Abstract is missing.
- E-CELL Project: Towards Whole Cell SimulationMasaru Tomita. 1
- GeneWays: A System for Mining Text and for Integrating Data on Molecular PathwaysAndrey Rzhetsky, Michael Krauthammer, Tomohiro Koike, Pauline Kra, Shawn M. Gomez, Hong Yu, Pablo Ariel Duboué, Wubin Weng, Steven B. Johnson, Vasileios Hatzivassiloglou, Carol Friedman. 2-5
- Modeling the Architecture of Regulatory NetworksAnatolij Potapov, Edgar Wingender. 6-10
- BioPath Visualization of Biochemical PathwaysFranz-Josef Brandenburg, Michael Forster, Andreas Pick, Marcus Raitner, Falk Schreiber. 11-15
- Pathway Analysis of Bacillus subtillis Metabolic Network Based on Genomic InformationHongwu Ma, Xiaofeng Guo, Xue-Ming Zhao. 16-20
- Looking at functional genomics from inside the Drosophila blastodermJohn Reinitz. 21
- Modelling interacting cell systems in biology and medicine with cellular automataAndreas Deutsch. 22-25
- Confidence Measures for Fold RecognitionIngolf Sommer, Niklas von Öhsen, Alexander Zien, Ralf Zimmer, Thomas Lengauer. 26-33
- Glycosylation of Proteins: A Computer-Based Method for Rapid Exploration of Conformational Space of N-GlycansAndreas Bohne, Martin Frank, Thomas Wetter, Claus-Wilhelm von der Lieth. 34-39
- Predicting the Subcellular Location of a ProteinZhi-Ping Feng. 44
- PGAAS: A prokaryotic genome assembly assistant systemZhou Yu, Tao Li, Jindong Zhao, Jingchu Luo. 45
- Ontology and functional genomicsTakako Takai-Igarashi, Toshihisa Takagi. 46
- The Semantic Metadatabase (SEMEDA): Ontology Based Integration of Federated Molecular Biological Data SourcesJacob Köhler, Steffen Schulze-Kremer. 47-52
- Automatic rule generation for protein annotation with the C4.5 data-mining algorithm applied on peptides in EnsemblErnst Kretschmann, Rolf Apweiler. 53-57
- ProML - the Protein Markup Language for specification of protein sequences, structures and familiesDaniel Hanisch, Ralf Zimmer, Thomas Lengauer. 58-67
- Improving Fold Recognition of Protein Threading by Experimental Distance ConstraintsMario Albrecht, Daniel Hanisch, Ralf Zimmer, Thomas Lengauer. 68-77
- A new Method for Unification of Existing Protein Structure- and Sequence-FamiliesJan Freudenberg, Ralf Zimmer, Daniel Hanisch, Thomas Lengauer. 78-84
- Impact of integrating clinical and genetic informationMartin Dugas, Claudia Schoch, Susanne Schnittger, Wolfgang Kern, Torsten Haferlach, Dorle Messerer, Karl Überla. 85-88
- Finding and decrypting of promoters contributes to the elucidation of gene functionThomas Werner. 89
- Mining Putative Regulatory Elements in Gene Promoter RegionsJorng-Tzong Horng, Hsien-Da Huang, Cho-Chun Huang, Cheng-Yan Kao. 90-95
- ClusterScan: A Tool for Automatic Annotation of Genomic Regulatory Sequences by Searching for Composite ClustersAlexander E. Kel, Olga V. Kel-Margoulis, T. G. Ivanova, Edgar Wingender. 96-101
- Prediction and uncertainty in the analysis of gene expression profilesRainer Spang, Carrie Blanchette, Harry Zuzan, Jeffrey R. Marks, Joseph Nevins, Mike West. 102-111
- Mining SNPs for Associating Disease Penetration with Transcription Factor Binding Site AlterationsJulia V. Ponomarenko, Tatyana I. Merkulova, Galina Orlova, Oleg N. Fokin, Elena Gorshkova, Mikhail P. Ponomarenko. 112-117
- Reducing the Conformation Space in RNA Structure PredictionDirk Evers, Robert Giegerich. 118-124
- Ensembl: Annotating metazoan genomesEwan Birney. 125
- Identifying drug resistance-associated patterns in HIV genotypesNiko Beerenwinkel, Barbara Schmidt, Hauke Walter, Rolf Kaiser, Thomas Lengauer, Daniel Hoffmann, Klaus Korn, Joachim Selbig. 126-130
- Gene prediction by comparative sequence analysisOliver Rinner, Burkhard Morgenstern. 131-134
- Protein similarity search under mRNA structural constraints: application to selenocysteine incorporationRolf Backofen, N. S. Narayanaswamy, Firas Swidan. 135-140
- AGeWa (Automatic Gene Walk): an automatic tool for ASO designPatrizio Arrigo, P. Scartezzini, A. Egeo, Pasquale Paolo Cardo. 141
- Building Organelle Genome Databases using an Object-Oriented ApproachAnia Barbasiewicz, Lin Liu, B. Franz Lang, Nelli Shimko, Gertraud Burger. 142-143
- Sequence Database Search Using Jumping AlignmentsConstantin Bannert, Marc Rehmsmeier, Rainer Spang, Jens Stoye. 142
- Topological Analysis and Visualisation of large Signalling Networks: The TGF-beta Signal Transductionin Eukaryotic SystemsKnut Behrendt, Andreas Politzer, Julio Saez-Rodriguez, Matthias Reuss, Klaus Mauch. 143-144
- Effective Pre- and Post-Processing for the Determination of Highly Sensitive Oligonucleotidesto be Used on DNA MicroarraysUta Bohnebeck, Tom Wetjen. 144-145
- The German EMBnet Node: GENIUSnetRüdiger Bräuning, Peter Ernst, Mechthild Falkenhahn, Karl-Heinz Glatting, Agnes Hotz-Wagenblatt, Mark van der Linden, Barbara Pardon, Coral del Val, Sándor Suhai. 146-147
- C-H...pi Interactions in Proteins: A Structural Bioinformatics StudyMaria Brandl, M. S. Weiss, Andreas Jabs, Jürgen Sühnel, Rolf Hilgenfeld. 147-148
- IntEnz - The Enzyme Database in OracleAstrid Fleischmann, Michael Darsow, Kirill Degtyarenko, Rolf Apweiler. 148-149
- Cytomer: A database on gene expression sourcesEllen Fricke, Sigrid Land, Stella Rotert, Dagmar Karas, Edgar Wingender. 149-151
- 3D modeling of macromolecular structures and reactions in the context of genomesRazif R. Gabdoulline, Aitor Gonzalez, Rebecca C. Wade. 151-152
- A Question Based Navigator for Exercising Distributed Bioinformatics TasksValérie Gailus-Durner, Rolf Gohla, Torsten Crass. 152-155
- Designing GENESYS - a software system for mining chip dataÄnne Glass, Lothar Gierl. 155-157
- A Program for the Construction of a Promoter Model From a Set of Upstream Sequences of Coregulated GenesUlrike Göbel, Steffi Gebauer-Jung, Thomas Wiehe. 157
- MATCH:::TM::: - a tool for searching transcription factor binding sites in DNA sequences. Application for the analysis of human chromosomesEllen Gößling, Olga V. Kel-Margoulis, Alexander E. Kel, Edgar Wingender. 158-161
- Biomathematical and in vitro analysis of destabilized regions in the interferon gene clusterS. Goetze, A. Knopp, Craig J. Benham, Stephen A. Krawetz, Jürgen Bode. 161
- TRANSPATH - a database on signal transduction networksUlrike Götze, Susanne Pistor, Claudia Choi, Mathias Krull, Frank Schacherer, Nico Voss, Edgar Wingender. 162-163
- Flexible Web-Controlled Pipelining of Stand-Alone Windows Data Analysis ApplicationsJuergen Haas. 163-165
- Modeling of the Human Lipoprotein Metabolism - metabolic fluxes and genetic variations involved in exchange and transfer processesK. Hafez, Jens G. Reich. 166-167
- A Genetic Algorithm for Multiple Sequence AlignmentJorng-Tzong Horng, Ching-Mei Lin, Bing-He Yang, Cheng-Yan Kao. 167-170
- Mining Combinations of Structural Motif from SSU 16 S Ribosomal RNA Secondary StructuresHsien-Da Huang, Shu-Fen Fang, Jorng-Tzong Horng. 170-173
- Using expression arrays to investigate deletion of chromosomal strandsJohannes Hüsing, Michael Zeschnigk, Tanja Hölter, Karl-Heinz Jöckel. 173-175
- Computer Data Fitting in the Equilibrium Protein Folding Process Involving Multiple IntermediatesHui-Chih Hung, Guang-Yaw Liu, Gu-Gang Chang. 176-178
- MMT - A Metabolic Modeling Tool for Metabolic EngineeringJochen Hurlebaus, Wolfgang Wiechert, Ralf Takors. 178-182
- Approximate Bayesian Discrimination between Alternative DNA Mosaic StructuresDirk Husmeier, Frank Wright. 182-184
- TRANSCompel® - a professional database on composite regulatory elements in eukaryotic genesOlga V. Kel-Margoulis, Igor Deineko, Ingmar Reuter, Edgar Wingender, Alexander E. Kel. 185-187
- A Conceptual Object Model of Gene Mutation DataNawaz Khan, Shahedur Rahman. 187-190
- Modelling the Organization of Flower Morphogenesis by Transcription Factor Networks Using Lindenmayer SystemsJan T. Kim. 190-191
- On the Effects of Transcription Factor Properties on the Information Content of Binding SitesJan T. Kim, Thomas Martinetz, Daniel Polani. 192-194
- FluxAnalyzer: A Graphical User Interface for Analyzing Structural Properties and Fluxes in Balanced Metabolic NetworksSteffen Klamt, Ernst Dieter Gilles. 194-197
- The SMAD-TGF-beta SignallingNetwork: TRANSFAC meets TRANSPATHDorothee-U. Kloos, Claudia Choi, Edgar Wingender. 198-199
- Analysis of biomathematically predicted Scaffold / Matrix Attached Regions (S/MARs) by three different approachesA. Knopp, S. Goetze, Craig J. Benham, Matthias Frisch, Stephen A. Krawetz, Jürgen Bode. 200
- Building a new Rotamer Library for Protein-Protein Docking using energy calculations and statistical approachesKerstin Koch, Frank Zöllner, Gerhard Sagerer. 201-202
- A Computational Support for the Access to Integrated Molecular Biology DataMatthias Lange, Andreas Freier, Uwe Scholz, Andreas Stephanik. 203-205
- Independent component analysis of gene expression dataWolfram Liebermeister. 205-206
- ReAlSplice: A database on regulated alternative splicingInes Liebich, Maik Christensen, Edgar Wingender. 206-207
- Compression of proteome gel images using complex wavelet transformWei Liu, Andy Woodward, Douglas B. Kell. 207
- TRANSFAC®_YEASTHolger Michael, S. Thiele, Edgar Wingender. 208
- Correlation of Gene Expression as Measured by Different AssaysSteffen Möller, Marcus Bantscheff, Michael O. Glocker, Dirk Koczan, Peter Lorenz, Hans-Jürgen Thiesen. 209
- Pathway Analysis of Metabolic Networks: New version of METATOOL and convenient classification of metabolitesFerdinand Moldenhauer, Ionela Zevedei-Oancea, Stefan Schuster. 210
- Structural annotation of the human genomeArne Müller, Michael J. E. Sternberg. 211-212
- Construction of stochastic context trees for genetical textsYuri L. Orlov, V. P. Filippov, V. N. Potapov, Nikolay A. Kolchanov. 212-215
- Program Gene Discovery for Pattern Matching in Promoter SequencesYuri L. Orlov, Eugenii E. Vityaev, Oleg V. Vishnevsky, A. S. Belenok, Boris Kovalerchuk, Mikhail A. Pozdnyakov, Nikolay A. Kolchanov. 215-217
- From sequence to function: a quantitative model of lipase enantioselectivityJürgen Pleiss, Christian Gentner, Holger Scheib, Tanja Schulz, Rolf D. Schmid. 217
- The integrated TRANSFAC system as a basis for modeling the architecture of gene regulatory networksAnatolij Potapov, Klaus Seidl, Maik Christensen, Volker Drewes, Frank Schacherer, Edgar Wingender. 218
- The IMB Jena Image Library of Biological Macromolecules - New FeaturesJan Reichert, K. Mehliss, Jürgen Sühnel. 219
- Towards a New Curation Environment for the TrEMBL DatabaseKai J. Runte, Henning Hermjakob, Rolf Apweiler. 220
- Water-Mediated Uracil-Cytosine Base Pairs in RNA - A Computational StudyChristoph Schneider, Maria Brandl, Michael Meyer, Jürgen Sühnel. 221
- BRENDA a resource for Enzyme data and metabolic pathway informationDietmar Schomburg, Ida Schomburg, Antje Chang, Oliver Hofmann, Christian Ebeling, F. Ehrentreich. 222
- Fast Stochastic Simulation of Metabolic NetworksMarkus Schwehm. 223-226
- -PheGe- a novel concept for in-silico analyses of genotype/phenotype relationsKlaus Seidl, Edgar Wingender. 226-227
- Reconstruction of metabolic and regulatory networks of Klebsiella pneumoniae from genome dataJ. Sun, J. van den Heuvel, A.-P. Zeng. 227-228
- RAMEDIS - Rare Metabolic Diseases Publishing Tool for Genotype-Phenotype CorrelationThoralf Töpel, Uwe Scholz, Ulrike Mischke, Dagmar Scheible, Ralf Hofestädt, Friedrich Trefz. 228-231
- A Tool for Automatic Genome AnnotationAna Tereza R. Vasconcelos, L. Gonzaga, Rangel C. Souza, D. Q. Mendes, Roger F. C. Paixão, R. Kersanach, M. Oliveira, S. M. Martins, Andrew J. G. Simpson. 231-232
- F-Workbench: a database-driven environment for the analysis of transcription factorsMartin Werber, Bernd Weisshaar. 233
- Conformational preferences of SH2 domains in free and ligand-bound states studied by molecular dynamics simulationsKarin Wieligmann, Luis Felipe Pineda De Castro, Martin Zacharias. 234
- ZIGIA-DB: A versatile database for handling complex functional genomic data of ArabidopsisthalianaLuzie U. Wingen, Jan T. Kim, Heinz Saedler, Koen Dekker. 234-235
- Visualization and analysis of gene expression data using freeware and GPL-SoftwareE. W. Wolski, Christoph K. Wierling, T. Kreitler, Szymon M. Kielbasa, U. Schneider, Johan Gobom, Hans Lehrach, Holger Eickhoff. 236-237
- An Approach to Finding Short Tandem Repeats in Complete GenomesLi-Cheng Wu, Jorng-Tzong Horng, Feng-Mao Lin. 238-241
- Treatment of multifunctional enzymesin metabolic pathway analysisIonela Zevedei-Oancea, Stefan Schuster. 241-242