西安交通大学学报（医学版）2011，Vol.32Issue(1)：10-16,27,8.
基于鸟枪法蛋白质组学和生物信息学技术对肺鳞癌表达蛋白质谱的分析
Analysis of expression protein profiles of lung squamous cell carcinoma based on shot gun proteomics and bioinformatics technique
南岩东 1杨拴盈 2田应选 3霍淑芬 2杜洁 2金发光1
作者信息
- 1. 第四军医大学唐都医院呼吸内科,陕西西安,710038
- 2. 西安交通大学医学院第二附属医院呼吸内科,陕西西安,710004
- 3. 陕西省人民医院老年呼吸科,陕西西安,710068
- 折叠
摘要
Abstract
Objective To analyze the expression protein profiles of lung squamous cell carcinoma (SOCC) with shot gun proteomics and bioinformatics technique and to screen SQCC biomarkers in order to provide valuable clues for pathogenesis, early diagnosis and treatment of SQCC. Methods Tumor cells were isolated and purified with laser capture microdissection (LCM) from 6 cases of fresh tissues of lung SQCC after operatoin and the total solution proteins were extracted. Proteins were identified by multiple-dimension liquid chromatography (MDLC)and ion trap tandem mass spectrum technology (shot gun proteomics). Biomarkers were screened based on prediction of the physio-chemical properties, molecular function, biological pathway and interaction of the expressoin proteins using bioinformatics technique. Results A total of 60 LCM caps were collected and about 12 000 cells were harvested from every LCM cap. Altogether 860 non-redundant proteins were identified using shot gun proteomics technique. The physio-chemical properties, including molecular weight (MW), point of isoelectricity (PI), grand average of hydropathy (GRAVY), trans-membrane helices (TMH), subcellular location, posttranscription modification ( PTM ) and tissue distribution were analyzed using online bioinformatics tools and were further demonstrated through statistical graph. Biological function was analyzed by using gene ontology (GO)software and kyoto encyclopedia of genes and genomes (KEGG) biological pathway. Three valuable proteins,namely, mitogen-activated protein kinase (MAPK), annexin A1 (ANXA1) and high mobility group protein B1 (HMGPB1) were screened as candidate biomarkers for lung SQCC according to functoin annotatoin. Conclusion Shot gun proteomics can globally isolate and identify the expression protein of tumor cell. The screened biomarker proteins based on bioinformatics technique may become a molecular target point of diagnosis and treatment of lung cancer.关键词
肺鳞癌/鸟枪法蛋白质组学/生物信息学/标志蛋白质/分裂素活化蛋白激酶/粘联素A1/高移动组蛋白B1分类
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南岩东,杨拴盈,田应选,霍淑芬,杜洁,金发光..基于鸟枪法蛋白质组学和生物信息学技术对肺鳞癌表达蛋白质谱的分析[J].西安交通大学学报（医学版）,2011,32(1):10-16,27,8.
