POGO-DB—a database of pairwise-comparisons of genomes and conserved orthologous genes
نویسندگان
چکیده
منابع مشابه
POGO-DB—a database of pairwise-comparisons of genomes and conserved orthologous genes
POGO-DB (http://pogo.ece.drexel.edu/) provides an easy platform for comparative microbial genomics. POGO-DB allows users to compare genomes using pre-computed metrics that were derived from extensive computationally intensive BLAST comparisons of >2000 microbes. These metrics include (i) average protein sequence identity across all orthologs shared by two genomes, (ii) genomic fluidity (a measu...
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The database of Alignable Tight Genomic Clusters (ATGCs) consists of closely related genomes of archaea and bacteria, and is a resource for research into prokaryotic microevolution. Construction of a data set with appropriate characteristics is a major hurdle for this type of studies. With the current rate of genome sequencing, it is difficult to follow the progress of the field and to determin...
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The protein database of Clusters of Orthologous Groups (COGs) is an attempt to phylogenetically classify the complete complement of proteins (both predicted and characterized) encoded by complete genomes. Each COG is a group of three or more proteins that are inferred to be orthologs, i.e., they are direct evolutionary counterparts. The current release of the COGs database consists of 4,873 COG...
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MOTIVATION Following an extensive search for orthologous genes between the complete genomes from archaea and bacteria, the spatial association of the orthologs has been investigated in terms of synteny, the conservation of the order of neighboring genes. However, the relationships between the relative locations of remote orthologs over entire genomes have not been shown. RESULTS Comprehensive...
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In order to fully make use of the vast amount of information in the complete genome sequences, we are developing a genome-scale system for predicting gene functions and cellular functions. The system makes use of the information of sequence similarity, the information of positional correlations in the genome, and the reference knowledge stored as the ortholog group tables in KEGG (Kyoto Encyclo...
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ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2013
ISSN: 0305-1048,1362-4962
DOI: 10.1093/nar/gkt1094