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    Journal: Briefings in Bioinformatics

    Volume 9, Issue 6

    451 -- 0Stephan Philippi. Data and knowledge integration in the life sciences
    452 -- 465Jung-jae Kim, Dietrich Rebholz-Schuhmann. Categorization of services for seeking information in biomedical literature: a typology for improvement of practice
    466 -- 478Rainer Winnenburg, Thomas Wächter, Conrad Plake, Andreas Doms, Michael Schroeder. Facts from text: can text mining help to scale-up high-quality manual curation of gene products with ontologies?
    479 -- 492Pankaj Agarwal, David B. Searls. Literature mining in support of drug discovery
    493 -- 505Heinz Stockinger, Teresa K. Attwood, Shahid Nadeem Chohan, Richard Côté, Philippe Cudré-Mauroux, Laurent Falquet, Pedro Fernandes, Robert D. Finn, Taavi Hupponen, Eija Korpelainen, Alberto Labarga, Aurelie Laugraud, Tania Lima, Evangelos Pafilis, Marco Pagni, Steve Pettifer, Isabelle Phan, Nazim Rahman. Experience using web services for biological sequence analysis
    506 -- 517Carole A. Goble, Robert Stevens, Duncan Hull, Katy Wolstencroft, Rodrigo Lopez. Data curation + process curation=data integration + science
    518 -- 531Holger Michael, Jennifer Hogan, Alexander E. Kel, Olga V. Kel-Margoulis, Frank Schacherer, Nico Voss, Edgar Wingender. Building a knowledge base for systems pathology
    532 -- 544Damian Smedley, Morris A. Swertz, Katy Wolstencroft, Glenn Proctor, Michael Zouberakis, Jonathan B. L. Bard, John M. Hancock, Paul N. Schofield. Solutions for data integration in functional genomics: a critical assessment and case study
    545 -- 546Jean-Jacques Daudin. Methods in Microarray Normalization, Edited by Phillip Stafford
    547 -- 549Jim Whitfield. Mathematics of Evolution and Phylogeny, Edited by Olivier Gascuel
    550 -- 551Mihaela Pertea. Problems and Solutions in Biological Sequence Analysis, Mark Borodovsky, Svetlana Ekisheva

    Volume 9, Issue 5

    345 -- 354Roderic D. M. Page. Biodiversity informatics: the challenge of linking data and the role of shared identifiers
    355 -- 366Angelika Merkel, Neil Gemmell. Detecting short tandem repeats from genome data: opening the software black box
    367 -- 375Rutger W. W. Brouwer, Oscar P. Kuipers, Sacha A. F. T. van Hijum. The relative value of operon predictions
    376 -- 391Natalia V. Sernova, Mikhail S. Gelfand. Identification of replication origins in prokaryotic genomes
    392 -- 403Shuangge Ma, Jian Huang. Penalized feature selection and classification in bioinformatics
    404 -- 421Rainer Breitling, David Gilbert, Monika Heiner, Richard J. Orton. A structured approach for the engineering of biochemical network models, illustrated for signalling pathways
    422 -- 436Francisco J. Planes, John E. Beasley. A critical examination of stoichiometric and path-finding approaches to metabolic pathways
    437 -- 449Lorenzo Dematté, Corrado Priami, Alessandro Romanel. The Beta Workbench: a computational tool to study the dynamics of biological systems
    450 -- 0Dougu Nam, Seon-Young Kim. Gene-set approach for expression pattern analysis

    Volume 9, Issue 4

    261 -- 262Vladimir Brusic, Shoba Ranganathan. Critical technologies for bioinformatics
    263 -- 275Marie-Paule Lefranc, Véronique Giudicelli, Laetitia Regnier, Patrice Duroux. IMGT, a system and an ontology that bridge biological and computational spheres in bioinformatics
    276 -- 285Daron M. Standley, Akira R. Kinjo, Kengo Kinoshita, Haruki Nakamura. Protein structure databases with new web services for structural biology and biomedical research
    286 -- 298Kazutaka Katoh, Hiroyuki Toh. Recent developments in the MAFFT multiple sequence alignment program
    299 -- 306Sudhir Kumar, Masatoshi Nei, Joel Dudley, Koichiro Tamura. MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences
    307 -- 316Gary B. Fogel. Computational intelligence approaches for pattern discovery in biological systems
    317 -- 325Zhenjun Hu, Evan S. Snitkin, Charles DeLisi. VisANT: an integrative framework for networks in systems biology
    326 -- 332Edgar Wingender. The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation
    333 -- 343Peter J. Hunter, Edmund J. Crampin, Poul M. F. Nielsen. Bioinformatics, multiscale modeling and the IUPS Physiome Project

    Volume 9, Issue 3

    189 -- 197Dougu Nam, Seon-Young Kim. Gene-set approach for expression pattern analysis
    198 -- 209Paolo Sonego, András Kocsor, Sándor Pongor. ROC analysis: applications to the classification of biological sequences and 3D structures
    210 -- 219Stephen John Sammut, Robert D. Finn, Alex Bateman. Pfam 10 years on: 10 000 families and still growing
    232 -- 242Ina Koch, Georg Fuellen. A review of bioinformatics education in Germany
    243 -- 249Alexander Sczyrba, Susanne Konermann, Robert Giegerich. Two interactive Bioinformatics courses at the Bielefeld University Bioinformatics Server
    250 -- 253Robert Giegerich, Alvis Brazma, Inge Jonassen, Esko Ukkonen, Martin Vingron. The BREW workshop series: a stimulating experience in PhD education
    254 -- 255Narayanan Perumal. Cardiac Gene Expression: Methods and Protocols.: Edited by Jun Zhang and Gregg Rokosh
    256 -- 257Zhen Lin. Bioinformatics Basics: Applications in Biological Science and Medicine.: Edited by Lukas K. Buehler and Hooman H. Rashidi
    258 -- 259Zhaohui S. Qin. Data Analysis and Graphics Using R: An Example-Based Approach, Second Edition.: John Maindonald and John Braun

    Volume 9, Issue 2

    97 -- 101Mario Cannataro. Computational proteomics: management and analysis of proteomics data
    102 -- 118Melanie Hilario, Alexandros Kalousis. Approaches to dimensionality reduction in proteomic biomarker studies
    119 -- 128Annalisa Barla, Giuseppe Jurman, Samantha Riccadonna, Stefano Merler, Marco Chierici, Cesare Furlanello. Machine learning methods for predictive proteomics
    129 -- 143Thomas Villmann, Frank-Michael Schleif, Markus Kostrzewa, Axel Walch, Barbara Hammer. Classification of mass-spectrometric data in clinical proteomics using learning vector quantization methods
    144 -- 155Pierangelo Veltri. Algorithms and tools for analysis and management of mass spectrometry data
    156 -- 165Jason W. H. Wong, Matthew J. Sullivan, Gerard Cagney. Computational methods for the comparative quantification of proteins in label-free LC:::n:::-MS experiments
    166 -- 173Sandra E. Orchard, Henning Hermjakob. The HUPO proteomics standards initiative - easing communication and minimizing data loss in a changing world
    174 -- 188David Stead, Norman W. Paton, Paolo Missier, Suzanne M. Embury, Cornelia Hedeler, Binling Jin, Alistair J. P. Brown, Alun D. Preece. Information quality in proteomics

    Volume 9, Issue 1

    1 -- 13Wentian Li. Three lectures on case-control genetic association analysis
    14 -- 24Martin Yuille, Gert-Jan B. van Ommen, Christian Bréchot, Anne Cambon-Thomsen, Georges Dagher, Ulf Landegren, Jan-Eric Litton, Markus Pasterk, Leena Peltonen, Mike Taussig, H.-Erich Wichmann, Kurt Zatloukal. Biobanking for Europe
    25 -- 33Jose M. Arteaga-Salas, Harry Zuzan, William B. Langdon, Graham J. G. Upton, Andrew P. Harrison. An overview of image-processing methods for Affymetrix GeneChips
    34 -- 45Matteo Brilli, Renato Fani, Pietro Liò. Current trends in the bioinformatic sequence analysis of metabolic pathways in prokaryotes
    46 -- 56David S. Horner, Walter Pirovano, Graziano Pesole. Correlated substitution analysis and the prediction of amino acid structural contacts
    57 -- 68Paolo Romano 0001. Automation of in-silico data analysis processes through workflow management systems
    69 -- 74Sean D. Mooney, Peter H. Baenziger. Extensible open source content management systems and frameworks: a solution for many needs of a bioinformatics group
    75 -- 90Daniel L. Rubin, Nigam Shah, Natalya Fridman Noy. Biomedical ontologies: a functional perspective
    91 -- 93Jihoon Yang. Bioinformatics - From Genomes to Therapies: Edited by Thomas Lengauer
    94 -- 95Ann E. Loraine. Bioinformatics, Genomics, and Proteomics: Getting the Big Picture (Biotechnology in the 21st Century): Ann Finney Batiza
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