Author

Lavanya Choppavarapu

Medical College of Wisconsin

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 2 Cancer Biology· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Organism:human· 4 Research Focus:gene regulatory network inference· 3 Approach:statistical model· 3 Assay:ATAC-seq· 2 Assay:bulk RNA-seq· 2 Research Focus:differential expression· 2 Approach:experimental assay· 2 Assay:Hi-C· 2

Frequent Co-Authors

Victor X. JiniD· 4 shared Kun FangiD· 2 shared Tianxiang LiuiD· 2 shared Gustavo W. LeoneiD· 1 shared Hui-Zi CheniD· 1 shared Kun FangiD· 1 shared Kun Fang· 1 shared Li TianiD· 1 shared

Activity by Year

2024-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 22 mutual co-author links

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4 shared papersBioinformatics

Victor X. JinORCID

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Author profile →

4 papers

Recent·Most cited

EZH2 Inhibition Reshapes 3D Chromatin Architecture to Induce Immunogenic Phenotype in Small Cell Lung Cancer

Sana Parveen, Ramesh Adhinaveni, Kun Fang, Lavanya Choppavarapu, Meijun Du, Gustavo W. Leone, Navonil De Sarkar, Victor X. Jin, Hui-Zi Chen

This study shows that inhibiting EZH2 alters 3D chromatin structure in SCLC, reactivating MHC genes and enhancing immunogenicity.

bioRxiv · Jan 28, 2026 · PreprintGenomics

Nuc3DMap delineates finer nucleosome-based three-dimensional chromatin architecture

Kun Fang, Lavanya Choppavarapu, Tianxiang Liu, Philip A. Knight, Victor X. Jin

Nuc3DMap integrates MNase-seq, Hi-C, and Micro-C data to delineate finer nucleosome-based 3D chromatin architecture and identifies distinct subtypes of chromatin features.

bioRxiv · Apr 3, 2025 · PreprintBioinformatics

Integration of scHi-C and scRNA-seq data defines distinct 3D-regulated and biological-context dependent cell subpopulations

Yufan Zhou, Li Tian, Lavanya Choppavarapu, Kun Fang, Shili Lin, Victor X. Jin

The paper integrates scHi-C and scRNA-seq data to identify 3D-regulated cell subpopulations in breast cancer, revealing new chromatin structures and biological contexts.

Nature Communications · Sep 27, 2024Peer-reviewedBioinformatics

Hi-C profiling in tissues reveals 3D chromatin-regulated breast tumor heterogeneity and tumor-specific looping-mediated biological pathways

Lavanya Choppavarapu, Kun Fang, Tianxiang Liu, Victor X. Jin

The paper uses Hi-C profiling in breast tissues to reveal 3D chromatin-regulated tumor heterogeneity and identifies CA2 as a driver of tamoxifen resistance through enhancer-promoter looping.

bioRxiv · Mar 13, 2024 · PreprintCancer Biology