Papers by Vincent Schachter
A local simplification scheme for cc programs
Lecture Notes in Computer Science, 1996
Computational analysis of metabolic networks
Modern Genome Annotation, 2008
Computational and Symbolic Systems Biology
Biocomputing 2004, 2003
Construction and prediction of protein-protein interaction maps
Ernst Schering Research Foundation workshop, 2002
Protein-protein interactions: analysis and prediction
Modern Genome Annotation, 2008
CHAPTER 6.2 Protein–protein interactions: analysis and prediction D. Frishman1; 2, M. Albrecht3, ... more CHAPTER 6.2 Protein–protein interactions: analysis and prediction D. Frishman1; 2, M. Albrecht3, H. Blankenburg3, P. Bork4; 5, ED Harrington4, H. Hermjakob6, L. Juhl Jensen4; 7, DA Juan8, T. Lengauer3, P. Pagel1, V. Schachter9 and A. Valencia8f 1Department of ...
Nature, Jan 11, 2001
With the availability of complete DNA sequences for many prokaryotic and eukaryotic genomes, and ... more With the availability of complete DNA sequences for many prokaryotic and eukaryotic genomes, and soon for the human genome itself, it is important to develop reliable proteome-wide approaches for a better understanding of protein function. As elementary constituents of cellular protein complexes and pathways, protein-protein interactions are key determinants of protein function. Here we have built a large-scale protein-protein interaction map of the human gastric pathogen Helicobacter pylori. We have used a high-throughput strategy of the yeast two-hybrid assay to screen 261 H. pylori proteins against a highly complex library of genome-encoded polypeptides. Over 1,200 interactions were identified between H. pylori proteins, connecting 46.6% of the proteome. The determination of a reliability score for every single protein-protein interaction and the identification of the actual interacting domains permitted the assignment of unannotated proteins to biological pathways.
A tutorial on Metabolic Flux Analysis
CMSB 2004: computational methods in systems biology(Paris, 26-28 May 2004, revised selected papers)
Notes de cours de Bioinformatique
Modeling of biological networks
Relational learning of biological networks
Modeling and Querying biological networks
Generation of accurate protein maps; generate domain interaction map, detect similarities between clusters, generate target protein interation map
Method for organizing and querying a genomic and proteomic databases
Bioinformatics of large-scale protein interaction networks
BioTechniques, 2002
We survey recent techniques for construction and prediction of large-scale protein interaction ne... more We survey recent techniques for construction and prediction of large-scale protein interaction networks, focusing on computational processing steps. Special emphasis is placed on critical assessment of data completeness and reliability of the various approaches. Once built, protein interaction networks can be used for functional annotation or to generate higher-level biological hypotheses on pathways.
Strengths and Weaknesses of Selected Modeling Methods Used in Systems Biology
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Papers by Vincent Schachter