File Download

There are no files associated with this item.

  Links for fulltext
     (May Require Subscription)
Supplementary

Article: Multi-omic analysis suggests tumor suppressor genes evolved specific promoter features to optimize cancer resistance

TitleMulti-omic analysis suggests tumor suppressor genes evolved specific promoter features to optimize cancer resistance
Authors
KeywordsChromatin
Cpg island
Methylation
Pan-cancer
Promoter evolution
Issue Date2021
Citation
Briefings in Bioinformatics, 2021, v. 22, n. 5, article no. bbab040 How to Cite?
AbstractTumor suppressor genes (TSGs) exhibit distinct evolutionary features. We speculated that TSG promoters could have evolved specific features that facilitate their tumor-suppressing functions. We found that the promoter CpG dinucleotide frequencies of TSGs are significantly higher than that of non-cancer genes across vertebrate genomes, and positively correlated with gene expression across tissue types. The promoter CpG dinucleotide frequencies of all genes gradually increase with gene age, for which young TSGs have been subject to a stronger evolutionary pressure. Transcription-related features, namely chromatin accessibility, methylation and ZNF263-, SP1-, E2F4-and SP2-binding elements, are associated with gene expression. Moreover, higher promoter CpG dinucleotide frequencies and chromatin accessibility are positively associated with the ability of TSGs to resist downregulation during tumorigenesis. These results were successfully validated with independent datasets. In conclusion, TSGs evolved specific promoter features that optimized cancer resistance through achieving high expression in normal tissues and resistance to downregulation during tumorigenesis.
Persistent Identifierhttp://hdl.handle.net/10722/330494
ISSN
2023 Impact Factor: 6.8
2023 SCImago Journal Rankings: 2.143
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorHuang, Dan-
dc.contributor.authorWang, Xiansong-
dc.contributor.authorLiu, Yingzhi-
dc.contributor.authorHuang, Ziheng-
dc.contributor.authorHu, Xiaoxu-
dc.contributor.authorHu, Wei-
dc.contributor.authorLi, Qing-
dc.contributor.authorChan, Hung-
dc.contributor.authorZou, Yidan-
dc.contributor.authorHo, Idy H.T.-
dc.contributor.authorWang, Yan-
dc.contributor.authorCheng, Alfred S.L.-
dc.contributor.authorKang, Wei-
dc.contributor.authorTo, Ka F.-
dc.contributor.authorWang, Maggie H.T.-
dc.contributor.authorWong, Sunny H.-
dc.contributor.authorYu, Jun-
dc.contributor.authorGin, Tony-
dc.contributor.authorZhang, Qingpeng-
dc.contributor.authorLi, Zheng-
dc.contributor.authorShen, Jianxiong-
dc.contributor.authorZhang, Lin-
dc.contributor.authorChan, Matthew T.V.-
dc.contributor.authorLiu, Xiaodong-
dc.contributor.authorWu, William K.K.-
dc.date.accessioned2023-09-05T12:11:11Z-
dc.date.available2023-09-05T12:11:11Z-
dc.date.issued2021-
dc.identifier.citationBriefings in Bioinformatics, 2021, v. 22, n. 5, article no. bbab040-
dc.identifier.issn1467-5463-
dc.identifier.urihttp://hdl.handle.net/10722/330494-
dc.description.abstractTumor suppressor genes (TSGs) exhibit distinct evolutionary features. We speculated that TSG promoters could have evolved specific features that facilitate their tumor-suppressing functions. We found that the promoter CpG dinucleotide frequencies of TSGs are significantly higher than that of non-cancer genes across vertebrate genomes, and positively correlated with gene expression across tissue types. The promoter CpG dinucleotide frequencies of all genes gradually increase with gene age, for which young TSGs have been subject to a stronger evolutionary pressure. Transcription-related features, namely chromatin accessibility, methylation and ZNF263-, SP1-, E2F4-and SP2-binding elements, are associated with gene expression. Moreover, higher promoter CpG dinucleotide frequencies and chromatin accessibility are positively associated with the ability of TSGs to resist downregulation during tumorigenesis. These results were successfully validated with independent datasets. In conclusion, TSGs evolved specific promoter features that optimized cancer resistance through achieving high expression in normal tissues and resistance to downregulation during tumorigenesis.-
dc.languageeng-
dc.relation.ispartofBriefings in Bioinformatics-
dc.subjectChromatin-
dc.subjectCpg island-
dc.subjectMethylation-
dc.subjectPan-cancer-
dc.subjectPromoter evolution-
dc.titleMulti-omic analysis suggests tumor suppressor genes evolved specific promoter features to optimize cancer resistance-
dc.typeArticle-
dc.description.naturelink_to_subscribed_fulltext-
dc.identifier.doi10.1093/bib/bbab040-
dc.identifier.pmid33783485-
dc.identifier.scopuseid_2-s2.0-85116172737-
dc.identifier.volume22-
dc.identifier.issue5-
dc.identifier.spagearticle no. bbab040-
dc.identifier.epagearticle no. bbab040-
dc.identifier.eissn1477-4054-
dc.identifier.isiWOS:000709461800077-

Export via OAI-PMH Interface in XML Formats


OR


Export to Other Non-XML Formats