E. Coli Aging Study: Supplementary Gene Expression and Pathway Analysis Tables

Four supplementary Excel tables from a genomic study of aging Escherichia coli colonies. The tables contain gene identifiers, functional annotations, differential expression statistics, and WGCNA network metrics for two gene modules, alongside pathway enrichment analysis results from KEGG, EcoCyc, RegulonDB, and Gene Ontology databases. The dataset was authored by Claude Saint-Ruf and last updated on May 12, 2026.

Use Cases

• Identify hub genes and key regulatory targets based on WGCNA module membership (kME) and intramodular connectivity (kWithin) metrics.
• Analyze pathway enrichment for gene modules correlated with wild-type (WT) conditions using results from KEGG, EcoCyc, RegulonDB, and Gene Ontology databases.
• Cross-reference differential expression results (log2 fold change, LIMMA p-values) with CspC target identification from CLIP-seq data.
• Investigate functional annotations of genes negatively or positively correlated with the wild-type condition in aging bacterial colonies.

Strengths

• Includes results from four distinct analyses (gene lists, network metrics, pathway enrichment) across two gene modules.
• Integrates data from multiple authoritative biological databases: KEGG, EcoCyc, RegulonDB, and Gene Ontology.
• Provides specific metrics like log2 fold change, LIMMA adjusted p-values, kME, GS, and kWithin for detailed network analysis.

Limitations

• Row count is unknown, which may limit suitability assessment.
• Column-level documentation is absent; field semantics must be inferred after download.
• The dataset is very small at 67.6 KB, indicating limited scope.

Provenance

Source

figshare

Collection Method

Generated as supplementary material for a genomic research study.

Freshness

Last updated 2026-05-12 04:45:25; freshness should be verified.