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Previous Next 		Contents: Volume 22, Number 24, 15 December 2006   [Index by Author] 
       EDITORIALS
       DISCOVERY NOTE
                SEQUENCE ANALYSIS
       ORIGINAL PAPERS
                SEQUENCE ANALYSIS
                STRUCTURAL BIOINFORMATICS
                GENE EXPRESSION
                GENETICS AND POPULATIONS ANALYSIS
                SYSTEMS BIOLOGY
                DATA AND TEXT MINING
       APPLICATIONS NOTE
                SEQUENCE ANALYSIS
                STRUCTURAL BIOINFORMATICS
                GENETICS AND POPULATION ANALYSIS
                SYSTEMS BIOLOGY
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EDITORIALS:

Trey Ideker and Alfonso Valencia
Bioinformatics in the human interactome project
Bioinformatics 2006 22: 2973-2974; doi:10.1093/bioinformatics/btl579 [Extract] [Full Text] [Print PDF] [Request Permissions]  

DISCOVERY NOTE:

SEQUENCE ANALYSIS:

K. Deforche, T. Silander, R. Camacho, Z . Grossman, M. A. Soares, K. Van Laethem, R. Kantor, Y. Moreau, A.-M. Vandamme, and on behalf of the non-B Workgroup
Analysis of HIV-1 pol sequences using Bayesian Networks: implications for drug resistance
Bioinformatics Advance Access published on October 4, 2006
Bioinformatics 2006 22: 2975-2979; doi:10.1093/bioinformatics/btl508 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

ORIGINAL PAPERS:

SEQUENCE ANALYSIS:

Xuehui Li and Tamer Kahveci
A Novel algorithm for identifying low-complexity regions in a protein sequence
Bioinformatics Advance Access published on October 2, 2006
Bioinformatics 2006 22: 2980-2987; doi:10.1093/bioinformatics/btl495 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

S. Lindgreen, P. P. Gardner, and A. Krogh
Measuring covariation in RNA alignments: physical realism improves information measures
Bioinformatics Advance Access published on October 12, 2006
Bioinformatics 2006 22: 2988-2995; doi:10.1093/bioinformatics/btl514 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Nuno D. Mendes, Ana C. Casimiro, Pedro M. Santos, Isabel Sá-Correia, Arlindo L. Oliveira, and Ana T. Freitas
MUSA: a parameter free algorithm for the identification of biologically significant motifs
Bioinformatics Advance Access published on October 26, 2006
Bioinformatics 2006 22: 2996-3002; doi:10.1093/bioinformatics/btl537 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Mireia Vilardell and Alex Sánchez-Pla
Hypothesis testing approaches to the exon prediction problem
Bioinformatics Advance Access published on October 25, 2006
Bioinformatics 2006 22: 3003-3008; doi:10.1093/bioinformatics/btl544 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Olav Zimmermann and Ulrich H. E. Hansmann
Support vector machines for prediction of dihedral angle regions
Bioinformatics Advance Access published on September 27, 2006
Bioinformatics 2006 22: 3009-3015; doi:10.1093/bioinformatics/btl489 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION:

Jiang Du, Joel S. Rozowsky, Jan O. Korbel, Zhengdong D. Zhang, Thomas E. Royce, Martin H. Schultz, Michael Snyder, and Mark Gerstein
A supervised hidden markov model framework for efficiently segmenting tiling array data in transcriptional and chIP-chip experiments: systematically incorporating validated biological knowledge
Bioinformatics Advance Access published on October 12, 2006
Bioinformatics 2006 22: 3016-3024; doi:10.1093/bioinformatics/btl515 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

Yudi Pawitan, Stefano Calza, and Alexander Ploner
Estimation of false discovery proportion under general dependence
Bioinformatics Advance Access published on October 17, 2006
Bioinformatics 2006 22: 3025-3031; doi:10.1093/bioinformatics/btl527 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Cathal Seoighe, Victoria Nembaware, and Konrad Scheffler
Maximum likelihood inference of imprinting and allele-specific expression from EST data
Bioinformatics Advance Access published on October 11, 2006
Bioinformatics 2006 22: 3032-3039; doi:10.1093/bioinformatics/btl521 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

Mark P. Brynildsen, Linh M. Tran, and James C. Liao
A Gibbs sampler for the identification of gene expression and network connectivity consistency
Bioinformatics Advance Access published on October 23, 2006
Bioinformatics 2006 22: 3040-3046; doi:10.1093/bioinformatics/btl541 [Abstract] [Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

János Z. Kelemen, Attila Kertész-Farkas, András Kocsor, and László G. Puskás
Kalman filtering for disease-state estimation from microarray data
Bioinformatics Advance Access published on October 25, 2006
Bioinformatics 2006 22: 3047-3053; doi:10.1093/bioinformatics/btl545 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Daniel S. Yuan and Rafael A. Irizarry
High-resolution spatial normalization for microarrays containing embedded technical replicates
Bioinformatics Advance Access published on October 23, 2006
Bioinformatics 2006 22: 3054-3060; doi:10.1093/bioinformatics/btl542 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

GENETICS AND POPULATIONS ANALYSIS:

Paul Fearnhead
SequenceLDhot: detecting recombination hotspots
Bioinformatics Advance Access published on October 23, 2006
Bioinformatics 2006 22: 3061-3066; doi:10.1093/bioinformatics/btl540 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Stefan Hoops, Sven Sahle, Ralph Gauges, Christine Lee, Jürgen Pahle, Natalia Simus, Mudita Singhal, Liang Xu, Pedro Mendes, and Ursula Kummer
COPASI—a COmplex PAthway SImulator
Bioinformatics Advance Access published on October 10, 2006
Bioinformatics 2006 22: 3067-3074; doi:10.1093/bioinformatics/btl485 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Claudio Eccher and Corrado Priami
Design and implementation of a tool for translating SBML into the biochemical stochastic {pi}-calculus
Bioinformatics Advance Access published on October 17, 2006
Bioinformatics 2006 22: 3075-3081; doi:10.1093/bioinformatics/btl516 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Fangping Mu, Pat J. Unkefer, Clifford J. Unkefer, and William S. Hlavacek
Prediction of oxidoreductase-catalyzed reactions based on atomic properties of metabolites
Bioinformatics Advance Access published on October 23, 2006
Bioinformatics 2006 22: 3082-3088; doi:10.1093/bioinformatics/btl535 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

DATA AND TEXT MINING:

Naoaki Okazaki and Sophia Ananiadou
Building an abbreviation dictionary using a term recognition approach
Bioinformatics Advance Access published on October 18, 2006
Bioinformatics 2006 22: 3089-3095; doi:10.1093/bioinformatics/btl534 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

APPLICATIONS NOTE:

SEQUENCE ANALYSIS:

Sergei L. Kosakovsky Pond, David Posada, Michael B. Gravenor, Christopher H. Woelk, and Simon D.W. Frost
GARD: a genetic algorithm for recombination detection
Bioinformatics Advance Access published on November 16, 2006
Bioinformatics 2006 22: 3096-3098; doi:10.1093/bioinformatics/btl474 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Jan Mrázek and Shaohua Xie
Pattern locator: a new tool for finding local sequence patterns in genomic DNA sequences
Bioinformatics Advance Access published on November 8, 2006
Bioinformatics 2006 22: 3099-3100; doi:10.1093/bioinformatics/btl551 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

G. Andrew Woolley, En-shiun Lee, and Fuzhong Zhang
sGAL: a computational method for finding surface exposed sites in proteins suitable for Cys-mediated cross-linking
Bioinformatics Advance Access published on October 17, 2006
Bioinformatics 2006 22: 3101-3102; doi:10.1093/bioinformatics/btl530 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

Thomas Hoffmann and Christoph Lange
P2BAT: a massive parallel implementation of PBAT for genome-wide association studies in R
Bioinformatics Advance Access published on October 4, 2006
Bioinformatics 2006 22: 3103-3105; doi:10.1093/bioinformatics/btl507 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

SYSTEMS BIOLOGY:

Jeongah Yoon, Anselm Blumer, and Kyongbum Lee
An algorithm for modularity analysis of directed and weighted biological networks based on edge-betweenness centrality
Bioinformatics Advance Access published on October 23, 2006
Bioinformatics 2006 22: 3106-3108; doi:10.1093/bioinformatics/btl533 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [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.