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Description

Title:Identification of potential constitutive and tissue-specific promoters and regulatory motifs in Glycine max through datamining of publicly available sequence data
Author(s):Keating, Kathleen
Advisor(s):Hudson, Matthew E.
Department / Program:Crop Sciences
Discipline:Bioinformatics
Degree Granting Institution:University of Illinois at Urbana-Champaign
Degree:M.S.
Genre:Thesis
Subject(s):bioinformatics
transcription
datamining
regulatory motifs
soybean
promoters
Abstract:This is a study of gene regulation in soybean (Glycine max), specifically at the level of transcription. Analysis was performed on publicly available soybean EST data, deposited in the NCBI UniGene database, combined with the soybean genome sequence. EST libraries were grouped based on the tissue they were created from. Grouped libraries were selectively filtered to find constitutive, leaf-preferential (not in seed or seed coat), and root-specific transcripts. Transcripts were annotated using G. max and Arabidopsis thaliana databases. Gene ontology term enrichment tools were used to visualize the functions of abundant transcripts for the constitutive, leaf-preferential and root-specific groups. Promoter motif analysis was performed on the promoters for the most highly expressed transcripts of each expression category. The analysis identified many probable constitutive, leaf-preferential and root-specific promoters, as well as several over-represented motifs.
Issue Date:2013-02-03
URI:http://hdl.handle.net/2142/42489
Rights Information:Copyright 2012 Kathleen Keating
Date Available in IDEALS:2013-02-03
2015-02-03
Date Deposited:2012-12


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