Mohammad A. Siddiq

cis- and trans-regulatory factors contributing to divergent activity of the TDH3 promoter in Saccharomyces yeast

The paper identifies cis-regulatory changes in the TDH3 promoter that increase expression in S. cerevisiae by altering transcription factor interactions, while preserving expression dynamics.

Environmental impacts on gene expression noise and its relationship with fitness

The paper examines how environmental factors influence gene expression noise and its fitness effects in yeast, showing environment-specific relationships.

Deep homology and design of proteasome chaperone proteins in Candida auris

The paper uses structural similarity to identify and design proteasome chaperone proteins in Candida auris, showing conservation of function despite sequence divergence.

Divergence of Grainy head affects chromatin accessibility, gene expression, and embryonic viability in Drosophila melanogaster

The paper compares the effects of Drosophila and C. elegans Grainy head orthologs on chromatin accessibility, gene expression, and embryonic viability in Drosophila, showing functional divergence despite conserved developmental roles.

Mutational sources of trans-regulatory variation affecting gene expression in Saccharomyces cerevisiae

The paper identifies trans-regulatory mutations affecting gene expression in S. cerevisiae and shows their genomic distribution overlaps with segregating variants.