title: The quantitative proteomes of human-induced pluripotent stem cells and embryonic stem cells.
abstract: 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.
authors: Biomolecular Mass Spectrometry and Proteomics Group, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, The Netherlands.
authors: Javier
authors: J
authors: Munoz
authors: Teck Y
authors: TY
authors: Low
authors: Yee J
authors: YJ
authors: Kok
authors: Angela
authors: A
authors: Chin
authors: Christian K
authors: CK
authors: Frese
authors: Vanessa
authors: V
authors: Ding
authors: Andre
authors: A
authors: Choo
authors: Albert J R
authors: AJ
authors: Heck
mesh_terms: D002460:Cell Line; D053595:Embryonic Stem Cells / Q000166:cytology / Q000378:metabolism; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D013058:Mass Spectrometry; D020411:Oligonucleotide Array Sequence Analysis; D039904:Pluripotent Stem Cells / Q000166:cytology / Q000378:metabolism*; D020543:Proteome / Q000032:analysis* / Q000235:genetics / Q000378:metabolism
chemical_list: D020543:Proteome