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M2SG: A MUTATION DATABASE VALIDATED AT PROTEOMIC AND GENOMIC LEVEL |
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Online Mendelian Inheritance in Man (OMIM)(McKusick 2007) is a manually curated compendium of human genetic variants and the corre-sponding phenotypes, mostly human diseases. Instead of directly documenting the native sequences for gene entries, OMIM links them to protein sequences and DNA sequences in other databases. However, due to the differing choice of gene isoforms and errors in OMIM records, mapping a specific OMIM mutation to its corresponding protein sequence is not trivial, and completely automated procedure could not generate satisfactory results. Combining computer programs and extensive manual curation of OMIM full-text description and original literature, we mapped 98% OMIM amino acid sub-stitutions (AASs) and 100% disease-related AASs in SwissProt to reference sequences from SwissProt and confidently mapped 99.9% of them to the genomic loci. Based on the results, we developed an online database and interactive web server (M2SG) to retrieve the mapped OMIM and SwissProt variants for a given protein sequence or related proteins and mutations for an input phenotype. This database will be useful for analyzing sequences, understanding the effect of mutations, identifying important genetic variations and de-signing experiments on a protein of interest.
AVAILABILITY:The database and web server is freely available at http://prodata.swmed.edu/M2S/mut2seq.cgi.The database could be queried by protein sequence, OMIM entry number, UniProt accession, protein name, gene name or disease phenotype and it would return the web page for the most relevant protein and the mapped mutations.
You may download the whole M2SG datagbase in the comma-separated values (CSV) file format if you are interested in massive processing. Click here to download.
CURRENT VERSIONS:Online Mendelian Inheritance in Man (OMIM): March 2012
SwissProt Variant database: March 2012
UniProt Reference Sequence FASTA files: March 2012