M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species Export

@article{citeulike:885153, abstract = {BACKGROUND:Due to recent advances in whole genome shotgun sequencing and assembly technologies, the financial cost of decoding an organism's DNA has been drastically reduced, resulting in a recent explosion of genomic sequencing projects. This increase in related genomic data will allow for in depth studies of evolution in closely related species through multiple whole genome comparisons.RESULTS:To facilitate such comparisons, we present an interactive multiple genome comparison and alignment tool, M-GCAT, that can efficiently construct multiple genome comparison frameworks in closely related species. M-GCAT is able to compare and identify highly conserved regions in up to 20 closely related bacterial species in minutes on a standard computer, and as many as 90 (containing 75 cloned genomes from a set of 15 published enterobacterial genomes) in an hour. M-GCAT also incorporates a novel comparative genomics data visualization interface allowing the user to globally and locally examine and inspect the conserved regions and gene annotations.CONCLUSION:M-GCAT is an interactive comparative genomics tool well suited for quickly generating multiple genome comparisons frameworks and alignments among closely related species. M-GCAT is freely available for download for academic and non-commercial use at: http://alggen.lsi.upc.es/recerca/align/mgcat/intro-mgcat.html.}, author = {Treangen, Todd and Messeguer, Xavier}, citeulike-article-id = {885153}, citeulike-linkout-0 = {http://dx.doi.org/10.1186/1471-2105-7-433}, citeulike-linkout-1 = {http://view.ncbi.nlm.nih.gov/pubmed/17022809}, citeulike-linkout-2 = {http://www.hubmed.org/display.cgi?uids=17022809}, day = {05}, doi = {10.1186/1471-2105-7-433}, issn = {1471-2105}, journal = {BMC Bioinformatics}, keywords = {alignment, bacteria, closely-related, comparison, genome, software}, month = {October}, number = {1}, pages = {433+}, posted-at = {2006-11-08 14:18:11}, priority = {3}, title = {M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species}, url = {http://dx.doi.org/10.1186/1471-2105-7-433}, volume = {7}, year = {2006} }

TY - JOUR ID - citeulike:885153 L3 - citeulike-article-id:885153 N2 - BACKGROUND:Due to recent advances in whole genome shotgun sequencing and assembly technologies, the financial cost of decoding an organism's DNA has been drastically reduced, resulting in a recent explosion of genomic sequencing projects. This increase in related genomic data will allow for in depth studies of evolution in closely related species through multiple whole genome comparisons.RESULTS:To facilitate such comparisons, we present an interactive multiple genome comparison and alignment tool, M-GCAT, that can efficiently construct multiple genome comparison frameworks in closely related species. M-GCAT is able to compare and identify highly conserved regions in up to 20 closely related bacterial species in minutes on a standard computer, and as many as 90 (containing 75 cloned genomes from a set of 15 published enterobacterial genomes) in an hour. M-GCAT also incorporates a novel comparative genomics data visualization interface allowing the user to globally and locally examine and inspect the conserved regions and gene annotations.CONCLUSION:M-GCAT is an interactive comparative genomics tool well suited for quickly generating multiple genome comparisons frameworks and alignments among closely related species. M-GCAT is freely available for download for academic and non-commercial use at: http://alggen.lsi.upc.es/recerca/align/mgcat/intro-mgcat.html. IS - 1 JF - BMC Bioinformatics SN - 1471-2105 TI - M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species VL - 7 SP - 433 KW - alignment KW - bacteria KW - closely-related KW - comparison KW - genome KW - software AU - Treangen, Todd AU - Messeguer, Xavier PY - 2006/10/05/ UR - http://dx.doi.org/10.1186/1471-2105-7-433 ER -