ModelsProject page
DeepVRegulome models
464 fine-tuned DNABERT models for transcription factor binding, histone marks and splice sites.
Hugging Face
Resources
Models, data and code
Everything we release is open. Use it, build on it, and tell us what you find.
ModelsProject page
HViLM-base
Pre-trained foundation model for viral genomes, built on DNABERT-2.
Hugging Face
ModelsProject page
HViLM task models
Fine-tuned models for viral pathogenicity, transmissibility and host tropism.
Hugging Face
ModelsProject page
DNABERT-2
Efficient multi-species genome foundation model (117M parameters), co-developed with the MAGICS Lab.
Hugging Face
DatasetsProject page
HVUE benchmark
Benchmark for viral pathogenicity, transmissibility and host tropism prediction, with standard train and test splits.
Hugging Face
DatasetsProject page
GUE benchmark
Genome Understanding Evaluation: 36 datasets across 9 genome tasks, released with DNABERT-2.
GitHub
SoftwareProject page
deepvregulome
Python package to score how short variants affect the regulome, with motif-level explanations.
PyPI · GitHub
SoftwareProject page
ARGUS
Evidence-constrained agentic framework for interpreting noncoding variants.
GitHub
SoftwareProject page
DNABERT-2 code
Training and fine-tuning code for DNABERT-2.
GitHub
Web appsProject page
DeepVRegulome explorer
Interactive web app to explore variant effect predictions across cancer and neurodegeneration cohorts.
Streamlit
Using one of these in your work? Please cite the paper on its project page.