Related Experiment Videos
Computer tool FUNSITE for analysis of eukaryotic regulatory genomic sequences
A E Kel1, Y V Kondrakhin, Kolpakov PhA
1Institute of Cytology and Genetics, Siberian Branch, Russian Academy of Sciences, Novosibirsk, Russia.
Proceedings. International Conference on Intelligent Systems for Molecular Biology
|January 1, 1995
Summary
Funsite is a new computer tool for analyzing eukaryotic genomic regulatory sequences. It includes a database and programs to identify transcription factor binding sites and understand gene regulation.
Area of Science:
- Genomics
- Bioinformatics
- Computational Biology
Background:
- Understanding eukaryotic genome regulation is crucial for deciphering gene expression.
- Existing databases and tools for analyzing regulatory sequences have limitations.
Purpose of the Study:
- To introduce FUNSITE, a comprehensive computer tool for the description and analysis of eukaryotic genomic regulatory sequences.
- To provide an integrated database and a suite of analytical programs for studying gene regulation.
Main Methods:
- Development of an integrated database for genomic regulatory sequences, incorporating data from TRANSFAC and TRRD.
- Implementation of programs for identifying potential transcription factor binding sites using consensus sequences and homology searches.
- Analysis of oligonucleotide context features and design of recognition methods for functional sites based on generalized weight matrices.
- Investigation of potential composite elements within regulatory regions.
Main Results:
- The FUNSITE tool integrates a database with functionalities for linking to EMBL, preparing specific sequence samples, and classifying transcription factors.
- Analytical programs within FUNSITE can reveal potential transcription factor binding sites, analyze sequence contexts, and design recognition methods.
- The tool was successfully applied to analyze promoter sequences of eukaryotic genes, demonstrating its utility.
Conclusions:
- FUNSITE offers a valuable resource for the comprehensive analysis of eukaryotic genomic regulatory sequences.
- The integrated approach of database and analytical programs facilitates the study of gene regulation and cis-element interactions.
- This tool aids researchers in identifying regulatory elements and understanding their functional significance in gene expression.