Uploaded June 2025 | Updated September 2026, 2 weeks ago
Models, Inference and Algorithms
March 5, 2025
Broad Institute of MIT and Harvard
Meeting: Nona, A Novel Multimodal Masked Modeling Framework for Functional Genomics
Surag Nair
Senior ML Scientist
ReLU, BRAID,Genentech
We present Nona, a unifying multimodal masked modeling framework for functional genomics. Nona is a neural network model that operates on both DNA sequence and epigenetic tracks such as DNase-seq, ChIP-seq, and RNA-seq at base-pair resolution. By leveraging a flexible masking strategy, Nona can predict any subset of masked DNA and/or tracks from the unmasked subset. Nona supports existing sequence-to-function models, and their applications such as variant effect prediction. Beyond this, Nona enables multiple novel application modes including 1) context-aware predictions 2) functional language modeling 3) functional genotyping. Altogether, Nona is a versatile framework that extends sequence-to-function and masked language modeling to novel applications in regulatory genomics.
For more information visit: https://www.broadinstitute.org/talks/...
Copyright Broad Institute, 2025. All rights reserved.
Models, Inference and Algorithms
March 5, 2025
Broad Institute of MIT and Harvard
Meeting: Nona, A Novel Multimodal Masked Modeling Framework for Functional Genomics
Surag Nair
Senior ML Scientist
ReLU, BRAID,Genentech
We present Nona, a unifying multimodal masked modeling framework for functional genomics. Nona is a neural network model that operates on both DNA sequence and epigenetic tracks such as DNase-seq, ChIP-seq, and RNA-seq at base-pair resolution. By leveraging a flexible masking strategy, Nona can predict any subset of masked DNA and/or tracks from the unmasked subset. Nona supports existing sequence-to-function models, and their applications such as variant effect prediction. Beyond this, Nona enables multiple novel application modes including 1) context-aware predictions 2) functional language modeling 3) functional genotyping. Altogether, Nona is a versatile framework that extends sequence-to-function and masked language modeling to novel applications in regulatory genomics.
For more information visit: https://www.broadinstitute.org/talks/...
Copyright Broad Institute, 2025. All rights reserved.
