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Home > Medicine & Health Science textbooks > Nursing and ancillary services > Nursing > Nursing specialties > Paediatric nursing > In Silico Prediction of Cis-Regulatory Elements of Genes Involved in Hypoxic-Ischaemic Insult: (English)
In Silico Prediction of Cis-Regulatory Elements of Genes Involved in Hypoxic-Ischaemic Insult: (English)

In Silico Prediction of Cis-Regulatory Elements of Genes Involved in Hypoxic-Ischaemic Insult: (English)

          
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About the Book

This dissertation, "In Silico Prediction of Cis-regulatory Elements of Genes Involved in Hypoxic-ischaemic Insult" by Wai, Fu, 符慧, was obtained from The University of Hong Kong (Pokfulam, Hong Kong) and is being sold pursuant to Creative Commons: Attribution 3.0 Hong Kong License. The content of this dissertation has not been altered in any way. We have altered the formatting in order to facilitate the ease of printing and reading of the dissertation. All rights not granted by the above license are retained by the author. Abstract: Abstract of thesis entitled "In silico Prediction of cis-Regulatory Elements of Genes Involved in Hypoxic-ischaemic Insult" Submitted by Fu Wai for the degree of Master of Philosophy at The University of Hong Kong in August 2006 Gene expression changes in response to fluctuating physiological and environmental conditions. The first step and possibly most effective way of controlling gene expression profiles is through interaction of transcription factors with its binding sites at the transcriptional initiation stage. Genes which exhibit immediate expression changes under a given pathophysiological condition such as Hypoxic-ischaemic (HI) insult are considered to be co-regulated by a common mechanism and share the same transcription factor binding sites (TFBSs). Identifying common cis-regulatory elements in the set of HI-regulated genes is the first step in understanding the regulatory pathways involved in HI insult. A set of genes involved in HI insult was identified in previous studies. A novel gene, HID-1 was also found to be down-regulated by HI insult. The aim of this project is to predict TFBSs in HID-1 and the set of HI-regulated genes. Two approaches, the phylogenetic footprinting approach and the statistically overrepresented motif approach, were used to predict putative TFBSs in co-regulated genes. Bioinformatic pipelines were developed to facilitate the analysis of these approaches. Two known sets of co-regulated genes, the muscle-specific and liver-specific data sets, were used to evaluate the performance of the two approaches. The bioinformatic pipelines were then applied for the analysis of HI-regulated genes. Analysis of transcriptional regulation of HID-1 was carried out on a single gene basis using phylogenetic footprinting approach. TFBSs which were conserved between the promoter regions of mouse and human HID-1 genes were identified. Among those transcription factors identified, aryl hydrocarbon receptor (AHR) and c-Ets-1 68 were found to be involved in hypoxia-related regulation and may have potential regulatory functions on the expression of HID-1. Procedures used in the analysis of HID-1 were programmed into bioinformatic pipelines to facilitate TFBS analysis of a set of co-regulated genes. Another approach based purely on statistical analysis was also performed for TFBS prediction on a single species basis. Performance of these two approaches was evaluated using two known sets of co-regulated genes. Evaluation of the two approaches showed that sequence conservation information used by the phylogenetic footprinting approach was helpful in eliminating false positive TFBSs and increasing the sensitivity of the approach. The two approaches were applied for the analysis of HI-regulated genes. TFBSs which were statistically significant under the optimal cut-off values found in the evaluation processes were identified. TFBSs predicted for HID-1 and the set of HI-regulated genes in this project may have potential regulation functions in HI insult. They advance our understanding of the regulatory pathways involved in HI insult and may help the development of clinical treatments of HI insult in the future. The bioinformatic pipelines developed in this project can also be applied in the analysis of other sets of co-regulated genes to facilitate the processes of TFBS prediction. DOI: 10.5353/th_b3698689 Subjec


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Product Details
  • ISBN-13: 9781374665613
  • Publisher: Open Dissertation Press
  • Publisher Imprint: Open Dissertation Press
  • Height: 279 mm
  • No of Pages: 182
  • Spine Width: 11 mm
  • Width: 216 mm
  • ISBN-10: 1374665614
  • Publisher Date: 27 Jan 2017
  • Binding: Hardback
  • Language: English
  • Series Title: English
  • Weight: 712 gr


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