Malin: maximum likelihood analysis of intron evolution in eukaryotes.

@article{citeulike:2800017, abstract = {SUMMARY: Malin is a software package for the analysis of eukaryotic gene structure evolution. It provides a graphical user interface for various tasks commonly used to infer the evolution of exon-intron structure in protein-coding orthologs. Implemented tasks include the identification of conserved homologous intron sites in protein alignments, as well as the estimation of ancestral intron content, lineage-specific intron losses and gains. Estimates are computed either with parsimony, or with a probabilistic model that incorporates rate variation across lineages and intron sites. AVAILABILITY: Availability: Malin is available as a stand-alone Java application, as well as an application bundle for MacOS X, at the website http://www.iro.umontreal.ca/~csuros/introns/malin/. The software is distributed under a BSD-style license. CONTACT: csuros@iro.umontreal.ca.}, address = {Department of Computer Science and Operations Research, University of Montr\'{e}al, Montr\'{e}al,Qu\'{e}bec, Canada. Collegium Budapest Institute for Advanced Study, Budapest, Hungary.}, author = {Csur \"{O}s, Mikl\'{o}s }, citeulike-article-id = {2800017}, issn = {1460-2059}, journal = {Bioinformatics (Oxford, England)}, keywords = {intron\_evolution, intron\_gain, intron\_loss, methods}, month = {May}, posted-at = {2008-05-14 22:09:51}, priority = {2}, title = {Malin: maximum likelihood analysis of intron evolution in eukaryotes.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/18474506}, year = {2008} }

TY - JOUR ID - citeulike:2800017 L3 - citeulike-article-id:2800017 TI - Malin: maximum likelihood analysis of intron evolution in eukaryotes. JF - Bioinformatics (Oxford, England) AD - Department of Computer Science and Operations Research, University of Montréal, Montréal,Québec, Canada. Collegium Budapest Institute for Advanced Study, Budapest, Hungary. SN - 1460-2059 N2 - SUMMARY: Malin is a software package for the analysis of eukaryotic gene structure evolution. It provides a graphical user interface for various tasks commonly used to infer the evolution of exon-intron structure in protein-coding orthologs. Implemented tasks include the identification of conserved homologous intron sites in protein alignments, as well as the estimation of ancestral intron content, lineage-specific intron losses and gains. Estimates are computed either with parsimony, or with a probabilistic model that incorporates rate variation across lineages and intron sites. AVAILABILITY: Availability: Malin is available as a stand-alone Java application, as well as an application bundle for MacOS X, at the website http://www.iro.umontreal.ca/~csuros/introns/malin/. The software is distributed under a BSD-style license. CONTACT: csuros@iro.umontreal.ca. KW - intron_evolution KW - intron_gain KW - intron_loss KW - methods AU - Csur Ös, Miklós PY - 2008/05/12/ UR - http://view.ncbi.nlm.nih.gov/pubmed/18474506 ER -