Cucumber RNA-seq and ATAC-seq Data for Low-Nitrogen Stress Analysis

A plant genetics dataset from figshare contains RNA-seq and ATAC-seq data from two cucumber accessions under low-nitrogen stress. The data, authored by Bowen Li and updated in 2026, supports the identification of key transcription factors like CsTGA7 involved in nitrogen tolerance.

Use Cases

• Integrate time-course RNA-seq and ATAC-seq analyses to identify transcription factors like CsTGA7 involved in low-nitrogen tolerance.
• Compare physiological and transcriptional responses between the tolerant accession C52 and sensitive accession C13 under nitrogen stress.
• Analyze chromatin accessibility data (ATAC-seq) to study global chromatin tightening in sensitive cucumber plants.
• Use RNA-seq data to investigate the activation of a 'resource-recycling' gene expression system in tolerant plants.

Strengths

• Data integrates two high-resolution molecular profiling techniques: RNA-seq and ATAC-seq.
• Includes functional validation results for the identified core regulator CsTGA7 using VIGS.
• Dataset is licensed under CC BY 4.0 for open reuse.

Limitations

• The dataset is relatively small at 12.6 MB, limiting the scope for large-scale genomic analyses.
• Sample data and column structure are unavailable, complicating initial data exploration.
• Focus is restricted to two specific cucumber accessions (C52 and C13), reducing generalizability.

Provenance

Source

figshare

Collection Method

Generated from time-course RNA-seq and ATAC-seq analyses of cucumber plants under controlled low-nitrogen stress.

Time Range

null

Freshness

Last updated in March 2026.

Geography

null