We utilized size-tunable gold nanoparticles (Au NPs) to investigate the toxicogenomic
responses of the model organism Caenorhabditis elegans. We demonstrated that the …

Viral RNA structure prediction is a valuable tool for development of drugs against viral
disease. This work discusses different approaches to predicting encapsidated viral RNA and …

A few years before I started my graduate studies, Carl Woese was establishing a
collaboration with his friend, colleague, and my PhD advisor, Harry Noller. Carl was …

Comparative analysis of ribosomal RNA (rRNA) sequences has elucidated phylogenetic
relationships. However, this powerful approach has not been fully exploited to address …

Metals are major contaminants that influence human health and cause environmental risks.
Although ubiquitous in the nature, anthropogenic activities increased the exposure of people …

Mammalian mitochondrial ribosomes evolved from bacterial ribosomes by reduction of
ribosomal RNAs, increase of ribosomal protein content, and loss of guanine nucleotides …

The interactions between RNAs and proteins play critical roles in many biological
processes. Therefore, characterizing these interactions becomes critical for mechanistic …

Abstract The RNA 3D Structure-to-Multiple Sequence Alignment Server (R3D-2-MSA) is a
new web service that seamlessly links RNA three-dimensional (3D) structures to high-quality …

We explore the application of a Deep Autoencoding Gaussian Mixture Model for identifying
aberrant genes in RNA sequencing data, aiming to advance the understanding of …

This dissertation comprises three distinct parts; however, all parts are linked by their
complementary approaches to investigate the nature of RNA structure. The first part of this …