Articles
Volume 8 (2007) - April 2007
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Research article
Relating destabilizing regions to known functional sites in proteins Benoît H Dessailly, Marc F Lensink, Shoshana J Wodak BMC Bioinformatics 2007, 8:141 (30 April 2007) |
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Research article
Lower bounds on multiple sequence alignment using exact 3-way alignment Charles J Colbourn, Sudhir Kumar BMC Bioinformatics 2007, 8:140 (30 April 2007) |
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Research article
Toward the automated generation of genome-scale metabolic networks in the SEED Matthew DeJongh, Kevin Formsma, Paul Boillot, John Gould, Matthew Rycenga, Aaron Best BMC Bioinformatics 2007, 8:139 (26 April 2007) |
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Research article
Multiple non-collinear TF-map alignments of promoter regions Enrique Blanco, Roderic Guigó, Xavier Messeguer BMC Bioinformatics 2007, 8:138 (24 April 2007) Transcription factor binding site maps are a powerful way to reveal conserved regulatory elements within both promoters and 3' untranslated regions that may be missed by sequence alignments when sequence conservation is lacking.
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Methodology article
Spectral estimation in unevenly sampled space of periodically expressed microarray time series data Alan Liew, Jun Xian, Shuanhu Wu, David Smith, Hong Yan BMC Bioinformatics 2007, 8:137 (24 April 2007) |
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Research article
An adaptive bin framework search method for a beta-sheet protein homopolymer model Alena Shmygelska, Holger H Hoos BMC Bioinformatics 2007, 8:136 (24 April 2007) |
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Methodology article
Supervised multivariate analysis of sequence groups to identify specificity determining residues Iain M Wallace, Desmond G Higgins BMC Bioinformatics 2007, 8:135 (23 April 2007) |
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Research article
Spatial location and its relevance for terminological inferences in bio-ontologies Stefan Schulz, Kornél Markó, Udo Hahn BMC Bioinformatics 2007, 8:134 (20 April 2007) |
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Research article
Hua Xu, Michael A Freitas BMC Bioinformatics 2007, 8:133 (20 April 2007) |
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Research article
Rudi Alberts, Peter Terpstra, Menno Hardonk, Leonid V Bystrykh, Gerald de Haan, Rainer Breitling, Jan-Peter Nap, Ritsert C Jansen BMC Bioinformatics 2007, 8:132 (20 April 2007) |
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Methodology article
Statistical significance of quantitative PCR Yann Karlen, Alan McNair, Sébastien Perseguers, Christian Mazza, Nicolas Mermod BMC Bioinformatics 2007, 8:131 (20 April 2007) |
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Methodology article
Efficient pairwise RNA structure prediction using probabilistic alignment constraints in Dynalign Arif Harmanci, Gaurav Sharma, David H Mathews BMC Bioinformatics 2007, 8:130 (19 April 2007) |
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Database
Xianfeng Chen, Thomas W Laudeman, Paul J Rushton, Thomas A Spraggins, Michael P Timko BMC Bioinformatics 2007, 8:129 (19 April 2007) |
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Software
TagSmart: analysis and visualization for yeast mutant fitness data measured by tag microarrays Chulyun Kim, Sangkyum Kim, Russell Dorer, Dan Xie, Jiawei Han, Sheng Zhong BMC Bioinformatics 2007, 8:128 (18 April 2007) |
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Research article
Michael C Wendl BMC Bioinformatics 2007, 8:127 (18 April 2007) |
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Database
UbiProt: a database of ubiquitylated proteins Alexander L Chernorudskiy, Alejandro Garcia, Eugene V Eremin, Anastasia S Shorina, Ekaterina V Kondratieva, Murat R Gainullin BMC Bioinformatics 2007, 8:126 (18 April 2007) |
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Research article
Detecting microsatellites within genomes: significant variation among algorithms Sébastien Leclercq, Eric Rivals, Philippe Jarne BMC Bioinformatics 2007, 8:125 (18 April 2007) |
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Methodology article
A full Bayesian hierarchical mixture model for the variance of gene differential expression Samuel OM Manda, Rebecca E Walls, Mark S Gilthorpe BMC Bioinformatics 2007, 8:124 (17 April 2007) |
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Software
Flexible mapping of homology onto structure with Homolmapper Nathan C Rockwell, J Clark Lagarias BMC Bioinformatics 2007, 8:123 (11 April 2007) |
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Database
RepSeq – A database of amino acid repeats present in lower eukaryotic pathogens Daniel P Depledge, Ryan PJ Lower, Deborah F Smith BMC Bioinformatics 2007, 8:122 (11 April 2007) |
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Research article
A network perspective on the topological importance of enzymes and their phylogenetic conservation Wei-chung Liu, Wen-hsien Lin, Andrew J Davis, Ferenc Jordán, Hsih-te Yang, Ming-jing Hwang BMC Bioinformatics 2007, 8:121 (11 April 2007) |
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Methodology article
BranchClust: a phylogenetic algorithm for selecting gene families Maria S Poptsova, J Peter Gogarten BMC Bioinformatics 2007, 8:120 (10 April 2007) A new algorithm, BranchClust, automates the finding of gene families by phylogenetic methods, outperforming sequence-similarity methods in recognizing orthologs and paralogs in an unrestricted number of taxa, a task previously difficult to automate.
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Research article
Selective prediction of interaction sites in protein structures with THEMATICS Ying Wei, Jaeju Ko, Leonel F Murga, Mary Jo Ondrechen BMC Bioinformatics 2007, 8:119 (9 April 2007) |
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Research article
Xinan Yang, Xiao Sun BMC Bioinformatics 2007, 8:118 (6 April 2007) |
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Research article
Colony size measurement of the yeast gene deletion strains for functional genomics Negar Memarian, Matthew Jessulat, Javad Alirezaie, Nadereh Mir-Rashed, Jianhua Xu, Mehri Zareie, Myron Smith, Ashkan Golshani BMC Bioinformatics 2007, 8:117 (4 April 2007) |
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Software
ASH structure alignment package: Sensitivity and selectivity in domain classification Daron M Standley, Hiroyuki Toh, Haruki Nakamura BMC Bioinformatics 2007, 8:116 (4 April 2007) |
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Research article
Dependence of paracentric inversion rate on tract length Thomas L York, Rick Durrett, Rasmus Nielsen BMC Bioinformatics 2007, 8:115 (3 April 2007) A novel Bayesian method using marker data from two Drosophila species finds that pericentric inversions occur are less common than paracentric inversions and a preponderance of small inversions hints that short tracts invert more successfully.
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Software
From genes to functional classes in the study of biological systems Fátima Al-Shahrour, Leonardo Arbiza, Hernán Dopazo, Jaime Huerta-Cepas, Pablo Mínguez, David Montaner, Joaquín Dopazo BMC Bioinformatics 2007, 8:114 (3 April 2007) |
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Research article
Improved residue contact prediction using support vector machines and a large feature set Jianlin Cheng, Pierre Baldi BMC Bioinformatics 2007, 8:113 (2 April 2007) |
