%0 Journal Article %A Gevaert, Kris %A Pinxteren, Jef %A Demol, Hans %A Hugelier, Koen %A Staes, An %A Damme, Jozef Van %A Martens, Lennart %A Vandekerckhove, Joël %D 2006 %T Four Stage Liquid Chromatographic Selection of Methionyl Peptides for Peptide-Centric Proteome Analysis:  The Proteome of Human Multipotent Adult Progenitor Cells %U https://acs.figshare.com/articles/journal_contribution/Four_Stage_Liquid_Chromatographic_Selection_of_Methionyl_Peptides_for_Peptide_Centric_Proteome_Analysis_The_Proteome_of_Human_Multipotent_Adult_Progenitor_Cells/3077800 %R 10.1021/pr060026a.s001 %2 https://ndownloader.figshare.com/files/4783600 %K multipotent adult progenitor cell line %K methionyl peptides %K chromatography %K MAPC proteome %K cell lines %K Methionyl Peptides %K 2 tyrosine kinases %K MS %K proteome digests %K coverage analysis %K Stage Liquid Chromatographic Selection %K marker proteins %K sulfone forms %K COFRADIC %K 2151 proteins %K LC %K Human Multipotent Adult Progenitor CellsSerial application %K steering proliferation %X Serial application of strong cation-exchange and diagonal reversed-phase chromatography selecting methionyl peptides by stepwise shifting them from their reduced to their sulfoxide and sulfone forms generates a four-stage fractionation system, allowing high coverage analysis of complex proteome digests by LC−MALDI−MS/MS. Application to the proteome of a human multipotent adult progenitor cell line (MAPC) identified 2151 proteins with high confidence as on average four MS/MS-spectra were linked to each protein. Our dataset contains several novel, potential marker proteins that may be evaluated as affinity-anchors for isolating different adult stem cells in further studies. Furthermore, at least 2 tyrosine kinases that were previously linked to the self-renewal potential of stem cells were identified, validating the stemness of the analyzed cells. We also present data hinting at possible involvement of the ubiquitin/proteasome machinery in steering proliferation and/or differentiation of MAPC. Finally, following comparison of the MAPC proteome with proteomes of four human differentiated cell lines reveals differential usage of chromosomal information:  compared to differentiated cells, MAPC do not appear to hold any preference for expressing genes located on specific chromosomes. Keywords: diagonal chromatography • gel-free proteomics • COFRADIC • multidimensional chromatography %I ACS Publications