PSICQUIC and PSISCORE: accessing and scoring molecular interactions

被引:191
作者
Aranda, Bruno [1 ]
Blankenburg, Hagen [2 ]
Kerrien, Samuel [1 ]
Brinkman, Fiona S. L. [3 ]
Ceol, Arnaud [4 ,5 ]
Chautard, Emilie [6 ,7 ]
Dana, Jose M. [1 ]
De Las Rivas, Javier [8 ]
Dumousseau, Marine [1 ]
Galeota, Eugenia [5 ,9 ]
Gaulton, Anna [1 ]
Goll, Johannes [10 ]
Hancock, Robert E. W. [11 ]
Isserlin, Ruth [12 ]
Jimenez, Rafael C. [1 ]
Kerssemakers, Jules [13 ]
Khadake, Jyoti [1 ]
Lynn, David J.
Michaut, Magali [12 ]
O'Kelly, Gavin [1 ]
Ono, Keiichiro [14 ]
Orchard, Sandra [1 ]
Prieto, Carlos [8 ,15 ]
Razick, Sabry [16 ,17 ]
Rigina, Olga [18 ]
Salwinski, Lukasz [19 ]
Simonovic, Milan [20 ,21 ]
Velankar, Sameer [1 ]
Winter, Andrew [22 ]
Wu, Guanming [7 ]
Bader, Gary D. [12 ]
Cesareni, Gianni [5 ,9 ]
Donaldson, Ian M. [16 ,23 ]
Eisenberg, David [19 ,24 ,25 ]
Kleywegt, Gerard J. [1 ]
Overington, John [1 ]
Ricard-Blum, Sylvie [6 ]
Tyers, Mike [22 ,26 ]
Albrecht, Mario [2 ]
Hermjakob, Henning [1 ]
机构
[1] European Bioinformat Inst, European Mol Biol Lab, Hinxton, England
[2] Max Planck Inst Informat, Saarbrucken, Germany
[3] Simon Fraser Univ, Dept Mol Biol & Biochem, Burnaby, BC V5A 1S6, Canada
[4] Inst Biomed Res, Barcelona, Spain
[5] Univ Roma Tor Vergata, Dept Biol, I-00173 Rome, Italy
[6] Univ Lyon 1, Inst Biol & Chim Prot, CNRS, UMR 5086, F-69365 Lyon, France
[7] Ontario Inst Canc Res, Toronto, ON, Canada
[8] Univ Salamanca, Canc Res Ctr, Ctr Invest Canc,Consejo Super Invest Cient, Inst Biol Mol & Celular Canc, E-37008 Salamanca, Spain
[9] Fdn S Lucia, Ist Ricovero & Cura Carattere Sci, Rome, Italy
[10] J Craig Venter Inst, Rockville, MD USA
[11] Univ British Columbia, Ctr Microbial Dis & Immun Res, Vancouver, BC V5Z 1M9, Canada
[12] Univ Toronto, Donnelly Ctr, Toronto, ON, Canada
[13] Radboud Univ Nijmegen, Med Ctr, Ctr Mol & Biomol Informat, NL-6525 ED Nijmegen, Netherlands
[14] Univ Calif San Diego, Sch Med, Trey Ideker Lab, La Jolla, CA 92093 USA
[15] Inst Biotechnol Leon, Leon, Spain
[16] Univ Oslo, Biotechnol Ctr Oslo, Oslo, Norway
[17] Univ Oslo, Dept Informat, Biomed Res Grp, N-0316 Oslo, Norway
[18] Tech Univ Denmark, Bioctr, Ctr Biol Sequence Anal, DK-2800 Lyngby, Denmark
[19] Univ Calif Los Angeles, Dept Energy, Inst Genom & Prote, Los Angeles, CA USA
[20] Univ Zurich, Inst Mol Life Sci, Fac Sci, Zurich, Switzerland
[21] Univ Zurich, Swiss Inst Bioinformat, Zurich, Switzerland
[22] Univ Edinburgh, Sch Biol Sci, Wellcome Trust Ctr Cell Biol, Edinburgh, Midlothian, Scotland
[23] Univ Oslo, Dept Mol Biosci, Oslo, Norway
[24] Univ Calif Los Angeles, Dept Chem & Biochem, Los Angeles, CA 90024 USA
[25] Univ Calif Los Angeles, Howard Hughes Med Inst, Los Angeles, CA 90024 USA
[26] Mt Sinai Hosp, Samuel Lunenfeld Res Inst, Toronto, ON M5G 1X5, Canada
基金
英国惠康基金;
关键词
D O I
10.1038/nmeth.1637
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
引用
收藏
页码:528 / 529
页数:3
相关论文
共 5 条
[1]   DASMI: exchanging, annotating and assessing molecular interaction data [J].
Blankenburg, Hagen ;
Finn, Robert D. ;
Prlic, Andreas ;
Jenkinson, Andrew M. ;
Ramirez, Fidel ;
Emig, Dorothea ;
Schelhorn, Sven-Eric ;
Buech, Joachim ;
Lengauer, Thomas ;
Albrecht, Mario .
BIOINFORMATICS, 2009, 25 (10) :1321-1328
[2]   The HUPOPSI's Molecular Interaction format - a community standard for the representation of protein interaction data [J].
Hermjakob, H ;
Montecchi-Palazzi, L ;
Bader, G ;
Wojcik, R ;
Salwinski, L ;
Ceol, A ;
Moore, S ;
Orchard, S ;
Sarkans, U ;
von Mering, C ;
Roechert, B ;
Poux, S ;
Jung, E ;
Mersch, H ;
Kersey, P ;
Lappe, M ;
Li, YX ;
Zeng, R ;
Rana, D ;
Nikolski, M ;
Husi, H ;
Brun, C ;
Shanker, K ;
Grant, SGN ;
Sander, C ;
Bork, P ;
Zhu, WM ;
Pandey, A ;
Brazma, A ;
Jacq, B ;
Vidal, M ;
Sherman, D ;
Legrain, P ;
Cesareni, G ;
Xenarios, L ;
Eisenberg, D ;
Steipe, B ;
Hogue, C ;
Apweiler, R .
NATURE BIOTECHNOLOGY, 2004, 22 (02) :177-183
[3]   Broadening the horizon -: level 2.5 of the HUPO-PSI format for molecular interactions [J].
Kerrien, Samuel ;
Orchard, Sandra ;
Montecchi-Palazzi, Luisa ;
Aranda, Bruno ;
Quinn, Antony F. ;
Vinod, Nisha ;
Bader, Gary D. ;
Xenarios, Ioannis ;
Wojcik, Jerome ;
Sherman, David ;
Tyers, Mike ;
Salama, John J. ;
Moore, Susan ;
Ceol, Arnaud ;
Chatr-aryamontri, Andrew ;
Oesterheld, Matthias ;
Stuempflen, Volker ;
Salwinski, Lukasz ;
Nerothin, Jason ;
Cerami, Ethan ;
Cusick, Michael E. ;
Vidal, Marc ;
Gilson, Michael ;
Armstrong, John ;
Woollard, Peter ;
Hogue, Christopher ;
Eisenberg, David ;
Cesareni, Gianni ;
Apweiler, Rolf ;
Hermjakob, Henning .
BMC BIOLOGY, 2007, 5 (1)
[4]  
Orchard Sandra, 2007, Proteomics, V7, P3436, DOI 10.1002/pmic.200700658
[5]   Cytoscape: A software environment for integrated models of biomolecular interaction networks [J].
Shannon, P ;
Markiel, A ;
Ozier, O ;
Baliga, NS ;
Wang, JT ;
Ramage, D ;
Amin, N ;
Schwikowski, B ;
Ideker, T .
GENOME RESEARCH, 2003, 13 (11) :2498-2504