Analysis of EGFR—K-ras pathways through microarray conjunction with chemical genomics in colon cancer cell lines

碩士 === 國立中央大學 === 系統生物與生物資訊研究所 === 98 === In order to understand the complexity of regulation, expression and feedback mechanism of genes, the methodology of system biology through the high-throughput analysis and information analysis must be utilized to elucidate the gene regulation networ...

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Main Authors: Ting Yang, 楊庭
Other Authors: Qing-Dong Ling
Format: Others
Language:zh-TW
Published: 2010
Online Access:http://ndltd.ncl.edu.tw/handle/91265309564751699302
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spelling ndltd-TW-098NCU051120062016-04-20T04:17:48Z http://ndltd.ncl.edu.tw/handle/91265309564751699302 Analysis of EGFR—K-ras pathways through microarray conjunction with chemical genomics in colon cancer cell lines 大腸癌細胞株之 EGFR—K-ras 訊號路徑的基因微陣列實驗 與化學基因體學分析 Ting Yang 楊庭 碩士 國立中央大學 系統生物與生物資訊研究所 98 In order to understand the complexity of regulation, expression and feedback mechanism of genes, the methodology of system biology through the high-throughput analysis and information analysis must be utilized to elucidate the gene regulation network. The advance in microarray experiment and its high throughput analysis has set up an important milestone in the system biology. In this study, we used the exon array and high throughput data analysis software developed by Partek Corporation to observe the change of EGFR downstream targets after EGF and Cetuximab blockade in Sw480, Caco2 and Ht29 cells. By using SAM biochip significance analysis method, 3052 significantly different genes were selected. These genes were grouped by different functions and relativity between different cell lines by correlating these genes with KEGG mapping .We analyze the heat map of each cell line before and after stimulation by using R package. We also compare the difference of control and experiment group and similarity between other two groups by using Euclidean distance and Pearson correlation. Using KegArray in conjunction with KEGG biological information pathway data,we found the different downstream pathway transformation.of the Sw480、 Ht29 、Caco2 cell line after treatment with Cetuximab to block EGFR and EGFR-Ras pathway. In the furture, we hope to detect different gene mutation after treated with Cetuximab using colon cancer cell lines and observe gene alteration in various EGFR-Ras pathway. We want to integrate complex gene interaction by using system biology. It is valuable to study and investigate the regulation mechanism of upstream and downstream interaction in a pathway. Qing-Dong Ling 凌慶東 2010 學位論文 ; thesis 69 zh-TW
collection NDLTD
language zh-TW
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description 碩士 === 國立中央大學 === 系統生物與生物資訊研究所 === 98 === In order to understand the complexity of regulation, expression and feedback mechanism of genes, the methodology of system biology through the high-throughput analysis and information analysis must be utilized to elucidate the gene regulation network. The advance in microarray experiment and its high throughput analysis has set up an important milestone in the system biology. In this study, we used the exon array and high throughput data analysis software developed by Partek Corporation to observe the change of EGFR downstream targets after EGF and Cetuximab blockade in Sw480, Caco2 and Ht29 cells. By using SAM biochip significance analysis method, 3052 significantly different genes were selected. These genes were grouped by different functions and relativity between different cell lines by correlating these genes with KEGG mapping .We analyze the heat map of each cell line before and after stimulation by using R package. We also compare the difference of control and experiment group and similarity between other two groups by using Euclidean distance and Pearson correlation. Using KegArray in conjunction with KEGG biological information pathway data,we found the different downstream pathway transformation.of the Sw480、 Ht29 、Caco2 cell line after treatment with Cetuximab to block EGFR and EGFR-Ras pathway. In the furture, we hope to detect different gene mutation after treated with Cetuximab using colon cancer cell lines and observe gene alteration in various EGFR-Ras pathway. We want to integrate complex gene interaction by using system biology. It is valuable to study and investigate the regulation mechanism of upstream and downstream interaction in a pathway.
author2 Qing-Dong Ling
author_facet Qing-Dong Ling
Ting Yang
楊庭
author Ting Yang
楊庭
spellingShingle Ting Yang
楊庭
Analysis of EGFR—K-ras pathways through microarray conjunction with chemical genomics in colon cancer cell lines
author_sort Ting Yang
title Analysis of EGFR—K-ras pathways through microarray conjunction with chemical genomics in colon cancer cell lines
title_short Analysis of EGFR—K-ras pathways through microarray conjunction with chemical genomics in colon cancer cell lines
title_full Analysis of EGFR—K-ras pathways through microarray conjunction with chemical genomics in colon cancer cell lines
title_fullStr Analysis of EGFR—K-ras pathways through microarray conjunction with chemical genomics in colon cancer cell lines
title_full_unstemmed Analysis of EGFR—K-ras pathways through microarray conjunction with chemical genomics in colon cancer cell lines
title_sort analysis of egfr—k-ras pathways through microarray conjunction with chemical genomics in colon cancer cell lines
publishDate 2010
url http://ndltd.ncl.edu.tw/handle/91265309564751699302
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