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Editor-in-Chief Melissa Norton, MD
Biology Editor Penelope Webb, PhD
In-house Editor Maria Kowalczuk
Welcome to BMC Bioinformatics published by BioMed Central
BMC Bioinformatics is an open access journal publishing original peer-reviewed research articles in all aspects of computational methods used in the analysis and annotation of sequences and structures, as well as all other areas of computational biology.
BMC Bioinformatics (ISSN 1471-2105) is indexed/tracked/covered by PubMed, MEDLINE, BIOSIS, CAS, Scopus, EMBASE, Thomson Scientific (ISI) and Google Scholar.
BMC Bioinformatics 2008, 9 :205
PubMed abstracts can now be effectively screened for articles related to human genetic association studies and genome epidemiology using GAPscreener, a free java-based tool.
BMC Bioinformatics 2008, 9 :148
An extended coulomb/accessible surface area solvent model acts as an empirical scoring function for assessing protein stability and ligand binding affinities in protein structure prediction and computational protein design.
BMC Bioinformatics 2008, 9 :122
Simple metrics of folding energy and optimal structures accurately measure evolutionary conservation of RNA secondary structure and should form the basis of tools to predict non-coding RNAs, whereas complex methods fail to improve performance.
BMC Bioinformatics 2008, 9 :70
GraphCrunch is a new software tool for network analysis that incorporates the calculation of network structural properties and model fitting at both global and local scales and also introduces measures of network structural similarity based on graphlets.
BMC Bioinformatics 2008, 9 :48
A new kind of genomic signature, based on average mutual information profiles, offers species-specific signatures derived from a phylogenetically informative genomic distance measure and can use short sequences while being computationally simple to calculate.
Volume 9 Suppl 5
Proceedings
Vienna, Austria. 20 July 2007
Volume 9 Suppl 4
Research
Pisa, Italy. 12-15 June 2007
more info ]
Software
Triad pattern algorithm for predicting strong promoter candidates in bacterial genomes Michael Dekhtyar, Amelie Morin, Vehary Sakanyan BMC Bioinformatics 2008, 9 :233 (9 [Abstract ] [Provisional PDF ]
Research article
Bioinformatic analyses of mammalian 5'-UTR sequence properties of mRNAs predicts alternative translation initiation sites
Jill L Wegrzyn, Thomas M Drudge, Faramarz Valafar, Vivian Hook BMC Bioinformatics 2008, 9 :232 (8 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Software
Automating dChip: toward reproducible sharing of microarray data analysis Cheng Li BMC Bioinformatics 2008, 9 :231 (8 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Software
CPSP-tools - exact and complete algorithms for high-throughput 3D lattice protein studies Martin Mann, Sebastian Will, Rolf Backofen BMC Bioinformatics 2008, 9 :230 (7 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
A tree-based conservation scoring method for short linear motifs in multiple alignments of protein sequences Claudia Chica, Alberto Labarga, Cathryn M Gould, Rodrigo Lopez, Toby J Gibson BMC Bioinformatics 2008, 9 :229 (6 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
Inferring the role of transcription factors in regulatory networks Philippe Veber, Carito Guziolowski, Michel Le Borgne, Ovidiu Radulescu, Anne Siegel BMC Bioinformatics 2008, 9 :228 (6 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
The pairwise disconnectivity index as a new metric for the topological analysis of regulatory networks Anatolij P. Potapov, Bjorn Goemann, Edgar Wingender BMC Bioinformatics 2008, 9 :227 (2 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
SCPRED: Accurate prediction of protein structural class for sequences of twilight-zone similarity with predicting sequences Lukasz Kurgan, Krzysztof Cios, Ke Chen BMC Bioinformatics 2008, 9 :226 (1 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
A copula method for modeling directional dependence of genes
Jong-Min Kim, Yoon-Sung Jung, Engin A Sungur, Kap-Hoon Han, Changyi Park, Insuk Sohn BMC Bioinformatics 2008, 9 :225 (1 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
Implementing EM and Viterbi algorithms for Hidden Markov Model in linear memory Alexander Churbanov, Stephen Winters-Hilt BMC Bioinformatics 2008, 9 :224 (30 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
A kinetic-based sigmoidal model for the polymerase chain reaction and its application to high-capacity absolute quantitative real-time PCR Robert G Rutledge, Donald Stewart BMC Biotechnology 2008, 8 :47 (8 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
A Dominated Coupling From The Past algorithm for the stochastic
simulation of networks of biochemical reactions Martin Hemberg, Mauricio Barahona BMC Systems Biology 2008, 2 :42 (8 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
Breast cancer tumor growth estimated through mammography screening data Harald HWF Weedon-Fekjaer mr, Bo Henry BHL Lindqvist prof, Odd Olai OOA Aalen prof, Lars Johan LJV Vatten prof, Steinar ST Tretli prof Breast Cancer Research 2008, 10 :R41 (8 [Abstract ] [Provisional PDF ]
Research article
Extraction of elementary rate constants from global network analysis of E. coli central metabolism Jiao Zhao, Douglas Ridgway, Gordon Broderick, Andriy Kovalenko, Michael Ellison BMC Systems Biology 2008, 2 :41 (7 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
Improving the accuracy of template-based predictions by mixing and matching between initial models Tianyun Liu, Michal Guerquin, Ram Samudrala BMC Structural Biology 2008, 8 :24 (5 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
In vivo gene expression profiling of human intestinal epithelial cells: analysis by laser microdissection of formalin fixed tissues Michael D George, Jan Wehkamp, Robert J Kays, Christian M Leutenegger, Sadiah Sabir, Irina Grishina, Satya Dandekar, Charles L Bevins BMC Genomics 2008, 9 :209 (5 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Database
RETINOBASE: a web database, data mining and analysis platform for gene expression data on retina Ravi Kiran Reddy Kalathur, Nicolas Gagniere, Guillaume Berthommier, Laetitia Poidevin, Wolfgang Raffelsberger, Raymond Ripp, Thierry Leveillard, Olivier Poch BMC Genomics 2008, 9 :208 (5 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
Analysis of the distribution of functionally relevant rare codons Michael Widmann, Marie Clairo, Juergen Dippon, Juergen Pleiss BMC Genomics 2008, 9 :207 (5 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Review
Adaptive design methods in clinical trials - a review Shein-Chung Chow, Mark Chang Orphanet Journal of Rare Diseases 2008, 3 :11 (2 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
Identification of new genes in Sinorhizobium meliloti using the Genome Sequencer FLX system Chunhong Mao, Clive Evans, Roderick V Jensen, Bruno WS Sobral BMC Microbiology 2008, 8 :72 (2 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
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