Briefings in Bioinformatics, Volume 8

Volume 8, Number 1, January 2007

• Martin J. Bishop:
  Editorial. 1
  

• Tina A. Eyre, Mathew W. Wright, Michael J. Lush, Elspeth A. Bruford:
  HCOP: a searchable database of human orthology predictions. 2-5
  
• Shivashankar H. Nagaraj, Robin B. Gasser, Shoba Ranganathan:
  A hitchhiker's guide to expressed sequence tag (EST) analysis. 6-21
  
• Jason C. Hsu, Jane Chang, Tao Wang, Eiríkur Steingrímsson, Magnús Karl Magnússon, Kristin Bergsteinsdottir:
  Statistically designing microarrays and microarray experiments to enhance sensitivity and specificity. 22-31
  
• Anne-Laure Boulesteix, Korbinian Strimmer:
  Partial least squares: a versatile tool for the analysis of high-dimensional genomic data. 32-44
  
• Emanuela Merelli, Giuliano Armano, Nicola Cannata, Flavio Corradini, Mark d'Inverno, Andreas Doms, Phillip W. Lord, Andrew Martin, Luciano Milanesi, Steffen Möller, Michael Schroeder, Michael Luck:
  Agents in bioinformatics, computational and systems biology. 45-59
  

• I. King Jordan:
  Abstracts. 60-64
  

Volume 8, Number 2, March 2007

• Vladimir Brusic:
  The growth of bioinformatics. 69-70
  

• David L. Gold, Kevin R. Coombes, Jing Wang, Bani K. Mallick:
  Enrichment analysis in high-throughput genomics - accounting for dependency in the NULL. 71-77
  
• Piero Fariselli, Ivan Rossi, Emidio Capriotti, Rita Casadio:
  The WWWH of remote homolog detection: The state of the art. 78-87
  
• Carolina Perez-Iratxeta, Miguel A. Andrade-Navarro, Jonathan D. Wren:
  Evolving research trends in bioinformatics. 88-95
  
• Joo Chuan Tong, Tin Wee Tan, Shoba Ranganathan:
  Methods and protocols for prediction of immunogenic epitopes. 96-108
  
• Darren J. Wilkinson:
  Bayesian methods in bioinformatics and computational systems biology. 109-116
  
• Lucia Bianchi, Pietro Liò:
  Forensic DNA and bioinformatics. 117-128
  

• I. King Jordan:
  Abstracts. 129-133
  

Volume 8, Number 3, May 2007

• Eric Neumann, Larry Prusak:
  Knowledge networks in the age of the Semantic Web. 141-149
  
• Chiquito J. Crasto, Luis N. Marenco, Nian Liu, Thomas M. Morse, Kei-Hoi Cheung, Peter C. Lai, Gautam Bahl, Peter Masiar, Hugo Y. K. Lam, Ernest Lim, Huajun Chen, Prakash M. Nadkarni, Michele Migliore, Perry L. Miller, Gordon M. Shepherd:
  SenseLab: new developments in disseminating neuroscience information. 150-162
  
• Tim Clark, June Kinoshita:
  Alzforum and SWAN: the present and future of scientific web communities. 163-171
  
• Dennis Quan:
  Improving life sciences information retrieval using semantic web technology. 172-182
  
• Robert Stevens, Jun Zhao, Carole A. Goble:
  Using provenance to manage knowledge of In Silico experiments. 183-194
  
• Lee Feigenbaum, Sean Martin, Matthew N. Roy, Benjamin Szekely, Wing C. Yung:
  Boca: an open-source RDF store for building Semantic Web applications. 195-200
  

• Suzanne S. Sindi:
  Handbook of Computational Molecular Biology: Edited by Srinivas Aluru. 201-203
  
• Russell Schwartz:
  Stochastic Modelling for Systems Biology: Darren J. Wilkinson. 204-205
  

• Tim Clark:
  Knowledge Integration in Biomedicine: Technology and Community.
  

Volume 8, Number 4, July 2007

• Martin Bishop, Claire Bird:
  BIB's first impact factor is 24.37. 207
  
• Charlie Hodgman:
  Integrative biology - the way forward. 208-209
  

• Claudine Chaouiya:
  Petri net modelling of biological networks. 210-219
  
• Denis Thieffry:
  Dynamical roles of biological regulatory circuits. 220-225
  
• Eric Mjolsness:
  Towards a calculus of biomolecular complexes at equilibrium. 226-233
  
• Kevin Burrage, John Hancock, André Leier, Dan V. Nicolau Jr.:
  Modelling and simulation techniques for membrane biology. 234-244
  
• Bryan C. Thorne, Alexander M. Bailey, Shayn M. Peirce:
  Combining experiments with multi-cell agent-based modeling to study biological tissue patterning. 245-257
  
• Christopher C. Poirier, Pablo A. Iglesias:
  An integrative approach to understanding mechanosensation. 258-265
  
• Nikolay A. Kolchanov, Tatyana I. Merkulova, Elena V. Ignatieva, Elena A. Ananko, Dmitry Yu. Oshchepkov, Victor G. Levitsky, Gennady V. Vasiliev, Nataly V. Klimova, Vasily M. Merkulov, T. Charles Hodgman:
  Combined experimental and computational approaches to study the regulatory elements in eukaryotic genes. 266-274
  

• Hiram A. Firpi:
  Handbook of Bioinspired Algorithms and Applications: Edited by Stephan Olariu and Albert Y. 275-276
  

Volume 8, Number 5, September 2007

• Russ B. Altman:
  Current progress in bioinformatics 2007. 277-278
  

• David S. Wishart:
  Current Progress in computational metabolomics. 279-293
  
• Alain Laederach:
  Informatics challenges in structured RNA. 294-303
  
• Bobbie-Jo M. Webb-Robertson, William R. Cannon:
  Current trends in computational inference from mass spectrometry-based proteomics. 304-317
  
• Balaji S. Srinivasan, Nigam H. Shah, Jason Flannick, Eduardo Abeliuk, Antal F. Novak, Serafim Batzoglou:
  Current progress in network research: toward reference networks for key model organisms. 318-332
  
• Maricel G. Kann:
  Protein interactions and disease: computational approaches to uncover the etiology of diseases. 333-346
  
• Indra Neil Sarkar:
  Biodiversity informatics: organizing and linking information across the spectrum of life. 347-357
  
• Pierre Zweigenbaum, Dina Demner-Fushman, Hong Yu, Kevin B. Cohen:
  Frontiers of biomedical text mining: current progress. 358-375
  

• Ping Ma:
  Bayesian Inference for Gene Expression and Proteomics. 376-377
  
• Samy Meroueh:
  Normal Mode Analysis Theoretical and Applications to Biological and Chemical Systems. 378-379
  

• Tim Clark:
  Knowledge Integration in Biomedicine: Technology and Community. 380
  

Volume 8, Number 6, November 2007

• M. J. Bishop:
  Editorial. 381
  
• Casey M. Bergman, Hadi Quesneville:
  Discovering and detecting transposable elements in genome sequences. 382-392
  
• Giovanni Montana, Clive J. Hoggart:
  Statistical software for gene mapping by admixture linkage disequilibrium. 393-395
  
• Irmtraud M. Meyer:
  A practical guide to the art of RNA gene prediction. 396-414
  
• W. Gregory Alvord, Jean A. Roayaei, Octavio A. Quiñones, Katherine T. Schneider:
  A microarray analysis for differential gene expression in the soybean genome using Bioconductor and R. 415-431
  
• Xiong Liu, Hassan A. Karimi:
  High-throughput modeling and analysis of protein structural dynamics. 432-445
  
• Leon French, Paul Pavlidis:
  Informatics in neuroscience. 446-456
  
• Sonia Cattley, Jonathan W. Arthur:
  BioManager: the use of a bioinformatics web application as a teaching tool in undergraduate bioinformatics training. 457-465
  

• Yunlong Liu:
  Computational Genome Analysis: an Introduction: Richard C. Deonier, Simon Tavaré and Michael S. Waterman. 466
  
• Giselle M. Knudsen:
  Proteomics for Biological Discovery.: Edited by Timothy D. Veenstra and John R. Yates III. 467-468
  

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