Transcriptome analysis of human gastric cancer
Transcriptome analysis of human gastric cancer
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DOI：
10.1007/s00335-005-0075-2
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发表时间：
2005-12-01
期刊：
影响因子：
2.5
通讯作者：
Kim, NS
中科院分区：
文献类型：
--
作者：
Oh, JH;Yang, JO;Kim, NS
为了阐明与胃癌相关的遗传事件，从37个人胃cDNA文库中收集了124，704个cDNA克隆，其中包括20个来自韩国患者的胃癌细胞系和组织的全长富集cDNA文库。对收集到的EST进行分析发现，97，930个高质量的EST合并成13，001个簇，其中11，135个簇（85.6%）被注释为已知的EST。全长cDNA的分析还显示，4862簇（51.7%）包含至少一个推定的全长cDNA克隆，具有起始密码子，5' UTR的平均长度为140 bp。大量的似乎有一个不同的转录起始位点（TSS）。使用5' RACE对一些基因（如TEGT和GAPD）的TSS进行的检查揭示，预测的TSS实际上在人胃癌细胞中发现，并且几种TSS根据特定的胃细胞系而不同。此外，在人胃EST中，766个基因（9.5%）是假定的选择性剪接变体。用RT-PCR证实预测的剪接异构体，表明预测的异构体存在于胃癌细胞中，并且一些异构体在胃细胞系中共存。这些结果为阐明胃癌发生的分子机制提供了潜在的有用信息。
To elucidate the genetic events associated with gastric cancer, 124,704 cDNA clones were collected from 37 human gastric cDNA libraries, including 20 full-length enriched cDNA libraries of gastric cancer cell lines and tissues from Korean patients. An analysis of the collected ESTs revealed that 97,930 high-quality ESTs coalesced into 13,001 clusters, of which 11,135 clusters (85.6%) were annotated to known ESTs. The analysis of the full-length cDNAs also revealed that 4862 clusters (51.7%) contained at least one putative full-length cDNA clone with an initiation codon, with the average length of the 5' UTR of 140 bp. A large number appear to have a diverse transcription start site (TSS). An examination of the TSS of some genes, such as TEGT and GAPD, using 5' RACE revealed that the predicted TSSs are actually found in human gastric cancer cells and that several TSSs differ depending on the specific gastric cell line. Furthermore, of the human gastric ESTs, 766 genes (9.5%) were present as putative alternatively spliced variants. Confirmation of the predicted spliced isoforms using RT-PCR showed that the predicted isoforms exist in gastric cancer cells and some isoforms coexist in gastric cell lines. These results provide potentially useful information for elucidating the molecular mechanisms associated with gastric oncogenesis.