PSICQUIC and PSISCORE: Accessing and scoring molecular interactions

Bruno Aranda; Hagen Blankenburg; Samuel Kerrien; Fiona S.L. Brinkman; Arnaud Ceol; Emilie Chautard; Jose M. Dana; Javier De Las Rivas; Marine Dumousseau; Eugenia Galeota; Anna Gaulton; Johannes Goll; Robert E.W. Hancock; Ruth Isserlin; Rafael C. Jimenez; Jules Kerssemakers; Jyoti Khadake; David J. Lynn; Magali Michaut; Gavin O'Kelly; Keiichiro Ono; Sandra Orchard; Carlos Prieto; Sabry Razick; Olga Rigina; Lukasz Salwinski; Milan Simonovic; Sameer Velankar; Andrew Winter; Guanming Wu; Gary D. Bader; Gianni Cesareni; Ian M. Donaldson; David Eisenberg; Gerard J. Kleywegt; John Overington; Sylvie Ricard-Blum; Mike Tyers; Mario Albrecht; Henning Hermjakob

doi:10.1038/nmeth.1637

PSICQUIC and PSISCORE: Accessing and scoring molecular interactions

Bruno Aranda
, Hagen Blankenburg
, Samuel Kerrien
, Fiona S.L. Brinkman
, Arnaud Ceol
, Emilie Chautard
, Jose M. Dana
, Javier De Las Rivas
, Marine Dumousseau
, Eugenia Galeota
, Anna Gaulton
, Johannes Goll
, Robert E.W. Hancock
, Ruth Isserlin
, Rafael C. Jimenez
, Jules Kerssemakers
, Jyoti Khadake
, David J. Lynn
, Magali Michaut
, Gavin O'Kelly

Keiichiro Ono, Sandra Orchard, Carlos Prieto, Sabry Razick, Olga Rigina, Lukasz Salwinski, Milan Simonovic, Sameer Velankar, Andrew Winter, Guanming Wu, Gary D. Bader, Gianni Cesareni, Ian M. Donaldson, David Eisenberg, Gerard J. Kleywegt, John Overington, Sylvie Ricard-Blum, Mike Tyers, Mario Albrecht, Henning Hermjakob

Research output: Contribution to journal › Letter › peer-review

228 Scopus citations

Original language	English (US)
Pages (from-to)	528-529
Number of pages	2
Journal	Nature Methods
Volume	8
Issue number	7
DOIs	https://doi.org/10.1038/nmeth.1637
State	Published - Jul 2011
Externally published	Yes

Funding

This work was financially supported by Fonds National Suisse grants 200021– 125319 and 20021–132206. We thank R. Bizzarri for fruitful discussion. This study was supported by the European Commission under the Serving Life-science Information for the Next Generation contract 226073; Proteomics Standards Initiative and International Molecular Exchange contract FP7-HEALTH-2007-223411; Apoptosis Systems Biology Applied to Cancer and AIDS contract FP7-HEALTH-2007-200767; Experimental Network for Functional Integration contract LSHG-CT-2005-518254; German National Genome Research Network; German Research Foundation contract KFO 129/1-2; US National Institutes of Health grant R01GM071909; the Italian Association for Cancer Research; a Wellcome Trust Strategic Award to the European Molecular Biology Laboratory–European Bioinformatics Institute for Chemogenomics Databases; Grand Challenges in Global Health Research, the Canadian Institutes of Health Research, Foundation for the National Institutes of Health and Genome British Columbia; and a German Research Foundation–funded Cluster of Excellence for Multimodal Computing and Interaction. We thank organizers and sponsors of the Biohackathons 2008, 2009 and 2010 where part of the work was done.

Funders	Funder number
European Bioinformatics Institute for Chemogenomics Databases
German National Genome Research Network
Author National Institutes of Health National Institutes of Health National Institutes of Health National Institutes of Health The Bev Hartig Huntington's Disease Foundation National Institutes of Health	R01GM071909
Foundation for the National Institutes of Health
NIH Office of the Director	R01OD010929
Wellcome Trust
European Molecular Biology Laboratory
European Commission	LSHG-CT-2005-518254, FP7-HEALTH-2007-200767, 226073, FP7-HEALTH-2007-223411
Deutsche Forschungsgemeinschaft	KFO 129/1-2
Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung	200021– 125319, 20021–132206
Associazione Italiana per la Ricerca sul Cancro

ASJC Scopus subject areas

Biotechnology
Biochemistry
Molecular Biology
Cell Biology

Access to Document

10.1038/nmeth.1637

Cite this

Aranda, B., Blankenburg, H., Kerrien, S., Brinkman, F. S. L., Ceol, A., Chautard, E., Dana, J. M., De Las Rivas, J., Dumousseau, M., Galeota, E., Gaulton, A., Goll, J., Hancock, R. E. W., Isserlin, R., Jimenez, R. C., Kerssemakers, J., Khadake, J., Lynn, D. J., Michaut, M., ... Hermjakob, H. (2011). PSICQUIC and PSISCORE: Accessing and scoring molecular interactions. Nature Methods, 8(7), 528-529. https://doi.org/10.1038/nmeth.1637

Aranda, B, Blankenburg, H, Kerrien, S, Brinkman, FSL, Ceol, A, Chautard, E, Dana, JM, De Las Rivas, J, Dumousseau, M, Galeota, E, Gaulton, A, Goll, J, Hancock, REW, Isserlin, R, Jimenez, RC, Kerssemakers, J, Khadake, J, Lynn, DJ, Michaut, M, O'Kelly, G, Ono, K, Orchard, S, Prieto, C, Razick, S, Rigina, O, Salwinski, L, Simonovic, M, Velankar, S, Winter, A, Wu, G, Bader, GD, Cesareni, G, Donaldson, IM, Eisenberg, D, Kleywegt, GJ, Overington, J, Ricard-Blum, S, Tyers, M, Albrecht, M & Hermjakob, H 2011, 'PSICQUIC and PSISCORE: Accessing and scoring molecular interactions', Nature Methods, vol. 8, no. 7, pp. 528-529. https://doi.org/10.1038/nmeth.1637

@article{dd51cf40667645fb885c47e424d5651a,

title = "PSICQUIC and PSISCORE: Accessing and scoring molecular interactions",

author = "Bruno Aranda and Hagen Blankenburg and Samuel Kerrien and Brinkman, \{Fiona S.L.\} and Arnaud Ceol and Emilie Chautard and Dana, \{Jose M.\} and \{De Las Rivas\}, Javier and Marine Dumousseau and Eugenia Galeota and Anna Gaulton and Johannes Goll and Hancock, \{Robert E.W.\} and Ruth Isserlin and Jimenez, \{Rafael C.\} and Jules Kerssemakers and Jyoti Khadake and Lynn, \{David J.\} and Magali Michaut and Gavin O'Kelly and Keiichiro Ono and Sandra Orchard and Carlos Prieto and Sabry Razick and Olga Rigina and Lukasz Salwinski and Milan Simonovic and Sameer Velankar and Andrew Winter and Guanming Wu and Bader, \{Gary D.\} and Gianni Cesareni and Donaldson, \{Ian M.\} and David Eisenberg and Kleywegt, \{Gerard J.\} and John Overington and Sylvie Ricard-Blum and Mike Tyers and Mario Albrecht and Henning Hermjakob",

note = "Funding Information: This work was financially supported by Fonds National Suisse grants 200021{\textendash} 125319 and 20021{\textendash}132206. We thank R. Bizzarri for fruitful discussion. Funding Information: This study was supported by the European Commission under the Serving Life-science Information for the Next Generation contract 226073; Proteomics Standards Initiative and International Molecular Exchange contract FP7-HEALTH-2007-223411; Apoptosis Systems Biology Applied to Cancer and AIDS contract FP7-HEALTH-2007-200767; Experimental Network for Functional Integration contract LSHG-CT-2005-518254; German National Genome Research Network; German Research Foundation contract KFO 129/1-2; US National Institutes of Health grant R01GM071909; the Italian Association for Cancer Research; a Wellcome Trust Strategic Award to the European Molecular Biology Laboratory{\textendash}European Bioinformatics Institute for Chemogenomics Databases; Grand Challenges in Global Health Research, the Canadian Institutes of Health Research, Foundation for the National Institutes of Health and Genome British Columbia; and a German Research Foundation{\textendash}funded Cluster of Excellence for Multimodal Computing and Interaction. We thank organizers and sponsors of the Biohackathons 2008, 2009 and 2010 where part of the work was done.",

year = "2011",

month = jul,

doi = "10.1038/nmeth.1637",

language = "English (US)",

volume = "8",

pages = "528--529",

journal = "Nature Methods",

issn = "1548-7091",

publisher = "Nature Research",

number = "7",

}

TY - JOUR

T1 - PSICQUIC and PSISCORE

T2 - Accessing and scoring molecular interactions

AU - Aranda, Bruno

AU - Blankenburg, Hagen

AU - Kerrien, Samuel

AU - Brinkman, Fiona S.L.

AU - Ceol, Arnaud

AU - Chautard, Emilie

AU - Dana, Jose M.

AU - De Las Rivas, Javier

AU - Dumousseau, Marine

AU - Galeota, Eugenia

AU - Gaulton, Anna

AU - Goll, Johannes

AU - Hancock, Robert E.W.

AU - Isserlin, Ruth

AU - Jimenez, Rafael C.

AU - Kerssemakers, Jules

AU - Khadake, Jyoti

AU - Lynn, David J.

AU - Michaut, Magali

AU - O'Kelly, Gavin

AU - Ono, Keiichiro

AU - Orchard, Sandra

AU - Prieto, Carlos

AU - Razick, Sabry

AU - Rigina, Olga

AU - Salwinski, Lukasz

AU - Simonovic, Milan

AU - Velankar, Sameer

AU - Winter, Andrew

AU - Wu, Guanming

AU - Bader, Gary D.

AU - Cesareni, Gianni

AU - Donaldson, Ian M.

AU - Eisenberg, David

AU - Kleywegt, Gerard J.

AU - Overington, John

AU - Ricard-Blum, Sylvie

AU - Tyers, Mike

AU - Albrecht, Mario

AU - Hermjakob, Henning

N1 - Funding Information: This work was financially supported by Fonds National Suisse grants 200021– 125319 and 20021–132206. We thank R. Bizzarri for fruitful discussion. Funding Information: This study was supported by the European Commission under the Serving Life-science Information for the Next Generation contract 226073; Proteomics Standards Initiative and International Molecular Exchange contract FP7-HEALTH-2007-223411; Apoptosis Systems Biology Applied to Cancer and AIDS contract FP7-HEALTH-2007-200767; Experimental Network for Functional Integration contract LSHG-CT-2005-518254; German National Genome Research Network; German Research Foundation contract KFO 129/1-2; US National Institutes of Health grant R01GM071909; the Italian Association for Cancer Research; a Wellcome Trust Strategic Award to the European Molecular Biology Laboratory–European Bioinformatics Institute for Chemogenomics Databases; Grand Challenges in Global Health Research, the Canadian Institutes of Health Research, Foundation for the National Institutes of Health and Genome British Columbia; and a German Research Foundation–funded Cluster of Excellence for Multimodal Computing and Interaction. We thank organizers and sponsors of the Biohackathons 2008, 2009 and 2010 where part of the work was done.

PY - 2011/7

Y1 - 2011/7

UR - https://www.scopus.com/pages/publications/79959846617

UR - https://www.scopus.com/pages/publications/79959846617#tab=citedBy

U2 - 10.1038/nmeth.1637

DO - 10.1038/nmeth.1637

M3 - Letter

C2 - 21716279

AN - SCOPUS:79959846617

SN - 1548-7091

VL - 8

SP - 528

EP - 529

JO - Nature Methods

JF - Nature Methods

IS - 7

ER -

PSICQUIC and PSISCORE: Accessing and scoring molecular interactions

Funding

ASJC Scopus subject areas

Access to Document

Other files and links

Cite this