Chandana Rajesh

A multispecies foundation model for genome function prediction, gene annotation and sequence design

NTv3 is a foundation model that predicts genome function, annotates genes, and designs DNA sequences across species, outperforming existing models in multiple tasks.

Massive experimental quantification of amyloid nucleation allows interpretable deep learning of protein aggregation

The paper experimentally quantifies amyloid nucleation for >100,000 sequences, trains an interpretable deep learning model to predict it, and reveals the model's decision-making process.

Correcting gradient-based interpretations of deep neural networks for genomics

The paper corrects gradient-based interpretations of deep neural networks in genomics to reduce noise from off-simplex gradients, improving attribution method interpretability.

Learning single-cell chromatin accessibility profiles using meta-analytic marker genes

The paper benchmarks neuronal cell-type annotation in scATAC-seq data using marker genes and introduces a deep learning model to predict chromatin accessibility from DNA sequence.