How many human genes can be defined as housekeeping with current expression data?
文献类型：期刊论文
| 作者 | Zhu, Jiang1,2; He, Fuhong1,2; Song, Shuhui1,2; Wang, Jing1; Yu, Jun1 |
| 刊名 | Bmc genomics
 |
| 出版日期 | 2008-04-16 |
| 卷号 | 9页码:11 |
| ISSN号 | 1471-2164 |
| DOI | 10.1186/1471-2164-9-172 |
| 通讯作者 | Wang, jing(wangjing@big.ac.cn) |
| 英文摘要 | Background: housekeeping (hk) genes are ubiquitously expressed in all tissue/cell types and constitute a basal transcriptome for the maintenance of basic cellular functions. partitioning transcriptomes into hk and tissue-specific (ts) genes relatively is fundamental for studying gene expression and cellular differentiation. although many studies have aimed at large-scale and thorough categorization of human hk genes, a meaningful consensus has yet to be reached. results: we collected two latest gene expression datasets (both est and microarray data) from public databases and analyzed the gene expression profiles in 18 human tissues that have been well-documented by both two data types. benchmarked by a manually-curated hk gene collection (hk408), we demonstrated that present data from est sampling was far from saturated, and the inadequacy has limited the gene detectability and our understanding of ts expressions. due to a likely over-stringent threshold, microarray data showed higher false negative rate compared with est data, leading to a significant underestimation of hk genes. based on est data, we found that 40.0% of the currently annotated human genes were universally expressed in at least 16 of 18 tissues, as compared to only 5.1% specifically expressed in a single tissue. our current est-based estimate on human hk genes ranged from 3,140 to 6,909 in number, a ten-fold increase in comparison with previous microarray-based estimates. conclusion: we concluded that a significant fraction of human genes, at least in the currently annotated data depositories, was broadly expressed. our understanding of tissue-specific expression was still preliminary and required much more large-scale and high-quality transcriptomic data in future studies. the new hk gene list categorized in this study will be useful for genome-wide analyses on structural and functional features of hk genes. |
| WOS关键词 | TISSUE-SPECIFIC GENES ; RNA-POLYMERASE-II ; PROTEOMIC ANALYSIS ; GENOME-WIDE ; TRANSCRIPTION ; MOUSE ; SPECIFICITY ; COMPENDIUM ; PROTEINS ; UPDATE |
| WOS研究方向 | Biotechnology & Applied Microbiology ; Genetics & Heredity |
| WOS类目 | Biotechnology & Applied Microbiology ; Genetics & Heredity |
| 语种 | 英语 |
| WOS记录号 | WOS:000256397900001 |
| 出版者 | BIOMED CENTRAL LTD |
| URI标识 | http://www.irgrid.ac.cn/handle/1471x/2392855 |
| 专题 | 中国科学院大学 |
| 通讯作者 | Wang, Jing |
| 作者单位 | 1.Chinese Acad Sci, Key Lab Genome Sci & Informat, Beijing Inst Genom, Beijing, Peoples R China 2.Grad Univ, Chinese Acad Sci, Beijing, Peoples R China |
| 推荐引用方式 GB/T 7714 | Zhu, Jiang,He, Fuhong,Song, Shuhui,et al. How many human genes can be defined as housekeeping with current expression data?[J]. Bmc genomics,2008,9:11. |
| APA | Zhu, Jiang,He, Fuhong,Song, Shuhui,Wang, Jing,&Yu, Jun.(2008).How many human genes can be defined as housekeeping with current expression data?.Bmc genomics,9,11. |
| MLA | Zhu, Jiang,et al."How many human genes can be defined as housekeeping with current expression data?".Bmc genomics 9(2008):11. |
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来源：中国科学院大学
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