BLASTO: a tool for searching orthologous groups Export

@article{citeulike:1652118, abstract = {We present BLAST on Orthologous groups (BLASTO), a modified BLAST tool for searching orthologous group data. It treats each orthologous group as a unit and outputs a ranked list of orthologous groups instead of single sequences. By filtering out redundancy and putative paralogs, sequence comparisons to orthologous groups, instead of to single sequences in the database, can improve both functional prediction and phylogenetic inference. BLASTO computes the significance score of each orthologous group based on the individual BLAST hits in the orthologous group, using the number of taxa in the group as an optional weight. This allows users to control the species diversity of the orthologous groups. BLASTO incorporates the best-known multispecies ortholog databases, including NCBI Clusters of Orthologous Group, NCBI euKaryotic Orthologous Group database, OrthoMCL, MultiParanoid and TIGR Eukaryotic Gene Orthologues database, and offers a useful platform to integrate orthology information into functional inference and evolutionary studies of individual sequences. BLASTO is accessible online at http://oxytricha.princeton.edu/BlastO. 10.1093/nar/gkm278}, address = {Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ 08544, USA.}, author = {Zhou, Yi and Landweber, Laura F.}, citeulike-article-id = {1652118}, citeulike-linkout-0 = {http://dx.doi.org/10.1093/nar/gkm278}, citeulike-linkout-1 = {http://nar.oxfordjournals.org/cgi/content/abstract/35/suppl_2/W678}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/17483516}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=17483516}, day = {13}, doi = {10.1093/nar/gkm278}, issn = {1362-4962}, journal = {Nucl. Acids Res.}, keywords = {algorithm, blast, ortholog}, month = {July}, number = {suppl\_2}, pages = {W678--682}, posted-at = {2009-08-12 11:54:41}, priority = {2}, title = {BLASTO: a tool for searching orthologous groups}, url = {http://dx.doi.org/10.1093/nar/gkm278}, volume = {35}, year = {2007} }

TY - JOUR ID - citeulike:1652118 L3 - citeulike-article-id:1652118 N2 - We present BLAST on Orthologous groups (BLASTO), a modified BLAST tool for searching orthologous group data. It treats each orthologous group as a unit and outputs a ranked list of orthologous groups instead of single sequences. By filtering out redundancy and putative paralogs, sequence comparisons to orthologous groups, instead of to single sequences in the database, can improve both functional prediction and phylogenetic inference. BLASTO computes the significance score of each orthologous group based on the individual BLAST hits in the orthologous group, using the number of taxa in the group as an optional weight. This allows users to control the species diversity of the orthologous groups. BLASTO incorporates the best-known multispecies ortholog databases, including NCBI Clusters of Orthologous Group, NCBI euKaryotic Orthologous Group database, OrthoMCL, MultiParanoid and TIGR Eukaryotic Gene Orthologues database, and offers a useful platform to integrate orthology information into functional inference and evolutionary studies of individual sequences. BLASTO is accessible online at http://oxytricha.princeton.edu/BlastO. 10.1093/nar/gkm278 IS - suppl_2 JF - Nucl. Acids Res. SN - 1362-4962 AD - Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ 08544, USA. EP - 682 TI - BLASTO: a tool for searching orthologous groups VL - 35 SP - W678 KW - algorithm KW - blast KW - ortholog AU - Zhou, Yi AU - Landweber, Laura PY - 2007/07/13/ UR - http://dx.doi.org/10.1093/nar/gkm278 ER -