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Welcome to the DIPSBC web

Overview

In biomedical research and systems biology, heterogeneous data sets need to be interpreted in order to explain the complex systems under investigation. This XML and wiki based data integration platform provides an architecture for the normalization, indexing, querying, and analysis of heterogeneous data sets.

The local search machine is based on Solr / Lucene technology and can be used to query project data and public data that has been transformed to XML and indexed (an overview of the currently stored data sets is given below). The Tutorial section describes the different functions of the system. Instructions for the installation of the system are given here.

Search Project Data

IDEA! More info about:
- Query syntax
- Index structure
- User tutorial

Index contents

Data type Source File format Nr. of entries Description
Protein mass spectra PRIDE acc. 8538 mzData 745 Peptide tandem mass spectra (Homo sapiens) with identifications
DNA microarrays GEO acc. GSE3325 MINiML 19 Prostate cancer study; chip platform: Affymetrix U133 Plus 2.0 arrays (Homo sapiens)
GEO acc. GSE1133 MINiML 438 Novartis gene atlas 2004 (mouse and human arrays)
GEO acc. GSE10204, GSE11193 MINiML 80 Genetic functional basics of water-binding-capacity in pork; chip platform: Affymetrix Porcine Whole Genome Array
Studies MPI Berlin XML 'study' 7 Overview of statistical analyses
Test result tables MPI Berlin STAT-ML 94497 Results of statistical analyses of microarray experiments
Microsatellite markers / phenotypes University Bonn XML 'pigs' 873 Pig marker and trait values
Molecular interactions IntAct PSI-MI 5915 Yeast-2-hybrid datasets from Rual et al. and Stelzl et al.
CPDB XML 'cpdb' 46454 Interactions involving genes, proteins, and compounds; source: ConsensusPathDB
Molecular Models BioModels SBML 699 Mathematical models of gene regulatory pathways
Synonyms pig Affymetrix XML 'synonyms' 24123 Pig genome annotations
Synonyms human Affymetrix XML 'synonyms' 54675 Homo sapiens genome annotations
Protein sequences Uniprot FASTA 16.5 mio. Protein sequences (FASTA format)
Publications PubMed XML 'pubmed' 18.2 mio. Publications in PubMed starting from 1970
Foswiki pages DIPSBC TXT 26 Web pages within the DIPBSC platform
Total nr. of entries     34.970.538  


Recent Changes

Results from DIPSBC web retrieved at 17:18 (GMT)

WebHome
Welcome to the DIPSBC web Overview In biomedical research and systems biology, heterogeneous data sets need to be interpreted in order to explain the complex systems ...
RoadMap
Roadmap for ongoing DIPSBC developments Solr index access control * Possibility of filtering Solr search results based on the currently logged in user. This ...
ProteomicsGate
Mass spectra Data source Project Description Species Mass spectra PRIDE accession 8538 HUPO Plasma Proteome Project II: Human plasma, cysteinyl peptides ...
InstallationDocu
DIPSBC Installation instructions General notes The following guidelines describe the exemplary setup of a wiki based data integration system. They are laid out for ...


DIPSBC Web Utilities


Topic revision: r19 - 25 May 2012 - 10:39:00 - FelixDreher
 

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