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Previous Next 		Contents: Volume 25, Number 3, 1 February 2009   [Index by Author] 
Down DISCOVERY NOTE
     SEQUENCE ANALYSIS
Down ORIGINAL PAPERS
     SEQUENCE ANALYSIS
     PHYLOGENETICS
     GENE EXPRESSION
     GENETICS AND POPULATION ANALYSIS
     SYSTEMS BIOLOGY
     DATA AND TEXT MINING
     DATABASES AND ONTOLOGIES
Down APPLICATIONS NOTE
     STRUCTURAL BIOINFORMATICS
     GENE EXPRESSION
     SYSTEMS BIOLOGY
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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 NOTE Back

SEQUENCE ANALYSIS Back

Bogumil Kaczkowski, Elfar Torarinsson, Kristin Reiche, Jakob Hull Havgaard, Peter F. Stadler, and Jan Gorodkin
Structural profiles of human miRNA families from pairwise clustering
Bioinformatics Advance Access published on December 4, 2008
Bioinformatics 2009 25: 291-294; doi:10.1093/bioinformatics/btn628 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

ORIGINAL PAPERS Back

SEQUENCE ANALYSIS Back

Benedict Paten, Javier Herrero, Kathryn Beal, and Ewan Birney
Sequence progressive alignment, a framework for practical large-scale probabilistic consistency alignment
Bioinformatics Advance Access published on December 4, 2008
Bioinformatics 2009 25: 295-301; doi:10.1093/bioinformatics/btn630 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

Denise Y.F. Mak and Gary Benson
All hits all the time: parameter-free calculation of spaced seed sensitivity
Bioinformatics Advance Access published on December 18, 2008
Bioinformatics 2009 25: 302-308; doi:10.1093/bioinformatics/btn643 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

PHYLOGENETICS Back

Jumamurat R. Bayjanov, Michiel Wels, Marjo Starrenburg, Johan E. T. van Hylckama Vlieg, Roland J. Siezen, and Douwe Molenaar
PanCGH: a genotype-calling algorithm for pangenome CGH data
Bioinformatics Advance Access published on January 7, 2009
Bioinformatics 2009 25: 309-314; doi:10.1093/bioinformatics/btn632 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

GENE EXPRESSION Back

Stan Pounds, Cheng Cheng, Charles Mullighan, Susana C. Raimondi, Sheila Shurtleff, and James R. Downing
Reference alignment of SNP microarray signals for copy number analysis of tumors
Bioinformatics Advance Access published on December 3, 2008
Bioinformatics 2009 25: 315-321; doi:10.1093/bioinformatics/btn624 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Krzysztof Wabnik, Torgeir R. Hvidsten, Anna Kedzierska, Jelle Van Leene, Geert De Jaeger, Gerrit T. S. Beemster, Jan Komorowski, and Martin T. R. Kuiper
Gene expression trends and protein features effectively complement each other in gene function prediction
Bioinformatics Advance Access published on December 2, 2008
Bioinformatics 2009 25: 322-330; doi:10.1093/bioinformatics/btn625 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Kun-Hong Liu and Chun-Gui Xu
A genetic programming-based approach to the classification of multiclass microarray datasets
Bioinformatics Advance Access published on December 16, 2008
Bioinformatics 2009 25: 331-337; doi:10.1093/bioinformatics/btn644 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS Back

Junghyun Namkung, Kyunga Kim, Sungon Yi, Wonil Chung, Min-Seok Kwon, and Taesung Park
New evaluation measures for multifactor dimensionality reduction classifiers in gene–gene interaction analysis
Bioinformatics Advance Access published on January 22, 2009
Bioinformatics 2009 25: 338-345; doi:10.1093/bioinformatics/btn629 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

SYSTEMS BIOLOGY Back

Ekaterina Myasnikova, Svetlana Surkova, Lena Panok, Maria Samsonova, and John Reinitz
Estimation of errors introduced by confocal imaging into the data on segmentation gene expression in Drosophila
Bioinformatics Advance Access published on December 3, 2008
Bioinformatics 2009 25: 346-352; doi:10.1093/bioinformatics/btn620 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Mahesh Yaragatti, Ted Sandler, and Lyle Ungar
A predictive model for identifying mini-regulatory modules in the mouse genome
Bioinformatics Advance Access published on December 3, 2008
Bioinformatics 2009 25: 353-357; doi:10.1093/bioinformatics/btn622 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Hu Li, Choong Yong Ung, Xiao Hua Ma, Bao Wen Li, Boon Chuan Low, Zhi Wei Cao, and Yu Zong Chen
Simulation of crosstalk between small GTPase RhoA and EGFR-ERK signaling pathway via MEKK1
Bioinformatics Advance Access published on December 11, 2008
Bioinformatics 2009 25: 358-364; doi:10.1093/bioinformatics/btn635 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

David Goldberg, Marshall Bern, Simon J. North, Stuart M. Haslam, and Anne Dell
Glycan family analysis for deducing N-glycan topology from single MS
Bioinformatics Advance Access published on December 10, 2008
Bioinformatics 2009 25: 365-371; doi:10.1093/bioinformatics/btn636 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Hailiang Huang and Joel S. Bader
Precision and recall estimates for two-hybrid screens
Bioinformatics Advance Access published on December 17, 2008
Bioinformatics 2009 25: 372-378; doi:10.1093/bioinformatics/btn640 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

DATA AND TEXT MINING Back

Anthony Y. C. Kuk, Han Zhang, and Yaning Yang
Computationally feasible estimation of haplotype frequencies from pooled DNA with and without Hardy–Weinberg equilibrium
Bioinformatics Advance Access published on December 2, 2008
Bioinformatics 2009 25: 379-386; doi:10.1093/bioinformatics/btn623 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Je-Gun Joung and Zhangjun Fei
Identification of microRNA regulatory modules in Arabidopsis via a probabilistic graphical model
Bioinformatics Advance Access published on December 4, 2008
Bioinformatics 2009 25: 387-393; doi:10.1093/bioinformatics/btn626 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Yusuke Miyao, Kenji Sagae, Rune Sætre, Takuya Matsuzaki, and Jun'ichi Tsujii
Evaluating contributions of natural language parsers to protein–protein interaction extraction
Bioinformatics Advance Access published on December 9, 2008
Bioinformatics 2009 25: 394-400; doi:10.1093/bioinformatics/btn631 [Abstract] [FREE Full Text] [Print PDF]   Creative Commons License OPEN ACCESS  

A. K. Smilde, H. A. L. Kiers, S. Bijlsma, C. M. Rubingh, and M. J. van Erk
Matrix correlations for high-dimensional data: the modified RV-coefficient
Bioinformatics Advance Access published on December 10, 2008
Bioinformatics 2009 25: 401-405; doi:10.1093/bioinformatics/btn634 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATABASES AND ONTOLOGIES Back

Davide Bolchini, Anthony Finkelstein, Vito Perrone, and Sylvia Nagl
Better bioinformatics through usability analysis
Bioinformatics Advance Access published on December 9, 2008
Bioinformatics 2009 25: 406-412; doi:10.1093/bioinformatics/btn633 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

APPLICATIONS NOTE Back

STRUCTURAL BIOINFORMATICS Back

Christopher Reynolds, David Damerell, and Susan Jones
ProtorP: a protein–protein interaction analysis server
Bioinformatics Advance Access published on November 11, 2008
Bioinformatics 2009 25: 413-414; doi:10.1093/bioinformatics/btn584 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION Back

Audrey Kauffmann, Robert Gentleman, and Wolfgang Huber
arrayQualityMetrics—a bioconductor package for quality assessment of microarray data
Bioinformatics Advance Access published on December 23, 2008
Bioinformatics 2009 25: 415-416; doi:10.1093/bioinformatics/btn647 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   Creative Commons License OPEN ACCESS  

SYSTEMS BIOLOGY Back

Julien Chiquet, Alexander Smith, Gilles Grasseau, Catherine Matias, and Christophe Ambroise
SIMoNe: Statistical Inference for MOdular NEtworks
Bioinformatics Advance Access published on December 10, 2008
Bioinformatics 2009 25: 417-418; doi:10.1093/bioinformatics/btn637 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

M. Barenco, E. Papouli, S. Shah, D. Brewer, C.J. Miller, and M. Hubank
rHVDM: an R package to predict the activity and targets of a transcription factor
Bioinformatics Advance Access published on December 15, 2008
Bioinformatics 2009 25: 419-420; doi:10.1093/bioinformatics/btn639 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [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.