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BMCBI
2008
77views more  BMCBI 2008»
13 years 10 months ago
SeqAn An efficient, generic C++ library for sequence analysis
Background: The use of novel algorithmic techniques is pivotal to many important problems in life science. For example the sequencing of the human genome [1] would not have been p...
Andreas Döring, David Weese, Tobias Rausch, K...
BMCBI
2008
150views more  BMCBI 2008»
13 years 10 months ago
Natural Language Processing in aid of FlyBase curators
Background: Despite increasing interest in applying Natural Language Processing (NLP) to biomedical text, whether this technology can facilitate tasks such as database curation re...
Nikiforos Karamanis, Ruth Seal, Ian Lewin, Peter M...
BMCBI
2008
166views more  BMCBI 2008»
13 years 10 months ago
Biclustering via optimal re-ordering of data matrices in systems biology: rigorous methods and comparative studies
Background: The analysis of large-scale data sets via clustering techniques is utilized in a number of applications. Biclustering in particular has emerged as an important problem...
Peter A. DiMaggio Jr., Scott R. McAllister, Christ...
BMCBI
2008
131views more  BMCBI 2008»
13 years 10 months ago
CoCoNUT: an efficient system for the comparison and analysis of genomes
Background: Comparative genomics is the analysis and comparison of genomes from different species. This area of research is driven by the large number of sequenced genomes and hea...
Mohamed Ibrahim Abouelhoda, Stefan Kurtz, Enno Ohl...
BMCBI
2008
87views more  BMCBI 2008»
13 years 10 months ago
Evaluation of two methods for computational HLA haplotypes inference using a real dataset
Background: HLA haplotype analysis has been used in population genetics and in the investigation of disease-susceptibility locus, due to its high polymorphism. Several methods for...
Bruno F. Bettencourt, Margarida R. Santos, Raquel ...
BMCBI
2008
120views more  BMCBI 2008»
13 years 10 months ago
DBMLoc: a Database of proteins with multiple subcellular localizations
Background: Subcellular localization information is one of the key features to protein function research. Locating to a specific subcellular compartment is essential for a protein...
Song Zhang, Xuefeng Xia, Jincheng Shen, Yun Zhou, ...
BMCBI
2008
139views more  BMCBI 2008»
13 years 10 months ago
The C1C2: A framework for simultaneous model selection and assessment
Background: There has been recent concern regarding the inability of predictive modeling approaches to generalize to new data. Some of the problems can be attributed to improper m...
Martin Eklund, Ola Spjuth, Jarl E. S. Wikberg
BMCBI
2008
87views more  BMCBI 2008»
13 years 10 months ago
Volume-based solvation models out-perform area-based models in combined studies of wild-type and mutated protein-protein interfa
Background: Empirical binding models have previously been investigated for the energetics of protein complexation (G models) and for the influence of mutations on complexation (i....
Salim Bougouffa, Jim Warwicker
BMCBI
2008
100views more  BMCBI 2008»
13 years 10 months ago
Extracting unrecognized gene relationships from the biomedical literature via matrix factorizations
Background: The construction of literature-based networks of gene-gene interactions is one of the most important applications of text mining in bioinformatics. Extracting potentia...
Hyunsoo Kim, Haesun Park, Barry L. Drake