Biology Commons^™

The Mrna/Protein Relationship Is Fluid And Changes Across Tissue And Diseased States, Jose Humberto Giraldez Chavez, Sam Payne

Library/Life Sciences Undergraduate Poster Competition 2022

• Cancer is a dysregulated cell
• Molecular typing via DNA/RNA/protein
• Is RNA a proxy for cell?

Genomewide Evaluation Of Cis-Elements And Cognate Transcription Factors In Nicotiana Attenuata Predicts 27 Unique Transcription Factor-Binding Site Pairs, Ashton Omdahl

Undergraduate Honors Theses

Nicotiana attenuata has been widely studied for its ecological plant-herbivore relationships and response to environmental stress. The jasmonate signaling pathway regulated by jasmonate ZIM-domiain (JAZ) repressor proteins that modulate defense response levels has been of particular focus in this research. While our understanding of the genes associated with defense response and their regulation continues to expand, the transcriptional regulation of these genes is largely uncharacterized. In an effort to provide insight into these relationships, we performed genomewide analysis of transcript level data in order to predict transcription factors (TFs), their respective binding sites (TFBS), and the genes they regulate. We …

Using Bioinformatics To Increase The Number Of Tumors That Can Be Treated With Existing Drug Treatments, Jonathan Dayton, Stephen Piccolo

Journal of Undergraduate Research

Typically, tens or even hundreds of mutations are observed in the DNA of a single tumor by the time it has been detected1-4. Knowledge of these mutations may be useful in guiding the way the tumor is treated. In some cases, if a tumor has a mutation in a certain gene, this may indicate that the tumor can be treated with a certain drug. For example, the drug Trastuzumab is a targeted therapy for breast cancer patients with mutations in the HER2 gene5. In other cases, a mutation may be able to be targeted by a drug even if the …

Bioinformatics For The Comparative Genomic Analysis Of The Cotton (Gossypium) Polyploid Complex, Justin Thomas Page

Theses and Dissertations

Understanding the composition, evolution, and function of the cotton (Gossypium) genome is complicated by the joint presence of two genomes in its nucleus (AT and DT genomes). Specifically, read-mapping (a fundamental part of next-generation sequence analysis) cannot adequately differentiate reads as belonging to one genome or the other. These two genomes were derived from progenitor A-genome and D-genome diploids involved in ancestral allopolyploidization. To better understand the allopolyploid genome, we developed PolyCat to categorize reads according to their genome of origin based on homoeo-SNPs that differentiate the two genomes. We re-sequenced the genomes of extant diploid relatives of tetraploid cotton …