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Previous Next 		Contents: Volume 25, Number 2, 15 January 2009   [Index by Author] 
Down DISCOVERY NOTES
     SEQUENCE ANALYSIS
     DATABASES AND ONTOLOGIES
Down ORIGINAL PAPERS
     GENOME ANALYSIS
     SEQUENCE ANALYSIS
     PHYLOGENETICS
     STRUCTURAL BIOINFORMATICS
     GENE EXPRESSION
     GENETICS AND POPULATION ANALYSIS
     SYSTEMS BIOLOGY
     DATA AND TEXT MINING
Down APPLICATIONS NOTE
     GENOME ANALYSIS
     SEQUENCE ANALYSIS
     GENE EXPRESSION
     GENETICS AND POPULATION ANALYSIS
     SYSTEMS BIOLOGY
     DATABASES AND ONTOLOGIES
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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.

DISCOVERY NOTES Back

SEQUENCE ANALYSIS Back

Alex Bateman, Robert D. Finn, Peter J. Sims, Therese Wiedmer, Andreas Biegert, and Johannes Söding
Phospholipid scramblases and Tubby-like proteins belong to a new superfamily of membrane tethered transcription factors
Bioinformatics Advance Access published on November 13, 2008
Bioinformatics 2009 25: 159-162; doi:10.1093/bioinformatics/btn595 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

DATABASES AND ONTOLOGIES Back

Richard S. P. Horler, Andrew Butcher, Nikitas Papangelopoulos, Peter D. Ashton, and Gavin H. Thomas
EchoLOCATION: an in silico analysis of the subcellular locations of Escherichia coli proteins and comparison with experimentally derived locations
Bioinformatics Advance Access published on November 16, 2008
Bioinformatics 2009 25: 163-166; doi:10.1093/bioinformatics/btn596 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

ORIGINAL PAPERS Back

GENOME ANALYSIS Back

Xiaohui Xie, Paul Rigor, and Pierre Baldi
MotifMap: a human genome-wide map of candidate regulatory motif sites
Bioinformatics Advance Access published on November 18, 2008
Bioinformatics 2009 25: 167-174; doi:10.1093/bioinformatics/btn605 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

SEQUENCE ANALYSIS Back

William H. Majoros and Uwe Ohler
Complexity reduction in context-dependent DNA substitution models
Bioinformatics Advance Access published on November 18, 2008
Bioinformatics 2009 25: 175-182; doi:10.1093/bioinformatics/btn598 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Shijie Zhang, Wei Su, and Jiong Yang
ARCS-Motif: discovering correlated motifs from unaligned biological sequences
Bioinformatics Advance Access published on December 9, 2008
Bioinformatics 2009 25: 183-189; doi:10.1093/bioinformatics/btn609 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

PHYLOGENETICS Back

Yufeng Wu
A practical method for exact computation of subtree prune and regraft distance
Bioinformatics Advance Access published on November 19, 2008
Bioinformatics 2009 25: 190-196; doi:10.1093/bioinformatics/btn606 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Alex Webb, John M. Hancock, and Chris C. Holmes
Phylogenetic inference under recombination using Bayesian stochastic topology selection
Bioinformatics Advance Access published on November 20, 2008
Bioinformatics 2009 25: 197-203; doi:10.1093/bioinformatics/btn607 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

STRUCTURAL BIOINFORMATICS Back

Ganesan Pugalenthi, Ke Tang, P. N. Suganthan, and Saikat Chakrabarti
Identification of structurally conserved residues of proteins in absence of structural homologs using neural network ensemble
Bioinformatics Advance Access published on November 27, 2008
Bioinformatics 2009 25: 204-210; doi:10.1093/bioinformatics/btn618 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

GENE EXPRESSION Back

Maureen A. Sartor, George D. Leikauf, and Mario Medvedovic
LRpath: a logistic regression approach for identifying enriched biological groups in gene expression data
Bioinformatics Advance Access published on November 27, 2008
Bioinformatics 2009 25: 211-217; doi:10.1093/bioinformatics/btn592 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Sebastian Böcker, Matthias C. Letzel, Zsuzsanna Lipták, and Anton Pervukhin
SIRIUS: decomposing isotope patterns for metabolite identification
Bioinformatics Advance Access published on November 17, 2008
Bioinformatics 2009 25: 218-224; doi:10.1093/bioinformatics/btn603 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

GENETICS AND POPULATION ANALYSIS Back

F. Van Nieuwerburgh, E. Goetghebeur, M. Vandewoestyne, and D. Deforce
Impact of allelic dropout on evidential value of forensic DNA profiles using RMNE
Bioinformatics Advance Access published on November 23, 2008
Bioinformatics 2009 25: 225-229; doi:10.1093/bioinformatics/btn608 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

S. Yilmaz, P. Jonveaux, C. Bicep, L. Pierron, M. Smaïl-Tabbone, and M.D. Devignes
Gene–disease relationship discovery based on model-driven data integration and database view definition
Bioinformatics Advance Access published on November 27, 2008
Bioinformatics 2009 25: 230-236; doi:10.1093/bioinformatics/btn612 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

Lina Chen, Liangcai Zhang, Yan Zhao, Liangde Xu, Yukui Shang, Qian Wang, Wan Li, Hong Wang, and Xia Li
Prioritizing risk pathways: a novel association approach to searching for disease pathways fusing SNPs and pathways
Bioinformatics Advance Access published on November 24, 2008
Bioinformatics 2009 25: 237-242; doi:10.1093/bioinformatics/btn613 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

SYSTEMS BIOLOGY Back

Kevin Y. Yip and Mark Gerstein
Training set expansion: an approach to improving the reconstruction of biological networks from limited and uneven reliable interactions
Bioinformatics Advance Access published on November 17, 2008
Bioinformatics 2009 25: 243-250; doi:10.1093/bioinformatics/btn602 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Donald A. Barkauskas, Hyun Joo An, Scott R. Kronewitter, Maria Lorna de Leoz, Helen K. Chew, Ralph W. de Vere White, Gary S. Leiserowitz, Suzanne Miyamoto, Carlito B. Lebrilla, and David M. Rocke
Detecting glycan cancer biomarkers in serum samples using MALDI FT-ICR mass spectrometry data
Bioinformatics Advance Access published on December 9, 2008
Bioinformatics 2009 25: 251-257; doi:10.1093/bioinformatics/btn610 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATA AND TEXT MINING Back

Gavin Brelstaff, Manuele Bicego, Nicola Culeddu, and Matilde Chessa
Bag of Peaks: interpretation of NMR spectrometry
Bioinformatics Advance Access published on November 18, 2008
Bioinformatics 2009 25: 258-264; doi:10.1093/bioinformatics/btn599 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Sach Mukherjee, Steven Pelech, Richard M. Neve, Wen-Lin Kuo, Safiyyah Ziyad, Paul T. Spellman, Joe W. Gray, and Terence P. Speed
Sparse combinatorial inference with an application in cancer biology
Bioinformatics Advance Access published on November 27, 2008
Bioinformatics 2009 25: 265-271; doi:10.1093/bioinformatics/btn611 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

APPLICATIONS NOTE Back

GENOME ANALYSIS Back

Nobutaka Kitamura, Kouhei Akazawa, Akinori Miyashita, Ryozo Kuwano, Shin-ichi Toyabe, Junichiro Nakamura, Norihito Nakamura, Tatsuhiko Sato, and M. Aminul Hoque
Programs for calculating the statistical powers of detecting susceptibility genes in case–control studies based on multistage designs
Bioinformatics Advance Access published on November 28, 2008
Bioinformatics 2009 25: 272-273; doi:10.1093/bioinformatics/btn616 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

SEQUENCE ANALYSIS Back

Scott Christley, Yiming Lu, Chen Li, and Xiaohui Xie
Human genomes as email attachments
Bioinformatics Advance Access published on November 7, 2008
Bioinformatics 2009 25: 274-275; doi:10.1093/bioinformatics/btn582 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

GENE EXPRESSION Back

Wubin Qu, Zhiyong Shen, Dongsheng Zhao, Yi Yang, and Chenggang Zhang
MFEprimer: multiple factor evaluation of the specificity of PCR primers
Bioinformatics Advance Access published on November 27, 2008
Bioinformatics 2009 25: 276-278; doi:10.1093/bioinformatics/btn614 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Tim F. Rayner, Faisal Ibne Rezwan, Margus Lukk, Xiangqun Zheng Bradley, Anna Farne, Ele Holloway, James Malone, Eleanor Williams, and Helen Parkinson
MAGETabulator, a suite of tools to support the microarray data format MAGE-TAB
Bioinformatics Advance Access published on November 27, 2008
Bioinformatics 2009 25: 279-280; doi:10.1093/bioinformatics/btn617 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

GENETICS AND POPULATION ANALYSIS Back

Oliver S. P. Davis, Robert Plomin, and Leonard C. Schalkwyk
The SNPMaP package for R: a framework for genome-wide association using DNA pooling on microarrays
Bioinformatics Advance Access published on November 12, 2008
Bioinformatics 2009 25: 281-283; doi:10.1093/bioinformatics/btn587 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

Wei Chen, Liming Liang, and Gonçalo R. Abecasis
GWAS GUI: graphical browser for the results of whole-genome association studies with high-dimensional phenotypes
Bioinformatics Advance Access published on November 20, 2008
Bioinformatics 2009 25: 284-285; doi:10.1093/bioinformatics/btn600 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY Back

Bartek Wilczynski and Norbert Dojer
BNFinder: exact and efficient method for learning Bayesian networks
Bioinformatics Advance Access published on September 30, 2008
Bioinformatics 2009 25: 286-287; doi:10.1093/bioinformatics/btn505 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

DATABASES AND ONTOLOGIES Back

Seth Carbon, Amelia Ireland, Christopher J. Mungall, ShengQiang Shu, Brad Marshall, Suzanna Lewis, the AmiGO Hub, and the Web Presence Working Group
AmiGO: online access to ontology and annotation data
Bioinformatics Advance Access published on November 25, 2008
Bioinformatics 2009 25: 288-289; doi:10.1093/bioinformatics/btn615 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

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.