Create/ login to your TRANSFAC account here Yale affiliates have free access to TRANSFAC & Proteome through the Medical Library License.
TRANSFAC is the database of eukaryotic transcription factors (and miRNAs), their experimentally determined genomic binding sites and derived DNA-binding motifs (PWMs). TRANSFAC allows to search for transcription factor targets based on experimentally determined TF-binding sites, as well as to predict putative transcription factor binding sites in regulatory regions with the included tools (Match/FMatch/CMsearch).
The PROTEOME database includes HumanPSD, with focus on gene ontology data, expression patterns and, particularly, association of human (and mouse) genes with diseases and their potential use as biomarkers, as well as TRANSPATH on mammalian signal transduction and metabolic pathways, for functional and network analysis.
Integrated under one web interface, TRANSFAC and PROTEOME, allow seamless analysis with the included gene regulation and functional analysis tools.
This session will be focused on the following topics:
- Introduction to the search interface. What kind of information can be searched for in TRANSFAC+PROTEOME? Standard searches for transcription factors, for genes, for diseases.
- Working with the search results: saving under user’s personal account, further search in the results, export of the search results.
- Anatomy of the Reports: Transcription Factor report, Gene report, Disease report (including biomarker and clinical trial details).
- Other database search options: Custom search, Ontology search.
- Browsing pathways, clickable maps of the pathways, introduction to the PathFinder for network visualization.
- Introduction into transcription factor binding site (TFBS) search in gene promoters.
Presenters: Dr. Volker Matys, and Olga Kel-Margoulis, PhD