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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jul 24, 2023 |
| Title |
Comparative landscape of genetic dependencies in human and chimpanzee stem cells |
| Organisms |
Pan troglodytes; Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Comparative studies of great apes provide a window into our evolutionary past, but the extent and identity of cellular differences that emerged during hominin evolution remain largely unexplored.
We established a comparative loss-of-function approach to evaluate whether changes in human cells alter requirements for essential genes.
By performing genome-wide CRISPR interference screens in human and chimpanzee pluripotent stem cells, we identified 75 genes with species-specific effects on cellular proliferation.
These genes comprised coherent processes, including cell cycle progression and lysosomal signaling, which we determined to be human-derived by comparison with orangutan cells.
Human-specific robustness to CDK2 and CCNE1 depletion persisted in neural progenitor cells and cerebral organoids, supporting the G1-phase length hypothesis as a potential evolutionary mechanism in human brain expansion.
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| Overall design |
This GEO submission contains comparative gene expression profiling of the six human and six chimpanzee CRISPRi engineered cell lines used in this study.
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| Contributor(s) |
Richard S, Tyler FD, Nathan SK, Reuben SA, Bryan PJ, Jonathan WS, Alex PA |
| Citation(s) |
37343560 |
| Submission date |
Aug 30, 2022 |
| Last update date |
Oct 23, 2023 |
| Contact name |
Richard She |
| Organization name |
Whitehead Institute
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| Lab |
Weissman Lab
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| Street address |
455 Main St Rm 639, Whitehead Institute
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| City |
Cambridge |
| State/province |
Massachusetts |
| ZIP/Postal code |
02142 |
| Country |
USA |
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| Platforms (2) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL19148 |
Illumina HiSeq 2500 (Pan troglodytes) |
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| Samples (36)
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| GSM7229858 |
WTC11 iPSC, WT control, replicate 1 |
| GSM7229859 |
WTC11 iPSC, WT control, replicate 2 |
| GSM7229860 |
WTC11 iPSC, WT control, replicate 3 |
| GSM7229861 |
20961B iPSC, WT control, replicate 1 |
| GSM7229862 |
20961B iPSC, WT control, replicate 2 |
| GSM7229863 |
20961B iPSC, WT control, replicate 3 |
| GSM7229864 |
21792A iPSC, WT control, replicate 1 |
| GSM7229865 |
21792A iPSC, WT control, replicate 2 |
| GSM7229866 |
21792A iPSC, WT control, replicate 3 |
| GSM7229867 |
23555A iPSC, WT control, replicate 1 |
| GSM7229868 |
23555A iPSC, WT control, replicate 2 |
| GSM7229869 |
23555A iPSC, WT control, replicate 3 |
| GSM7229870 |
28126B iPSC, WT control, replicate 1 |
| GSM7229871 |
28126B iPSC, WT control, replicate 2 |
| GSM7229872 |
28126B iPSC, WT control, replicate 3 |
| GSM7229873 |
C3649 iPSC, WT control, replicate 1 |
| GSM7229874 |
C3649 iPSC, WT control, replicate 2 |
| GSM7229875 |
C3649 iPSC, WT control, replicate 3 |
| GSM7229876 |
Pt5c iPSC, WT control, replicate 1 |
| GSM7229877 |
Pt5c iPSC, WT control, replicate 2 |
| GSM7229878 |
Pt5c iPSC, WT control, replicate 3 |
| GSM7229879 |
3624K iPSC, WT control, replicate 1 |
| GSM7229880 |
3624K iPSC, WT control, replicate 2 |
| GSM7229881 |
3624K iPSC, WT control, replicate 3 |
| GSM7229882 |
40280L iPSC, WT control, replicate 1 |
| GSM7229883 |
40280L iPSC, WT control, replicate 2 |
| GSM7229884 |
40280L iPSC, WT control, replicate 3 |
| GSM7229885 |
40290F iPSC, WT control, replicate 1 |
| GSM7229886 |
40290F iPSC, WT control, replicate 2 |
| GSM7229887 |
40290F iPSC, WT control, replicate 3 |
| GSM7229888 |
8861G iPSC, WT control, replicate 1 |
| GSM7229889 |
8861G iPSC, WT control, replicate 2 |
| GSM7229890 |
8861G iPSC, WT control, replicate 3 |
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| Relations |
| BioProject |
PRJNA874918 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE212297_GEO_processed_data.txt.gz |
5.7 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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