GeoBoost: accelerating research involving the geospatial metadata of virus GenBank records | Zendy

Tasnia Tahsin | Zendy; Davy Weissenbacher | Zendy; Karen O’Connor | Zendy; Arjun Magge | Zendy; Matthew Scotch | Zendy; Graciela GonzalezHernandez | Zendy

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GeoBoost: accelerating research involving the geospatial metadata of virus GenBank records

Author(s) -

Tasnia Tahsin,

Davy Weissenbacher,

Karen O’Connor,

Arjun Magge,

Matthew Scotch,

Graciela GonzalezHernandez

Publication year - 2017

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btx799

Subject(s) - genbank , computer science , metadata , geospatial analysis , software , accession number (library science) , host (biology) , download , set (abstract data type) , database , data mining , information retrieval , world wide web , operating system , programming language , geography , biology , cartography , ecology , biochemistry , gene

GeoBoost is a command-line software package developed to address sparse or incomplete metadata in GenBank sequence records that relate to the location of the infected host (LOIH) of viruses. Given a set of GenBank accession numbers corresponding to virus GenBank records, GeoBoost extracts, integrates and normalizes geographic information reflecting the LOIH of the viruses using integrated information from GenBank metadata and related full-text publications. In addition, to facilitate probabilistic geospatial modeling, GeoBoost assigns probability scores for each possible LOIH.

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