Bioinformatics

EDITORIALS:

Paul Spellman

A STATUS REPORT ON MAGE
Bioinformatics 2005 21: 3459-3460; doi:10.1093/bioinformatics/bti591 [Extract] [Full Text] [Print PDF] [Request Permissions]  

ORIGINAL PAPERS:

GENOME ANALYSIS:

Get checked abstract Xiaokang Pan, Lincoln Stein, and Volker Brendel

SynBrowse: a synteny browser for comparative sequence analysis
Bioinformatics Advance Access published on June 30, 2005
Bioinformatics 2005 21: 3461-3468; doi:10.1093/bioinformatics/bti555 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Kuo-Ho Yen, Chiang Lee, Hsiao-Sheng Liu, and Chung-Liang Ho

A precise and scalable method for querying genes in chromosomal banding regions based on cytogenetic annotations
Bioinformatics Advance Access published on July 5, 2005
Bioinformatics 2005 21: 3469-3474; doi:10.1093/bioinformatics/bti566 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SEQUENCE ANALYSIS:

Get checked abstract Zhenping Li, Wenfeng Zhou, Xiang-Sun Zhang, and Luonan Chen

A parsimonious tree-grow method for haplotype inference
Bioinformatics Advance Access published on July 7, 2005
Bioinformatics 2005 21: 3475-3481; doi:10.1093/bioinformatics/bti572 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Tetsuya Sato, Yoshihiro Yamanishi, Minoru Kanehisa, and Hiroyuki Toh

The inference of protein–protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships
Bioinformatics Advance Access published on June 30, 2005
Bioinformatics 2005 21: 3482-3489; doi:10.1093/bioinformatics/bti564 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Didier Gonze, Sylvie Pinloche, Olivier Gascuel, and Jacques van Helden

Discrimination of yeast genes involved in methionine and phosphate metabolism on the basis of upstream motifs
Bioinformatics Advance Access published on July 5, 2005
Bioinformatics 2005 21: 3490-3500; doi:10.1093/bioinformatics/bti558 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Get checked abstract Chun-Hsiang Huang, Chin Lung Lu, and Hsien-Tai Chiu

A heuristic approach for detecting RNA H-type pseudoknots
Bioinformatics Advance Access published on June 30, 2005
Bioinformatics 2005 21: 3501-3508; doi:10.1093/bioinformatics/bti568 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Chris S. Pettitt, Liam J. McGuffin, and David T. Jones

Improving sequence-based fold recognition by using 3D model quality assessment
Bioinformatics Advance Access published on June 14, 2005
Bioinformatics 2005 21: 3509-3515; doi:10.1093/bioinformatics/bti540 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Jens Reeder and Robert Giegerich

Consensus shapes: an alternative to the Sankoff algorithm for RNA consensus structure prediction
Bioinformatics Advance Access published on July 14, 2005
Bioinformatics 2005 21: 3516-3523; doi:10.1093/bioinformatics/bti577 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION:

Get checked abstract Jianhua Hu, Mini Kapoor, Wei Zhang, Stanley R. Hamilton, and Kevin R. Coombes

Analysis of dose–response effects on gene expression data with comparison of two microarray platforms
Bioinformatics Advance Access published on August 4, 2005
Bioinformatics 2005 21: 3524-3529; doi:10.1093/bioinformatics/bti592 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract K. Krohn, M. Eszlinger, R. Paschke, I. Roeder, and E. Schuster

Increased power of microarray analysis by use of an algorithm based on a multivariate procedure
Bioinformatics Advance Access published on July 5, 2005
Bioinformatics 2005 21: 3530-3534; doi:10.1093/bioinformatics/bti570 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

Get checked abstract R. E. Myers, C. V. Gale, A. Harrison, Y. Takeuchi, and P. Kellam

A statistical model for HIV-1 sequence classification using the subtype analyser (STAR)
Bioinformatics Advance Access published on July 26, 2005
Bioinformatics 2005 21: 3535-3540; doi:10.1093/bioinformatics/bti569 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Get checked abstract Niels Grabe and Karsten Neuber

A multicellular systems biology model predicts epidermal morphology, kinetics and Ca²⁺ flow
Bioinformatics Advance Access published on July 19, 2005
Bioinformatics 2005 21: 3541-3547; doi:10.1093/bioinformatics/bti585 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Denise Scholtens, Marc Vidal, and Robert Gentleman

Local modeling of global interactome networks
Bioinformatics Advance Access published on July 5, 2005
Bioinformatics 2005 21: 3548-3557; doi:10.1093/bioinformatics/bti567 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Vitaly A. Selivanov, Ludmilla E. Meshalkina, Olga N. Solovjeva, Philip W. Kuchel, Antonio Ramos-Montoya, German A. Kochetov, Paul W. N. Lee, and Marta Cascante

Rapid simulation and analysis of isotopomer distributions using constraints based on enzyme mechanisms: an example from HT29 cancer cells
Bioinformatics Advance Access published on July 7, 2005
Bioinformatics 2005 21: 3558-3564; doi:10.1093/bioinformatics/bti573 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

APPLICATIONS NOTE:

GENOME ANALYSIS:

Get checked abstract K. Hoffmann and T. H. Lindner

easyLINKAGE-Plus—automated linkage analyses using large-scale SNP data
Bioinformatics Advance Access published on July 12, 2005
Bioinformatics 2005 21: 3565-3567; doi:10.1093/bioinformatics/bti571 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SEQUENCE ANALYSIS:

Get checked abstract Maike Tech, Nico Pfeifer, Burkhard Morgenstern, and Peter Meinicke

TICO: a tool for improving predictions of prokaryotic translation initiation sites
Bioinformatics Advance Access published on June 30, 2005
Bioinformatics 2005 21: 3568-3569; doi:10.1093/bioinformatics/bti563 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Get checked abstract Kengo Kinoshita and Motonori Ota

P-cats: prediction of catalytic residues in proteins from their tertiary structures
Bioinformatics Advance Access published on June 30, 2005
Bioinformatics 2005 21: 3570-3571; doi:10.1093/bioinformatics/bti561 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Falk Schreiber and Henning Schwöbbermeyer

MAVisto: a tool for the exploration of network motifs
Bioinformatics Advance Access published on July 14, 2005
Bioinformatics 2005 21: 3572-3574; doi:10.1093/bioinformatics/bti556 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION:

Get checked abstract Amanda M. White, Don S. Daly, Alan R. Willse, Miroslava Protic, and Darrell P. Chandler

Automated Microarray Image Analysis Toolbox for MATLAB
Bioinformatics Advance Access published on July 26, 2005
Bioinformatics 2005 21: 3578-3579; doi:10.1093/bioinformatics/bti576 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATA AND TEXT MINING:

Get checked abstract Ungsik Yu, Yoon Jeong Choi, Jung Kyoon Choi, and Sangsoo Kim

TO-GO: a Java-based Gene Ontology navigation environment
Bioinformatics Advance Access published on June 30, 2005
Bioinformatics 2005 21: 3580-3581; doi:10.1093/bioinformatics/bti560 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Núria Domedel-Puig and Lorenz Wernisch

Applying GIFT, a Gene Interactions Finder in Text, to fly literature
Bioinformatics Advance Access published on July 12, 2005
Bioinformatics 2005 21: 3582-3583; doi:10.1093/bioinformatics/bti578 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATABASES AND ONTOLOGIES:

Erratum
Bioinformatics 2005 21: 3586; doi:10.1093/bioinformatics/bti596 [Extract] [Full Text] [Print PDF] [Request Permissions]  

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