Title |
Genomic analyses with biofilter 2.0: knowledge driven filtering, annotation, and model development
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Published in |
BioData Mining, December 2013
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DOI | 10.1186/1756-0381-6-25 |
Pubmed ID | |
Authors |
Sarah A Pendergrass, Alex Frase, John Wallace, Daniel Wolfe, Neerja Katiyar, Carrie Moore, Marylyn D Ritchie |
Abstract |
The ever-growing wealth of biological information available through multiple comprehensive database repositories can be leveraged for advanced analysis of data. We have now extensively revised and updated the multi-purpose software tool Biofilter that allows researchers to annotate and/or filter data as well as generate gene-gene interaction models based on existing biological knowledge. Biofilter now has the Library of Knowledge Integration (LOKI), for accessing and integrating existing comprehensive database information, including more flexibility for how ambiguity of gene identifiers are handled. We have also updated the way importance scores for interaction models are generated. In addition, Biofilter 2.0 now works with a range of types and formats of data, including single nucleotide polymorphism (SNP) identifiers, rare variant identifiers, base pair positions, gene symbols, genetic regions, and copy number variant (CNV) location information. |
X Demographics
Geographical breakdown
Country | Count | As % |
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United States | 2 | 33% |
France | 1 | 17% |
China | 1 | 17% |
Unknown | 2 | 33% |
Demographic breakdown
Type | Count | As % |
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Scientists | 4 | 67% |
Members of the public | 2 | 33% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
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United States | 3 | 6% |
Sweden | 1 | 2% |
Denmark | 1 | 2% |
Italy | 1 | 2% |
Unknown | 47 | 89% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Researcher | 16 | 30% |
Student > Ph. D. Student | 13 | 25% |
Student > Master | 5 | 9% |
Professor > Associate Professor | 4 | 8% |
Student > Doctoral Student | 3 | 6% |
Other | 8 | 15% |
Unknown | 4 | 8% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 27 | 51% |
Biochemistry, Genetics and Molecular Biology | 11 | 21% |
Computer Science | 3 | 6% |
Medicine and Dentistry | 2 | 4% |
Chemical Engineering | 1 | 2% |
Other | 3 | 6% |
Unknown | 6 | 11% |