Ryp1-3 ChIP Enrichment in HDAC Mutants for Histoplasma capsulatum

Figshare hosts a 270.2 KB tab-delimited text file containing ChIP enrichment data for the fungal pathogen Histoplasma capsulatum. The dataset, authored by Nebat Ali and last updated in March 2026, maps Ryp transcription factor binding and log2 differential enrichment between wild-type and rpd3 histone deacetylase mutant samples. It includes gene identifiers, peak coordinates, and promoter binding information curated from a referenced PLOS Biology study.

Use Cases

• Identify genes regulated by Ryp transcription factors based on promoter binding data.
• Analyze the impact of histone deacetylase Rpd3 on transcription factor binding based on log2 differential enrichment values.
• Cross-reference fungal gene annotations using the multiple provided accession columns (HcG217B_pred, HcG217B_rc, etc.).
• Study chromatin regulation in pathogenesis using the integrated peak coordinate and ChIP data.

Strengths

• Data is structured in a JavaTreeView-compatible format, suggesting compatibility with specific bioinformatics visualization tools.
• Includes human-curated gene names and corrections, potentially improving annotation accuracy.
• Integrates data from a specific, cited primary research source (PLOS Biology S1 Data), providing traceability.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment for large-scale analyses.
• The 270.2 KB file size indicates a limited scope, likely covering a specific gene set rather than a genome-wide analysis.

Provenance

Source

Figshare, authored by Nebat Ali.

Collection Method

Likely derived from ChIP-seq experiments and analysis (e.g., MACS2) comparing wild-type and HDAC mutant strains of Histoplasma capsulatum.

Time Range

null

Freshness

Last updated 2026-03-17 17:33:34; freshness should be verified.

Geography

null