Ramana V. Davuluri

This study identifies K17 as a marker of an EMT-associated migratory cell state in PDAC, showing its role in promoting tumor-cell migration and poor prognosis.

This paper develops Gem-miR-15a, a gemcitabine-modified microRNA, which overcomes 5-FU and oxaliplatin resistance in colorectal cancer with high potency and low toxicity.

The paper develops DNABERT-Enhancer, a genomic language model for enhancer prediction, achieving high accuracy and identifying allele-specific activity and candidate SNPs.

PGViS quantifies non-coding germline regulatory risk in NSCLC by integrating variant-level signals with population reference data.

The paper introduces STPCaT, an isoform-centric analysis of solid tumors, revealing cancer-specific and normal-specific isoform groups and identifying new cancer-testis antigens with diagnostic potential.

TSProm identifies tissue-specific gene regulatory elements by training specialized DNA models and using explainable AI to analyze promoter sequences in human tissues.

HViLM is a foundation model for viral genomics that predicts pathogenicity, transmissibility, and host tropism across multiple viral families with high accuracy.

The paper evaluates and optimizes sequence-based gene regulatory deep learning models using a DREAM Challenge dataset, showing improvements through architectural and training strategy refinements.

This study identifies Nogo-A as an onco-fetal protein that inhibits glioma vascularization and growth through VEGF-Notch-Hippo-metabolic signaling in human and mouse models.

The paper investigates the cellular processes between HIF-1 activation and G2 arrest in MRL mouse regeneration, identifying EMT and chromatin remodeling as key intermediaries.

ExTraMapper improves transcript-level orthology mapping between human and mouse by identifying more exon and transcript mappings than previous methods.

DNABERT is a pre-trained transformer model for DNA sequences that achieves state-of-the-art performance on sequence prediction tasks and enables visualization of nucleotide-level importance across species.