PeptideAtlasapplication/xmlftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000323/PAe000323_4862_searchdatabase_tandem.fastaftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000323/PAe000323_prot_4862_201106271412.propertiesftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000323/PAe000323_mzXML_201104192003.tar.gzftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000323/PAe000323_4862_search.params.tar.gzftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000323/PAe000323_prot_4862_201106271412.tar.gzftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000323/PAe000323_Search_Results_4862_201106271410.propertiesftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000323/PAe000323_4862_tandem.paramsftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000323/PAe000323_Search_Results_4862_201106271410.tar.gzftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000323/PAe000323_READMEftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000323/PAe000323_mzXML_201104192003.propertiesprimaryOK200Sam HanashTPP'https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/ManageTable.cgi?TABLE_NAME=AT_sample&sample_id=350'unknownPeptideAtlasProteomicsLTQ FTMus MusculusWe present an in-depth analysis of mouse plasma leading to the development of a publicly available repository composed of 568 liquid chromatography-tandem mass spectrometry runs. A total of 13,779 distinct peptides have been identified with high confidence. The corresponding approximately 3,000 proteins are estimated to span a 7 logarithmic range of abundance in plasma. A major finding from this study is the identification of novel isoforms and transcript variants not previously predicted from genome analysis.A mouse plasma peptide atlas as a resource for disease proteomics.Zhang Qing Q, Menon Rajasree R, Deutsch Eric W EW, Pitteri Sharon J SJ, Faca Vitor M VM, Wang Hong H, Newcomb Lisa F LF, Depinho Ronald A RA, Bardeesy Nabeel N, Dinulescu Daniela D, Hung Kenneth E KE, Kucherlapati Raju R, Jacks Tyler T, Politi Katerina K, Aebersold Ruedi R, Omenn Gilbert S GS, States David J DJ, Hanash Samir M SMfalseMmPlasIPAS14_LateStgCaCo_HvdMmPlasma IPAS14 late stage colon cancer vs normal Harvard2008-12-312016-03-29PAe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ikGm7254Gm7298Gm8055Gm8815;LOC100505163Gm9034Krt5LOC100503273LOC636948Mup-ps21ENSMUSG00000057465ENSMUSG00000072849