An Investigation and Visualization of MicroRNA Targets and Gene Expressions and Their Use in Classifying Cancer Samples

Bibliographic Details
Main Author:	Rose, Jarod
Language:	English
Published:	University of Akron / OhioLINK 2011
Subjects:	Bioinformatics Computer Science microRNA classification microarray visualization
Online Access:	http://rave.ohiolink.edu/etdc/view?acc_num=akron1302303717

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spelling	ndltd-OhioLink-oai-etd.ohiolink.edu-akron13023037172021-08-03T05:26:32Z An Investigation and Visualization of MicroRNA Targets and Gene Expressions and Their Use in Classifying Cancer Samples Rose, Jarod Bioinformatics Computer Science microRNA classification microarray visualization Classifying cancer can be a challenging task even for the best medical doctors, but by doing so increases the likelihood that a specialized treatment can be devised to cure that type of cancer. Today's computers are increasing in complexity and speed and these resources can be utilized to help us locate and understand specific traits of cancers that will help us classify them faster, and with better accuracy in the future. This thesis develops a software system that look at specific traits of both cancerous and normal tissue samples, focusing on microarray gene expression data and microRNA targets. In the thesis, a new average linkage based classification method is developed and compared with standard k-nearest neighbor method. Two visualization tools were developed. The first tool is a gene ontology tree analyzer which includes two components, mapping microRNA targets to a tree structure and mapping the targets to a directed acyclic graph. The analyzer allows users to navigate information pertaining to the microRNA targets and their gene ontology information. The second tool is a 3D viewer for microarray data. The cancerous tissue samples and normal tissue samples are projected to a three dimensional space based on the microarray gene expression values in the samples. My results indicate that the new cluster based classifier outperforms the standard k-nearest neighbors in terms of classifying cancer tissues based on the microarray data. The visualization tools developed in the thesis provide insights into understanding the gene ontology functions associated different cancers and visualizing the relationships among different cancer samples and normal samples. 2011-05-16 English text University of Akron / OhioLINK http://rave.ohiolink.edu/etdc/view?acc_num=akron1302303717 http://rave.ohiolink.edu/etdc/view?acc_num=akron1302303717 unrestricted This thesis or dissertation is protected by copyright: all rights reserved. It may not be copied or redistributed beyond the terms of applicable copyright laws.
collection	NDLTD
language	English
sources	NDLTD
topic	Bioinformatics Computer Science microRNA classification microarray visualization
spellingShingle	Bioinformatics Computer Science microRNA classification microarray visualization Rose, Jarod An Investigation and Visualization of MicroRNA Targets and Gene Expressions and Their Use in Classifying Cancer Samples
author	Rose, Jarod
author_facet	Rose, Jarod
author_sort	Rose, Jarod
title	An Investigation and Visualization of MicroRNA Targets and Gene Expressions and Their Use in Classifying Cancer Samples
title_short	An Investigation and Visualization of MicroRNA Targets and Gene Expressions and Their Use in Classifying Cancer Samples
title_full	An Investigation and Visualization of MicroRNA Targets and Gene Expressions and Their Use in Classifying Cancer Samples
title_fullStr	An Investigation and Visualization of MicroRNA Targets and Gene Expressions and Their Use in Classifying Cancer Samples
title_full_unstemmed	An Investigation and Visualization of MicroRNA Targets and Gene Expressions and Their Use in Classifying Cancer Samples
title_sort	investigation and visualization of microrna targets and gene expressions and their use in classifying cancer samples
publisher	University of Akron / OhioLINK
publishDate	2011
url	http://rave.ohiolink.edu/etdc/view?acc_num=akron1302303717
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An Investigation and Visualization of MicroRNA Targets and Gene Expressions and Their Use in Classifying Cancer Samples

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