Two essential criteria for transcription factor footprint discovery using V-plot
A recent study reported sequence biases in transcription factor (TF) footprinting data, and expressed concern about the accuracy in TF footprint discovery using V-plot analysis. Here we define two graphical parameters of V-plot as important criteria to implement into future analysis. Guaranteed by the criteria, V-plot still serves as a powerful and straightforward tool for TF footprint discovery from various chromatin accessibility sequencing datasets.
Authors
- Chenhuan Xu (ORCID: https://orcid.org/0000-0002-3186-494X)
- Qifan Zhang (ORCID: https://orcid.org/0009-0001-1561-2961)
Institutions
- Chinese Academy of Sciences (CN)
- Beijing Institute of Genomics (CN)
- China National Biotechnology (China) (CN)
- Shanghai Center For Bioinformation Technology (CN)
- University of Chinese Academy of Sciences (CN)
Publication Details
- Journal
- Molecular Systems Biology
- Published
- 2026-08-25
- DOI
- https://doi.org/10.1038/s44320-026-00242-5
- Primary Topic
- Genomics and Chromatin Dynamics
- Type
- article
- Field-Weighted Citation Impact
- 0.00
Funders
- National Natural Science Foundation of China
- Chinese Academy of Sciences
- Ministry of Science and Technology of the People's Republic of China