Deciphering the sequence basis and application of transcriptional initiation regulation in plant genomes through deep learning
GenoRetriever provides an interpretable, cross species framework for decoding transcription initiation in plants. By linking specific sequence motifs to quantitative transcriptional outcomes and validating these links experimentally, our study advances fundamental knowledge of promoter architecture and supplies a practical platform for rational engineering of gene expression in crop improvement and functional genomics.
Authors
- Xuantong Liu
- Xutong Wang (ORCID: https://orcid.org/0000-0002-4625-7659)
- Wanjie Feng (ORCID: https://orcid.org/0009-0006-5206-4454)
- Xia Li (ORCID: https://orcid.org/0000-0001-8554-6245)
- Yuefeng Guan (ORCID: https://orcid.org/0000-0002-1436-3828)
- Yixiao Ma (ORCID: https://orcid.org/0000-0003-1876-7894)
- Li Qin (ORCID: https://orcid.org/0000-0003-0099-4992)
- Jing Yuan (ORCID: https://orcid.org/0000-0002-6939-9676)
- Haonan Zhao (ORCID: https://orcid.org/0009-0007-8553-945X)
- Lijie Lian
- Jieni Lin
- Zongcheng Lin
- Shanmeng Hao (ORCID: https://orcid.org/0009-0007-8869-7285)
- Pengfei Gao (ORCID: https://orcid.org/0000-0002-1909-1294)
Institutions
- Huazhong Agricultural University (CN)
- Guangzhou University (CN)
Publication Details
- Journal
- Genome biology
- Published
- 2025-09-22
- DOI
- https://doi.org/10.1186/s13059-025-03782-5
- Citations
- 2
- Primary Topic
- Soybean genetics and cultivation
- Type
- article
- Field-Weighted Citation Impact
- 3.50
Funders
- National Natural Science Foundation of China
- National Key Research and Development Program of China
- Fundamental Research Funds for the Central Universities