Open Access Software

Broadening the horizon – level 2.5 of the HUPO-PSI format for molecular interactions

Samuel Kerrien1*, Sandra Orchard1, Luisa Montecchi-Palazzi1, Bruno Aranda1, Antony F Quinn1, Nisha Vinod1, Gary D Bader23, Ioannis Xenarios4, Jérôme Wojcik4, David Sherman5, Mike Tyers3, John J Salama6, Susan Moore67, Arnaud Ceol8, Andrew Chatr-aryamontri8, Matthias Oesterheld9, Volker Stümpflen9, Lukasz Salwinski10, Jason Nerothin10, Ethan Cerami11, Michael E Cusick12, Marc Vidal12, Michael Gilson13, John Armstrong14, Peter Woollard14, Christopher Hogue15, David Eisenberg10, Gianni Cesareni8, Rolf Apweiler1 and Henning Hermjakob1

Author Affiliations

1 European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK

2 Banting & Best Department of Medical Research and Terrence Donnelly Centre for Cellular & Biomolecular Research, University of Toronto, 160 College Street, Toronto, Ontario, Canada

3 Samuel Lunenfeld Research Institute, Mount Sinai Hospital, 600 University Avenue, Toronto, Ontario, Canada

4 Merck Serono, 9 chemin des Mines, 1211 Geneva, Switzerland

5 Laboratoire Bordelais de Recherche en Informatique, ENSI Électronique, Informatique et Radiocomm. de Bordeaux, France

6 The Blueprint Initiative of Mount Sinai Hospital, 600 University Avenue, Toronto, ON, M5G 1X5, Canada

7 National University of Singapore, Office of Life Sciences (OLS), Centre for Life Sciences, Singapore

8 Department of Biology, University of Rome Tor Vergata, Via della Ricerca Scientifica, Rome, Italy

9 Institute for Bioinformatics, GSF – National Research Center for Environment and Health, Neuherberg, Germany

10 UCLA-DOE Institute for Genomics & Proteomics, UCLA, LA, USA

11 Computational Biology Center, Memorial Sloan-Kettering Cancer Center 1275 York Avenue, Box 460, New York, NY, USA

12 Center for Cancer Systems Biology (CCSB) and Department of Cancer, Biology, Dana-Farber Cancer Institute, and Department of Genetics, Harvard Medical School, Boston, MA, USA

13 Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, MD, USA

14 Glaxo Smithkline Medicines Research Centre, Gunnels Wood Road, Stevenage, Herts, UK

15 Dept. of Biochemistry, University of Toronto, Toronto, Ontario, Canada

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BMC Biology 2007, 5:44  doi:10.1186/1741-7007-5-44

Published: 9 October 2007

Additional files

Additional file 1:

PSI-MI XML2.5 example. Data from [26] represented in PSI-MI XML2.5 format in compact form.

Format: XML Size: 118KB Download file

Open Data

Additional file 2:

PSI-MI XML2.5 example in HTML. Data from [26] represented in PSI-MI XML2.5 format in compact form, converted to HTML.

Format: HTML Size: 53KB Download file

Open Data

Additional file 3:

PSI-MI XML2.5 example. Data from [26] represented in PSI-MI XML2.5 format in expanded form.

Format: XML Size: 120KB Download file

Open Data

Additional file 4:

PSI-MI XML2.5 example in HTML. Data from [26] represented in PSI-MI XML2.5 format in expanded form, converted to HTML.

Format: HTML Size: 46KB Download file

Open Data

Additional file 5:

MITAB2.5 example. Data from [26] represented in MITAB2.5 format.

Format: TXT Size: 2KB Download file

Open Data