Rahul M. Dhodapkar

Isotonic tartrazine is sufficient to improve transscleral penetration of optical coherence tomography

The paper shows that isotonic tartrazine improves OCT penetration without increasing ocular toxicity compared to hyperosmolar concentrations.

Scaling Large Language Models for Next-Generation Single-Cell Analysis

This paper scales large language models for single-cell analysis, improving predictive and generative capabilities and enabling biological discovery through virtual screening.

Causal identification of single-cell experimental perturbation effects with CINEMA-OT

CINEMA-OT identifies causal effects of single-cell perturbations by separating confounding variation, outperforming existing methods on simulated and real datasets.

BrainLM: A foundation model for brain activity recordings

A masked-prediction model pretrained on 6,700 hours of fMRI that fine-tunes to predict clinical variables, forecasts future brain states, and recovers functional networks without supervision.

Cell2Sentence: Teaching Large Language Models the Language of Biology

Cell2Sentence converts single-cell gene expression profiles into text-like cell sentences so standard large language models like GPT-2 can be fine-tuned for cell generation and cell-type annotation.

A deep generative model of the SARS-CoV-2 spike protein predicts future variants

SpikeGPT2, a deep generative model of SARS-CoV-2 spike protein sequences, predicts future mutations with high accuracy and identifies variants that may increase transmissibility and immune evasion.

Representing cells as sentences enables natural-language processing for single-cell transcriptomics

The paper converts gene expression data into sentence-like structures to apply natural language processing techniques in single-cell transcriptomics.

Topological analysis of single-cell data reveals shared glial landscape of macular degeneration and neurodegenerative diseases

A topological machine learning approach applied to single-nucleus RNA sequencing identifies shared glial activation states in AMD, AD, and MS.