Bioinformatics

SAC 2004 PAPERS

Get checked abstract Jyotsna Kasturi and Raj Acharya

Clustering of diverse genomic data using information fusion
Bioinformatics Advance Access published on December 17, 2004
Bioinformatics 2005 21: 423-429; doi:10.1093/bioinformatics/bti186 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Aditya Vailaya, Peter Bluvas, Robert Kincaid, Allan Kuchinsky, Michael Creech, and Annette Adler

An architecture for biological information extraction and representation
Bioinformatics Advance Access published on December 17, 2004
Bioinformatics 2005 21: 430-438; doi:10.1093/bioinformatics/bti187 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract D. Komura, H. Nakamura, S. Tsutsumi, H. Aburatani, and S. Ihara

Multidimensional support vector machines for visualization of gene expression data
Bioinformatics Advance Access published on December 17, 2004
Bioinformatics 2005 21: 439-444; doi:10.1093/bioinformatics/bti188 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Osman Abul, Reda Alhajj, Faruk Polat, and Ken Barker

Finding differentially expressed genes for pattern generation
Bioinformatics Advance Access published on December 17, 2004
Bioinformatics 2005 21: 445-450; doi:10.1093/bioinformatics/bti189 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Nadia Bolshakova, Francisco Azuaje, and Pádraig Cunningham

An integrated tool for microarray data clustering and cluster validity assessment
Bioinformatics Advance Access published on December 17, 2004
Bioinformatics 2005 21: 451-455; doi:10.1093/bioinformatics/bti190 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract A. Stamatakis, T. Ludwig, and H. Meier

RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees
Bioinformatics Advance Access published on December 17, 2004
Bioinformatics 2005 21: 456-463; doi:10.1093/bioinformatics/bti191 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

ORIGINAL PAPERS

GENOME ANALYSIS

Get checked abstract Tarjei S. Mikkelsen, James E. Galagan, and Jill P. Mesirov

Improving genome annotations using phylogenetic profile anomaly detection
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 464-470; doi:10.1093/bioinformatics/bti027 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SEQUENCE ANALYSIS

Get checked abstract Te-Ming Chen, Chung-Chin Lu, and Wen-Hsiung Li

Prediction of splice sites with dependency graphs and their expanded bayesian networks
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 471-482; doi:10.1093/bioinformatics/bti025 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Gaurav Sachdeva, Kaushal Kumar, Preti Jain, and Srinivasan Ramachandran

SPAAN: a software program for prediction of adhesins and adhesin-like proteins using neural networks
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 483-491; doi:10.1093/bioinformatics/bti028 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION

Get checked abstract V. Vinciotti, R. Khanin, D. D'Alimonte, X. Liu, N. Cattini, G. Hotchkiss, G. Bucca, O. de Jesus, J. Rasaiyaah, C. P. Smith, P. Kellam, and E. Wit

An experimental evaluation of a loop versus a reference design for two-channel microarrays
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 492-501; doi:10.1093/bioinformatics/bti022 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Paul Delmar, Stéphane Robin, and Jean Jacques Daudin

VarMixt: efficient variance modelling for the differential analysis of replicated gene expression data
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 502-508; doi:10.1093/bioinformatics/bti023 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Liping Ji and Kian-Lee Tan

Identifying time-lagged gene clusters using gene expression data
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 509-516; doi:10.1093/bioinformatics/bti026 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Byung Soo Kim, Inyoung Kim, Sunho Lee, Sangcheol Kim, Sun Young Rha, and Hyun Cheol Chung

Statistical methods of translating microarray data into clinically relevant diagnostic information in colorectal cancer
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 517-528; doi:10.1093/bioinformatics/bti029 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Zhong Guan and Hongyu Zhao

A semiparametric approach for marker gene selection based on gene expression data
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 529-536; doi:10.1093/bioinformatics/bti032 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

APPLICATIONS NOTE

GENOME ANALYSIS

Get checked abstract Paul Stothard and David S. Wishart

Circular genome visualization and exploration using CGView
Bioinformatics Advance Access published on October 12, 2004
Bioinformatics 2005 21: 537-539; doi:10.1093/bioinformatics/bti054 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SEQUENCE ANALYSIS

Get checked abstract Martín Sarachu and Marc Colet

wEMBOSS: a web interface for EMBOSS
Bioinformatics Advance Access published on September 23, 2004
Bioinformatics 2005 21: 540-541; doi:10.1093/bioinformatics/bti031 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Derek Kisman, Ming Li, Bin Ma, and Li Wang

tPatternHunter: gapped, fast and sensitive translated homology search
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 542-544; doi:10.1093/bioinformatics/bti035 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract D. Charif, J. Thioulouse, J. R. Lobry, and G. Perrière

Online synonymous codon usage analyses with the ade4 and seqinR packages
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 545-547; doi:10.1093/bioinformatics/bti037 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Jinsoo Kim, Jungmin Seo, Young Seek Lee, and Sangsoo Kim

TFExplorer: integrated analysis database for predicted transcription regulatory elements
Bioinformatics Advance Access published on October 5, 2004
Bioinformatics 2005 21: 548-550; doi:10.1093/bioinformatics/bti048 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS

Get checked abstract Allegra Via, Andreas Zanzoni, and Manuela Helmer-Citterich

Seq2Struct: a resource for establishing sequence-structure links
Bioinformatics Advance Access published on September 28, 2004
Bioinformatics 2005 21: 551-553; doi:10.1093/bioinformatics/bti049 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION

Get checked abstract Andreas Buness, Wolfgang Huber, Klaus Steiner, Holger Sültmann, and Annemarie Poustka

arrayMagic: two-colour cDNA microarray quality control and preprocessing
Bioinformatics Advance Access published on September 28, 2004
Bioinformatics 2005 21: 554-556; doi:10.1093/bioinformatics/bti052 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS

Get checked abstract X. Kong and T. C. Matise

MAP-O-MAT: internet-based linkage mapping
Bioinformatics Advance Access published on September 16, 2004
Bioinformatics 2005 21: 557-559; doi:10.1093/bioinformatics/bti024 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY

Get checked abstract Brett G. Olivier, Johann M. Rohwer, and Jan-Hendrik S. Hofmeyr

Modelling cellular systems with PySCeS
Bioinformatics Advance Access published on September 28, 2004
Bioinformatics 2005 21: 560-561; doi:10.1093/bioinformatics/bti046 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

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