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Previous Next 		Contents: Volume 22, Number 5, 1 March 2006   [Index by Author] 
       ORIGINAL PAPERS
                GENOME ANALYSIS
                SEQUENCE ANALYSIS
                STRUCTURAL BIOINFORMATICS
                GENE EXPRESSION
                GENETICS AND POPULATION ANALYSIS
                SYSTEMS BIOLOGY
                DATA AND TEXT MINING
       APPLICATIONS NOTE
                GENOME ANALYSIS
                SEQUENCE ANALYSIS
                STRUCTURAL BIOINFORMATICS
                GENETICS AND POPULATION ANALYSIS
                SYSTEMS BIOLOGY
                DATA AND TEXT MINING
                DATABASES AND ONTOLOGIES
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ORIGINAL PAPERS:

GENOME ANALYSIS:

Daniel Dalevi, Devdatt Dubhashi, and Malte Hermansson
Bayesian classifiers for detecting HGT using fixed and variable order markov models of genomic signatures
Bioinformatics Advance Access published on January 10, 2006
Bioinformatics 2006 22: 517-522; doi:10.1093/bioinformatics/btk029 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Guojun Yang and Timothy C. Hall
HideNseek, a post-genome approach to locate transgenes exemplified in Arabidopsis thaliana
Bioinformatics Advance Access published on December 15, 2005
Bioinformatics 2006 22: 523-526; doi:10.1093/bioinformatics/btk003 [Abstract] [Full Text] [Print PDF] [Supplementary data] [Request Permissions]  

SEQUENCE ANALYSIS:

Giuseppe D'Auria, Ravindra Pushker, and Francisco Rodriguez-Valera
IWoCS: analyzing ribosomal intergenic transcribed spacers configuration and taxonomic relationships
Bioinformatics Advance Access published on January 10, 2006
Bioinformatics 2006 22: 527-531; doi:10.1093/bioinformatics/btk033 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Wolfgang P. Lehrach, Dirk Husmeier, and Christopher K. I. Williams
A regularized discriminative model for the prediction of protein–peptide interactions
Bioinformatics Advance Access published on January 5, 2006
Bioinformatics 2006 22: 532-540; doi:10.1093/bioinformatics/bti804 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Matthew Rabinowitz, Lance Myers, Milena Banjevic, Albert Chan, Joshua Sweetkind-Singer, Jessica Haberer, Kelly McCann, and Roland Wolkowicz
Accurate prediction of HIV-1 drug response from the reverse transcriptase and protease amino acid sequences using sparse models created by convex optimization
Bioinformatics Advance Access published on December 20, 2005
Bioinformatics 2006 22: 541-549; doi:10.1093/bioinformatics/btk011 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Andreas Henschel, Wan Kyu Kim, and Michael Schroeder
Equivalent binding sites reveal convergently evolved interaction motifs
Bioinformatics Advance Access published on November 15, 2005
Bioinformatics 2006 22: 550-555; doi:10.1093/bioinformatics/bti782 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

GENE EXPRESSION:

Alexander Ploner, Stefano Calza, Arief Gusnanto, and Yudi Pawitan
Multidimensional local false discovery rate for microarray studies
Bioinformatics Advance Access published on December 20, 2005
Bioinformatics 2006 22: 556-565; doi:10.1093/bioinformatics/btk013 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Johannes Tuikkala, Laura Elo, Olli S. Nevalainen, and Tero Aittokallio
Improving missing value estimation in microarray data with gene ontology
Bioinformatics Advance Access published on December 23, 2005
Bioinformatics 2006 22: 566-572; doi:10.1093/bioinformatics/btk019 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

M. Pérez-Enciso
Multiple association analysis via simulated annealing (MASSA)
Bioinformatics Advance Access published on January 12, 2006
Bioinformatics 2006 22: 573-580; doi:10.1093/bioinformatics/btk050 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Yoram Louzoun, Lev Muchnik, and Sorin Solomon
Copying nodes versus editing links: the source of the difference between genetic regulatory networks and the WWW
Bioinformatics Advance Access published on January 10, 2006
Bioinformatics 2006 22: 581-588; doi:10.1093/bioinformatics/btk030 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

DATA AND TEXT MINING:

R. Amato, A. Ciaramella, N. Deniskina, C. Del Mondo, D. di Bernardo, C. Donalek, G. Longo, G. Mangano, G. Miele, G. Raiconi, A. Staiano, and R. Tagliaferri
A multi-step approach to time series analysis and gene expression clustering
Bioinformatics Advance Access published on January 5, 2006
Bioinformatics 2006 22: 589-596; doi:10.1093/bioinformatics/btk026 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Jung-jae Kim, Zhuo Zhang, Jong C. Park, and See-Kiong Ng
BioContrasts: extracting and exploiting protein–protein contrastive relations from biomedical literature
Bioinformatics Advance Access published on December 20, 2005
Bioinformatics 2006 22: 597-605; doi:10.1093/bioinformatics/btk016 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

Ofer Shai, Quaid D. Morris, Benjamin J. Blencowe, and Brendan J. Frey
Inferring global levels of alternative splicing isoforms using a generative model of microarray data
Bioinformatics Advance Access published on January 10, 2006
Bioinformatics 2006 22: 606-613; doi:10.1093/bioinformatics/btk028 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

APPLICATIONS NOTE:

GENOME ANALYSIS:

Stephan H. Bernhart, Ivo L. Hofacker, and Peter F. Stadler
Local RNA base pairing probabilities in large sequences
Bioinformatics Advance Access published on December 20, 2005
Bioinformatics 2006 22: 614-615; doi:10.1093/bioinformatics/btk014 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Leighton Pritchard, Jennifer A. White, Paul R.J. Birch, and Ian K. Toth
GenomeDiagram: a python package for the visualization of large-scale genomic data
Bioinformatics Advance Access published on December 23, 2005
Bioinformatics 2006 22: 616-617; doi:10.1093/bioinformatics/btk021 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SEQUENCE ANALYSIS:

Andrew Smith, John-Marc Chandonia, and Steven E. Brenner
ANDY: a general, fault-tolerant tool for database searching on computer clusters
Bioinformatics Advance Access published on January 5, 2006
Bioinformatics 2006 22: 618-620; doi:10.1093/bioinformatics/btk020 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

STRUCTURAL BIOINFORMATICS:

Dominik Gront and Andrzej Kolinski
BioShell—a package of tools for structural biology computations
Bioinformatics Advance Access published on January 10, 2006
Bioinformatics 2006 22: 621-622; doi:10.1093/bioinformatics/btk037 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Mikhail A. Lomize, Andrei L. Lomize, Irina D. Pogozheva, and Henry I. Mosberg
OPM: Orientations of Proteins in Membranes database
Bioinformatics Advance Access published on January 5, 2006
Bioinformatics 2006 22: 623-625; doi:10.1093/bioinformatics/btk023 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

Bradley M. Hemminger, Billy Saelim, and Patrick F. Sullivan
TAMAL: an integrated approach to choosing SNPs for genetic studies of human complex traits
Bioinformatics Advance Access published on January 17, 2006
Bioinformatics 2006 22: 626-627; doi:10.1093/bioinformatics/btk025 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

SYSTEMS BIOLOGY:

Colin S. Gillespie, Darren J. Wilkinson, Carole J. Proctor, Daryl P. Shanley, Richard J. Boys, and Thomas B. L. Kirkwood
Tools for the SBML Community
Bioinformatics Advance Access published on January 12, 2006
Bioinformatics 2006 22: 628-629; doi:10.1093/bioinformatics/btk042 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATA AND TEXT MINING:

Guido Dieterich, Uwe Kärst, Jürgen Wehland, and Lothar Jänsch
VIS-O-BAC: exploratory visualization of functional genome studies from bacteria
Bioinformatics Advance Access published on December 8, 2005
Bioinformatics 2006 22: 630-631; doi:10.1093/bioinformatics/bti814 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

J. A. Falkner, J. W. Falkner, and P. C. Andrews
ProteomeCommons.org JAF: reference information and tools for proteomics
Bioinformatics Advance Access published on January 24, 2006
Bioinformatics 2006 22: 632-633; doi:10.1093/bioinformatics/btk015 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Mikko Katajamaa, Jarkko Miettinen, and Matej Oresic
MZmine: toolbox for processing and visualization of mass spectrometry based molecular profile data
Bioinformatics Advance Access published on January 10, 2006
Bioinformatics 2006 22: 634-636; doi:10.1093/bioinformatics/btk039 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATABASES AND ONTOLOGIES:

S. B. Montgomery, O. L. Griffith, M. C. Sleumer, C. M. Bergman, M. Bilenky, E. D. Pleasance, Y. Prychyna, X. Zhang, and S. J. M. Jones
ORegAnno: an open access database and curation system for literature-derived promoters, transcription factor binding sites and regulatory variation
Bioinformatics Advance Access published on January 5, 2006
Bioinformatics 2006 22: 637-640; doi:10.1093/bioinformatics/btk027 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

M. Dennis Prickett, Matt Page, Angela E. Douglas, and Gavin H. Thomas
BuchneraBASE: a post-genomic resource for Buchnera sp. APS
Bioinformatics Advance Access published on January 5, 2006
Bioinformatics 2006 22: 641-642; doi:10.1093/bioinformatics/btk024 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

To see an article, click its [Full Text] link. To review many abstracts, check the boxes to the left of the titles you want, and click the 'Get All Checked Abstract(s)' button. To see one abstract at a time, click its [Abstract] link.