Bioinformatics

EDITORIALS:

Victor de Lorenzo, Luis Serrano, and Alfonso Valencia

Synthetic Biology: challenges ahead
Bioinformatics 2006 22: 127-128; doi:10.1093/bioinformatics/btk018 [Extract] [Full Text] [Print PDF] [Request Permissions]  

DISCOVERY NOTE:

STRUCTURAL BIOINFORMATICS:

Get checked abstract Jean-Christophe Gelly, Alexandre G. de Brevern, and Serge Hazout

‘Protein Peeling’: an approach for splitting a 3D protein structure into compact fragments
Bioinformatics Advance Access published on November 14, 2005
Bioinformatics 2006 22: 129-133; doi:10.1093/bioinformatics/bti773 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

ORIGINAL PAPERS:

GENOME ANALYSIS:

Get checked abstract J. J. Gordon, M. W. Towsey, J. M. Hogan, S. A. Mathews, and P. Timms

Improved prediction of bacterial transcription start sites
Bioinformatics Advance Access published on November 15, 2005
Bioinformatics 2006 22: 142-148; doi:10.1093/bioinformatics/bti771 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SEQUENCE ANALYSIS:

Get checked abstract I. Mihalek, I. Res, and O. Lichtarge

A structure and evolution-guided Monte Carlo sequence selection strategy for multiple alignment-based analysis of proteins
Bioinformatics Advance Access published on November 22, 2005
Bioinformatics 2006 22: 149-156; doi:10.1093/bioinformatics/bti791 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Get checked abstract Leelavati Narlikar and Alexander J. Hartemink

Sequence features of DNA binding sites reveal structural class of associated transcription factor
Bioinformatics Advance Access published on November 2, 2005
Bioinformatics 2006 22: 157-163; doi:10.1093/bioinformatics/bti731 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Jimin Pei, Wei Cai, Lisa N. Kinch, and Nick V. Grishin

Prediction of functional specificity determinants from protein sequences using log-likelihood ratios
Bioinformatics Advance Access published on November 8, 2005
Bioinformatics 2006 22: 164-171; doi:10.1093/bioinformatics/bti766 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

STRUCTURAL BIOINFORMATICS:

Get checked abstract Hetunandan Kamisetty, Chris Bailey-Kellogg, and Gopal Pandurangan

An efficient randomized algorithm for contact-based NMR backbone resonance assignment
Bioinformatics Advance Access published on November 15, 2005
Bioinformatics 2006 22: 172-180; doi:10.1093/bioinformatics/bti786 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Jan E. Gewehr and Ralf Zimmer

SSEP-Domain: protein domain prediction by alignment of secondary structure elements and profiles
Bioinformatics Advance Access published on November 2, 2005
Bioinformatics 2006 22: 181-187; doi:10.1093/bioinformatics/bti751 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Wei Xie and Nikolaos V. Sahinidis

Residue-rotamer-reduction algorithm for the protein side-chain conformation problem
Bioinformatics Advance Access published on November 8, 2005
Bioinformatics 2006 22: 188-194; doi:10.1093/bioinformatics/bti763 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENE EXPRESSION:

Get checked abstract Francesca Martella

Classification of microarray data with factor mixture models
Bioinformatics Advance Access published on November 15, 2005
Bioinformatics 2006 22: 202-208; doi:10.1093/bioinformatics/bti779 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Anshuman Gupta, Costas D. Maranas, and Réka Albert

Elucidation of directionality for co-expressed genes: predicting intra-operon termination sites
Bioinformatics Advance Access published on November 15, 2005
Bioinformatics 2006 22: 209-214; doi:10.1093/bioinformatics/bti780 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Mizanur R. Khondoker, Chris A. Glasbey, and Bruce J. Worton

Statistical estimation of gene expression using multiple laser scans of microarrays
Bioinformatics Advance Access published on November 22, 2005
Bioinformatics 2006 22: 215-219; doi:10.1093/bioinformatics/bti790 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

GENETICS AND POPULATION ANALYSIS:

Get checked abstract Zhaohui S. Qin, Shyam Gopalakrishnan, and Gonçalo R. Abecasis

An efficient comprehensive search algorithm for tagSNP selection using linkage disequilibrium criteria
Bioinformatics Advance Access published on November 3, 2005
Bioinformatics 2006 22: 220-225; doi:10.1093/bioinformatics/bti762 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

SYSTEMS BIOLOGY:

Get checked abstract Ashish Choudhary, Aniruddha Datta, Michael L. Bittner, and Edward R. Dougherty

Intervention in a family of Boolean networks
Bioinformatics Advance Access published on November 12, 2005
Bioinformatics 2006 22: 226-232; doi:10.1093/bioinformatics/bti765 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

Get checked abstract Barbara A. Novak and Ajay N. Jain

Pathway recognition and augmentation by computational analysis of microarray expression data
Bioinformatics Advance Access published on November 8, 2005
Bioinformatics 2006 22: 233-241; doi:10.1093/bioinformatics/bti764 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

APPLICATIONS NOTE:

GENOME ANALYSIS:

Get checked abstract DoHoon Lee, Jeong-Hyeon Choi, Mehmet M. Dalkilic, and Sun Kim

COMPAM :visualization of combining pairwise alignments for multiple genomes
Bioinformatics Advance Access published on November 3, 2005
Bioinformatics 2006 22: 242-244; doi:10.1093/bioinformatics/bti759 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

GENE EXPRESSION:

Get checked abstract Ljubomir J. Buturovic

PCP: a program for supervised classification of gene expression profiles
Bioinformatics Advance Access published on November 8, 2005
Bioinformatics 2006 22: 245-247; doi:10.1093/bioinformatics/bti760 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

SYSTEMS BIOLOGY:

Get checked abstract Anaïs Baudot, David Martin, Pierre Mouren, François Chevenet, Alain Guénoche, Bernard Jacq, and Christine Brun

PRODISTIN Web Site: a tool for the functional classification of proteins from interaction networks
Bioinformatics Advance Access published on November 3, 2005
Bioinformatics 2006 22: 248-250; doi:10.1093/bioinformatics/bti757 [Abstract] [Full Text] [Print PDF] [Supplementary Data] [Request Permissions]  

Get checked abstract Jo Criel and Elena Tsiporkova

Gene Time Epression Warper: a tool for alignment, template matching and visualization of gene expression time series
Bioinformatics Advance Access published on November 17, 2005
Bioinformatics 2006 22: 251-252; doi:10.1093/bioinformatics/bti787 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

DATABASES AND ONTOLOGIES:

Get checked abstract Mahender Kumar Singh, Shilpy Srivastava, G.P.S. Raghava, and Grish C. Varshney

HaptenDB: a comprehensive database of haptens, carrier proteins and anti-hapten antibodies
Bioinformatics 2006 22: 253-255; doi:10.1093/bioinformatics/bti692 [Abstract] [Full Text] [Print PDF] [Request Permissions]  

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