Translation of mRNA into protein is a fundamental yet complex biological process with
multiple factors that can potentially affect its efficiency. Here, we study a stochastic model …

Direct comparison of bulk gene expression profiles is complicated by distinct cell type
mixtures in each sample that obscure whether observed differences are actually caused by …

… Erdmann-Pham,1 Wonjun Son,2 Khanh Dao Duc,3,* and Yun S. Song4,5,6,* … Dan D.
Erdmann-Pham and Wonjun Son contributed equally to this work. …

So-called linear rank statistics provide a means for distribution-free (even in finite samples),
yet highly flexible, two-sample testing in the setting of univariate random variables. Their …

There is significant interest in developing machine learning methods to model protein-ligand
interactions but a scarcity of experimentally resolved protein-ligand structures to learn from. …

… for Gene Expression Analysis by Ðan Daniel Erdmann-Pham A dissertation submitted in …
I thank Joe DeRisi, Valentina Garcia, Dirk Hockemeyer, Greg Huber, and Daniel Rokhsar for …

A common method for deriving non-parametric tests is to reformulate a parametric test in terms
of sample ranks. Despite being distribution free (even in finite samples), the resulting tests …

The totally asymmetric simple exclusion process, which describes the transport of interacting
particles in a lattice, has been actively studied over the past several decades. For general …

1.1 Background As intermediate molecules in protein production and in other cases non-coding,
functional components of a cell, RNA transcripts can provide insight into the …

Direct comparison of bulk gene expression profiles is complicated by distinct cell type mixtures
in each sample which obscure whether observed differences are actually due to changes …