Jafri, M. SaleetHosseini, Parsa2014-08-282014-08-282013-08https://hdl.handle.net/1920/8778Transcription regulation is a highly orchestrated dynamic which mediates every aspect of organismal development. Following host perception of positive or negative stress, hormone-driven signaling amplifies extracellular cues and triggers a multifaceted, exquiste array of downstream signaling cascades. These cascades go on to drive synthesis of small metabolites and regulatory proteins known as transcription factors which mediate transcription regulation. Transcription factors drive transcription expression by binding onto short non-coding genomic regions known as transcription factor binding sites. Additional regulatory proteins are recruited to collectively bind to a regulatory element, bringing about tightly regulated, tissue-specific gene expression. With transcriptomic assays capable of quantifying cDNA at unprecedented levels of granularity and resolution, we can now quantify not only these regulatory elements but entire transcriptomes in a matter of hours. Novel questions can now be proposed, questions which necessitate utilization of these high-throughput platforms. Investigators can now build novel isoform models and ultimately get one step closer to filling in gaps sprinkled throughout the organismal systematic landscape.124 pagesenCopyright 2013 Parsa HosseiniBioinformaticsGlycine maxSoybean cyst nematodeSoybean rustTranscription factor binding siteDissertation