About: The porcine translational research database: a manually curated, genomics and proteomics-based research resource

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About: The porcine translational research database: a manually curated, genomics and proteomics-based research resource Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	The porcine translational research database: a manually curated, genomics and proteomics-based research resource
Creator	Chen, Celine Gaynor, Brady Shao, Jonathan Dawson, Harry Urban, Joseph
Source	Medline; PMC
abstract	BACKGROUND: The use of swine in biomedical research has increased dramatically in the last decade. Diverse genomic- and proteomic databases have been developed to facilitate research using human and rodent models. Current porcine gene databases, however, lack the robust annotation to study pig models that are relevant to human studies and for comparative evaluation with rodent models. Furthermore, they contain a significant number of errors due to their primary reliance on machine-based annotation. To address these deficiencies, a comprehensive literature-based survey was conducted to identify certain selected genes that have demonstrated function in humans, mice or pigs. RESULTS: The process identified 13,054 candidate human, bovine, mouse or rat genes/proteins used to select potential porcine homologs by searching multiple online sources of porcine gene information. The data in the Porcine Translational Research Database ((http://www.ars.usda.gov/Services/docs.htm?docid=6065) is supported by >5800 references, and contains 65 data fields for each entry, including >9700 full length (5′ and 3′) unambiguous pig sequences, >2400 real time PCR assays and reactivity information on >1700 antibodies. It also contains gene and/or protein expression data for >2200 genes and identifies and corrects 8187 errors (gene duplications artifacts, mis-assemblies, mis-annotations, and incorrect species assignments) for 5337 porcine genes. CONCLUSIONS: This database is the largest manually curated database for any single veterinary species and is unique among porcine gene databases in regard to linking gene expression to gene function, identifying related gene pathways, and connecting data with other porcine gene databases. This database provides the first comprehensive description of three major Super-families or functionally related groups of proteins (Cluster of Differentiation (CD) Marker genes, Solute Carrier Superfamily, ATP binding Cassette Superfamily), and a comparative description of porcine microRNAs. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12864-017-4009-7) contains supplementary material, which is available to authorized users.
has issue date	2017-08-22(xsd:dateTime)
bibo:doi	10.1186/s12864-017-4009-7
bibo:pmid	28830355
has license	cc-by
sha1sum (hex)	67a33cdb3341a7385fe74d41f0ba2b9e22f68300
schema:url	https://doi.org/10.1186/s12864-017-4009-7
resource representing a document's title	The porcine translational research database: a manually curated, genomics and proteomics-based research resource
has PubMed Central identifier	PMC5568366
has PubMed identifier	28830355
schema:publication	BMC Genomics
resource representing a document's body	covid:67a33cdb3341a7385fe74d41f0ba2b9e22f68300#body_text
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