Premal Shah

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premal.shahobfuscate@rutgers.edu

I'm an Assistant Professor at Rutgers University in the Department of Genetics.

Born and raised in India, as per cultural norm, I became an engineer/technologist. I received my undergraduate degree in Biotechnology from Anna University (pronounced un-nah).

I then received Ph.D. in Ecology and Evolutionary Biology from University of Tennessee, Knoxville, advised by Mike Gilchrist. During this time, I built models to understand the evolution of codon usage patterns.

I then did a postdoc with Josh Plotkin at University of Pennsylvania, where I worked on whole-cell models of protein translation, the role of epistasis in protein evolution, built codon substitution models, and methods for identifying rate variation in phylogenetic trees.

Papers

riboviz: analysis and visualization of ribosome profiling datasets. Carja et al. BMC Bioinfo 2017

Epistasis and the dynamics of reversion in molecular evolution. McCandlish et al. Genetics 2016

Improved ribosome-footprint and mRNA measurements provide insights into dynamics and regulation of yeast translation. Weinberg & Shah et al. Cell Rep 2016

A codon model of nucleotide substitution with selection on synonymous codon usage. Kubatko et al. Mol Phylo Evol 2016

Contingency and entrenchment in protein evolution under purifying selection. Shah & McCandlish et al. PNAS 2015

Estimating gene expression and codon specific translational efficiencies, mutation biases, and selection coefficients from genomic data alone. Gilchrist et al. Genome Biol Evol 2015

iteRates: An R package for implementing a parametric rate comparison on phylogenetic trees. Fordyce et al. Evol Bioinfo 2014

Rate-limiting steps in yeast protein translation. Shah et al. Cell 2013

The role of epistasis in protein evolution. McCandlish et al. Nature 2013

Non-optimal codon usage is a mechanism to achieve circadian clock conditionality. Xu et al. Nature 2013

Evidence for repeated loss of selective constraint in rhodopsin of amblyopsid cavefishes (Teleostei: Amblyopsidae). Niemiller et al. Evolution 2013

A parametric method for assessing diversification-rate variation in phylogenetic trees. Shah et al. Evolution 2013

Weak 5′-mRNA Secondary Structures in Short Eukaryotic Genes. Ding et al. Genome Biol Evol 2012

Explaining complex codon usage patterns with selection for translational efficiency, mutation bias, and genetic drift. Shah & Gilchrist PNAS 2011

Effect of correlated tRNA abundances on translation errors and evolution of codon usage bias. Shah & Gilchrist PLOS Genet 2010

Is thermosensing property of RNA thermometers unique? Shah & Gilchrist PLOS ONE 2010

Measuring and detecting molecular adaptation in codon usage against nonsense errors during protein translation. Gilchrist et al. Genetics 2009

Posts

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