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CoagVDb: a comprehensive database for coagulation factors and their associated SAPs

dc.creatorAli,Shabana Kouser
dc.creatorGeorge Priya Doss,C
dc.creatorThirumal Kumar,D
dc.creatorZhu,Hailong
dc.date2015-01-01
dc.date.accessioned2019-05-02T21:22:28Z
dc.date.available2019-05-02T21:22:28Z
dc.identifierhttps://scielo.conicyt.cl/scielo.php?script=sci_arttext&pid=S0716-97602015000100035
dc.identifier.urihttp://revistaschilenas.uchile.cl/handle/2250/82545
dc.descriptionThe current state of the art in medical genetics is to identify and classify the functional (deleterious) or non-functional (neutral) single amino acid substitutions (SAPs), also known as non-synonymous SNPs (nsSNPs). The primary goal is to elucidate the mechanisms through which functional SAPs exert their effects, and ultimately interrogating this information for association with complex phenotypes. This work focuses on coagulation factors involved in the coagulation cascade pathway which plays a vital role in the maintenance of homeostasis in the human system. We developed an integrated coagulation variation database, CoagVDb, which makes use of the biological information from various public databases such as NCBI, OMIM, UniProt, PDB and SAPs (rsIDs/variant). CoagVDb enriched with computational prediction scores classify SAPs as either deleterious or tolerated. Also, various other properties are incorporated such as amino acid composition, secondary structure elements, solvent accessibility, ordered/disordered regions, conservation, and the presence of disulfide bonds. This specialized database provides integration of various prediction scores from different computational methods along with gene, protein, and disease information. We hope our database will act as a useful reference resource for hematologists to reveal protein structure-function relationship and disease genotype-phenotype correlation.
dc.formattext/html
dc.languageen
dc.publisherSociedad de Biología de Chile
dc.relation10.1186S/40659-015-0028-5
dc.rightsinfo:eu-repo/semantics/openAccess
dc.sourceBiological Research v.48 2015
dc.subjectCoagulation cascade pathway
dc.subjectCoagulation factor proteins
dc.subjectSingle amino acid substitutions
dc.subjectSIFT
dc.subjectPolyPhen 2
dc.subjectI-Mutant 3
dc.subjectFathmm
dc.subjectAlign GVGD
dc.subjectPhD-SNP
dc.subjectSNPs& GO
dc.subjectSNAP
dc.titleCoagVDb: a comprehensive database for coagulation factors and their associated SAPs


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