The scientific method applies hypothesis testing to material samples through experimentation, measurement, and data analysis, which produce representations—or features—that describe phenomena of interest. Biomolecular features come in numerous forms such as values, matrices, graphs, three-dimensional structures, trajectories, and molecular surfaces. Researchers have tested thousands of features related to protein molecules...
People are increasingly staring at device screens which emit predominantly blue light. Because LED technology is relatively new, we do not know what effects blue light has on our long-term health. Blue light exposure leads to a dramatic decrease in longevity in Drosophila, thus this study aims to explore possible...
Single nucleotide polymorphisms (SNPs) can be used as markers to infer population genetic structure. For Mycoplasma cynos, a pathogen associated with infectious respiratory disease among canines and other animals, SNPs may help to elucidate ecological and evolutionary relationships among the strains that reside in the upper respiratory tract of canines...
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DavidHendrix, Committee Member, representing Department of Biochemistry and Biophysics
MicroRNAs are a highly conserved class of small endogenous RNA, about ~22nt in length, involved in post-transcriptional gene silencing and have prominent roles in disease and development. Though the process of microRNA discovery was once an arduous task, the advent of high throughput sequencing technology has resulted in novel microRNAs...
Natural Language Comprehension is a challenging domain of Natural Language Processing. To improve a model’s language comprehension/understanding, one approach would be to enrich the structure of the model to enhance its capability in learning the latent rules of the language.
In this dissertation, we will first introduce several deep models...
Water is an absolute necessity for life as we know it. It provides a useful medium in which chemical reactions take place that allowed for the development of single cellular organisms. When combined with the evolutionary accident that was pho- tosynthesis, water became not only a useful medium chemical reactions,...
The phragmoplast associated kinesin, PAKRP2, from the model organism Arabidopsis thaliana is categorized as an orphan, or ungrouped, kinesin due to structural divergences from the established 14 kinesin families. An early study on PAKRP2 found that it localized to the phragmoplast mid zone during the late stages of cell division...
Automatic event extraction from natural text is an important and challenging task for natural language understanding. Traditional event detection methods heavily rely on manually engineered rich features. Recent deep learning approaches alleviate this problem by automatic feature engineering. But such efforts, like tradition methods, have so far only focused on...
Microtubules (MT) are highly dynamic cylindrical-like structures within cells whose growth is controlled by motor proteins, a class of biological machines that walk along the MT while simultaneously regulating MT growth. Here we are interested in the behavior of kinesin-14 motor proteins. Although processive behavior of kinesin-14 motors has been...
RNAseq data among copepods (Calanus pacificus) were sampled and analyzed in relation to oceanographic and climatic conditions to determine if new information derived from such an approach might assist applications that use copepods as ecosystem indicators to predict fishery yields. These samples were taken as part of long-term studies conducted...