CUPID - Cluster Analysis and Pathway Information for HTS Data
Cluster analysis of gene expression & protein function assignment
Idea: A web-based platform to cluster functional and gene expression & annotate pathway information of high throughput screening data.
Across-species comparison of high-throughput screening data
ScionicsOrthologueDB is one of the main requirements for this analysis
Content: mapped orthologues from standard model organisms
Content: mapped orthologues from standard model organisms
Annotation of protein-protein interaction (PPI) data
The Genome-wide Pipeline
- Pathway content generation: Retrieve pathway information by derivation from PPIs
- Import pathway information from existing databases: KEGG, STKE, cPATH
- create proprietary regulatory pathway database
Annotation across species
Add content by mapping PPIs and pathway by using the ScionicsOrthologueDB to map interaction data across species
Filtered data is used as an input. On the one hand, the data is clustered, in parallel, the genes are annotated using the RefSeq Genbank file, which provides information about the gene product, published data and a functional annotation based on the GeneOntology system. The protein ID is then used to mine the BIND database in order to retrieve interaction data on a protein.