Related Experiment Video
Updated: Jul 11, 2026

Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays
Published on: November 12, 2012
2DBase: 2D-PAGE database of Escherichia coli
Chandran Vijayendran1, Sebastian Burgemeister, Karl Friehs
1International NRW Graduate School in Bioinformatics and Genome Research, University of Bielefeld, D-33594 Bielefeld, Germany. cvijayen@cebitec.uni-bielefeld.de
We developed 2DBase, an integrated proteome database for Escherichia coli, to store, compare, and analyze proteomics data from 2D gel electrophoresis and mass spectrometry. This resource aids in querying and data mining for E. coli research.
Area of Science:
- Proteomics
- Bioinformatics
- Molecular Biology
Background:
- 2D polyacrylamide gel electrophoresis (2-DE) and mass spectrometry are crucial for proteome analysis.
- Managing and analyzing large-scale proteomics data presents significant challenges.
- Integrated databases are needed to facilitate the interpretation of complex proteomic datasets.
Purpose of the Study:
- To create a web-based integrated proteome database for Escherichia coli (E. coli).
- To enable storage, comparison, analysis, and retrieval of proteomics data.
- To facilitate data-mining and functional classification of E. coli gene products.
Main Methods:
- Development of a web-based interface for database access.
- Implementation of a relational database system to store proteomics data.
- Integration of query and data-mining functionalities for proteomics information.
Main Results:
- The 2DBase currently contains data from 12 gels, including 1185 protein spots.
- 723 proteins have been identified and annotated within the database.
- Features for displaying, querying, analyzing, and comparing protein spots are available.
Conclusions:
- The 2DBase serves as a federated 2-DE database for E. coli.
- It provides efficient access to and analysis of proteomics data through a web interface.
- The database supports functional classification and comparative proteomic studies of E. coli.
More Related Videos
09:45Escherichia coli-Based Cell-Free Protein Synthesis: Protocols for a robust, flexible, and accessible platform technology
Published on: February 25, 2019
12:50Colorimetric Paper-based Detection of Escherichia coli, Salmonella spp., and Listeria monocytogenes from Large Volumes of Agricultural Water
Published on: June 9, 2014
Related Concept Videos
Two-dimensional Gel Electrophoresis
The first dimension separation uses the isoelectric focusing or IEF technique performed on immobilized pH gradient (IPG) strips that separate proteins according to their isoelectric points.
Biological samples, such as cells...
SDS-PAGE
A variation of gel electrophoresis, termed polyacrylamide gel electrophoresis (PAGE), is commonly used for separating proteins according to their molecular size by passing them through a polyacrylamide gel. Because of the varying charges associated with amino acid side chains, PAGE can be used to separate intact proteins...
Two-Dimensional Microscopy in Microbiology
Bacterial Gastroenteritis