Aayush Grover
@aayushgrover.bsky.social
PhD Candidate. ML + Genomics
Reposted by Aayush Grover
We are pleased to announce our latest public hub, UniversalEPI ENCODE for hg38. It shows Hi-C interaction predictions based on ENCODE ATAC-seq data, generated by UniversalEPI: bit.ly/UniversalEPI_...
Thanks to the Boeva Lab at ETH Zurich for creating this hub.
Thanks to the Boeva Lab at ETH Zurich for creating this hub.
August 6, 2025 at 4:34 PM
We are pleased to announce our latest public hub, UniversalEPI ENCODE for hg38. It shows Hi-C interaction predictions based on ENCODE ATAC-seq data, generated by UniversalEPI: bit.ly/UniversalEPI_...
Thanks to the Boeva Lab at ETH Zurich for creating this hub.
Thanks to the Boeva Lab at ETH Zurich for creating this hub.
Reposted by Aayush Grover
🚨 New preprint out!
We studied deep learning models for high-resolution DNA accessibility prediction from DNA sequence!
Key takeaway: ConvNeXt V2 blocks consistently boost accuracy.
📖 Preprint: biorxiv.org/content/10.1...
🔗Code: github.com/BoevaLab/ASAP
📦 pip install atac-asap
We studied deep learning models for high-resolution DNA accessibility prediction from DNA sequence!
Key takeaway: ConvNeXt V2 blocks consistently boost accuracy.
📖 Preprint: biorxiv.org/content/10.1...
🔗Code: github.com/BoevaLab/ASAP
📦 pip install atac-asap
June 11, 2025 at 12:57 PM
🚨 New preprint out!
We studied deep learning models for high-resolution DNA accessibility prediction from DNA sequence!
Key takeaway: ConvNeXt V2 blocks consistently boost accuracy.
📖 Preprint: biorxiv.org/content/10.1...
🔗Code: github.com/BoevaLab/ASAP
📦 pip install atac-asap
We studied deep learning models for high-resolution DNA accessibility prediction from DNA sequence!
Key takeaway: ConvNeXt V2 blocks consistently boost accuracy.
📖 Preprint: biorxiv.org/content/10.1...
🔗Code: github.com/BoevaLab/ASAP
📦 pip install atac-asap
Reposted by Aayush Grover
Evaluation of deep learning approaches for high-resolution chromatin accessibility prediction from genomic sequence [new]
Deep learning for 4bp ATAC-seq prediction. ConvNeXt-based models (ConvNextDCNNs) robust for variant effects.
Deep learning for 4bp ATAC-seq prediction. ConvNeXt-based models (ConvNextDCNNs) robust for variant effects.
March 3, 2025 at 6:13 AM
Evaluation of deep learning approaches for high-resolution chromatin accessibility prediction from genomic sequence [new]
Deep learning for 4bp ATAC-seq prediction. ConvNeXt-based models (ConvNextDCNNs) robust for variant effects.
Deep learning for 4bp ATAC-seq prediction. ConvNeXt-based models (ConvNextDCNNs) robust for variant effects.
Reposted by Aayush Grover
🚀 New preprint from our lab, Ekaterina Krymova, and @fabiantheis.bsky.social: UniversalEPI, an attention-based method to predict enhancer-promoter interactions from DNA sequence and ATAC-seq🌟 Read the full preprint: www.biorxiv.org/content/10.1... by @aayushgrover.bsky.social, L. Zhang & I.L. Ibarra
November 26, 2024 at 1:40 PM
🚀 New preprint from our lab, Ekaterina Krymova, and @fabiantheis.bsky.social: UniversalEPI, an attention-based method to predict enhancer-promoter interactions from DNA sequence and ATAC-seq🌟 Read the full preprint: www.biorxiv.org/content/10.1... by @aayushgrover.bsky.social, L. Zhang & I.L. Ibarra
Reposted by Aayush Grover
UniversalEPI: Harnessing Attention Mechanisms to Decode Chromatin Interactions in Rare and Unexplored Cell Types https://www.biorxiv.org/content/10.1101/2024.11.22.624813v1
UniversalEPI: Harnessing Attention Mechanisms to Decode Chromatin Interactions in Rare and Unexplored Cell Types https://www.biorxiv.org/content/10.1101/2024.11.22.624813v1
Chromatin interactions between cis-regulatory elements (CREs) and specific gene promoters offer insi
www.biorxiv.org
November 23, 2024 at 10:33 PM
UniversalEPI: Harnessing Attention Mechanisms to Decode Chromatin Interactions in Rare and Unexplored Cell Types https://www.biorxiv.org/content/10.1101/2024.11.22.624813v1