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Updated: Aug 3, 2025

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Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays
Published on: November 12, 2012
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sInterBase: a comprehensive database of Escherichia coli sRNA-mRNA interactions.
Shani Cohen1, Eden Maximof1, Shay Rokach1
1Department of Software and Information Systems Engineering, Ben-Gurion University of the Negev, David Ben-Gurion Blvd. 1, Beer-Sheva 8410501, Israel.
Bioinformatics (Oxford, England)
|April 12, 2023
Summary
sInterBase is a web platform for exploring small RNA (sRNA)-messenger RNA interactions in E. coli. It offers data mining, analysis, and download features for experimentally identified interactions.
Area of Science:
- Bioinformatics
- Molecular Biology
- Genomics
Background:
- Small regulatory RNAs (sRNAs) play crucial roles in post-transcriptional gene regulation.
- Understanding sRNA-mRNA interactions is essential for deciphering gene expression networks in bacteria.
- Escherichia coli serves as a model organism for studying bacterial gene regulation.
Purpose of the Study:
- To develop a user-friendly web-based platform for mining experimentally identified sRNA-mRNA interactions.
- To provide comprehensive annotation and advanced analytical functionalities for these interactions.
- To facilitate the exploration and download of sRNA-mRNA interaction data in Escherichia coli.
Main Methods:
- Development of a web-based platform named sInterBase.
- Database curation of experimentally identified sRNA-mRNA interactions in E. coli.
- Implementation of search, statistical analysis, browsing, and data download functionalities.
Main Results:
- sInterBase offers a comprehensive collection of annotated sRNA-mRNA interactions.
- The platform supports flexible searching based on various criteria.
- Users can perform statistical analyses, visualize data, and download interaction information.
Conclusions:
- sInterBase provides a valuable resource for researchers studying sRNA-mediated gene regulation in E. coli.
- The platform simplifies the process of accessing and analyzing experimental sRNA-mRNA interaction data.
- sInterBase enhances the discoverability and utility of existing knowledge on sRNA-mRNA interactions.
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