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» Adversarial Sequence Prediction
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139
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BMCBI
2010
101views more  BMCBI 2010»
15 years 3 months ago
Enrichment of homologs in insignificant BLAST hits by co-complex network alignment
Background: Homology is a crucial concept in comparative genomics. The algorithm probably most widely used for homology detection in comparative genomics, is BLAST. Usually a stri...
Like Fokkens, Sandra M. C. Botelho, Jos Boekhorst,...
114
Voted
BMCBI
2008
87views more  BMCBI 2008»
15 years 3 months ago
Identification of deleterious non-synonymous single nucleotide polymorphisms using sequence-derived information
Background: As the number of non-synonymous single nucleotide polymorphisms (nsSNPs), also known as single amino acid polymorphisms (SAPs), increases rapidly, computational method...
Jing Hu, Changhui Yan
122
Voted
BMCBI
2008
109views more  BMCBI 2008»
15 years 3 months ago
LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons
Background: Transposable elements are abundant in eukaryotic genomes and it is believed that they have a significant impact on the evolution of gene and chromosome structure. Whil...
David Ellinghaus, Stefan Kurtz, Ute Willhoeft
147
Voted
BMCBI
2008
128views more  BMCBI 2008»
15 years 3 months ago
Validation of an NSP-based (negative selection pattern) gene family identification strategy
Background: Gene family identification from ESTs can be a valuable resource for analysis of genome evolution but presents unique challenges in organisms for which the entire genom...
Ronald L. Frank, Cyriac Kandoth, Fikret Erç...
142
Voted
BMCBI
2006
120views more  BMCBI 2006»
15 years 3 months ago
Integrating protein structures and precomputed genealogies in the Magnum database: Examples with cellular retinoid binding prote
Background: When accurate models for the divergent evolution of protein sequences are integrated with complementary biological information, such as folded protein structures, anal...
Michael E. Bradley, Steven A. Benner