Differences between pair-wise and multi-sequence alignment methods affect vertebrate genome comparisons Export

@article{citeulike:622904, abstract = {Producing complete and accurate alignments of multiple genomic sequences is complex and prone to errors, especially with sequences generated from highly diverged species. In this article, we show that multi-sequence (as opposed to pair-wise) alignment methods are substantially better at aligning (or 'capturing') all of the available orthologous sequence from phylogenetically diverse vertebrates (i.e. those separated by relatively long branch lengths). Maximum gains are obtained only when sequences from many species are aligned. Such multi-sequence alignments contain significant amounts of exonic and highly conserved non-exonic sequences that are not captured in pair-wise alignments, thus illustrating the importance of the alignment method used for performing comparative genome analyses.}, author = {Margulies, Elliott H. and Chen, Christina W. and Green, Eric D.}, citeulike-article-id = {622904}, citeulike-linkout-0 = {http://dx.doi.org/10.1016/j.tig.2006.02.005}, citeulike-linkout-1 = {http://linkinghub.elsevier.com/retrieve/pii/S0168952506000540}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/16499991}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=16499991}, citeulike-linkout-4 = {http://www.sciencedirect.com/science/article/B6TCY-4JBGHS7-3/2/66109a75c8cd1adf3d5d3a6906792365}, comment = {This paper asserts that multisequence (vs. pairwise) alignments are more powerful than pairwise methods. }, doi = {10.1016/j.tig.2006.02.005}, journal = {Trends in Genetics}, keywords = {alignment, comparative, genomics}, month = {April}, number = {4}, pages = {187--193}, posted-at = {2006-07-11 23:30:45}, priority = {4}, title = {Differences between pair-wise and multi-sequence alignment methods affect vertebrate genome comparisons}, url = {http://dx.doi.org/10.1016/j.tig.2006.02.005}, volume = {22}, year = {2006} }

TY - JOUR ID - citeulike:622904 L3 - citeulike-article-id:622904 N2 - Producing complete and accurate alignments of multiple genomic sequences is complex and prone to errors, especially with sequences generated from highly diverged species. In this article, we show that multi-sequence (as opposed to pair-wise) alignment methods are substantially better at aligning (or 'capturing') all of the available orthologous sequence from phylogenetically diverse vertebrates (i.e. those separated by relatively long branch lengths). Maximum gains are obtained only when sequences from many species are aligned. Such multi-sequence alignments contain significant amounts of exonic and highly conserved non-exonic sequences that are not captured in pair-wise alignments, thus illustrating the importance of the alignment method used for performing comparative genome analyses. IS - 4 JF - Trends in Genetics EP - 193 TI - Differences between pair-wise and multi-sequence alignment methods affect vertebrate genome comparisons VL - 22 SP - 187 KW - alignment KW - comparative KW - genomics N1 - This paper asserts that multisequence (vs. pairwise) alignments are more powerful than pairwise methods. AU - Margulies, Elliott AU - Chen, Christina AU - Green, Eric PY - 2006/04// UR - http://dx.doi.org/10.1016/j.tig.2006.02.005 ER -