Journal of Integrative Bioinformatics, Volume 3

Volume 3, Number 1, 2006

• Heike Pospisil:
  Identification of embryo specific human isoforms using a database of predicted alternative splice forms.
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• Björn H. Junker, Dirk Koschützki, Falk Schreiber:
  Kinetic Modelling with the Systems Biology Modelling Environment SyBME.
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• Kristian Rother, Mathias Dunkel, Elke Michalsky, Silke Trißl, Andrean Goede, Ulf Leser, Robert Preissner:
  A structural keystone for drug design.
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• D. Ashok Reddy, B. V. L. S. Prasad, Chanchal K. Mitra:
  Functional classification of transcription factor binding sites: information content as a metric.
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• P. Romano, G. Bertolini, Flavio De Paoli, M. Fattore, Domenico Marra, Giancarlo Mauri, Emanuela Merelli, Ivan Porro, Silvia Scaglione, Luciano Milanesi:
  Network integration of data and analysis of oncology interest.
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• A. Ranganath, K. C. Shet, N. Vidyavathi:
  3D image and graph based Computation of Protein Surface.
  Electronic Edition (link) BibTeX
• M. Andrecut, Stuart A. Kauffman:
  Noise in Genetic Toggle Switch Models.
  Electronic Edition (link) BibTeX

Volume 3, Number 2, 2006

• Jan Baumbach, Karina Brinkrolf, Tobias Wittkop, Andreas Tauch, Sven Rahmann:
  CoryneRegNet 2: An Integrative Bioinformatics Approach for Reconstruction and Comparison of Transcriptional Regulatory Networks in Prokaryotes.
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• Sabah Khalid, Karl Fraser, Mohsin Khan, Ping Wang, Xiaohui Liu, Suling Li:
  Analysing Microarray Data using the Multi-functional Immune Ontologiser.
  Electronic Edition (link) BibTeX
• Colin S. Gillespie, Darren J. Wilkinson, Daryl P. Shanley, Carole J. Proctor, Richard J. Boys, Thomas B. L. Kirkwood:
  BASIS: an internet resource for network modelling.
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• Wolfgang Straßer, Doris Siegl, Kamil Önder, Johann Bauer:
  InSilico Proteomics System: Integration and Application of Protein and Protein-Protein Interaction Data using Microsoft .NET.
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• Matthias Steinfath, Dirk Repsilber, Manuela Hische, Nicolas Schauer, Alisdair R. Fernie, Joachim Selbig:
  Metabolite profiles as a reflection of physiological status -- a methodological validation.
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• Yvonne E. Pittelkow, Susan R. Wilson:
  Modeling Microarray Data: Interpreting and communicating the biological results.
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• Enrico Capobianco:
  Statistical Embedding in Complex Biosystems .
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• Selpi, Christopher H. Bryant, Graham J. L. Kemp, Marija Cvijovic:
  A First Step towards Learning which uORFs Regulate Gene Expression.
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• Michael P. H. Stumpf, Thomas Thorne:
  Multi-model inference of network properties from incomplete data.
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• Laura Elo, Riitta Lahesmaa, Tero Aittokallio:
  Inference of Gene Coexpression Networks by Integrative Analysis across Microarray Experiments.
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• Jan Küntzer, Torsten Blum, Andreas Gerasch, Christina Backes, Andreas Hildebrandt, Michael Kaufmann, Oliver Kohlbacher, Hans-Peter Lenhof:
  BN++ - A Biological Information System.
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• Emilie Guérin, Gwenaëlle Marquet, Julie Chabalier, Marie-Bérengère Troadec, Christiane Guguen-Guillouzo, Olivier Loréal, Anita Burgun, Fouzia Moussouni:
  Combining biomedical knowledge and transcriptomic data to extract new knowledge on genes.
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• Stuart L. Moodie, Anatoly A. Sorokin, Igor Goryanin, Peter Ghazal:
  A Graphical Notation to describe the Logical Interactions of Biological Pathways.
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• Ricardo Martínez, Nicolas Pasquier, Claude Pasquier, Martine Collard, Lucero Lopez-Perez:
  Co-expressed gene group analysis (CGGA): An automatic tool for the interpretation of microarray experiments.
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• Vilda Purutcuoglu, Ernst Wit:
  Exact and Approximate Stochastic Simulations of the MAPK Pathway and Comparisons of Simulations Results.
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• T. C. Hodgman, Y. Ugartechea-Chirino, G. Tansley, I. Dryden:
  The implications for Bioinformatics of integration across physical scales.
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• Daniele Apiletti, Giulia Bruno, Elisa Ficarra, Elena Baralis:
  Data Cleaning and Semantic Improvement in Biological Databases.
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• Fiona Browne, Haiying Wang, Huiru Zheng, Francisco Azuaje:
  An assessment of machine and statistical learning approaches to inferring networks of protein-protein interactions.
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• Mikael Huss, Karin Nordström:
  Prediction of transcription factor binding to DNA using rule induction methods .
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• Joe Faith, Michael Brockway:
  Targeted Projection Pursuit Tool for Gene Expression Visualisation.
  Electronic Edition (link) BibTeX
• Andreas Kaps, Konstantin Dyshlevoi, Klaus Heumann, Ralf Jost, Ioannis Kontodinas, Martin Wolff, Jean Hani:
  The BioRS(TM) Integration and Retrieval System: An open system for distributed data integration.
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• B. Prins, R. Hofestädt:
  MILAN - A medical information-system linking agents to metabolic networks.
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• James A. Casbon, Mansoor A. S. Saqi:
  Functional diversity within protein superfamilies.
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