Somnath Tagore

This study identifies endothelial ICAM-1 as a regulator of T-cell exclusion in melanoma by spatially polarizing its expression, and shows that blocking ICAM-1 enhances T-cell infiltration and immunotherapy efficacy.

This study shows that chromosomal instability in esophageal adenocarcinoma drives an inflammatory tumor microenvironment through a cGAS-chemokine-myeloid axis, with CXCL8 as a key mediator.

The paper shows that the PBAF complex in melanoma facilitates REST occupancy at repressive chromatin, leading to upregulation of synaptic transcripts when ARID2 is mutated.

This study identifies CNDP1 as a metabolic vulnerability in brain metastasis, showing its inhibition suppresses metastasis and its expression confers metastatic potential.

Echidna quantifies gene dosage effects on phenotypic plasticity by integrating scRNA-seq and WGS data to separate genetic from cell non-autonomous mechanisms.

The paper functionally characterizes 577,866 non-recurrent mutations across TCGA cohorts by analyzing TF activity, identifying neomorphic and mimicry mutations, and validating them with knock-in assays.

KINOMO improves the analysis of single-cell RNA-seq data by recovering intra- and inter-tumoral heterogeneity through non-negative matrix factorization, outperforming existing methods in benchmarking.

The paper classifies tumor suppressors and oncogenes using network-based analysis and a novel preferential attachment score, showing mutated tumor suppressors integrate hyper-methylated partners like oncogenes.

The paper identifies drug targets by analyzing breakdown points in protein-protein interaction networks of cancer fusions, showing improved patient survival in specific cancer subtypes.

This study develops a method for single-cell and whole-genome sequencing of frozen clinical specimens, demonstrating its utility in analyzing tumor evolution and rare disease biospecimens.

The paper identifies 407 Master-Regulator proteins that canalize cancer genomics into transcriptional subtypes and links genetic alterations to tumor biology through modular regulatory architectures.

The paper introduces an algorithm to reconstruct context-specific molecular interaction maps centered on oncoproteins, validating it with KRAS in lung adenocarcinoma and identifying novel synthetic lethal proteins.

The paper develops a text mining method to identify fusion proteins and their interactions from biomedical literature, achieving classification of 1817 fusions and 2908 interactions across 18 cancer types.