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Title: Understanding the differences in preliminary stages of gene expression regulation in healthy and unhealthy mammalian tissues and identification of potential markers
Researcher: Neelima Ch
Guide(s): Abhijit Mitra and Kshitish Acharya
Keywords: Affymetrix
Alternative Splicing
Gene expression
RNA sequencing
University: International Institute of Information Technology, Hyderabad
Completed Date: 10/11/2016
Abstract: Abstract newlineBackground newlineDetermining gene and transcript expression patterns is crucial for understanding cellular and molecular biology concepts. Currently, a large amount of gene expression data is available, and many tools and databases are developed to predict or extract gene expression patterns. But, these resources have many limitations. So, there is a need to develop a new resource that can help in establishing expression patterns. Establishing expression of the transcript isoforms in various physiological and disease conditions is important, as most of the human genes undergo alternative splicing and produce an enormous number of transcript isoforms, and these isoforms are also associated with diseases. In fact, establishing alternatively spliced isoforms in different tissues and conditions is essential for understanding many fundamental molecular events, such as mechanisms of alternative splicing and its regulation. Moreover, the mechanisms of alternative splicing are far from being understood clearly. newline newlineObjectives newlineThe current study aimed at newline1. Compiling existing gene expression data for testis tissue newline2. Establishing expression profiles at the transcript level using a new tool newline3. To establish the transcriptome for non obstructive azoospermia by RNA sequencing and identifying potential biomarkers newline4. Analyzing the factors associated with alternative splicing newline newlineConclusions newline1. Most of the gene expression data was compiled for mammalian testis tissue via biocuration. The gene expression database developed using this data was found to be superior that existing ones newline2. A web server was developed to derive expression profiles of transcript isoforms using exiting gene expression data. The expression pattern predicted by the tool was validated and the results were convincing newline3. The transcriptome for non obstructive azoospermia was established using RNA sequencing, and a few potential biomarkers were also identified newline4. Novel insights were obtained towards the factors that promote alternative splicing in testis tissue
Pagination: xxi, 329
Appears in Departments:Bioinformatics

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01_title.pdfAttached File156 kBAdobe PDFView/Open
02_certificates.pdf295.73 kBAdobe PDFView/Open
03_aknowledgements.pdf142.32 kBAdobe PDFView/Open
04_contents.pdf345.4 kBAdobe PDFView/Open
05_preface.pdf142.52 kBAdobe PDFView/Open
06_list of tables figues.pdf382.72 kBAdobe PDFView/Open
07_chapter 1.pdf1.73 MBAdobe PDFView/Open
08_chapter 2.pdf2.72 MBAdobe PDFView/Open
09_chapter 3.pdf3.18 MBAdobe PDFView/Open
10_chapter 4.pdf4.89 MBAdobe PDFView/Open
11_chapter 5.pdf1.98 MBAdobe PDFView/Open
12_chapter 6.pdf1.62 MBAdobe PDFView/Open
13_chapter 7.pdf708.89 kBAdobe PDFView/Open
14_references.pdf535.72 kBAdobe PDFView/Open
15_appendix.pdf1.73 MBAdobe PDFView/Open

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