NDLI: Proteomic and phosphoproteomic comparison of human ES and iPS cells

Content Provider	PubMed Central
Author	Phanstiel, Douglas H. Brumbaugh, Justin Wenger, Craig D. Tian, Shulan Probasco, Mitchell D. Bailey, Derek J. Swaney, Danielle L. Tervo, Mark A. Bolin, Jennifer M. Victor, Ruotti Stewart, Ron Thomson, James A. Coon, Joshua J.
Abstract	Combining high mass accuracy mass spectrometry, isobaric tagging, and novel software for multiplexed, large-scale protein quantification, we report deep proteomic coverage across multiple biological replicates and cell lines. We applied this method to study four human embryonic stem cell and four induced pluripotent stem cell lines in biological triplicate, a 24-sample comparison resulting in the largest set of identified proteins and phosphorylation sites in pluripotent cells to date. The statistical analysis afforded by this approach revealed, for the first time, subtle but reproducible differences in protein and protein phosphorylation between embryonic stem cells and induced pluripotent cells. Merging these results with RNA-seq analyses, we found functionally related differences across each tier of regulation. Finally, we introduce the Stem Cell–Omics Repository (SCOR), a resource that collates and displays quantitative information across multiple planes of measurement, including mRNA, protein, and post-translational modifications.
Related Links	http://dx.doi.org/10.1038/nmeth.1699
Ending Page	827
Page Count	7
Starting Page	821
File Format	PDF
ISSN	15487091
e-ISSN	15487105
Journal	Nature methods
Issue Number	10
Volume Number	8
Language	English
Publisher Date	2011-09-01
Access Restriction	Open
Subject Keyword	Biotechnology Cell Biology Biochemistry Molecular Biology Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Cell Biology Biochemistry Molecular Biology Biotechnology

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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