The Genetic Foundations of Convergent Traits

Nature Reviews Genetics | (16 pp)

J. Allard, S. Kumar

Epistasis plays a limited role in driving entrenchment during neutral protein evolution

Genome Biology | revision in review

L. Schmelkin, S. Chung, V. Carnevale, A. Haldane, J. Townsend, R. Levy, S. Kumar

Nutrigenomics: From Epicure to Epigenetics - Engaging Students with Nutrition Through the Human Genome

The American Biology Teacher | accepted

C. Babaian, S. Kumar

Treemble: A Graphical Tool to Generate Newick Strings from Phylogenetic Tree Images

Bioinformatics

J. Allard, S. Kumar

An Evolutionary Metric for Estimating PhyloAges from Bulk Sequencing of Hematopoietic Stem Cells Reveals the Tempo of Blood Aging in Cancer and Longevity

Journal of Molecular Evolution | 94:177–189

J. M. Craig, R. M. Tobin, W. Wolfsberger, T. K. Oleksyk, S. Miura, G. S. Gerhard, S. Kumar

Evolutionary dynamics of early and late mutational signatures in metastatic cancer

Frontiers in Bioinformatics | 6:(10 pp)

A. Yankovskiy, S. Kumar, S. Miura

Transformer-based Hi-C Upscaling Reveals 3D Genome Structure at Low-resolution Sequencing

Cell Genomics | submitted

C. Li, M.E. Mowlaei, V. Carnevale, S. Kumar, M. J.P. Chaisson, E. E. Eichler, X. Shi

The Big Evolution of the Little Phage: Teaching biological interdependency through a virus

The American Biology Teacher | 88:93–102

C. Babaian, S. Kumar

A collaborative genomics platform for T1D research in Eastern and Central Europe

Metabologia | in submission

K. Shchubelka,..., S, Sharma,..., S. Kumar,..., T. K. Oleksynk

R3F: An R Package for Evolutionary Dates, Rates, and Priors using Relative Rate Framework

arXiv | (available)

Q. Tao, S. Sharma, K. Tamura, S. Kumar