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=Help me make a page for Protein-Protein Interaction Prediction=
==To Do List==
*0) limit to 6->10k words,(30->50 KB) of readable prose.
*1) What are protein-protein interactions.
*2) Why it is useful to be able to predict them with a computer.
*3) The general principles involved.
*4) You should aim for no more than a dozen, preferably review articles.
*5) Smaller articles on individual computational methods (vote: 1y:1n ).
*6) add links to related Wikipedia pages.
::6a) learn and use common wiki formatting principles
*7) integrate with Wikipedia.
*'''Note''' To-do list here, other comments should be left on talk page.
=Draft article begins here=
'''Protein-protein interaction prediction''' is a branch of [[bioinformatics]] that seeks to use computational methods to predict complex [[protein-protein interaction]]s. Understanding the functional [[interaction]]s of proteins is an important research focus in [[biochemistry]], often referred to as [[proteomics]].
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==Overview==
The promise of the [[Human genome project]] was that determining the human [[genetic code]] would lead to great advances in understanding human disease and to developing drugs and other therapies that were engineered to interact with specific biological processes. However, it has become clear that understanding the DNA sequence is not enough. The [[human genome]] encodes between 40,000 and 100,000 proteins (the [[proteome]]), and just as important as understanding the protein sequences is understanding their [[Protein structure prediction|three-dimensional structure]], how protein epxression is regulated, and how proteins interact.
Many methods exist to experimentally determine protein-protein interactions, including [[Affinity chromatography]], yeast [[two-hybrid screening]] techniques, [[fluorescence resonance energy transfer]] (FRET), and Surface Plasmon Resonance (SPR). However, with at least 40,000 unique protein sequences potentially available in every cell, the number of popssible interactions becomes so enormous that physical testing can only be performed on a small subset of the most interesting proteins. Protein-protein interaction prediction seeks to use advanced computational methods to rapidly investigate many possible interactions in order to identify those with the greatest potential for exerimental investigation. <!--potential for what? Needs to talk about drug discovery etc.-->
==Computational Methods==
Summary in general language, can refer to [[Protein structure prediction]], [[proteomics]], other concepts.
===Method 1===
Description can be somewhat more complext but not to the level of a technical journal
====Advantages and disadvantages====
===Method 2===
(if there are more than one important method)
====Advantages and disadvantages====
==Validation==
Predictions must be validated experimentally.
==Signifcant results==
(have any significant results happened because of PPIP yet--new drugs developed,for example, that started with PPIP rather than experimental methods)
==References==
==See also==
==External links==
*Online protein-protein interaction prediction services
**[http://advice.i2r.a-star.edu.sg/search/pair.php advice]
**[http://www-appn.comp.nus.edu.sg/~bioinfo/bayesprot/bayesprot.htm Bayesian Protein Prediction]
**[http://interdom.lit.org.sg/validate/index_inter.php InterDom]
**[http://www.russell.embl-heidelberg.de/people/patrick/interprets/interprets.html InterPreTS]
**[http://interweaver.i2r.a-star.edu.sg/report/demo.php InterWeaver]
**[http://cbi.labri.fr/outils/ippred/ Ippred]
**[http://ophid.utoronto.ca/ophid/ppi.html OPHID]
**[http://gordion.hpc.eng.ku.edu.tr/prism/predictions.php#online PRISM]
**[http://mysql5.mbi.ucla.edu/cgi-bin/functionator/pronav Prolinks]
**[http://www.protsuggest.org/main.html Protsuggest]
**[http://point.bioinformatics.tw/ POINT]
**[http://jing.cz3.nus.edu.sg/cgi-bin/svmprot.cgi SVMProt]
**[http://string.embl.de/ String]
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