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BMCBI
2011
13 years 3 months ago
N-gram analysis of 970 microbial organisms reveals presence of biological language models
Background: It has been suggested previously that genome and proteome sequences show characteristics typical of natural-language texts such as “signature-style” word usage ind...
Hatice U. Osmanbeyoglu, Madhavi Ganapathiraju
BMCBI
2011
13 years 3 months ago
PICS-Ord: Unlimited Coding of Ambiguous Regions by Pairwise Identity and Cost Scores Ordination
Background: We present a novel method to encode ambiguously aligned regions in fixed multiple sequence alignments by ‘Pairwise Identity and Cost Scores Ordination’ (PICS-Ord)....
Robert K. Luecking, Brendan P. Hodkinson, Alexandr...
BMCBI
2011
13 years 3 months ago
Worm Phenotype Ontology: integrating phenotype data within and beyond the C. elegans community
Background: Caenorhabditis elegans gene-based phenotype information dates back to the 1970’s, beginning with Sydney Brenner and the characterization of behavioral and morphologi...
Gary Schindelman, Jolene Fernandes, Carol Bastiani...
BMCBI
2011
13 years 3 months ago
pROC: an open-source package for R and S+ to analyze and compare ROC curves
Background: Receiver operating characteristic (ROC) curves are useful tools to evaluate classifiers in biomedical and bioinformatics applications. However, conclusions are often r...
Xavier Robin, Natacha Turck, Alexandre Hainard, Na...
BMCBI
2011
13 years 3 months ago
Detection of viral sequence fragments of HIV-1 subfamilies yet unknown
Background: Methods of determining whether or not any particular HIV-1 sequence stems - completely or in part - from some unknown HIV-1 subtype are important for the design of vac...
Thomas Unterthiner, Anne-Kathrin Schultz, Jan Bull...
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