PeptideAtlasapplication/xmlftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000320/PAe000320_4868_searchdatabase_tandem.fastaftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000320/PAe000320_prot_4868_201106271410.propertiesftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000320/PAe000320_mzXML_201104191408.tar.gzftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000320/PAe000320_mzXML_201104191408.propertiesftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000320/PAe000320_Search_Results_4868_201106271408.tar.gzftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000320/PAe000320_4868_tandem.paramsftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000320/PAe000320_READMEftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000320/PAe000320_4868_search.params.tar.gzftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000320/PAe000320_prot_4868_201106271410.tar.gzftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/Mouse/PAe000320/PAe000320_Search_Results_4868_201106271408.propertiesprimaryOK200Sam HanashTPP'https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/ManageTable.cgi?TABLE_NAME=AT_sample&sample_id=347'shanash@fhcrc.orgPeptideAtlasProteomicsLTQ 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 SMfalseMmPlasIPAS11_LateStgPaCaMmPlasma IPAS11 late stage pancreatic cancer vs normal2008-12-312016-03-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-2E9Q8B5E9Q8I0E9QJS7E9QJT5E9QK04E9QLW5E9QNE5E9QP56E9QP62E9QPB2E9QPK1E9QQ18F6R7E8F6RWR5F6VAN0F6WR04F8VQD7F8WID5F8WIP8G3UW60G3UWG1G3UXZ5G3UYJ7G3UZA7G3X8T9G3X8W2G3X977G3X9I1G3X9T8G3X9V2G5E846G5E8J0G5E8T9H3BL34H7BWY6I6L966I7HJS8J3QNE8J3QQ16K3W4L7K4DI77O08532-4O08677-2O08689O08692O08709O08749O08762O08795-2O08842O08997O09037O09043O09049O09051O09114O09131O09159O09164O09174O19476O35136O35215O35290O35381O35451O35490O35641O35664-3O35737O35744O54734O55042O70165O70251O70400O70569O70570O70591O78207O88200O88569O88593O88685O88783O88803O88839-2O88844O88947O88968O89020O89053O89086O89103O98032P00329P00683P00687P00688P00920P01592P01654P01844P01872P01887P01896P01897P01898P01900P01942P02088P02089P03995P04104P04117P04202P04223P04247P04925P05063P05201P05202P05208P05213P06342P06467P06683P06728P06745P06801P07141P07146P07214P07309P07361P07744P07759P07901P08071P08121P08226P08228P08249P08607P08730P08905P09036P09041P09405P09411P09528P09542P09803P09813P10126P10630P10639P10649P10810P11034P11276P11352P11404P11438P11499P11672P11679P11983P12032P12246P12399P12710P12804P12960P12970P13020P13595P13597P13634P14106P14152P14206P14426P14432P15327P15535P15626P15947P16014P16015P16045P16882-2P17156P17182P17183P17563P17742P17751P17879P17897P18181P18419P18760P19123P19157P19639P19788P19973P20065-2P20152P20801P20918P21180P21460P21550P21614P24270P24549P25118P26039P26262P26339P26443P26645P26883P26928P27005P27773P27784P28656P28666P28667P29268P29533P29788P30412P30681P30933P31532P31725P31786P31809-3P32020P32848P33434P33587P33680P34022P34884P34928P35230P35441P35454P35455P35505P35700P35917P35951P37804P37889P38647P39039P39061-2P40124P40142P42125P42703-2P43025P45376P45591P45952P46412P47791P47876P47877P47878P47879P47880P48678-2P49182P49312P49722P50404P50462P51125P51437P51670P51885P51910P52430P52480P52760P53996-2P55065P55104P55284P55849P55850P56375P56395P56480P56812P57096P57722P58774P60229P60335P60843P61924P61957P61961P61979-2P62082P62192P62196P62267P62631P62849P62852P62858P62869P62908P62962P62983P63017P63028P63038P63101P63158P63242P63276P63325P67778P68037P70194P70274P70315P70333P70349P70375P70389P70663P80315P86546P97290P97298P97300-3P97315P97333P97351P97364P97375P97450P97797P97807P97855P97857P97873P98063P98064P98064-2P98086P99024P99026P99027Q00519Q00623Q00896Q01279Q01339Q01705Q01853Q02105Q02257Q02819Q03157Q03311Q03401Q03517Q03734Q04447Q04646Q05816Q05B38Q05CL2Q06318Q06770Q06890Q07456Q07968Q08093Q08460Q08731Q08761Q08EK4Q09098Q0P635Q0P684Q102J0Q148R4Q149U7Q1ERP8Q2M4I0Q2T9H5Q2XN57Q31141Q31142Q31152Q31153Q31170Q31190Q3KQQ2Q3SXB8Q3SYP5Q3T9S3Q3TC09Q3TE95Q3TEE8Q3TF87Q3TH01Q3THE7Q3TJ94Q3TS44Q3TT81Q3TU64Q3TUU3Q3TVN6Q3TVS6Q3TVT6Q3TWR6Q3TYE5Q3U0B3Q3U0T4Q3U2G2Q3U4K5Q3U647Q3U6G1Q3U6L3Q3U741Q3U7H9Q3U7Z6Q3U962Q3U9N4Q3UBS3Q3UDM8Q3UEF5Q3UEK1Q3UEK9Q3UEM7Q3UER1Q3UG15Q3UGC7Q3UH31Q3UHU5Q3UJ36Q3UJG0Q3UKW2Q3UMM1Q3UNP9Q3UPK6Q3UPV2Q3UQV0Q3UR85Q3UTI7Q3UTR7Q3UV17Q3UW56Q3UWC2Q3UZ09Q3V0Z8Q3V1Z5Q3V2T4Q3V3W7Q3V471Q4FJR9Q4FJU3Q4FJX9Q4FK36Q4FZJ6Q4KL76Q4KN89Q4L0E6Q4LDF6Q4VAI2Q4VBX4Q52KG9Q53YU8Q540D7Q542H2Q542Y0Q543J5Q543M3Q544C7Q544F6Q544G5Q545G0Q545J3Q546G4Q54A77Q54AA2Q564E5Q566I6Q569Y6Q5BKQ4Q5D098Q5DTQ6Q5EBQ2Q5F2I0Q5FW60Q5KTQ0Q5M9M1Q5M9P7Q5SUR3Q5SV64Q60590Q60605Q60692Q60805Q60864Q60963Q60994Q60F90Q60I30Q61129Q61171Q61176Q61233Q61245-2Q61247Q61268Q61406Q61468Q61475Q61599Q61641Q61642Q61704Q61730Q61781Q61782Q61891Q61892Q61896Q61982Q62009Q62356Q62422Q62426Q63918Q64262Q64299Q64337Q64356Q64374Q64442Q64454Q64467Q64695Q64726Q64727Q66JR8Q69ZX3Q6GQT1Q6IFX2Q6IFZ8Q6IME9Q6LD55Q6NXH9Q6NXM5Q6P069Q6PDE7Q6PGJ3Q6PI17Q6RI64Q6S9I3Q6YJU2Q6ZWQ9Q6ZWY9Q711L0Q792Z1Q7TM98Q7TMK9Q80SW4Q80T21Q80W21Q80W65Q80XD8Q80YC5Q80YR5Q80YX1Q8BGS2Q8BH35Q8BH95Q8BHC0Q8BND5Q8BP67Q8BPB5Q8BSB7Q8BSI9Q8BTE6Q8BUG2Q8BVI4Q8BVQ9Q8BWT1Q8C0C7Q8C0M9Q8C165Q8C1C1Q8C255Q8C7G5Q8CAP3Q8CAY6Q8CEK3Q8CF98Q8CHP8Q8CIF4Q8K0C5Q8K0E8Q8K159Q8K182Q8K284Q8K394Q8K397Q8K4G1-2Q8QZR4Q8QZT1Q8R121Q8R1F5Q8R1H0Q8R2K3Q8R3T4Q8R5M8-4Q8VC41Q8VCG4Q8VCK7Q8VCU2Q8VDD5Q8VDK1Q8VED5Q91V55Q91V80Q91V98Q91VW3Q91WU0Q91X22Q91X70Q91X72Q91X79Q91X91Q91XF0Q91XL1Q91XV3Q91Y47Q921H8Q921W8Q99J77Q99JW2Q99KI0Q99KQ4Q99L56Q99LC5Q99LX0Q99M73Q99M74Q99N15Q99P87Q99PT1Q9CPN9Q9CPX4Q9CPY7Q9CQ19Q9CQ43Q9CQ52Q9CQ60Q9CQ65Q9CR00Q9CR35Q9CR57Q9CRB6Q9CW47Q9CWJ9Q9CX60Q9CX86Q9CXN7Q9CXW4Q9CY58-2Q9CZ44Q9CZT5Q9D051Q9D0E1Q9D1H9Q9D312Q9D6R2Q9D7I0Q9D967Q9DAK9Q9DAU1Q9DAY9Q9DBB9Q9DBD0Q9DBG5Q9DBH5Q9DBP5Q9DBT1Q9DC11Q9DCQ2Q9DCS2Q9DCU9Q9DCV7Q9DCW4Q9DCX2Q9DD06Q9EQF5Q9EQI5Q9ERD7Q9ESB3Q9ESY9Q9ET01Q9JHH6Q9JHI5Q9JHW2Q9JJH1Q9JJN5Q9JJU8Q9JKR6Q9QUK9Q9Q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