HDAC Mutant Expression Profiles with KALLISTO Counts and LIMMA-Fit Values

A 5.5 MB tabular dataset provides KALLISTO estimated counts and LIMMA-fit differential expression values for transcripts in HDAC (histone deacetylase) mutants of a human fungal pathogen. The data, authored by Nebat Ali and last updated in March 2026, includes gene identifiers, promoter binding information, and results from five statistical contrasts. The estimated counts are sufficient to recapitulate the original LIMMA analysis.

Use Cases

• Identify differentially expressed genes based on LIMMA BH-adjusted p-values and log2 ratios for five contrasts.
• Analyze transcript abundance patterns using the 18 columns of KALLISTO estimated counts per sample.
• Investigate relationships between gene expression and transcription factor binding using the Ryp1-4_ChIP promoter binding columns.
• Cross-reference gene annotations using the multiple systematic accession columns (HcG217B_pred, HcG217B_rc, HcG217B_acc).

Strengths

• Includes multiple layers of gene annotation from curated sources, enhancing interpretability.
• Provides both raw estimated counts (18 columns) and processed statistical results (10 columns), supporting reproducibility.
• File size is 5.5 MB, making it manageable for download and local analysis.

Limitations

• Row count is unknown, which may limit suitability assessment for large-scale modeling.
• Column-level documentation is absent; field semantics must be inferred from the description after download.

Provenance

Source

figshare, associated with a PLOS Biology publication.

Collection Method

Likely contains processed RNA-seq data analyzed with KALLISTO and LIMMA tools.

Time Range

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Freshness

Last updated 2026-03 17:33:31; freshness should be verified.

Geography

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