Bacterial infections (BI) are a frequent, expensive, and life-threatening condition for critically ill patients. For patients with serious BI, minimizing the time between admission to the
intensive care unit (ICU) and administration of appropriate antibiotic therapy is crucial to
improve prognosis. However, the current gold-standard for identifying the appropriate
antimicrobials...
Breakthroughs in large-scale biological data collection have resulted in a wealth of -omics (genomics, metabolomics, etc.) datasets in the literature. However, the development of appropriate computational techniques for their analysis is lacking, yet crucial for fully extracting the rich information contained in these datasets. The work in this dissertation describes...
Mammalian transcriptional regulation is well-known to be complex and highly context dependent. Different genetic and epigenetic features, including single nucleotide polymorphisms (SNPs) that function as cis- or trans-expression quantitative trait loci (eQTLs), transcription factor (TF) interaction profile with cis-regulatory elements (CREs), methylation of CpG dinucleotide sequences, and histone modification that...
Annual age-adjusted breast cancer incidence rates in the United States have been static for decades. More recently, the development of massively parallel, high throughput DNA sequencing has enabled the cataloging of somatic mutations in cancer. Mutations are non-random and occur within sequence motifs. These motifs provide us with evidence to...