基于GEO数据库的近端与远端结肠癌特征基因生物信息学研究

doi:10.12092/j.issn.1009-2501.2018.04.010

中国临床药理学与治疗学 ›› 2018, Vol. 23 ›› Issue (4): 422-427.doi: 10.12092/j.issn.1009-2501.2018.04.010

基于GEO数据库的近端与远端结肠癌特征基因生物信息学研究

张轶雯¹，楼倩雯²，钟里科¹，潘宗富¹，方罗¹，黄萍¹

¹浙江省肿瘤医院药剂科，杭州 310022，浙江；²浙江大学城市学院药学院，杭州 310001，浙江

收稿日期:2017-11-16 修回日期:2018-03-01 出版日期:2018-04-26 发布日期:2018-04-13
通讯作者: 黄萍，女，博士，主任药师，研究方向：生物信息学。 Tel: 0571-88122438 E-mail: huangping1841@zjcc.org.cn
作者简介:张轶雯，女，博士，主管药师，研究方向：生物信息学。 Tel: 0571-88122440 E-mail: zjzyw2003@163.com
基金资助:
国家自然科学基金（81503165）；浙江省医药卫生科技计划项目（2017RC001）；浙江省中医药科技计划项目（2015ZA038）

Study on the differences gene between proximal and distal colon cancer based on GEO database by bioinformatics

ZHANG Yiwen¹, LOU Qianwen², ZHONG Like¹, PAN Zongfu ¹, FANG Luo ¹, HUANG Ping ¹

¹Department of Pharmacy, Zhejiang Cancer Hospital, Hangzhou 310022, Zhejiang, China; ²School of Pharmacy, Zhejiang University City College, Hangzhou 310001, Zhejiang, China

Received:2017-11-16 Revised:2018-03-01 Online:2018-04-26 Published:2018-04-13

摘要/Abstract

摘要：

目的:通过分析近端与远端结直肠癌的差异基因集和其集中的关键通路，区分不同部位结肠癌的分子表达特征基因谱。方法: 利用GEO数据库中高通量基因芯片数据筛选出具有结肠癌患者肿瘤部位近远端信息的芯片。采用GO基因功能注释和KEGG通路富集分析，筛选出可表征远端与近端结肠癌生物特性的特征基因簇和通路，并进行蛋白质相互作用网络可视化分析。结果:经差异基因分析后，发现不同部位结肠癌基因表达具有显著差异，且主要存在于一些重要的肿瘤相关信号通路，如Wnt信号通路，细胞外基质相关通路和免疫调控通路等。结论:本文利用生物信息学方法，从多种角度定义了近端和远端结肠癌的差异分子表达特征，为结肠癌的精准治疗提供理论依据。

关键词: 近端结肠癌, 远端结肠癌, 差异基因, 生物信息学分析

Abstract:

AIM: To investigate the distinguish differences gene and its key pathways by analyzing the microarray data of the colon cancer patients with location information. METHODS: Gene expression profiles of the colon cancer with the information of location information in GEO database were selected. Then, using the GO gene functional annotation and KEGG pathway enrichment analysis, screening can represent different characteristics of location of colon cancer gene cluster & pathway, and visualization analysis for protein interaction network. RESULTS: After bioinformatics analysis, it was found that location affected the biological characteristics of colon carcinoma, and significantly altered some important tumor signaling pathways, such as Wnt signaling pathway, extracellular matrix related pathways and immuno-regulatory pathways. CONCLUSION: This study employed bioinformatics method from various perspectives to define the gene expression characteristics of different location in colon carcinoma. These results may provide theoretical basis for accurate treatment of colon cancer.

Key words: distal colon cancer, proximal colon cancer, differential gene expression, bioinformatics

中图分类号:

R735.3

张轶雯，楼倩雯，钟里科，潘宗富，方罗，黄萍. 基于GEO数据库的近端与远端结肠癌特征基因生物信息学研究[J]. 中国临床药理学与治疗学, 2018, 23(4): 422-427.

ZHANG Yiwen, LOU Qianwen, ZHONG Like, PAN Zongfu, FANG Luo, HUANG Ping. Study on the differences gene between proximal and distal colon cancer based on GEO database by bioinformatics[J]. Chinese Journal of Clinical Pharmacology and Therapeutics, 2018, 23(4): 422-427.

参考文献

［1］Chen W, Zheng R, Baade PD, et al. Cancer statistics in China, 2015［J］. CA Cancer J Clin, 2016, 66(2):115-132.
［2］Holch JW, Ricard I, Stintzing S, et al. The relevance of primary tumour location in patients with metastatic colorectal cancer: A meta-analysis of first-line clinical trials［J］. Eur J Cancer, 2017, 70: 87-98.
［3］Brulé SY, Jonker DJ, Karapetis CS, et al. Location of colon cancer (right-sided versus left-sided) as a prognostic factor and a predictor of benefit from cetuximab in NCIC CO.17［J］. Eur J Cancer, 2015, 51(11): 1405-1414.
［4］Missiaglia E, Jacobs B, D'Ario G, et al. Distal and proximal colon cancers differ in terms of molecular, pathological, and clinical features［J］. Ann Oncol, 2014, 25(10): 1995-2001.
［5］Meguid RA, Slidell MB, Wolfgang CL, et al. Is there a difference in survival between right-versus left-sided colon cancers［J］? Ann Surg Oncol, 2008, 15(9): 2388-2394.
［6］Weiss JM, Pfau PR, O'Connor ES, et al. Mortality by stage for right-versus left-sided colon cancer: analysis of surveillance, epidemiology, and end results-Medicare data［J］. J Clin Oncol, 2011, 29(33): 4401-4409.
［7］Carethers JM. One colon lumen but two organs［J］. Gastroenterology, 2011, 141(2): 411-412.
［8］Koinuma K, Yamashita Y, Liu W, et al. Epigenetic silencing of AXIN2 in colorectal carcinoma with microsatellite instability［J］. Oncogene, 2006, 25(1): 139-146.
［9］Hinoue T, Weisenberger DJ, Lange CP, et al. Genome-scale analysis of aberrant DNA methylation in colorectal cancer［J］. Genome Res, 2012, 22(2): 271-282.
［10］Gr-ne J, Lenze D, Jurinovic V, et al. Molecular profiles and clinical outcome of stage UICC II colon cancer patients［J］. Int J Colorectal Dis, 2011, 26(7): 847-858.
［11］Ribic CM, Sargent DJ, Moore MJ, et al. Tumor microsatellite-instability status as a predictor of benefit from fluorouracil-based adjuvant chemotherapy for colon cancer［J］. N Engl J Med, 2003, 349(3): 247-257.
［12］Haigis KM, Kendall KR, Wang Y, et al. Differential effects of oncogenic K-Ras and N-Ras on proliferation, differentiation and tumor progression in the colon［J］. Nat Genet, 2008, 40(5): 600-608.
［13］Di NF, Martini M, Molinari F, et al. Wild-type BRAF is required for response to panitumumab or cetuximab in metastatic colorectal cancer［J］. J Clin Oncol, 2008, 26(35): 5705-5712.
［14］Fancy SP, Harrington EP, Baranzini SE, et al. Parallel states of pathological Wnt signaling in neonatal brain injury and colon cancer［J］. Nat Neurosci, 2014, 17(4): 506-512.
［15］Pate KT, Stringari C, Sprowl-Tanio S, et al. Wnt signaling directs a metabolic program of glycolysis and angiogenesis in colon cancer［J］. Embo J, 2014, 33(13): 1454-1473.
［16］Holland JD, Klaus A, Garratt AN, et al. Wnt signaling in stem and cancer stem cells［J］. Curr Opin Cell Biol, 2013, 25(2): 254-264.
［17］Eke I, Cordes N. Focal adhesion signaling and therapy resistance in cancer［J］. Semin Cancer Biol, 2015, 31: 65-75.
［18］Bartolomé RA, Barderas R, Torres S, et al. Cadherin-17 interacts with α2β1 integrin to regulate cell proliferation and adhesion in colorectal cancer cells causing liver metastasis［J］. Oncogene, 2014, 33(13): 1658-1669.
［19］Plaks V, Kong N, Werb Z. The cancer stem cell niche: how essential is the niche in regulating stemness of tumor cells［J］? Cell Stem Cell, 2015, 16(3): 225-238.
［20］Krausova M, Korinek V. Wnt signaling in adult intestinal stem cells and cancer［J］. Cell Signal, 2014, 26(3): 570-579.
［21］Becht E, de Reyniès A, Giraldo NA, et al. Immune and stromal classification of colorectal cancer is associated with molecular subtypes and relevant for precision immunotherapy［J］. Clin Cancer Res, 2016, 22(16): 4057-4066.

[1]	刘建辉, 周根鸿, 李春林, 鲍美华, 刘方怡. 生物信息学筛选骨髓增生异常综合征相关长链非编码RNA[J]. 中国临床药理学与治疗学, 2020, 25(12): 1351-1356.
[2]	刘宇佳，李莉，胡晓平，钟里科，李晶晶，黄萍，张轶雯. 基于生物信息学的胃癌特征基因网络关键节点及预后关联分析[J]. 中国临床药理学与治疗学, 2019, 24(8): 852-859.

基于GEO数据库的近端与远端结肠癌特征基因生物信息学研究

Study on the differences gene between proximal and distal colon cancer based on GEO database by bioinformatics

PDF (PC)

可视化

被引次数

摘要/Abstract

引用本文

使用本文

参考文献

相关文章 2

编辑推荐

Metrics

本文评价