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Previous Next 		Contents: Volume 24, Number 2, 15 January 2008   [Index by Author] 
       ORIGINAL PAPERS
                GENOME ANALYSIS
                SEQUENCE ANALYSIS
                GENE EXPRESSION
                SYSTEMS BIOLOGY
                DATA AND TEXT MINING
                DATABASES AND ONTOLOGIES
       APPLICATIONS NOTES
                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:

Athanasia C. Tzika, Raphaël Helaers, Yves Van de Peer, and Michel C. Milinkovitch
MANTIS: a phylogenetic framework for multi-species genome comparisons
Bioinformatics Advance Access published on November 19, 2007
Bioinformatics 2008 24: 151-157; doi:10.1093/bioinformatics/btm567 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

SEQUENCE ANALYSIS:

Jana Hertel, Ivo L. Hofacker, and Peter F. Stadler
SnoReport: computational identification of snoRNAs with unknown targets
Bioinformatics Advance Access published on September 25, 2007
Bioinformatics 2008 24: 158-164; doi:10.1093/bioinformatics/btm464 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Xiaowo Wang, Jin Gu, Michael Q. Zhang, and Yanda Li
Identification of phylogenetically conserved microRNA cis-regulatory elements across 12 Drosophila species
Bioinformatics Advance Access published on November 24, 2007
Bioinformatics 2008 24: 165-171; doi:10.1093/bioinformatics/btm572 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

Dean Laslett and Björn Canbäck
ARWEN: a program to detect tRNA genes in metazoan mitochondrial nucleotide sequences
Bioinformatics Advance Access published on November 22, 2007
Bioinformatics 2008 24: 172-175; doi:10.1093/bioinformatics/btm573 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION:

Anagha Joshi, Yves Van de Peer, and Tom Michoel
Analysis of a Gibbs sampler method for model-based clustering of gene expression data
Bioinformatics Advance Access published on November 22, 2007
Bioinformatics 2008 24: 176-183; doi:10.1093/bioinformatics/btm562 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Jaehee Kim and Haseong Kim
Clustering of change patterns using Fourier coefficients
Bioinformatics Advance Access published on November 19, 2007
Bioinformatics 2008 24: 184-191; doi:10.1093/bioinformatics/btm568 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Dan Nettleton, Justin Recknor, and James M. Reecy
Identification of differentially expressed gene categories in microarray studies using nonparametric multivariate analysis
Bioinformatics Advance Access published on November 27, 2007
Bioinformatics 2008 24: 192-201; doi:10.1093/bioinformatics/btm583 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

SYSTEMS BIOLOGY:

Changyu Shen, Zhiping Wang, Ganesh Shankar, Xiang Zhang, and Lang Li
A hierarchical statistical model to assess the confidence of peptides and proteins inferred from tandem mass spectrometry
Bioinformatics Advance Access published on November 17, 2007
Bioinformatics 2008 24: 202-208; doi:10.1093/bioinformatics/btm555 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Simon Hardy and Pierre N. Robillard
Petri net-based method for the analysis of the dynamics of signal propagation in signaling pathways
Bioinformatics Advance Access published on November 22, 2007
Bioinformatics 2008 24: 209-217; doi:10.1093/bioinformatics/btm560 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Denise Scholtens, Tony Chiang, Wolfgang Huber, and Robert Gentleman
Estimating node degree in bait-prey graphs
Bioinformatics Advance Access published on November 19, 2007
Bioinformatics 2008 24: 218-224; doi:10.1093/bioinformatics/btm565 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

Jean-Loup Faulon, Milind Misra, Shawn Martin, Ken Sale, and Rajat Sapra
Genome scale enzyme–metabolite and drug–target interaction predictions using the signature molecular descriptor
Bioinformatics Advance Access published on November 23, 2007
Bioinformatics 2008 24: 225-233; doi:10.1093/bioinformatics/btm580 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

DATA AND TEXT MINING:

Hanchuan Peng, Fuhui Long, Xiao Liu, Stuart K. Kim, and Eugene W. Myers
Straightening Caenorhabditis elegans images
Bioinformatics Advance Access published on November 19, 2007
Bioinformatics 2008 24: 234-242; doi:10.1093/bioinformatics/btm569 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

Mounir Errami, Justin M. Hicks, Wayne Fisher, David Trusty, Jonathan D. Wren, Tara C. Long, and Harold R. Garner
Déjà vu—A study of duplicate citations in Medline
Bioinformatics Advance Access published on December 1, 2007
Bioinformatics 2008 24: 243-249; doi:10.1093/bioinformatics/btm574 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

Ichigaku Takigawa and Hiroshi Mamitsuka
Probabilistic path ranking based on adjacent pairwise coexpression for metabolic transcripts analysis
Bioinformatics Advance Access published on November 24, 2007
Bioinformatics 2008 24: 250-257; doi:10.1093/bioinformatics/btm575 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

Giuseppe Jurman, Stefano Merler, Annalisa Barla, Silvano Paoli, Antonio Galea, and Cesare Furlanello
Algebraic stability indicators for ranked lists in molecular profiling
Bioinformatics Advance Access published on November 16, 2007
Bioinformatics 2008 24: 258-264; doi:10.1093/bioinformatics/btm550 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

DATABASES AND ONTOLOGIES:

Da Yang, Yanhui Li, Hui Xiao, Qing Liu, Min Zhang, Jing Zhu, Wencai Ma, Chen Yao, Jing Wang, Dong Wang, Zheng Guo, and Baofeng Yang
Gaining confidence in biological interpretation of the microarray data: the functional consistence of the significant GO categories
Bioinformatics Advance Access published on November 15, 2007
Bioinformatics 2008 24: 265-271; doi:10.1093/bioinformatics/btm558 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

APPLICATIONS NOTES:

STRUCTURAL BIOINFORMATICS:

Annamária F. Ángyán, András Perczel, Sándor Pongor, and Zoltán Gáspári
Fast protein fold estimation from NMR-derived distance restraints
Bioinformatics Advance Access published on November 13, 2007
Bioinformatics 2008 24: 272-275; doi:10.1093/bioinformatics/btm564 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

GENE EXPRESSION:

Wolfgang Raffelsberger, Yannick Krause, Luc Moulinier, David Kieffer, Anne-Laure Morand, Laurent Brino, and Olivier Poch
RReportGenerator: automatic reports from routine statistical analysis using R
Bioinformatics Advance Access published on November 24, 2007
Bioinformatics 2008 24: 276-278; doi:10.1093/bioinformatics/btm556 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

GENETICS AND POPULATION ANALYSIS:

Christian Fuchsberger, Mario Falchi, Lukas Forer, and Peter P. Pramstaller
PedVizApi: a Java API for the interactive, visual analysis of extended pedigrees
Bioinformatics Advance Access published on November 22, 2007
Bioinformatics 2008 24: 279-281; doi:10.1093/bioinformatics/btm577 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Yassen Assenov, Fidel Ramírez, Sven-Eric Schelhorn, Thomas Lengauer, and Mario Albrecht
Computing topological parameters of biological networks
Bioinformatics Advance Access published on November 15, 2007
Bioinformatics 2008 24: 282-284; doi:10.1093/bioinformatics/btm554 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

Thomas W. Evans, Colin S. Gillespie, and Darren J. Wilkinson
The SBML discrete stochastic models test suite
Bioinformatics Advance Access published on November 19, 2007
Bioinformatics 2008 24: 285-286; doi:10.1093/bioinformatics/btm566 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Peter Li, Tom Oinn, Stian Soiland, and Douglas B. Kell
Automated manipulation of systems biology models using libSBML within Taverna workflows
Bioinformatics Advance Access published on December 1, 2007
Bioinformatics 2008 24: 287-289; doi:10.1093/bioinformatics/btm578 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Kevin Y. Yip, Prianka Patel, Philip M. Kim, Donald M. Engelman, Drew McDermott, and Mark Gerstein
An integrated system for studying residue coevolution in proteins
Bioinformatics Advance Access published on December 1, 2007
Bioinformatics 2008 24: 290-292; doi:10.1093/bioinformatics/btm584 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

Sema Kachalo, Ranran Zhang, Eduardo Sontag, Réka Albert, and Bhaskar DasGupta
NET-SYNTHESIS: a software for synthesis, inference and simplification of signal transduction networks
Bioinformatics Advance Access published on November 22, 2007
Bioinformatics 2008 24: 293-295; doi:10.1093/bioinformatics/btm571 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

DATA AND TEXT MINING:

Dietrich Rebholz-Schuhmann, Miguel Arregui, Sylvain Gaudan, Harald Kirsch, and Antonio Jimeno
Text processing through Web services: calling Whatizit
Bioinformatics Advance Access published on November 15, 2007
Bioinformatics 2008 24: 296-298; doi:10.1093/bioinformatics/btm557 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

DATABASES AND ONTOLOGIES:

Unitsa Sangket, Amornrat Phongdara, Wilaiwan Chotigeat, Darran Nathan, Woo-Yeon Kim, Jong Bhak, Chumpol Ngamphiw, Sissades Tongsima, Asif M. Khan, Honghuang Lin, and Tin Wee Tan
Automatic synchronization and distribution of biological databases and software over low-bandwidth networks among developing countries
Bioinformatics Advance Access published on November 23, 2007
Bioinformatics 2008 24: 299-301; doi:10.1093/bioinformatics/btm570 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

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.