Soumyashant Nayak

My research interests are in developing statistical methods for RNA-seq data analysis, and benchmarking existing algorithms and tools for normalization, quantification in RNA-seq data. I also take keen interest in systems biology.

1. Arjun Sengupta, Seth D Rhoades, Eun Ji Kim, Soumyashant Nayak, Gregory R Grant, Peter Meerlo, Aalim M Weljie; Sleep restriction induced energy, methylation and lipogenesis metabolic switches in rat liver, The International Journal of Biochemistry & Cell Biology, Vol. 93 (2017), 129-135 pp.
   Online Version : [DOI:10.1016/j.biocel.2017.08.014]


2. Preetika Gupta, Ogul E Uner, Soumyashant Nayak, Gregory R Grant, Robert G Kalb; SAP97 regulates behavior and expression of schizophrenia risk enriched gene sets in mouse hippocampus, PLoS ONE 13(7): e0200477.
   Online Version : [DOI:10.1371/journal.pone.0200477]


3. Iryna Shakhmantsir, Soumyashant Nayak, Gregory R. Grant, Amita Sehgal; Spliceosome factors target timeless (tim) mRNA to control clock protein accumulation and circadian behavior in Drosophila, eLife 2018;7:e39821.
   Online Version : [DOI:10.7554/eLife.39821]


4. Shaon Sengupta, Soon Yew Tang, Jill Devine, Soumyashant Nayak, Shirley Zhang, Alex Valenzuela, Carolina B Lopez, Gregory Grant, Garret A FitzGerald; Circadian control of lung inflammation in influenza infection, Nature Communications 10, 4107 (2019).
   [DOI:10.1038/s41467-019-11400-9]


5. Soumyashant Nayak, Nicholas Lahens, Eun Ji Kim, Emanuela Ricciotti, George Paschos, Sarah Tishkoff, Dimitra Sarantopoulou, Shaon Sengupta, Barry Cooperman, Tilo Grosser, Gregory Grant; Iso-relevance Functions - A Systematic Approach to Ranking Genomic Features by Differential Effect Size.
   [bioRXiv preprint]


6. Dimitra Sarantopoulou, Thomas G. Brooks,Soumyashant Nayak, Antonijo Mrčela, Nicholas F. Lahens, Gregory R. Grant; Comparative evaluation of full-length isoform quantification from RNA-Seq, BMC Bioinformatics (2021) May 25;22(1):266.
   [DOI:10.1186/s12859-021-04198-1]


7. Nicholas Lahens, Thomas G Brooks, Dimitra Sarantopoulou, Soumyashant Nayak, Cris Lawrence, Anand Srinivasan, Jonathan Schug, John B Hogenesch, Yoseph Barash, Gregory R Grant; CAMPAREE: A robust and configurable RNA expression simulator, BMC Genomics (2021) Sep 25;22(1):692.
   [DOI:10.1186/s12864-021-07934-2]