Bioinformatics

SAC 2002 PAPER:

Mathew Palakal, Snehasis Mukhopadhyay, Javed Mostafa, Rajeev Raje, Mathias N'Cho, and Santosh Mishra

An intelligent biological information management system
Bioinformatics 2002 18: 1283-1288; doi:10.1093/bioinformatics/18.10.1283 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Rhonda Harrison and Charles DeLisi

Condition specific transcription factor binding site characterization in Saccharomyces cerevisiae
Bioinformatics 2002 18: 1289-1296; doi:10.1093/bioinformatics/18.10.1289 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Gianluca Della Vedova and H. Todd Wareham

Optimal algorithms for local vertex quartet cleaning
Bioinformatics 2002 18: 1297-1304; doi:10.1093/bioinformatics/18.10.1297 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

David Sankoff

Short inversions and conserved gene cluster
Bioinformatics 2002 18: 1305; doi:10.1093/bioinformatics/18.10.1305 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

ORIGINAL PAPERS:

Irmtraud M. Meyer and Richard Durbin

Comparative ab initio prediction of gene structures using pair HMMs
Bioinformatics 2002 18: 1309-1318; doi:10.1093/bioinformatics/18.10.1309 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Ilya Shmulevich, Edward R. Dougherty, and Wei Zhang

Gene perturbation and intervention in probabilistic Boolean networks
Bioinformatics 2002 18: 1319-1331; doi:10.1093/bioinformatics/18.10.1319 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Yi Li, Colin Campbell, and Michael Tipping

Bayesian automatic relevance determination algorithms for classifying gene expression data
Bioinformatics 2002 18: 1332-1339; doi:10.1093/bioinformatics/18.10.1332 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Lars Kaderali and Alexander Schliep

Selecting signature oligonucleotides to identify organisms using DNA arrays
Bioinformatics 2002 18: 1340-1349; doi:10.1093/bioinformatics/18.10.1340 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Kuang Lin, Alex C.W. May, and William R. Taylor

Threading Using Neural nEtwork (TUNE): the measure of protein sequence—structure compatibility
Bioinformatics 2002 18: 1350-1357; doi:10.1093/bioinformatics/18.10.1350 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Ovidiu Ivanciuc, Catherine H. Schein, and Werner Braun

Data mining of sequences and 3D structures of allergenic proteins
Bioinformatics 2002 18: 1358-1364; doi:10.1093/bioinformatics/18.10.1358 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

B.J. McConkey, V. Sobolev, and M. Edelman

Quantification of protein surfaces, volumes and atom–atom contacts using a constrained Voronoi procedure
Bioinformatics 2002 18: 1365-1373; doi:10.1093/bioinformatics/18.10.1365 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

U. Keich and P.A. Pevzner

Finding motifs in the twilight zone
Bioinformatics 2002 18: 1374-1381; doi:10.1093/bioinformatics/18.10.1374 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

U. Keich and P.A. Pevzner

Subtle motifs: defining the limits of motif finding algorithms
Bioinformatics 2002 18: 1382-1390; doi:10.1093/bioinformatics/18.10.1382 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

DISCOVERY NOTES:

Janusz Bujnicki, Leszek Rychlewski, and Daniel Fischer

Fold-recognition detects an error in the Protein Data Bank
Bioinformatics 2002 18: 1391-1395; doi:10.1093/bioinformatics/18.10.1391 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

APPLICATIONS NOTES:

Eugene Berezikov, Ronald H.A. Plasterk, and Edwin Cuppen

GENOTRACE: cDNA-based local GENOme assembly from TRACE archives
Bioinformatics 2002 18: 1396-1397; doi:10.1093/bioinformatics/18.10.1396 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

M.D. Wilkinson, D. Block, and W.L. Crosby

Genquire: genome annotation browser/editor
Bioinformatics 2002 18: 1398-1399; doi:10.1093/bioinformatics/18.10.1398 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Tra Thi Vu and Jiri Vohradsky

Genexp—a genetic network simulation environment
Bioinformatics 2002 18: 1400-1401; doi:10.1093/bioinformatics/18.10.1400 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

P.W. Lord, J.N. Selley, and T.K. Attwood

CINEMA-MX: a modular multiple alignment editor
Bioinformatics 2002 18: 1402-1403; doi:10.1093/bioinformatics/18.10.1402 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

O.G. Pybus and A. Rambaut

GENIE: estimating demographic history from molecular phylogenies
Bioinformatics 2002 18: 1404-1405; doi:10.1093/bioinformatics/18.10.1404 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

CORRIGENDUM:

Jinyan Li and Limsoon Wong

Identifying good diagnostic gene groups from gene expression profiles using the concept of emerging patterns
Bioinformatics 2002 18: 1406-1407; doi:10.1093/bioinformatics/18.10.1406 [Print PDF][Screen PDF] [Request Permissions]  

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