A Community Standard Format for the Representation of Protein Affinity Reagents

被引：30

作者：

Gloriam, David E. ^{[1
,2
]}

Orchard, Sandra ^{[1
]}

Bertinetti, Daniela ^{[3
]}

Bjorling, Erik ^{[4
]}

Bongcam-Rudloff, Erik ^{[5
,6
]}

Borrebaeck, Carl A. K. ^{[25
]}

Bourbeillon, Julie ^{[7
,8
]}

Bradbury, Andrew R. M. ^{[9
]}

de Daruvar, Antoine ^{[8
,10
]}

Duebel, Stefan ^{[11
]}

Frank, Ronald ^{[12
]}

Gibson, Toby J. ^{[13
]}

Gold, Larry ^{[14
]}

Haslam, Niall ^{[13
]}

Herberg, Friedrich W. ^{[3
]}

Hiltke, Tara ^{[15
]}

Hoheisel, Joerg D. ^{[16
]}

Kerrien, Samuel ^{[1
]}

Koegl, Manfred ^{[17
]}

Konthur, Zoltan ^{[18
]}

Korn, Bernhard ^{[16
]}

Landegren, Ulf ^{[19
]}

Montecchi-Palazzi, Luisa ^{[1
]}

Palcy, Sandrine ^{[8
,10
]}

Rodriguez, Henry ^{[15
]}

Schweinsberg, Sonja ^{[3
]}

Sievert, Volker ^{[18
]}

Stoevesandt, Oda ^{[20
]}

Taussig, Michael J. ^{[20
]}

Ueffing, Marius ^{[21
]}

Uhlen, Mathias ^{[4
]}

van der Maarel, Silvere ^{[22
]}

Wingren, Christer ^{[23
]}

Woollard, Peter ^{[24
]}

Sherman, David J. ^{[7
,8
]}

Hermjakob, Henning ^{[1
]}

机构：

[1] European Bioinformat Inst, Cambridge CB10 1SD, England

[2] Univ Copenhagen, Pharmaceut Fac, DK-2100 Copenhagen, Denmark

[3] Univ Kassel, Dept Biochem, D-34132 Kassel, Germany

[4] AlbaNova Univ Ctr, Royal Inst Technol, SE-10691 Stockholm, Sweden

[5] Swedish Univ Agr Sci, Dept Anim Breeding & Genet, S-75124 Uppsala, Sweden

[6] Swedish Univ Agr Sci, Linnaeus Ctr Bioinformat, S-75124 Uppsala, Sweden

[7] Inst Natl Rech Informat & Automat Bordeaux Sud Ou, F-33405 Talence, France

[8] Univ Bordeaux, Lab Bordelais Rech Informat, CNRS 5800, F-33405 Talence, France

[9] Los Alamos Natl Lab, Los Alamos, NM 87545 USA

[10] Univ Bordeaux, Ctr Bioinformat Bordeaux, F-33000 Bordeaux, France

[11] Tech Univ Carolo Wilhelmina Braunschweig, Inst Biochem & Biotechnol, D-38106 Braunschweig, Germany

[12] Helmholtz Ctr Infect Res, D-38124 Braunschweig, Germany

[13] European Mol Biol Lab, D-69117 Heidelberg, Germany

[14] SomaLogic Inc, Boulder, CO 80301 USA

[15] NCI, NIH, Bethesda, MD 20892 USA

[16] German Canc Res Ctr, D-69120 Heidelberg, Germany

[17] Resource Ctr Genome Res, D-69120 Heidelberg, Germany

[18] Max Planck Inst Mol Genet, D-14195 Berlin, Germany

[19] Uppsala Univ, Dept Genet & Pathol, S-75185 Uppsala, Sweden

[20] Babraham Biosci Technol Ltd, Cambridge CB22 3AT, England

[21] Res Ctr Environm Hlth, Dept Prot Sci, Helmholtz Zentrum Munchen, D-85764 Neuherberg, Germany

[22] Leiden Univ, Med Ctr, NL-2300 RC Leiden, Netherlands

[23] Lund Univ, Dept Immunotechnol, SE-22184 Lund, Sweden

[24] GlaxoSmithKline, Harlow CM19 5AW, Essex, England

[25] Lund Univ, BMC D13, Dept Immunotechnol, CREATE Hlth, Lund, Sweden

来源：

MOLECULAR & CELLULAR PROTEOMICS | 2010年 / 9卷 / 01期

关键词：

ANTIBODY PROTEOMICS; RESOURCE; ATLAS; HER2;

D O I：

10.1074/mcp.M900185-MCP200

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Protein affinity reagents (PARs), most commonly antibodies, are essential reagents for protein characterization in basic research, biotechnology, and diagnostics as well as the fastest growing class of therapeutics. Large numbers of PARs are available commercially; however, their quality is often uncertain. In addition, currently available PARs cover only a fraction of the human proteome, and their cost is prohibitive for proteome scale applications. This situation has triggered several initiatives involving large scale generation and validation of antibodies, for example the Swedish Human Protein Atlas and the German Antibody Factory. Antibodies targeting specific subproteomes are being pursued by members of Human Proteome Organisation (plasma and liver proteome projects) and the United States National Cancer Institute (cancer-associated antigens). ProteomeBinders, a European consortium, aims to set up a resource of consistently quality-controlled protein-binding reagents for the whole human proteome. An ultimate PAR database resource would allow consumers to visit one online warehouse and find all available affinity reagents from different providers together with documentation that facilitates easy comparison of their cost and quality. However, in contrast to, for example, nucleotide databases among which data are synchronized between the major data providers, current PAR producers, quality control centers, and commercial companies all use incompatible formats, hindering data exchange. Here we propose Proteomics Standards Initiative (PSI)-PAR as a global community standard format for the representation and exchange of protein affinity reagent data. The PSI-PAR format is maintained by the Human Proteome Organisation PSI and was developed within the context of ProteomeBinders by building on a mature proteomics standard format, PSI-molecular interaction, which is a widely accepted and established community standard for molecular interaction data. Further information and documentation are available on the PSI-PAR web site. Molecular & Cellular Proteomics 9: 1-10, 2010.

引用

页码：1 / 10

页数：10

共 21 条

[21] Selection and characterization of Her2 binding-designed ankyrin repeat proteins
Zahnd, Christian
Pecorari, Frederic
Straumann, Nadine
Wyler, Emanuel
Plueckthun, Andreas
[J]. JOURNAL OF BIOLOGICAL CHEMISTRY, 2006, 281 (46) : 35167 - 35175

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