Institute of Computing Technology, Chinese Academy IR
Assessing TF regulatory relationships of divergently transcribed genes | |
Chen, Lan2,3; Cai, Lun2,3; Skogerbo, Geir1; Zhao, Yi1,2; Chen, Runsheng1,2 | |
2008-11-01 | |
发表期刊 | GENOMICS |
ISSN | 0888-7543 |
卷号 | 92期号:5页码:316-321 |
摘要 | Ambiguously located transcription factor (TF) binding sites may introduce a large number of potentially erroneous regulatory associations into models of transcriptional regulatory networks. We have used a two-step expression similarity strategy to distinguish between likely and unlikely regulatory associations for TFs located between divergently transcribed genes in the yeast genome. Most regulatory associations of divergently transcribed genes could be assigned to either high-confidence (HQ or low-confidence (LC) groups. In support of our result, we found that most of the previously characterized regulatory associations reported in the literature fell into the HC group rather than the LC group. Moreover, genomic distance analysis showed that TF binding sites tend to be located in relative proximity to the gene that is most likely to be regulated by this TF. Finally, removal of low-confidence (i.e., most probably erroneous) regulatory associations from the transcriptional regulatory network barely affected its basic architecture. (C) 2008 Elsevier Inc. All rights reserved. |
关键词 | Divergently transcribed genes Gene regulation ChIP-chip data Microarray data |
DOI | 10.1016/j.ygeno.2008.07.007 |
收录类别 | SCI |
语种 | 英语 |
资助项目 | National Key Basic Research and Development Program (973)[2002CB713805] ; National Key Basic Research and Development Program (973)[2003CB715907] ; National Sciences Foundation of China[30630040] ; National Sciences Foundation of China[30570393] ; National Sciences Foundation of China[30600729] ; Data Sharing Network of China Essential Medicine Science[2005DKA32402] |
WOS研究方向 | Biotechnology & Applied Microbiology ; Genetics & Heredity |
WOS类目 | Biotechnology & Applied Microbiology ; Genetics & Heredity |
WOS记录号 | WOS:000260715400008 |
出版者 | ACADEMIC PRESS INC ELSEVIER SCIENCE |
引用统计 | |
文献类型 | 期刊论文 |
条目标识符 | http://119.78.100.204/handle/2XEOYT63/11392 |
专题 | 中国科学院计算技术研究所期刊论文_英文 |
通讯作者 | Zhao, Yi |
作者单位 | 1.Chinese Acad Sci, Inst Biophys, Bioinformat Lab, Beijing 100101, Peoples R China 2.Chinese Acad Sci, Inst Comp Technol, Bioinformat Res Grp, Beijing 100190, Peoples R China 3.Chinese Acad Sci, Grad Sch, Beijing 100049, Peoples R China |
推荐引用方式 GB/T 7714 | Chen, Lan,Cai, Lun,Skogerbo, Geir,et al. Assessing TF regulatory relationships of divergently transcribed genes[J]. GENOMICS,2008,92(5):316-321. |
APA | Chen, Lan,Cai, Lun,Skogerbo, Geir,Zhao, Yi,&Chen, Runsheng.(2008).Assessing TF regulatory relationships of divergently transcribed genes.GENOMICS,92(5),316-321. |
MLA | Chen, Lan,et al."Assessing TF regulatory relationships of divergently transcribed genes".GENOMICS 92.5(2008):316-321. |
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