Searching the MINT Database for Protein Interaction Information

Gianni Cesareni1, Andrew Chatr‐aryamontri1, Luana Licata1, Arnaud Ceol1

1 University of Rome Tor Vergata, Rome, Italy
Publication Name:  Current Protocols in Bioinformatics
Unit Number:  Unit 8.5
DOI:  10.1002/0471250953.bi0805s22
Online Posting Date:  June, 2008
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Abstract

The Molecular Interactions Database (MINT) is a relational database designed to store information about protein interactions. Expert curators extract the relevant information from the scientific literature and deposit it in a computer readable form. Currently (April 2008), MINT contains information on almost 29,000 proteins and more than 100,000 interactions from more than 30 model organisms. This unit provides protocols for searching MINT over the Internet, using the MINT Viewer. Curr. Protoc. Bioinform. 22:8.5.1–8.5.13. © 2008 by John Wiley & Sons, Inc.

Keywords: MINT; protein‐protein interaction; database

     
 
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Table of Contents

  • Introduction
  • Basic Protocol 1: Searching MINT Over the Internet
  • Alternate Protocol 1: MINT Viewer
  • Basic Protocol 2: Submitting Interaction Data
  • Guidelines for Understanding Results
  • Commentary
  • Literature Cited
  • Figures
  • Tables
     
 
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Materials

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Figures

Videos

Literature Cited

   Chatr‐aryamontri, A., Ceol, A., Licata, L., and Cesareni, G. 2008. Protein interactions: Integration leads to belief. TiBS. In press.
   Chatr‐aryamontri, A., Ceol, A., Palazzi, L.M., Nardelli, G., Schneider, M.V., Castagnoli, L., and Cesareni, G. 2007. MINT: The Molecular INTeraction database. Nucleic Acids Res. 35:D572‐D574.
   Guldener, U., Munsterkotter, M., Oesterheld, M., Pagel, P., Ruepp, A., Mewes, H.W., and Stumpflen, V. 2006. MPact: The MIPS protein interaction resource on yeast. Nucleic Acids Res. 34:D436‐D441.
   Kerrien, S., Alam‐Faruque, Y., Aranda, B., Bancarz, I., Bridge, A., Derow, C., Dimmer, E., Feuermann, M., Friedrichsen, A., Huntley, R., Kohler, C., Khadake, J., Leroy, C., Liban, A., Lieftink, C., Montecchi‐Palazzi, L., Orchard, S., Risse, J., Robbe, K., Roechert, B., Thorneycroft, D., Zhang, Y., Apweiler, R., and Hermjakob, H. 2007. IntAct—Open source resource for molecular interaction data. Nucleic Acids Res. 35:D561‐D565.
   Mishra, G.R., Suresh, M., Kumaran, K., Kannabiran, N., Suresh, S., Bala, P., Shivakumar, K., Anuradha, N., Reddy, R., Raghavan, T.M., Menon, S., Hanumanthu, G., Gupta, M., Upendran, S., Gupta, S., Mahesh, M., Jacob, B., Mathew, P., Chatterjee, P., Arun, K.S., Sharma, S., Chandrika, K.N., Deshpande, N., Palvankar, K., Raghavnath, R., Krishnakanth, R., Karathia, H., Rekha, B., Nayak, R., Vishnupriya, G., Kumar, H.G., Nagini, M., Kumar, G.S., Jose, R., Deepthi, P., Mohan, S.S., Gandhi, T.K., Harsha, H.C., Deshpande, K.S., Sarker, M., Prasad, T.S., and Pandey, A. 2006. Human protein reference database—2006 update. Nucleic Acids Res. 34:D411‐D414.
   Salwinski, L., Miller, C.S., Smith, A.J., Pettit, F.K., Bowie, J.U., and Eisenberg, D. 2004. The Database of Interacting Proteins: 2004 update. Nucleic Acids Res. 32:D449‐D451.
   Stark, C., Breitkreutz, B.J., Reguly, T., Boucher, L., Breitkreutz, A., and Tyers, M. 2006. BioGRID: A general repository for interaction datasets. Nucleic Acids Res. 34:D535‐D539.
Internet Resources
   http://mint.bio.uniroma2.it/mint
  The Molecular Interactions Database (MINT), Database of Interacting Proteins (DIP), and IntAct Web sites. These are founders and active members of the IMEx consortium, which shares curation efforts and exchanges completed records on molecular interaction data.
   http://dip.doe‐mbi.ucla.edu
  The MIPS, BioGRID, and HPRD Web sites for other well established protein interaction databases currently accessible on the Web.
   http://www.ebi.ac.uk/intact
   http://mips.gsf.de
   http://www.thebiogrid.org
   http://www.hprd.org
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