S. Varma

Single Cell Expression Analysis of Ductal Carcinoma in Situ Identifies Alterations in Epithelial Integrity

This study uses scRNA-seq to analyze DCIS and normal breast tissue, identifying clonal heterogeneity and cell state changes associated with progression to invasive cancer.

Biochemical Properties of Naturally Occurring Human Bloom Helicase Variants

This study characterizes the biochemical properties of naturally occurring BLM mutations, finding that P868L and G1120R retain helicase function but may contribute to genome instability, while K869A K870A shows reduced ATPase and helicase activity.

Collective invasion of the basement membrane in breast cancer driven by forces from cell volume expansion and local contractility

This study shows breast cancer cells invade the basement membrane using both proteases and mechanical forces from cell volume expansion and local contractility.

Interactions in CSF1-driven Tenosynovial Giant Cell Tumors

The paper identifies GFPT2 as a marker for synoviocytes in TGCT and shows neoplastic cells lack CSF1R, suggesting current therapies may not target them effectively.

DCIS genomic signatures define biology and clinical outcome: Human Tumor Atlas Network (HTAN) analysis of TBCRC 038 and RAHBT cohorts

The paper develops a classifier for DCIS recurrence using genomic data from two cohorts and identifies pathways and stroma-specific signatures associated with progression to invasive cancer.

Transition to invasive breast cancer is associated with progressive changes in the structure and composition of tumor stroma

The paper analyzes tumor microenvironment changes from normal to invasive breast cancer using imaging and machine learning, finding coordinated shifts in stromal cell location and function.

Molecular basis for SARS-CoV-2 spike affinity for human ACE2 receptor

This study identifies the molecular basis for SARS-CoV-2's higher affinity for human ACE2 compared to SARS-CoV using molecular dynamics simulations and free energy calculations.

Unraveling Endothelial Cell Phenotypic Regulation By Spatial Hemodynamic Flows With Microfluidics

This study uses microfluidics to apply spatial hemodynamic flows to human endothelial cells, revealing their impact on morphology, transcription, and polarization.

SCLC_CellMiner: Integrated Genomics and Therapeutics Predictors of Small Cell Lung Cancer Cell Lines based on their genomic signatures

SCLC_CellMiner provides an integrated resource of 118 SCLC cell lines with omics data and drug sensitivity, identifying molecular subtypes and therapeutic targets.

Clinically-relevant cell type cross-talk identified from a human lung tumor microenvironment interactome

The paper identifies clinically relevant cell type interactions in the lung tumor microenvironment using RNA-seq data from sorted cell populations.

YAP-independent mechanotransduction drives breast cancer progression

This study shows that mechanotransduction in breast cancer occurs without YAP, due to compact nuclear morphologies in vivo.