TAILIEUCHUNG - Báo cáo sinh học: "Syntenator: Multiple gene order alignments with a gene-specific scoring function"

Tuyển tập các báo cáo nghiên cứu về sinh học được đăng trên tạp chí y học Molecular Biology cung cấp cho các bạn kiến thức về ngành sinh học đề tài: Syntenator: Multiple gene order alignments with a gene-specific scoring function. | Algorithms for Molecular Biology BioMed Central Open Access Software article Syntenator Multiple gene order alignments with a gene-specific scoring function Christian Rodelsperger1 2 and Christoph Dieterich 1 Address Department of Evolutionary Biology Max Planck Institute for Developmental Biology Spemannstrasse 35 Tubingen Germany and institute of Medical Genetics Charité University Hospital Berlin Germany Email Christian Christoph Dieterich - Corresponding author Published 6 November 2008 Received 20 June 2008 Algorithms for Molecular Biology 2008 3 14 doi 1748-7188-3-14 Accepted 6 November 2008 This article is available from http content 3 1 14 2008 Rodelsperger and Dieterich licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License http licenses by which permits unrestricted use distribution and reproduction in any medium provided the original work is properly cited. Abstract Background Identification of homologous regions or conserved syntenies across genomes is one crucial step in comparative genomics. This task is usually performed by genome alignment softwares like WABA or blastz. In case of conserved syntenies such regions are defined as conserved gene orders. On the gene order level homologous regions can even be found between distantly related genomes which do not align on the nucleotide sequence level. Results We present a novel approach to identify regions of conserved synteny across multiple genomes. Syntenator represents genomes and alignments thereof as partial order graphs POGs . These POGs are aligned by a dynamic programming approach employing a gene-specific scoring function. The scoring function reflects the level of protein sequence similarity for each .

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