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Previous Next 		Contents: Volume 22, Number 3, 1 February 2006   [Index by Author] 
       DISCOVERY NOTE
                SEQUENCE ANALYSIS
                STRUCTURAL BIOINFORMATICS
                DATA AND TEXT MINING
       ORIGINAL PAPERS
                SEQUENCE ANALYSIS
                STRUCTURAL BIOINFORMATICS
                GENE EXPRESSION
                GENETICS AND POPULATION ANALYSIS
                SYSTEMS BIOLOGY
       APPLICATIONS NOTE
                GENOME ANALYSIS
                SEQUENCE ANALYSIS
                PHYLOGENETICS
                STRUCTURAL BIOINFORMATICS
                GENE EXPRESSION
                GENETICS AND POPULATION ANALYSIS
                SYSTEMS BIOLOGY
                DATABASES AND ONTOLOGIES
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DISCOVERY NOTE:

SEQUENCE ANALYSIS:

Lakshminarayan M. Iyer, A. Maxwell Burroughs, and L. Aravind
The ASCH superfamily: novel domains with a fold related to the PUA domain and a potential role in RNA metabolism
Bioinformatics Advance Access published on December 1, 2005
Bioinformatics 2006 22: 257-263; doi:10.1093/bioinformatics/bti767 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Matthew H. J. Cordes and Greta J. Binford
Lateral gene transfer of a dermonecrotic toxin between spiders and bacteria
Bioinformatics Advance Access published on December 6, 2005
Bioinformatics 2006 22: 264-268; doi:10.1093/bioinformatics/bti811 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATA AND TEXT MINING:

Núria López-Bigas, Benjamin J. Blencowe, and Christos A. Ouzounis
Highly consistent patterns for inherited human diseases at the molecular level
Bioinformatics Advance Access published on November 15, 2005
Bioinformatics 2006 22: 269-277; doi:10.1093/bioinformatics/bti781 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

ORIGINAL PAPERS:

SEQUENCE ANALYSIS:

Susan Idicula-Thomas, Abhijit J. Kulkarni, Bhaskar D. Kulkarni, Valadi K. Jayaraman, and Petety V. Balaji
A support vector machine-based method for predicting the propensity of a protein to be soluble or to form inclusion body on overexpression in Escherichia coli
Bioinformatics Advance Access published on December 6, 2005
Bioinformatics 2006 22: 278-284; doi:10.1093/bioinformatics/bti810 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Qi-wen Dong, Xiao-long Wang, and Lei Lin
Application of latent semantic analysis to protein remote homology detection
Bioinformatics Advance Access published on November 29, 2005
Bioinformatics 2006 22: 285-290; doi:10.1093/bioinformatics/bti801 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

S. Vishnu V. Deevi and Andrew C. R. Martin
An extensible automated protein annotation tool: standardizing input and output using validated XML
Bioinformatics Advance Access published on December 8, 2005
Bioinformatics 2006 22: 291-296; doi:10.1093/bioinformatics/bti808 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Eunhee Koh, Taehyo Kim, and Hyun-soo Cho
Mean curvature as a major determinant of ß-sheet propensity
Bioinformatics Advance Access published on November 15, 2005
Bioinformatics 2006 22: 297-302; doi:10.1093/bioinformatics/bti775 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Baoqiang Cao, Aleksey Porollo, Rafal Adamczak, Mark Jarrell, and Jaroslaw Meller
Enhanced recognition of protein transmembrane domains with prediction-based structural profiles
Bioinformatics Advance Access published on November 17, 2005
Bioinformatics 2006 22: 303-309; doi:10.1093/bioinformatics/bti784 [Abstract] [FREE Full Text] [Print PDF] [Supplementary Data]   OPEN ACCESS ARTICLE  

GENE EXPRESSION:

Earl F. Glynn, Jie Chen, and Arcady R. Mushegian
Detecting periodic patterns in unevenly spaced gene expression time series using Lomb–Scargle periodograms
Bioinformatics Advance Access published on November 22, 2005
Bioinformatics 2006 22: 310-316; doi:10.1093/bioinformatics/bti789 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Wensheng Zhang, Romdhane Rekaya, and Keith Bertrand
A method for predicting disease subtypes in presence of misclassification among training samples using gene expression: application to human breast cancer
Bioinformatics Advance Access published on November 2, 2005
Bioinformatics 2006 22: 317-325; doi:10.1093/bioinformatics/bti738 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Dick de Ridder, Frank J. T. Staal, Jacques J. M. van Dongen, and Marcel J. T. Reinders
Maximum significance clustering of oligonucleotide microarrays
Bioinformatics Advance Access published on November 22, 2005
Bioinformatics 2006 22: 326-331; doi:10.1093/bioinformatics/bti788 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Jianhua Ruan and Weixiong Zhang
A bi-dimensional regression tree approach to the modeling of gene expression regulation
Bioinformatics Advance Access published on November 22, 2005
Bioinformatics 2006 22: 332-340; doi:10.1093/bioinformatics/bti792 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

Peter Beerli
Comparison of Bayesian and maximum-likelihood inference of population genetic parameters
Bioinformatics Advance Access published on November 29, 2005
Bioinformatics 2006 22: 341-345; doi:10.1093/bioinformatics/bti803 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Ravishankar Rao Vallabhajosyula, Vijay Chickarmane, and Herbert M. Sauro
Conservation analysis of large biochemical networks
Bioinformatics Advance Access published on November 29, 2005
Bioinformatics 2006 22: 346-353; doi:10.1093/bioinformatics/bti800 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

APPLICATIONS NOTE:

GENOME ANALYSIS:

Mark W. E. J. Fiers, Huub van de Wetering, Tim H. J. M. Peeters, Jarke J. van Wijk, and Jan-Peter Nap
DNAVis: interactive visualization of comparative genome annotations
Bioinformatics Advance Access published on December 6, 2005
Bioinformatics 2006 22: 354-355; doi:10.1093/bioinformatics/bti807 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

SEQUENCE ANALYSIS:

A. V. McDonnell, T. Jiang, A. E. Keating, and B. Berger
Paircoil2: improved prediction of coiled coils from sequence
Bioinformatics Advance Access published on November 29, 2005
Bioinformatics 2006 22: 356-358; doi:10.1093/bioinformatics/bti797 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Tobias Dezulian, Michael Remmert, Javier F. Palatnik, Detlef Weigel, and Daniel H. Huson
Identification of plant microRNA homologs
Bioinformatics Advance Access published on November 29, 2005
Bioinformatics 2006 22: 359-360; doi:10.1093/bioinformatics/bti802 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Tiago José P. Sobreira, Alan M. Durham, and Arthur Gruber
TRAP: automated classification, quantification and annotation of tandemly repeated sequences
Bioinformatics Advance Access published on December 6, 2005
Bioinformatics 2006 22: 361-362; doi:10.1093/bioinformatics/bti809 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

PHYLOGENETICS:

Nicolas Bortolussi, Eric Durand, Michael Blum, and Olivier François
apTreeshape: statistical analysis of phylogenetic tree shape
Bioinformatics Advance Access published on December 1, 2005
Bioinformatics 2006 22: 363-364; doi:10.1093/bioinformatics/bti798 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Andreas Moll, Andreas Hildebrandt, Hans-Peter Lenhof, and Oliver Kohlbacher
BALLView: a tool for research and education in molecular modeling
Bioinformatics Advance Access published on December 6, 2005
Bioinformatics 2006 22: 365-366; doi:10.1093/bioinformatics/bti818 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION:

Elo Leung and Pierre R. Bushel
PAGE: phase-shifted analysis of gene expression
Bioinformatics Advance Access published on December 1, 2005
Bioinformatics 2006 22: 367-368; doi:10.1093/bioinformatics/bti778 [Abstract] [FREE Full Text] [Print PDF]   OPEN ACCESS ARTICLE  

Giorgio Valentini
Clusterv: a tool for assessing the reliability of clusters discovered in DNA microarray data
Bioinformatics Advance Access published on December 6, 2005
Bioinformatics 2006 22: 369-370; doi:10.1093/bioinformatics/bti817 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

Dumitru Brinza and Alexander Zelikovsky
2SNP: scalable phasing based on 2-SNP haplotypes
Bioinformatics Advance Access published on November 15, 2005
Bioinformatics 2006 22: 371-373; doi:10.1093/bioinformatics/bti785 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

U. Dogrusoz, E. Z. Erson, E. Giral, E. Demir, O. Babur, A. Cetintas, and R. Colak
PATIKAweb: a Web interface for analyzing biological pathways through advanced querying and visualization
Bioinformatics Advance Access published on November 15, 2005
Bioinformatics 2006 22: 374-375; doi:10.1093/bioinformatics/bti776 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATABASES AND ONTOLOGIES:

Hu Chen, Ni Huang, and Zhirong Sun
SubLoc: a server/client suite for protein subcellular location based on SOAP
Bioinformatics Advance Access published on December 8, 2005
Bioinformatics 2006 22: 376-377; doi:10.1093/bioinformatics/bti822 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Jing Ding, LaRon M. Hughes, Daniel Berleant, Andy W. Fulmer, and Eve Syrkin Wurtele
PubMed Assistant: a biologist-friendly interface for enhanced PubMed search
Bioinformatics Advance Access published on December 6, 2005
Bioinformatics 2006 22: 378-380; doi:10.1093/bioinformatics/bti821 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Steven M. Gallo, Long Li, Zihua Hu, and Marc S. Halfon
REDfly: a Regulatory Element Database for Drosophila
Bioinformatics Advance Access published on November 22, 2005
Bioinformatics 2006 22: 381-383; doi:10.1093/bioinformatics/bti794 [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.