Bioinformatics

EDITORIALS:

The Fourth Georgia Tech—University of Georgia International Conference in Bioinformatics: in silico Biology, Biological Networks, from Genomics to Epidemiology (November 13–16, 2003, Atlanta, Georgia, USA)
Bioinformatics 2003 19: 1867-1868; doi:10.1093/bioinformatics/btg365 [Print PDF][Screen PDF] [Request Permissions]  

ATLANTA CONFERENCE PAPERS:

Joel S. Bader

Greedily building protein networks with confidence
Bioinformatics 2003 19: 1869-1874; doi:10.1093/bioinformatics/btg358 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Shawn M. Gomez, William Stafford Noble, and Andrey Rzhetsky

Learning to predict protein–protein interactions from protein sequences
Bioinformatics 2003 19: 1875-1881; doi:10.1093/bioinformatics/btg352 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Kyungsook Han and Byong-Hyon Ju

A fast layout algorithm for protein interaction networks
Bioinformatics 2003 19: 1882-1888; doi:10.1093/bioinformatics/btg346 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Georgy P. Karev, Yuri I. Wolf, and Eugene V. Koonin

Simple stochastic birth and death models of genome evolution: was there enough time for us to evolve?
Bioinformatics 2003 19: 1889-1900; doi:10.1093/bioinformatics/btg351 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Roland Krause, Christian von Mering, and Peer Bork

A comprehensive set of protein complexes in yeast: mining large scale protein–protein interaction screens
Bioinformatics 2003 19: 1901-1908; doi:10.1093/bioinformatics/btg344 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Alexander V. Lukashin, Matvey E. Lukashev, and Rainer Fuchs

Topology of gene expression networks as revealed by data mining and modeling
Bioinformatics 2003 19: 1909-1916; doi:10.1093/bioinformatics/btg333 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Jiang Qian, Jimmy Lin, Nicholas M. Luscombe, Haiyuan Yu, and Mark Gerstein

Prediction of regulatory networks: genome-wide identification of transcription factor targets from gene expression data
Bioinformatics 2003 19: 1917-1926; doi:10.1093/bioinformatics/btg347 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Daniel Rocco and Terence Critchlow

Automatic discovery and classification of bioinformatics Web sources
Bioinformatics 2003 19: 1927-1933; doi:10.1093/bioinformatics/btg353 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

COMMENTARIES:

Jeff Shrager

The fiction of function
Bioinformatics 2003 19: 1934-1936; doi:10.1093/bioinformatics/btg277 [Print PDF][Screen PDF] [Request Permissions]  

ORIGINAL PAPERS:

Xueli Liu and Hans-Georg Müller

Modes and clustering for time-warped gene expression profile data
Bioinformatics 2003 19: 1937-1944; doi:10.1093/bioinformatics/btg257 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Nitin Jain, Jayant Thatte, Thomas Braciale, Klaus Ley, Michael O'Connell, and Jae K. Lee

Local-pooled-error test for identifying differentially expressed genes with a small number of replicated microarrays
Bioinformatics 2003 19: 1945-1951; doi:10.1093/bioinformatics/btg264 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Chandrasegaran Narasimhan, Philip LoCascio, and Edward Uberbacher

Background rareness-based iterative multiple sequence alignment algorithm for regulatory element detection
Bioinformatics 2003 19: 1952-1963; doi:10.1093/bioinformatics/btg266 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Leo Gordon, Alexey Ya. Chervonenkis, Alex J. Gammerman, Ilham A. Shahmuradov, and Victor V. Solovyev

Sequence alignment kernel for recognition of promoter regions
Bioinformatics 2003 19: 1964-1971; doi:10.1093/bioinformatics/btg265 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Yonghong Wang, Jinwei Liu, Tongju Zhao, and Qing Ji

Recognizing translation initiation sites of eukaryotic genes based on the cooperatively scanning model
Bioinformatics 2003 19: 1972-1977; doi:10.1093/bioinformatics/btg261 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Yingdong Zhao, Clemencia Pinilla, Danila Valmori, Roland Martin, and Richard Simon

Application of support vector machines for T-cell epitopes prediction
Bioinformatics 2003 19: 1978-1984; doi:10.1093/bioinformatics/btg255 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Manesh Shah, Sergei Passovets, Dongsup Kim, Kyle Ellrott, Li Wang, Inna Vokler, Philip LoCascio, Dong Xu, and Ying Xu

A computational pipeline for protein structure prediction and analysis at genome scale
Bioinformatics 2003 19: 1985-1996; doi:10.1093/bioinformatics/btg262 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

APPLICATIONS NOTES:

Scott C.-H. Pegg, Walter R. P. Novak, and Patricia C. Babbitt

Intersect: identification and visualization of overlaps in database search results
Bioinformatics 2003 19: 1997-1999; doi:10.1093/bioinformatics/btg256 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

W.P.H. de Boer, J.J. Oudejans, C.J.L.M. Meijer, and J. Lankelma

Analysing gene expressions with GRANK
Bioinformatics 2003 19: 2000-2001; doi:10.1093/bioinformatics/btg267 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

Alun Thomas

GCHap: fast MLEs for haplotype frequencies by gene counting
Bioinformatics 2003 19: 2002-2003; doi:10.1093/bioinformatics/btg254 [Abstract] [Print PDF][Screen PDF] [Request Permissions]  

ERRATUM:

David Horn and Inon Axel

Novel clustering algorithm for microarray expression data in a truncated SVD space
Bioinformatics 2003 19: 2004; doi:10.1093/bioinformatics/btg441 [Print PDF][Screen PDF] [Request Permissions]  

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