Danielle Miller

ConvergeCELL: An end-to-end platform from patient transcriptomics to therapeutic hypotheses

ConvergeCELL translates patient transcriptomics into therapeutic hypotheses by integrating patient representation, interpretability, and large language models, outperforming baselines in gene recovery and classification.

Full genome viral sequences inform patterns of SARS-CoV-2 spread into and within Israel

This study uses full genome SARS-CoV-2 sequences from Israel to trace viral spread, find multiple introductions, and show the impact of social distancing on transmission.

A Bayesian framework for inferring the influence of sequence context on single base modifications

This paper develops a Bayesian method to detect sequence context effects on mutation rates using population sequencing data, finding significant enrichment in deamination contexts in polioviruses.