A high-stringency blueprint of the human proteome

被引：157

作者：

Adhikari, Subash ^{[1
]}

Nice, Edouard C. ^{[1
,2
]}

Deutsch, Eric W. ^{[3
]}

Lane, Lydie ^{[4
,5
]}

Omenn, Gilbert S. ^{[6
]}

Pennington, Stephen R. ^{[7
]}

Paik, Young-Ki ^{[8
]}

Overall, Christopher M. ^{[9
]}

Corrales, Fernando J. ^{[10
]}

Cristea, Ileana M. ^{[11
]}

Van Eyk, Jennifer E. ^{[12
]}

Uhlen, Mathias ^{[13
]}

Lindskog, Cecilia ^{[14
]}

Chan, Daniel W. ^{[15
]}

Bairoch, Amos

Waddington, James C. ^{[7
]}

Justice, Joshua L.

LaBaer, Joshua ^{[16
]}

Rodriguez, Henry ^{[17
]}

He, Fuchu ^{[18
]}

Kostrzewa, Markus ^{[19
]}

Ping, Peipei ^{[20
]}

Gundry, Rebekah L. ^{[21
,22
]}

Stewart, Peter ^{[23
]}

Srivastava, Sanjeeva ^{[24
]}

Srivastava, Sudhir ^{[25
]}

Nogueira, Fabio C. S. ^{[26
,27
]}

Domont, Gilberto B. ^{[26
,27
]}

Vandenbrouck, Yves ^{[28
]}

Lam, Maggie P. Y. ^{[29
,30
,31
]}

Wennersten, Sara ^{[32
]}

Vizcaino, Juan Antonio ^{[33
]}

Wilkins, Marc ^{[34
]}

Schwenk, Jochen M. ^{[13
]}

Lundberg, Emma ^{[13
]}

Bandeira, Nuno ^{[35
]}

Marko-Varga, Gyorgy ^{[36
]}

Weintraub, Susan T. ^{[37
]}

Pineau, Charles ^{[38
]}

Kusebauch, Ulrike ^{[3
]}

Moritz, Robert L. ^{[3
]}

Ahn, Seong Beom ^{[1
]}

Palmblad, Magnus ^{[39
]}

Snyder, Michael P. ^{[40
]}

Aebersold, Ruedi ^{[41
]}

Baker, Mark S. ^{[1
,40
]}

机构：

[1] Macquarie Univ, Dept Biomed Sci, Fac Med Hlth & Human Sci, N Ryde, NSW 2109, Australia

[2] Monash Univ, Dept Biochem & Mol Biol, Fac Med Nursing & Hlth Sci, Melbourne, Vic 3800, Australia

[3] Inst Syst Biol, 401 Terry Ave North, Seattle, WA 98109 USA

[4] Univ Geneva, SIB Swiss Inst Bioinformat, Fac Med, CMU, Michel Servet 1, CH-1211 Geneva, Switzerland

[5] Univ Geneva, Dept Microbiol & Mol Med, Fac Med, CMU, Michel Servet 1, CH-1211 Geneva, Switzerland

[6] Univ Michigan, Dept Computat Med & Bioinformat, Ann Arbor, MI 48109 USA

[7] Univ Coll Dublin, UCD Conway Inst Biomol & Biomed Res, Sch Med, Dublin, Ireland

[8] Yonsei Proteome Res Ctr, Sudaemoon Ku, 50 Yonsei ro, Seoul 120749, South Korea

[9] Univ British Columbia, Fac Dent, Vancouver, BC, Canada

[10] CSIC, Funct Prote Lab, Proteored ISCIII, Ctr Nacl Biotecnol, Madrid 28049, Spain

[11] Princeton Univ, Dept Mol Biol, Princeton, NJ 08544 USA

[12] Smidt Heart Inst, Cedars Sinai Med Ctr, Adv Clin Biosyst Res Inst, Los Angeles, CA 90048 USA

[13] KTH Royal Inst Technol, Sch Engn Sci Chem, Sci Life Lab Biotechnol & Hlth, S-17121 Solna, Sweden

[14] Uppsala Univ, Dept Immunol Genet & Pathol, Rudbeck Lab, S-75185 Uppsala, Sweden

[15] Johns Hopkins Univ, Dept Pathol & Oncol, Sch Med, Baltimore, MD 21224 USA

[16] Arizona State Univ, Biodesign Inst, Tempe, AZ USA

[17] NCI, Off Canc Clin Prote Res, NIH, Bethesda, MD 20892 USA

[18] Natl Ctr Prot Sci Beijing, Beijing Inst Life, Beijing Proteome Res Ctr, State Key Lab Prote, Beijing 102206, Peoples R China

[19] Bruker Daltonik GmbH, Microbiol & Diagnost, Fahrenheitstr, D-428359 Bremen, Germany

[20] Univ Calif Los Angeles, David Geffen Sch Med, Dept Physiol, Cardiac Prote & Signaling Lab, Los Angeles, CA USA

[21] Univ Nebraska Med Ctr, Div Cardiovasc Med, Cardiom Program, Ctr Heart & Vasc Res, Omaha, NE 68198 USA

[22] Univ Nebraska Med Ctr, Dept Cellular & Integrat Physiol, Cardiom Program, Ctr Heart & Vasc Res, Omaha, NE 68198 USA

[23] Royal Prince Alfred Hosp, Dept Chem Pathol, Camperdown, NSW, Australia

[24] Indian Inst Technol, Powai 400076, Maharashtra, India

[25] Natl Canc Inst, Natl Inst Hlth, Canc Biomarkers Res Branch, Med Ctr Dr, Suite 5E136, Rockville, MD 20852 USA

[26] Fed Univ Rio Janeiro, Inst Chem, Prote Unit, Athos da Silveria Ramos,149, BR-21941909 Rio De Janeiro, RJ, Brazil

[27] Fed Univ Rio Janeiro, Inst Chem, Lab Prote, Athos da Silveria Ramos,149, BR-21941909 Rio De Janeiro, RJ, Brazil

[28] Univ Grenoble Alpes, INSERM, CEA, IRIG BGE,U1038, F-38000 Grenoble, France

[29] Univ Colorado, Dept Med Cardiol, Anschutz Med Campus, Aurora, CO USA

[30] Univ Colorado, Dept Biochem & Mol Genet, Anschutz Med Campus, Aurora, CO USA

[31] Univ Colorado, Consortium Fibrosis Res & Translat, Anschutz Med Campus, Aurora, CO USA

[32] Univ Colorado, Dept Med, Div Cardiol, Anschutz Med Campus, Aurora, CO USA

[33] European Bioinformat Inst, Mol Biol Lab, Wellcome Trust Genome Campus, Cambridge CB10 1SD, England

[34] Univ New South Wales, Sch Biotechnol & Biomol Sci, Sydney, NSW, Australia

[35] Univ Calif San Diego, Dept Comp Sci & Engn, 9500 Gilman Dr,Mail Code 0404, La Jolla, CA 92093 USA

[36] Lund Univ, Dept Biomed Engn, Lund, Sweden

[37] Univ Texas Hlth Sci Ctr San Antonio, UT Hlth, Dept Biochem & Struct Biol, 7703 Floyd Curl Dr, San Antonio, TX 78229 USA

[38] Univ Rennes, INSERM, EHESP, IREST,UMR S 1085, F-35042 Rennes, France

[39] Leiden Univ Med Ctr, NL-2333 Leiden, Netherlands

[40] Stanford Sch Med, Dept Genet, Stanford, CA 94305 USA

[41] Univ Zurich, Fac Sci, Zurich, Switzerland

来源：

NATURE COMMUNICATIONS | 2020年 / 11卷 / 01期

基金：

英国惠康基金; 澳大利亚国家健康与医学研究理事会;

关键词：

INTEGRATED PROTEOGENOMIC CHARACTERIZATION; DESORPTION IONIZATION-TIME; MASS-SPECTROMETRY; ANTIGEN PRESENTATION; MISSING PROTEINS; HUMAN COLON; CELL-TYPE; PROJECT; IDENTIFICATION; REVEALS;

D O I：

10.1038/s41467-020-19045-9

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

The Human Proteome Organization (HUPO) launched the Human Proteome Project (HPP) in 2010, creating an international framework for global collaboration, data sharing, quality assurance and enhancing accurate annotation of the genome-encoded proteome. During the subsequent decade, the HPP established collaborations, developed guidelines and metrics, and undertook reanalysis of previously deposited community data, continuously increasing the coverage of the human proteome. On the occasion of the HPP's tenth anniversary, we here report a 90.4% complete high-stringency human proteome blueprint. This knowledge is essential for discerning molecular processes in health and disease, as we demonstrate by highlighting potential roles the human proteome plays in our understanding, diagnosis and treatment of cancers, cardiovascular and infectious diseases. The Human Proteome Project (HPP) was launched in 2010 to enhance accurate annotation of the genome-encoded proteome. Ten years later, the HPP releases its first blueprint of the human proteome, annotating 90% of all known proteins at high-stringency and discussing the implications of proteomics for precision medicine.

引用

页数：16

共 180 条

[1] Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma
Addona, Terri A.
Abbatiello, Susan E.
Schilling, Birgit
Skates, Steven J.
Mani, D. R.
Bunk, David M.
Spiegelman, Clifford H.
Zimmerman, Lisa J.
Ham, Amy-Joan L.
Keshishian, Hasmik
Hall, Steven C.
Allen, Simon
Blackman, Ronald K.
Borchers, Christoph H.
Buck, Charles
Cardasis, Helene L.
Cusack, Michael P.
Dodder, Nathan G.
Gibson, Bradford W.
Held, Jason M.
Hiltke, Tara
Jackson, Angela
Johansen, Eric B.
Kinsinger, Christopher R.
Li, Jing
Mesri, Mehdi
Neubert, Thomas A.
Niles, Richard K.
Pulsipher, Trenton C.
Ransohoff, David
Rodriguez, Henry
Rudnick, Paul A.
Smith, Derek
Tabb, David L.
Tegeler, Tony J.
Variyath, Asokan M.
Vega-Montoto, Lorenzo J.
Wahlander, Asa
Waldemarson, Sofia
Wang, Mu
Whiteaker, Jeffrey R.
Zhao, Lei
Anderson, N. Leigh
Fisher, Susan J.
Liebler, Daniel C.
Paulovich, Amanda G.
Regnier, Fred E.
Tempst, Paul
Carr, Steven A.
[J]. NATURE BIOTECHNOLOGY, 2009, 27 (07) : 633 - U85
[2] In Silico Peptide Repertoire of Human Olfactory Receptor Proteomes on High-Stringency Mass Spectrometry
Adhikari, Subash
Sharma, Samridhi
Ahn, Seong Beom
Baker, Mark S.
[J]. JOURNAL OF PROTEOME RESEARCH, 2019, 18 (12) : 4117 - 4123
[3] Aebersold R, 2018, NAT CHEM BIOL, V14, P206, DOI [10.1038/NCHEMBIO.2576, 10.1038/nchembio.2576]
[4] How to: identify non-tuberculous Mycobacterium species using MALDI-TOF mass spectrometry
Alcaide, F.
Amlerova, J.
Bou, G.
Ceyssens, P. J.
Coll, P.
Corcoran, D.
Fangous, M. -S.
Gonzalez-Alvarez, I.
Gorton, R.
Greub, G.
Hery-Arnaud, G.
Hrabak, J.
Ingebretsen, A.
Lucey, B.
Marekovic, I.
Mediavilla-Gradolph, C.
Monte, M. R.
O'Connor, J.
O'Mahony, J.
Opota, O.
O'Reilly, B.
Orth-Hoeller, D.
Oviano, M.
Palacios, J. J.
Palop, B.
Pranada, A. B.
Quiroga, L.
Rodriguez-Temporal, D.
Ruiz-Serrano, M. J.
Tudo, G.
Van den Bossche, A.
van Ingen, J.
Rodriguez-Sanchez, B.
[J]. CLINICAL MICROBIOLOGY AND INFECTION, 2018, 24 (06) : 599 - 603
[5] How will country-based mitigation measures influence the course of the COVID-19 epidemic?
Anderson, Roy M.
Heesterbeek, Hans
Klinkenberg, Don
Hollingsworth, T. Deirdre
[J]. LANCET, 2020, 395 (10228) : 931 - 934
[6] Cardiopoietic stem cell therapy restores infarction-altered cardiac proteome
Arrell, D. Kent
Rosenow, Christian S.
Yamada, Satsuki
Behfar, Atta
Terzic, Andre
[J]. NPJ REGENERATIVE MEDICINE, 2020, 5 (01)
[7] Reference glycan structure libraries of primary human cardiomyocytes and pluripotent stem cell-derived cardiomyocytes reveal cell-type and culture stage-specific glycan phenotypes
Ashwood, Christopher
Waas, Matthew
Weerasekera, Ranjuna
Gundry, Rebekah L.
[J]. JOURNAL OF MOLECULAR AND CELLULAR CARDIOLOGY, 2020, 139 : 33 - 46
[8] Accelerating the search for the missing proteins in the human proteome
Baker, Mark S.
Ahn, Seong Beom
Mohamedali, Abidali
Islam, Mohammad T.
Cantor, David
Verhaert, Peter D.
Fanayan, Susan
Sharma, Samridhi
Nice, Edouard C.
Connor, Mark
Ranganathan, Shoba
[J]. NATURE COMMUNICATIONS, 2017, 8
[9] Baker MS, 2009, CURR OPIN MOL THER, V11, P600
[10] Proteomic and N-Terminomic TAILS Analyses of Human Alveolar Bone Proteins: Improved Protein Extraction Methodology and LysargiNase Digestion Strategies Increase Proteome Coverage and Missing Protein Identification
Bell, Peter A.
Solis, Nestor
Kizhakkedathu, Jayachandran N.
Matthew, Ian
Overall, Christopher M.
[J]. JOURNAL OF PROTEOME RESEARCH, 2019, 18 (12) : 4167 - 4179

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