Department of Chemistry, University of Wisconsin, Madison, Wisconsin, USA.
Nat Methods. 2011 Sep 11;8(10):821-7. doi: 10.1038/nmeth.1699.
Combining high-mass-accuracy mass spectrometry, isobaric tagging and software for multiplexed, large-scale protein quantification, we report deep proteomic coverage of four human embryonic stem cell and four induced pluripotent stem cell lines in biological triplicate. This 24-sample comparison resulted in a very large set of identified proteins and phosphorylation sites in pluripotent cells. The statistical analysis afforded by our approach revealed subtle but reproducible differences in protein expression and protein phosphorylation between embryonic stem cells and induced pluripotent cells. Merging these results with RNA-seq analysis data, we found functionally related differences across each tier of regulation. We also introduce the Stem Cell-Omics Repository (SCOR), a resource to collate and display quantitative information across multiple planes of measurement, including mRNA, protein and post-translational modifications.
结合高精度质谱、同重标记和用于多重、大规模蛋白质定量的软件，我们报告了四份人类胚胎干细胞和四份诱导多能干细胞系在生物学重复三次的深度蛋白质组覆盖。这 24 个样本的比较产生了大量在多能细胞中鉴定出的蛋白质和磷酸化位点。我们的方法提供的统计分析揭示了胚胎干细胞和诱导多能干细胞之间在蛋白质表达和蛋白质磷酸化方面的微妙但可重复的差异。将这些结果与 RNA-seq 分析数据合并，我们发现每个调控层次都存在功能相关的差异。我们还引入了干细胞组学资源库 (SCOR)，这是一个用于在多个测量平面（包括 mRNA、蛋白质和翻译后修饰）上整理和显示定量信息的资源。
