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BLAST algorithm

Rapid Annotation of Anonymous Sequences from Genome Projects Using Semantic Similarities and a Weighting Scheme in Gene Ontology

Paolo Fontana, Alessandro Cestaro, [ ... ], Stefano Toppo

Using Sequence Similarity Networks for Visualization of Relationships Across Diverse Protein Superfamilies

Holly J. Atkinson, John H. Morris, Thomas E. Ferrin, Patricia C. Babbitt

FastBLAST: Homology Relationships for Millions of Proteins

Morgan N. Price, Paramvir S. Dehal, Adam P. Arkin

High-Throughput, Kingdom-Wide Prediction and Annotation of Bacterial Non-Coding RNAs

Jonathan Livny, Hidayat Teonadi, Miron Livny, Matthew K. Waldor

Preservation of Genes Involved in Sterol Metabolism in Cholesterol Auxotrophs: Facts and Hypotheses

Giovanna Vinci, Xuhua Xia, Reiner A. Veitia

Comparative Analysis of Human Gut Microbiota by Barcoded Pyrosequencing

Anders F. Andersson, Mathilda Lindberg, [ ... ], Lars Engstrand

Simultaneous Assessment of Soil Microbial Community Structure and Function through Analysis of the Meta-Transcriptome

Tim Urich, Anders Lanzén, [ ... ], Stephan C. Schuster

iTools: A Framework for Classification, Categorization and Integration of Computational Biology Resources

Ivo D. Dinov, Daniel Rubin, [ ... ], Arthur W. Toga

DNA Barcoding in the Cycadales: Testing the Potential of Proposed Barcoding Markers for Species Identification of Cycads

Chodon Sass, Damon P. Little, Dennis Wm. Stevenson, Chelsea D. Specht

SLiMFinder: A Probabilistic Method for Identifying Over-Represented, Convergently Evolved, Short Linear Motifs in Proteins

Richard J. Edwards, Norman E. Davey, Denis C. Shields

Analysis of Expressed Sequence Tags of the Cyclically Parthenogenetic Rotifer Brachionus plicatilis

Koushirou Suga, David Mark Welch, [ ... ], Atsushi Hagiwara

Assessing Performance of Orthology Detection Strategies Applied to Eukaryotic Genomes

Feng Chen, Aaron J. Mackey, Jeroen K. Vermunt, David S. Roos

Taxonomic Reliability of DNA Sequences in Public Sequence Databases: A Fungal Perspective

R. Henrik Nilsson, Martin Ryberg, [ ... ], Urmas Kõljalg

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