EcoCyc.org, the most comprehensive curated genome database for the model microorganism E. coli K-12, has implemented a new categorization schema that indicates the degree to which a gene has been characterized: well-characterized (54%), partially (26%) and uncharacterized (16%). This searchable category adds to the wealth of information and bioinformatics tools in EcoCyc aiding research decisions to further the study of gene function in E. coli.

The post Revisiting the y-ome of Escherichia coli appeared first on SRI.

Abstract We present a tool for multi-omics data analysis that enables simultaneous visualization of up to four types of omics data on organism-scale metabolic network diagrams. The tool’s interactive web-based metabolic charts depict the metabolic reactions, pathways, and metabolites of a single organism as described in a metabolic pathway database for that organism; the charts […]

The post Visual Analysis of Multi-Omics Data appeared first on SRI.

The Comparative Genome Dashboard is a web-based software tool for interactive exploration of the similarities and differences in gene functions between organisms.

The post The Comparative Genome Dashboard appeared first on SRI.

CyanoCyc is a web portal that integrates an exceptionally rich database collection of information about cyanobacterial genomes with an extensive suite of bioinformatics tools.

The post CyanoCyc Cyanobacterial Web Portal appeared first on SRI.

The Omics Dashboard is a software tool for interactive exploration and analysis of metabolomics, transcriptomics, proteomics, and multi-omics datasets.

The post The Omics Dashboard for Interactive Exploration of Metabolomics and Multi-Omics Data appeared first on SRI.

The long-term goal of the project is to describe the complete molecular catalog of the E. coli cell, as well as the functions of each of its molecular parts, to facilitate a system-level understanding of E. coli.

The post The EcoCyc Database (2023) appeared first on SRI.

The Pathway Tools software provides a suite of capabilities for storing and analyzing collections of genomic and metabolic information.

The post Pathway Tools Management of Pathway/Genome Data for Microbial Communities appeared first on SRI.