Protein ranking: from local to global structure in the protein similarity network. Export

@article{citeulike:423505, abstract = {Biologists regularly search databases of DNA or protein sequences for evolutionary or functional relationships to a given query sequence. We describe a ranking algorithm that exploits the entire network structure of similarity relationships among proteins in a sequence database by performing a diffusion operation on a precomputed, weighted network. The resulting ranking algorithm, evaluated by using a human-curated database of protein structures, is efficient and provides significantly better rankings than a local network search algorithm such as psi-blast.}, address = {NEC Laboratories America, 4 Independence Way, Princeton, NJ 08540, USA.}, author = {Weston, J. and Elisseeff, A. and Zhou, D. and Leslie, C. S. and Noble, W. S.}, citeulike-article-id = {423505}, citeulike-linkout-0 = {http://dx.doi.org/10.1073/pnas.0308067101}, citeulike-linkout-1 = {http://www.pnas.org/content/101/17/6559.full.abstract}, citeulike-linkout-2 = {http://www.pnas.org/content/101/17/6559.full.full.pdf}, citeulike-linkout-3 = {http://www.pnas.org/cgi/content/abstract/101/17/6559}, citeulike-linkout-4 = {http://view.ncbi.nlm.nih.gov/pubmed/15087500}, citeulike-linkout-5 = {http://www.hubmed.org/display.cgi?uids=15087500}, day = {27}, doi = {10.1073/pnas.0308067101}, issn = {0027-8424}, journal = {Proc Natl Acad Sci U S A}, keywords = {networks, protein, similarity}, month = {April}, number = {17}, pages = {6559--6563}, posted-at = {2009-01-09 20:20:16}, priority = {4}, title = {Protein ranking: from local to global structure in the protein similarity network.}, url = {http://dx.doi.org/10.1073/pnas.0308067101}, volume = {101}, year = {2004} }

TY - JOUR ID - citeulike:423505 L3 - citeulike-article-id:423505 N2 - Biologists regularly search databases of DNA or protein sequences for evolutionary or functional relationships to a given query sequence. We describe a ranking algorithm that exploits the entire network structure of similarity relationships among proteins in a sequence database by performing a diffusion operation on a precomputed, weighted network. The resulting ranking algorithm, evaluated by using a human-curated database of protein structures, is efficient and provides significantly better rankings than a local network search algorithm such as psi-blast. IS - 17 JF - Proc Natl Acad Sci U S A SN - 0027-8424 AD - NEC Laboratories America, 4 Independence Way, Princeton, NJ 08540, USA. EP - 6563 TI - Protein ranking: from local to global structure in the protein similarity network. VL - 101 SP - 6559 KW - networks KW - protein KW - similarity AU - Weston, J AU - Elisseeff, A AU - Zhou, D AU - Leslie, CS AU - Noble, WS PY - 2004/04/27/ UR - http://dx.doi.org/10.1073/pnas.0308067101 ER -