plantiSMASH TFBS-finder Results (v2)

This directory contains the Transcription Factor Binding Site (TFBS) module results generated by plantiSMASH 2.0 for Arabidopsis thaliana. These results were produced using a significance threshold of 1×10⁻⁴ and a scanning window size of 500 bp.

For a full description of how TFBS results were generated and integrated into the plantiSMASH pipeline, please refer to the official database documentation.

📁 Directory contents

/precalc/v2/tfbs-finder/Arabidopsis_thaliana_GCF_000001735.4_354PWMs/
/precalc/v2/tfbs-finder/Arabidopsis_thaliana_GCF_000001735.4_576PMWs/

These two subdirectories contain TFBS detection results for Arabidopsis thaliana using two restrictive PWM (Position Weight Matrix) sets. Each set corresponds to a curated subset of transcription factor motifs derived from the ConnectF dataset and validated experimentally. The details and curation process for these motifs are documented in the Zenodo record: 10.5281/zenodo.17144325.

🧬 Source data and validation

The TFBS PWMs were originally sourced from PlantTFDB Download Page. Motifs were further filtered and curated in two different sets:

576PWMs — motifs filtered with over-dominance control, requiring the average per-position mass of any single nucleotide to be ≤0.55, and p-value threshold viability at p=1×10⁻⁵
354PWMs — manually curated motifs. The full exclusion list is available at https://doi.org/10.5281/zenodo.17144325