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Previous Next 		Contents: Volume 22, Number 15, 1 August 2006   [Index by Author] 
       ORIGINAL PAPERS
                SEQUENCE ANALYSIS
                STRUCTURAL BIOINFORMATICS
                GENE EXPRESSION
                SYSTEMS BIOLOGY
                DATA AND TEXT MINING
                DATABASES AND ONTOLOGIES
       APPLICATIONS NOTE
                GENOME ANALYSIS
                PHYLOGENETICS
                GENE EXPRESSION
                GENETICS AND POPULATION ANALYSIS
                SYSTEMS BIOLOGY
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ORIGINAL PAPERS:

SEQUENCE ANALYSIS:

Mikael Bodén and Timothy L. Bailey
Identifying sequence regions undergoing conformational change via predicted continuum secondary structure
Bioinformatics Advance Access published on May 23, 2006
Bioinformatics 2006 22: 1809-1814; doi:10.1093/bioinformatics/btl198 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Isabelle Dupanloup and Henrik Kaessmann
Evolutionary simulations to detect functional lineage-specific genes
Bioinformatics Advance Access published on June 9, 2006
Bioinformatics 2006 22: 1815-1822; doi:10.1093/bioinformatics/btl280 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Anke Busch and Rolf Backofen
INFO-RNA—a fast approach to inverse RNA folding
Bioinformatics Advance Access published on May 18, 2006
Bioinformatics 2006 22: 1823-1831; doi:10.1093/bioinformatics/btl194 [Abstract] [FREE Full Text] [Print PDF] [Supplementary data]   OPEN ACCESS ARTICLE  

Hyeon S. Son, Seung-Yeon Kim, Jooyoung Lee, and Kyu-Kwang Han
Application of the multiensemble sampling to the equilibrium folding of proteins
Bioinformatics Advance Access published on June 9, 2006
Bioinformatics 2006 22: 1832-1837; doi:10.1093/bioinformatics/btl282 [Abstract] [Full Text] [Print PDF] [supplementary] [Request Permissions]  

Marc N. Offman, Paul W. Fitzjohn, and Paul A. Bates
Developing a move-set for protein model refinement
Bioinformatics Advance Access published on May 16, 2006
Bioinformatics 2006 22: 1838-1845; doi:10.1093/bioinformatics/btl192 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Gennady M. Verkhivker
Imprint of evolutionary conservation and protein structure variation on the binding function of protein tyrosine kinases
Bioinformatics Advance Access published on May 23, 2006
Bioinformatics 2006 22: 1846-1854; doi:10.1093/bioinformatics/btl199 [Abstract] [Full Text] [Print PDF] [Supplementary Material] [Request Permissions]  

GENE EXPRESSION:

De-Shuang Huang and Chun-Hou Zheng
Independent component analysis-based penalized discriminant method for tumor classification using gene expression data
Bioinformatics Advance Access published on May 18, 2006
Bioinformatics 2006 22: 1855-1862; doi:10.1093/bioinformatics/btl190 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

David S. Skibbe, Xiujuan Wang, Xuefeng Zhao, Lisa A. Borsuk, Dan Nettleton, and Patrick S. Schnable
Scanning microarrays at multiple intensities enhances discovery of differentially expressed genes
Bioinformatics Advance Access published on May 26, 2006
Bioinformatics 2006 22: 1863-1870; doi:10.1093/bioinformatics/btl270 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

SYSTEMS BIOLOGY:

Steven Carroll and Vladimir Pavlovic
Protein classification using probabilistic chain graphs and the Gene Ontology structure
Bioinformatics Advance Access published on May 16, 2006
Bioinformatics 2006 22: 1871-1878; doi:10.1093/bioinformatics/btl187 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Ralph Gauges, Ursula Rost, Sven Sahle, and Katja Wegner
A model diagram layout extension for SBML
Bioinformatics Advance Access published on May 18, 2006
Bioinformatics 2006 22: 1879-1885; doi:10.1093/bioinformatics/btl195 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Simon J. Galbraith, Linh M. Tran, and James C. Liao
Transcriptome network component analysis with limited microarray data
Bioinformatics Advance Access published on June 9, 2006
Bioinformatics 2006 22: 1886-1894; doi:10.1093/bioinformatics/btl279 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

J. Vidal Rodríguez, Jaap A. Kaandorp, Maciej Dobrzynski, and Joke G. Blom
Spatial stochastic modelling of the phosphoenolpyruvate-dependent phosphotransferase (PTS) pathway in Escherichia coli
Bioinformatics Advance Access published on May 26, 2006
Bioinformatics 2006 22: 1895-1901; doi:10.1093/bioinformatics/btl271 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATA AND TEXT MINING:

Matthew Bellew, Marc Coram, Matthew Fitzgibbon, Mark Igra, Tim Randolph, Pei Wang, Damon May, Jimmy Eng, Ruihua Fang, ChenWei Lin, Jinzhi Chen, David Goodlett, Jeffrey Whiteaker, Amanda Paulovich, and Martin McIntosh
A suite of algorithms for the comprehensive analysis of complex protein mixtures using high-resolution LC-MS
Bioinformatics Advance Access published on June 9, 2006
Bioinformatics 2006 22: 1902-1909; doi:10.1093/bioinformatics/btl276 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

DATABASES AND ONTOLOGIES:

Joel Saltz, Scott Oster, Shannon Hastings, Stephen Langella, Tahsin Kurc, William Sanchez, Manav Kher, Arumani Manisundaram, Krishnakant Shanbhag, and Peter Covitz
caGrid: design and implementation of the core architecture of the cancer biomedical informatics grid
Bioinformatics Advance Access published on June 9, 2006
Bioinformatics 2006 22: 1910-1916; doi:10.1093/bioinformatics/btl272 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

APPLICATIONS NOTE:

GENOME ANALYSIS:

Karol Szafranski, Niels Jahn, and Matthias Platzer
tuple_plot: Fast pairwise nucleotide sequence comparison with noise suppression
Bioinformatics Advance Access published on June 9, 2006
Bioinformatics 2006 22: 1917-1918; doi:10.1093/bioinformatics/btl277 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Wessel N. van Wieringen, Jeroen A. M. Belien, Sjoerd J. Vosse, Eskeatnaf M. Achame, and Bauke Ylstra
ACE-it: a tool for genome-wide integration of gene dosage and RNA expression data
Bioinformatics Advance Access published on May 26, 2006
Bioinformatics 2006 22: 1919-1920; doi:10.1093/bioinformatics/btl269 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]   OPEN ACCESS ARTICLE  

PHYLOGENETICS:

M. M. Morin and B. M. E. Moret
NETGEN: generating phylogenetic networks with diploid hybrids
Bioinformatics Advance Access published on May 22, 2006
Bioinformatics 2006 22: 1921-1923; doi:10.1093/bioinformatics/btl191 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION:

Joshua Gould, Gad Getz, Stefano Monti, Michael Reich, and Jill P. Mesirov
Comparative gene marker selection suite
Bioinformatics Advance Access published on May 18, 2006
Bioinformatics 2006 22: 1924-1925; doi:10.1093/bioinformatics/btl196 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

J.-L. Li, M.-X. Li, Y.-F. Guo, H.-Y. Deng, and H.-W. Deng
JADE: a distributed Java application for deleterious genomic mutation (DGM) estimation
Bioinformatics Advance Access published on June 9, 2006
Bioinformatics 2006 22: 1926-1927; doi:10.1093/bioinformatics/btl278 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Xavier Solé, Elisabet Guinó, Joan Valls, Raquel Iniesta, and Víctor Moreno
SNPStats: a web tool for the analysis of association studies
Bioinformatics Advance Access published on May 23, 2006
Bioinformatics 2006 22: 1928-1929; doi:10.1093/bioinformatics/btl268 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Material]   OPEN ACCESS ARTICLE  

SYSTEMS BIOLOGY:

Axel von Kamp and Stefan Schuster
Metatool 5.0: fast and flexible elementary modes analysis
Bioinformatics Advance Access published on May 26, 2006
Bioinformatics 2006 22: 1930-1931; doi:10.1093/bioinformatics/btl267 [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.