Qualitative and Quantitative Expression Status of the Human Chromosome 20 Genes in Cancer Tissues and the Representative Cell Lines
Qualitative and Quantitative Expression Status of the Human Chromosome 20 Genes in Cancer Tissues and the Representative Cell Lines
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人类20号染色体基因在癌组织和代表性细胞系中的定性和定量表达状况。
DOI：
10.1021/pr3008336
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发表时间：
2013-01-01
影响因子：
4.4
通讯作者：
Liu，Siqi
中科院分区：
文献类型：
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作者：
Wang，Quanhui;Wen，Bo;Liu，Siqi
在以染色体为中心的人类蛋白质组计划（C-HPP）的指导下，（1,2）我们对人类20号染色体上的基因（chr20）在胃癌、结肠癌和肝癌三种癌症组织及其代表细胞系中的表达状况进行了系统的调查。我们利用LC-MS/MS联合技术对这些样品进行了全球范围的蛋白质组分析，并通过RNA-seq和RNAchip获得了相应的mRNA信息。总共鉴定出323个独特的蛋白质，覆盖了Chr.20中60%的编码基因（323/547）。在蛋白质组学的定性信息方面，我们综合评价了鉴定出的Chr.20蛋白与转录因子靶基因或microRNA靶基因、保守基因和癌相关基因的相关性。在定量信息方面，我们发现在组织和细胞系中，各染色体区域mRNA的hr.20基因的表达丰度几乎一致，而细胞中hr.20蛋白的表达丰度与组织不同，特别是在20q13.33区域。此外，根据组织或癌症相关分布对Chr.20蛋白的丰度进行分级评估。分析显示，Chr.20中的一些癌症相关蛋白依赖于组织或细胞类型。通过对所有采集数据的整合，我们首次建立了一个可靠的Chr.20蛋白质组数据库。
Under the guidance of the Chromosome-centric Human Proteome Project (C-HPP), (1, 2) we conducted a systematic survey of the expression status of genes located at human chromosome 20 (Chr.20) in three cancer tissues, gastric, colon, and liver carcinoma, and their representative cell lines. We have globally profiled proteomes in these samples with combined technology of LC-MS/MS and acquired the corresponding mRNA information upon RNA-seq and RNAchip. In total, 323 unique proteins were identified, covering 60% of the coding genes (323/547) in Chr.20. With regards to qualitative information of proteomics, we overall evaluated the correlation of the identified Chr.20 proteins with target genes of transcription factors or of microRNA, conserved genes and cancer-related genes. As for quantitative information, the expression abundances of Chr.20 genes were found to be almost consistent in both tissues and cell lines of mRNA in all individual chromosome regions, whereas those of Chr.20 proteins in cells are different from tissues, especially in the region of 20q13.33. Furthermore, the abundances of Chr.20 proteins were hierarchically evaluated according to tissue- or cancer-related distribution. The analysis revealed several cancer-related proteins in Chr.20 are tissue- or cell-type dependent. With integration of all the acquired data, for the first time we established a solid database of the Chr.20 proteome.