Linked Life Data

16845017

Source:http://linkedlifedata.com/resource/pubmed/id/16845017

Statements in which the resource exists as a subject.
PredicateObject
rdf:type
lifeskim:mentions
pubmed:issue
Web Server issue
pubmed:dateCreated
2006-7-17
pubmed:abstractText
An entire family of methodologies for predicting protein interactions is based on the observed fact that families of interacting proteins tend to have similar phylogenetic trees due to co-evolution. One application of this concept is the prediction of the mapping between the members of two interacting protein families (which protein within one family interacts with which protein within the other). The idea is that the real mapping would be the one maximizing the similarity between the trees. Since the exhaustive exploration of all possible mappings is not feasible for large families, current approaches use heuristic techniques which do not ensure the best solution to be found. This is why it is important to check the results proposed by heuristic techniques and to manually explore other solutions. Here we present TSEMA, the server for efficient mapping assessment. This system calculates an initial mapping between two families of proteins based on a Monte Carlo approach and allows the user to interactively modify it based on performance figures and/or specific biological knowledge. All the explored mappings are graphically shown over a representation of the phylogenetic trees. The system is freely available at http://pdg.cnb.uam.es/TSEMA. Standalone versions of the software behind the interface are available upon request from the authors.
pubmed:commentsCorrections
http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-10860738, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-10958638, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-11707606, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-12614624, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-12824352, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-14594708, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-14764552, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-15215353, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-15961463, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-15994190, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-16139301, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-8855667, http://linkedlifedata.com/resource/pubmed/commentcorrection/16845017-8905155
pubmed:language
eng
pubmed:journal
pubmed:citationSubset
IM
pubmed:chemical
pubmed:status
MEDLINE
pubmed:month
Jul
pubmed:issn
1362-4962
pubmed:author
pubmed:issnType
Electronic
pubmed:day
1
pubmed:volume
34
pubmed:owner
NLM
pubmed:authorsComplete
Y
pubmed:pagination
W315-9
pubmed:dateRevised
2009-11-18
pubmed:meshHeading
pubmed:year
2006
pubmed:articleTitle
TSEMA: interactive prediction of protein pairings between interacting families.
pubmed:affiliation
National Center for Biotechnology (CNB-CSIC) C/Darwin, 3 Cantoblanco, 28049 Madrid, Spain.
pubmed:publicationType
Journal Article, Research Support, Non-U.S. Gov't