophila | Drosophila melanogaster | 2738 | 11 | 4246 | 11 | No | [3] |
| MN | mouse neoctex | Mus musculus | 6098 | 3 | 1914 | 3 | No | [4] |
[1] Zhu, K., Bendl, J., Rahman, S., Vicari, J. M., Coleman, C., Clarence, T., ... & Roussos, P. (2023). Multi-omic profiling of the developing human cerebral cortex at the single-cell level. Science Advances, 9(41), eadg3754.
[2] Fleck, J. S., Jansen, S. M. J., Wollny, D., Zenk, F., Seimiya, M., Jain, A., ... & Treutlein, B. (2023). Inferring and perturbing cell fate regulomes in human brain organoids. Nature, 621(7978), 365-372.
[3] Calderon, D., Blecher-Gonen, R., Huang, X., Secchia, S., Kentro, J., Daza, R. M., ... & Shendure, J. (2022). The continuum of Drosophila embryonic development at single-cell resolution. Science, 377(6606), eabn5800.
[4] Yuan, W., Ma, S., Brown, J. R., Kim, K., Murek, V., Trastulla, L., ... & Arlotta, P. (2022). Temporally divergent regulatory mechanisms govern neuronal diversification and maturation in the mouse and marmoset neocortex. Nature Neuroscience, 25(8), 1049-1058.