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DataSet Summary

• HostingRepository: PRIDE
• AnnounceDate: 2014-07-25
• AnnouncementXML: Submission_2014-07-25_00:51:21.xml
• DigitalObjectIdentifier:
• ReviewLevel: Peer-reviewed dataset
• DatasetOrigin: Original data
• RepositorySupport: Unsupported dataset by repository
• PrimarySubmitter: Teck Yew Low
• Title: The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells
• Description: Assessing relevant molecular differences between human-induced pluripotent stem cells (hiPSCs) and human embryonic stem cells (hESCs) is important, given that such differences may impact their potential therapeutic use. Controversy surrounds recent gene expression studies comparing hiPSCs and hESCs. Here, we present an in-depth quantitative mass spectrometry-based analysis of hESCs, two different hiPSCs and their precursor fibroblast cell lines. Our comparisons confirmed the high similarity of hESCs and hiPSCS at the proteome level as 97.8% of the proteins were found unchanged. Nevertheless, a small group of 58 proteins, mainly related to metabolism, antigen processing and cell adhesion, was found significantly differentially expressed between hiPSCs and hESCs. A comparison of the regulated proteins with previously published transcriptomic studies showed a low overlap, highlighting the emerging notion that differences between both pluripotent cell lines rather reflect experimental conditions than a recurrent molecular signature. See the Data Processing section of the published paper concerning the bioinformatics pipeline used. PMCID: PMC3261715 PMID: 22108792 Mol Syst Biol. 2011 Nov 22;7:550. doi: 10.1038/msb.2011.84. The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells. Munoz J, Low TY, Kok YJ, Chin A, Frese CK, Ding V, Choo A, Heck AJ. Biomolecular Mass Spectrometry and Proteomics Group, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, The Netherlands.
• SpeciesList: scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
• ModificationList: monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
• Instrument: LCQ Classic; LTQ Orbitrap Velos

Dataset History

Version	Datetime	Status	ChangeLog Entry
0	2013-01-30 08:36:06	ID requested
1	2013-02-01 03:59:55	announced
2	2013-02-01 04:04:10	announced	Add reference
1	2014-07-25 00:51:22	announced

Publication List

1. Munoz J, Low TY, Kok YJ, Chin A, Frese CK, Ding V, Choo A, Heck AJ, The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells. Mol Syst Biol, 7():550(2011) [pubmed]

Keyword List

1. submitter keyword: iPS cells, embryonic stem cells, fibroblast, reprogramming, LC-MSMS, ETD

Contact List

Teck Yew Low
• contact affiliation: Utrecht Univeristy
• contact email: lowteckyew@gmail.com
• dataset submitter:

Full Dataset Link List

1. Dataset FTP location
2. PRIDE project URI

Repository Record List

• PRIDE
  1. PXD000134
     1. Label: PRIDE project
     2. Name: The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells

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New #PXD000134 (malformed source) via PRIDE: ?? - proteomecentral.proteomexchange.org/dataset/PXD000134