About Chirag Nepal, PhD

I work with integrative analyses of large-scale genomics data to uncover novel biology regarding our understanding on transcription and epigenetics regulation.

Key publications

Alternative promoters in CpG depleted regions pervasively account for epigenetic misregulation of cancer transcriptomes.

Nepal. C. et al, Nature Communications volume 14, Article number: 2712 (2023)




Integrative molecular characterization of gallbladder cancer presents microenvironment-associated subtypes related to survival.

Nepal. C. et al, Journal of Hepatology, 2020 Dec 1


Editorial: https://www.journal-of-hepatology.eu/article/S0168-8278(21)00007-6/fulltext


Genomic Perturbations Reveal Distinct Regulatory Networks in Intrahepatic Cholangiocarcinoma.

Nepal. C. et al, Hepatology, 2018 Sep


Editorial: https://aasldpubs.onlinelibrary.wiley.com/doi/10.1002/hep.29830

Cover article: https://aasldpubs.onlinelibrary.wiley.com/toc/15273350/2018/68/3


Ancestrally duplicated conserved noncoding element suggests dual regulatory roles of HOTAIR in cis and trans. Nepal. C. et al, iScience, Volume 23, 2020



Dual-initiation promoters with intertwined canonical and TCT/TOP transcription start sites diversify transcript processing.

Nepal. C. et al, Nature Communications, 2020



Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements. Baranasic D et al, Nature Genetics. 2022



Two independent transcription initiation codes overlap on vertebrate core promoter.

Haberle V et al Nature, 507, 381-385(2014)