Bioinformatics

DISCOVERY NOTES:

Subbaya Subramanian, Vamsi M. Madgula, Ranjan George, Rakesh K. Mishra, Madhusudhan W. Pandit, Chanderashekar S. Kumar, and Lalji Singh

Triplet repeats in human genome: distribution and their association with genes and other genomic regions
Bioinformatics 2003 19: 549-552; doi:10.1093/bioinformatics/btg029 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

ORIGINAL PAPERS:

Jesús Angulo and Jean Serra

Automatic analysis of DNA microarray images using mathematical morphology
Bioinformatics 2003 19: 553-562; doi:10.1093/bioinformatics/btg057 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

A. Antoniadis, S. Lambert-Lacroix, and F. Leblanc

Effective dimension reduction methods for tumor classification using gene expression data
Bioinformatics 2003 19: 563-570; doi:10.1093/bioinformatics/btg062 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

S. Bicciato, A. Luchini, and C. Di Bello

PCA disjoint models for multiclass cancer analysis using gene expression data
Bioinformatics 2003 19: 571-578; doi:10.1093/bioinformatics/btg051 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Gernot G. Presting

Mapping multiple co-sequenced T-DNA integration sites within the Arabidopsis genome
Bioinformatics 2003 19: 579-586; doi:10.1093/bioinformatics/btg049 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Angela Torres and Juan J. Nieto

The fuzzy polynucleotide space: basic properties
Bioinformatics 2003 19: 587-592; doi:10.1093/bioinformatics/btg032 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Chun-Ting Zhang, Ren Zhang, and Hong-Yu Ou

The Z curve database: a graphic representation of genome sequences
Bioinformatics 2003 19: 593-599; doi:10.1093/bioinformatics/btg041 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

D. S. Horner and G. Pesole

The estimation of relative site variability among aligned homologous protein sequences
Bioinformatics 2003 19: 600-606; doi:10.1093/bioinformatics/btg063 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Konstantinos Blekas, Dimitrios I. Fotiadis, and Aristidis Likas

Greedy mixture learning for multiple motif discovery in biological sequences
Bioinformatics 2003 19: 607-617; doi:10.1093/bioinformatics/btg037 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Stéphane Aris-Brosou

How Bayes tests of molecular phylogenies compare with frequentist approaches
Bioinformatics 2003 19: 618-624; doi:10.1093/bioinformatics/btg065 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Andrew I. Jewett, Conrad C. Huang, and Thomas E. Ferrin

MINRMS: an efficient algorithm for determining protein structure similarity using root-mean-squared-distance
Bioinformatics 2003 19: 625-634; doi:10.1093/bioinformatics/btg035 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

L. J. Jensen, R. Gupta, H.-H. Stærfeldt, and S. Brunak

Prediction of human protein function according to Gene Ontology categories
Bioinformatics 2003 19: 635-642; doi:10.1093/bioinformatics/btg036 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Shinichi Kikuchi, Daisuke Tominaga, Masanori Arita, Katsutoshi Takahashi, and Masaru Tomita

Dynamic modeling of genetic networks using genetic algorithm and S-system
Bioinformatics 2003 19: 643-650; doi:10.1093/bioinformatics/btg027 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

APPLICATIONS NOTES:

Geo Pertea, Xiaoqiu Huang, Feng Liang, Valentin Antonescu, Razvan Sultana, Svetlana Karamycheva, Yuandan Lee, Joseph White, Foo Cheung, Babak Parvizi, Jennifer Tsai, and John Quackenbush

TIGR Gene Indices clustering tools (TGICL): a software system for fast clustering of large EST datasets
Bioinformatics 2003 19: 651-652; doi:10.1093/bioinformatics/btg034 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Jianxin Wang and Ping Liang

DigiNorthern, digital expression analysis of query genes based on ESTs
Bioinformatics 2003 19: 653-654; doi:10.1093/bioinformatics/btg044 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

J. Herrero, R. Díaz-Uriarte, and J. Dopazo

Gene expression data preprocessing
Bioinformatics 2003 19: 655-656; doi:10.1093/bioinformatics/btg040 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Jorge García de la Nava, Daniel Franco Santaella, Jesús Cuenca Alba, José María Carazo, Oswaldo Trelles, and Alberto Pascual-Montano

Engene: the processing and exploratory analysis of gene expression data
Bioinformatics 2003 19: 657-658; doi:10.1093/bioinformatics/btg028 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

David Venet

MatArray: a Matlab toolbox for microarray data
Bioinformatics 2003 19: 659-660; doi:10.1093/bioinformatics/btg046 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Stefano Toppo, Nicola Cannata, Paolo Fontana, Chiara Romualdi, Paolo Laveder, Emanuela Bertocco, Gerolamo Lanfranchi, and Giorgio Valle

TRAIT (TRAnscript Integrated Table): a knowledgebase of human skeletal muscle transcripts
Bioinformatics 2003 19: 661-662; doi:10.1093/bioinformatics/btg045 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

K. Livingstone and L. Rieseberg

MENDB: a database of polymorphic loci from natural populations
Bioinformatics 2003 19: 663-664; doi:10.1093/bioinformatics/btg048 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Manoj Bhasin, Harpreet Singh, and G. P. S. Raghava

MHCBN: a comprehensive database of MHC binding and non-binding peptides
Bioinformatics 2003 19: 665-666; doi:10.1093/bioinformatics/btg055 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Ron Shigeta, Melissa Cline, Guoying Liu, and Michael A. Siani-Rose

GPCR-GRAPA-LIB—a refined library of hidden Markov Models for annotating GPCRs
Bioinformatics 2003 19: 667-668; doi:10.1093/bioinformatics/btg061 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Gianmaria Mancosu, Giuseppe Ledda, and Paola M. Melis

PedNavigator: a pedigree drawing servlet for large and inbred populations
Bioinformatics 2003 19: 669-670; doi:10.1093/bioinformatics/btg050 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Steve Woolley, Justin Johnson, Matthew J. Smith, Keith A. Crandall, and David A. McClellan

TreeSAAP: Selection on Amino Acid Properties using phylogenetic trees
Bioinformatics 2003 19: 671-672; doi:10.1093/bioinformatics/btg043 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Mikita Suyama and Osamu Ohara

DomCut: prediction of inter-domain linker regions in amino acid sequences
Bioinformatics 2003 19: 673-674; doi:10.1093/bioinformatics/btg031 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Andrew Kossenkov, Frank J. Manion, Eugene Korotkov, Thomas D. Moloshok, and Michael F. Ochs

ASAP: automated sequence annotation pipeline for web-based updating of sequence information with a local dynamic database
Bioinformatics 2003 19: 675-676; doi:10.1093/bioinformatics/btg056 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Bruce E. Shapiro, Andre Levchenko, Elliot M. Meyerowitz, Barbara J. Wold, and Eric D. Mjolsness

Cellerator: extending a computer algebra system to include biochemical arrows for signal transduction simulations
Bioinformatics 2003 19: 677-678; doi:10.1093/bioinformatics/btg042 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

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