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Previous Next 		Contents: Volume 23, Number 6, 15 March 2007   [Index by Author] 
       ORIGINAL PAPERS
                GENOME ANALYSIS
                SEQUENCE ANALYSIS
                STRUCTURAL BIOINFORMATICS
                GENE EXPRESSION
                SYSTEMS BIOLOGY
       APPLICATIONS NOTES
                GENOME ANALYSIS
                SEQUENCE ANALYSIS
                STRUCTURAL BIOINFORMATICS
                GENE EXPRESSION
                GENETICS AND POPULATION ANALYSIS
                SYSTEMS BIOLOGY
                DATA AND TEXT MINING
                DATABASES AND ONTOLOGIES
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ORIGINAL PAPERS:

GENOME ANALYSIS:

E. S. Venkatraman and Adam B. Olshen
A faster circular binary segmentation algorithm for the analysis of array CGH data
Bioinformatics Advance Access published on January 18, 2007
Bioinformatics 2007 23: 657-663; doi:10.1093/bioinformatics/btl646 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Matthew A. Care, Chris J. Needham, Andrew J. Bulpitt, and David R. Westhead
Deleterious SNP prediction: be mindful of your training data!
Bioinformatics Advance Access published on January 18, 2007
Bioinformatics 2007 23: 664-672; doi:10.1093/bioinformatics/btl649 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Arthur L. Delcher, Kirsten A. Bratke, Edwin C. Powers, and Steven L. Salzberg
Identifying bacterial genes and endosymbiont DNA with Glimmer
Bioinformatics Advance Access published on January 19, 2007
Bioinformatics 2007 23: 673-679; doi:10.1093/bioinformatics/btm009 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

SEQUENCE ANALYSIS:

Joan Hérisson, Guillaume Payen, and Rachid Gherbi
A 3D pattern matching algorithm for DNA sequences
Bioinformatics Advance Access published on January 18, 2007
Bioinformatics 2007 23: 680-686; doi:10.1093/bioinformatics/btl669 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Kai Ye, Walter A. Kosters, and Adriaan P. IJzerman
An efficient, versatile and scalable pattern growth approach to mine frequent patterns in unaligned protein sequences
Bioinformatics Advance Access published on January 19, 2007
Bioinformatics 2007 23: 687-693; doi:10.1093/bioinformatics/btl665 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Andrzej K. Brodzik
Quaternionic periodicity transform: an algebraic solution to the tandem repeat detection problem
Bioinformatics Advance Access published on January 19, 2007
Bioinformatics 2007 23: 694-700; doi:10.1093/bioinformatics/btl674 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Yungki Park and Volkhard Helms
On the derivation of propensity scales for predicting exposed transmembrane residues of helical membrane proteins
Bioinformatics Advance Access published on January 18, 2007
Bioinformatics 2007 23: 701-708; doi:10.1093/bioinformatics/btl653 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Ahmet Sacan, Ozgur Ozturk, Hakan Ferhatosmanoglu, and Yusu Wang
LFM-Pro: a tool for detecting significant local structural sites in proteins
Bioinformatics Advance Access published on January 19, 2007
Bioinformatics 2007 23: 709-716; doi:10.1093/bioinformatics/btl685 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Evgeny Krissinel
On the relationship between sequence and structure similarities in proteomics
Bioinformatics Advance Access published on January 22, 2007
Bioinformatics 2007 23: 717-723; doi:10.1093/bioinformatics/btm006 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION:

Istvan Bogdan, Daniel Coca, Jenny Rivers, and Robert J Beynon
Hardware acceleration of processing of mass spectrometric data for proteomics
Bioinformatics Advance Access published on February 3, 2007
Bioinformatics 2007 23: 724-731; doi:10.1093/bioinformatics/btl656 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Shigeyuki Matsui, Masaaki Ito, Hiroyuki Nishiyama, Hajime Uno, Hirokazu Kotani, Jun Watanabe, Parry Guilford, Anthony Reeve, Masanori Fukushima, and Osamu Ogawa
Genomic characterization of multiple clinical phenotypes of cancer using multivariate linear regression models
Bioinformatics Advance Access published on January 18, 2007
Bioinformatics 2007 23: 732-738; doi:10.1093/bioinformatics/btl663 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Peng Liu and J. T. Gene Hwang
Quick calculation for sample size while controlling false discovery rate with application to microarray analysis
Bioinformatics Advance Access published on January 19, 2007
Bioinformatics 2007 23: 739-746; doi:10.1093/bioinformatics/btl664 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Dong Hua and Yinglei Lai
An ensemble approach to microarray data-based gene prioritization after missing value imputation
Bioinformatics Advance Access published on January 31, 2007
Bioinformatics 2007 23: 747-754; doi:10.1093/bioinformatics/btm010 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Yanxin Shi, Tom Mitchell, and Ziv Bar-Joseph
Inferring pairwise regulatory relationships from multiple time series datasets
Bioinformatics Advance Access published on January 19, 2007
Bioinformatics 2007 23: 755-763; doi:10.1093/bioinformatics/btl676 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

APPLICATIONS NOTES:

GENOME ANALYSIS:

Shengyin Gu, Iain Anderson, Victor Kunin, Michael Cipriano, Simon Minovitsky, Gunther Weber, Nina Amenta, Bernd Hamann, and Inna Dubchak
TreeQ-VISTA: an interactive tree visualization tool with functional annotation query capabilities
Bioinformatics Advance Access published on January 17, 2007
Bioinformatics 2007 23: 764-766; doi:10.1093/bioinformatics/btl643 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

SEQUENCE ANALYSIS:

Rafael Navajas-Pérez, Cristina Rubio-Escudero, José Luis Aznarte, Manuel Ruiz Rejón, and Manuel A. Garrido-Ramos
SatDNA Analyzer: a computing tool for satellite-DNA evolutionary analysis
Bioinformatics Advance Access published on January 22, 2007
Bioinformatics 2007 23: 767-768; doi:10.1093/bioinformatics/btm005 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Raik Grünberg, Michael Nilges, and Johan Leckner
Biskit—A software platform for structural bioinformatics
Bioinformatics Advance Access published on January 18, 2007
Bioinformatics 2007 23: 769-770; doi:10.1093/bioinformatics/btl655 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION:

Charles Girardot, Oleg Sklyar, Sophie Grosz, Wolfgang Huber, and Eileen E. M. Furlong
CoCo: a web application to display, store and curate ChIP-on-chip data integrated with diverse types of gene expression data
Bioinformatics Advance Access published on January 17, 2007
Bioinformatics 2007 23: 771-773; doi:10.1093/bioinformatics/btl641 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

Augustin Luna and Kristin K. Nicodemus
snp.plotter: an R-based SNP/haplotype association and linkage disequilibrium plotting package
Bioinformatics Advance Access published on January 18, 2007
Bioinformatics 2007 23: 774-776; doi:10.1093/bioinformatics/btl657 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Andre S. Ribeiro and Jason Lloyd-Price
SGN Sim, a Stochastic Genetic Networks Simulator
Bioinformatics Advance Access published on January 31, 2007
Bioinformatics 2007 23: 777-779; doi:10.1093/bioinformatics/btm004 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATA AND TEXT MINING:

Young C. Song, Edward Kawas, Ben M. Good, Mark D. Wilkinson, and Scott J. Tebbutt
DataBiNS: a BioMoby-based data-mining workflow for biological pathways and non-synonymous SNPs
Bioinformatics Advance Access published on January 18, 2007
Bioinformatics 2007 23: 780-782; doi:10.1093/bioinformatics/btl648 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATABASES AND ONTOLOGIES:

Jean-Pierre Gauthier, Fabrice Legeai, Alain Zasadzinski, Claude Rispe, and Denis Tagu
AphidBase: a database for aphid genomic resources
Bioinformatics Advance Access published on January 19, 2007
Bioinformatics 2007 23: 783-784; doi:10.1093/bioinformatics/btl682 [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.