Stem Cell Omics Repository Database
**Update** April 22, 2013
By virtue of their proliferative and developmental potential, human ES and iPS cells hold enormous promise in medicine and basic science. The Stem Cell Omics Repository (SCOR) was constructed as a centralized and queryable database for large-scale studies regarding human ES and iPS cells. SCOR is intended to be a resource where researchers can download data sets as well as query results for genes and proteins of interest.
To search this database:
To perform a search, simply enter a name, IPI number or functional description term for a protein of interest in the Search box on the left panel. Click on the gene name to view all results for that gene or protein. Multiple datasets can be viewed in SCOR by nagivating through tabs at the top of each gene page.
Information was drawn from the following datasets:
Proteomic and phosphoproteomic comparison of human ES and iPS cells
Phanstiel DH, Brumbaugh J, Wenger CD, Tian S, Probasco MD, Bailey DJ, Swaney D, Tervo M, Bolin JM, Ruotti V, Stewart R, Thomson JA, Coon JJ.
Analyses were divided into five sets:
- 8-plex (Rep 1)
- 8-plex (Rep 2)
- 8-plex (Rep 3)
- Yu unpublished (which contains gene expression data for additional iPS cell lines)
New Quantitative proteomic and genomic approaches reveal critical functions of H3K9 methylation and Heterochromatin Protein-1γ in reprogramming to pluripotency
Sridharan R, Gonzales-Cope M, Chronis C, Bonora G, McKee R, Huang C, Patel S, Lopez D, Mishra N, Pellegrini M, Carey M, Garcia BA, Plath K. Nature Cell Biology Accepted (2013).
Download raw MS Dataset (Thermo .raw file) (2.17 GB)
The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells
Muñoz J, Low TY, Kok YJ, Chin A, Frese CK, Ding V, Choo A, Heck AJ. Molecular Systems Biology Nov 22;7:550. doi: 10.1038/msb.2011.84 (2011).
Phosphorylation Dynamics during Early Differentiation of Human Embryonic Stem Cells
Van Hoof D, Muñoz J, Braam SR, Pinkse MW, Linding R, Heck AJ, Mummery CL, Krijgsveld J. Cell Stem Cell 5, 214-226, doi:10.1016/j.stem.2009.05.021 (2009).
Human embryonic stem cell phosphoproteome revealed by electron transfer dissociation tandem mass spectrometry
Swaney DL, Wenger CD, Thomson JA, Coon JJ. Proceedings of the National Academy of Sciences of the United States of America 106, 995-1000, doi:10.1073/pnas.0811964106 (2009).
Human Induced Pluripotent Stem Cells Free of Vector and Transgene Sequences
Yu J, Hu K, Smuga-Otto K, Tian S, Stewart R, Slukvin II, Thomson JA. Science 324, 797-801, doi:10.1126/science.1172482 (2009).
Induced Pluripotent Stem Cells and Embryonic Stem Cells Are Distinguished by Gene Expression Signatures
Chin MH, Mason MJ, Xie W, Volinia S, Singer M, Peterson C, Ambartsumyan G, Aimiuwu O, Richter L, Zhang J, Khvorostov I, Ott V, Grunstein M, Lavon N, Benvenisty N, Croce CM, Clark AT, Baxter T, Pyle AD, Teitell MA, Pelegrini M, Plath K, Lowry WE. Cell Stem Cell 5, 111-123, doi:10.1016/j.stem.2009.06.008 (2009).