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Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer
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| Veröffentlicht in: | Frontiers in genetics 12(2021) vom: 31. Mai, Artikel-ID 664654 |
|---|---|
| Personen und Körperschaften: | , , , , |
| Titel: | Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer/ Qi Wang, Yonghe Wu, Tim Vorberg, Roland Eils and Carl Herrmann |
| Format: | E-Book-Kapitel |
| Sprache: | Englisch |
| veröffentlicht: |
31 May 2021
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| Gesamtaufnahme: |
: Frontiers in genetics, 12(2021) vom: 31. Mai, Artikel-ID 664654
, volume:12 |
| Quelle: | Verbunddaten SWB Lizenzfreie Online-Ressourcen |
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| 520 | |a Regulation of gene expression through multiple epigenetic components is a highly combinatorial process. Alterations in any of these layers, as is commonly found in cancer diseases, can lead to a cascade of downstream effects on tumor suppressor or oncogenes. Hence, deciphering the effects of epigenetic alterations on regulatory elements requires innovative computational approaches that can benefit from the huge amounts of epigenomic datasets that are available from multiple consortia, such as Roadmap or BluePrint. We developed a software tool named IRENE (Integrative Ranking of Epigenetic Network of Enhancers), which performs quantitative analyses on differential epigenetic modifications through an integrated, network-based approach. The method takes into account the additive effect of alterations on multiple regulatory elements of a gene. Applying this tool to well-characterized test cases, it successfully found many known cancer genes from publicly available cancer epigenome datasets. | ||
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| contents | Regulation of gene expression through multiple epigenetic components is a highly combinatorial process. Alterations in any of these layers, as is commonly found in cancer diseases, can lead to a cascade of downstream effects on tumor suppressor or oncogenes. Hence, deciphering the effects of epigenetic alterations on regulatory elements requires innovative computational approaches that can benefit from the huge amounts of epigenomic datasets that are available from multiple consortia, such as Roadmap or BluePrint. We developed a software tool named IRENE (Integrative Ranking of Epigenetic Network of Enhancers), which performs quantitative analyses on differential epigenetic modifications through an integrated, network-based approach. The method takes into account the additive effect of alterations on multiple regulatory elements of a gene. Applying this tool to well-characterized test cases, it successfully found many known cancer genes from publicly available cancer epigenome datasets. |
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| spelling | Wang, Qi 1982- VerfasserIn (DE-588)1173714332 (DE-627)1043563466 (DE-576)515623725 aut, Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer Qi Wang, Yonghe Wu, Tim Vorberg, Roland Eils and Carl Herrmann, 31 May 2021, 11, Text txt rdacontent, Computermedien c rdamedia, Online-Ressource cr rdacarrier, Gesehen am 06.07.2021, Regulation of gene expression through multiple epigenetic components is a highly combinatorial process. Alterations in any of these layers, as is commonly found in cancer diseases, can lead to a cascade of downstream effects on tumor suppressor or oncogenes. Hence, deciphering the effects of epigenetic alterations on regulatory elements requires innovative computational approaches that can benefit from the huge amounts of epigenomic datasets that are available from multiple consortia, such as Roadmap or BluePrint. We developed a software tool named IRENE (Integrative Ranking of Epigenetic Network of Enhancers), which performs quantitative analyses on differential epigenetic modifications through an integrated, network-based approach. The method takes into account the additive effect of alterations on multiple regulatory elements of a gene. Applying this tool to well-characterized test cases, it successfully found many known cancer genes from publicly available cancer epigenome datasets., Wu, Yonghe VerfasserIn aut, Vorberg, Tim VerfasserIn aut, Eils, Roland 1965- VerfasserIn (DE-588)1020648287 (DE-627)691291705 (DE-576)361718195 aut, Herrmann, Carl 1971- VerfasserIn (DE-588)1081750952 (DE-627)846593858 (DE-576)454763409 aut, Enthalten in Frontiers in genetics Lausanne : Frontiers Media, 2010 12(2021) vom: 31. Mai, Artikel-ID 664654 Online-Ressource (DE-627)65799829X (DE-600)2606823-0 (DE-576)343624826 1664-8021 nnns, volume:12 year:2021 day:31 month:05 elocationid:664654 extent:11, https://doi.org/10.3389/fgene.2021.664654 Verlag Resolving-System kostenfrei Volltext, https://www.frontiersin.org/articles/10.3389/fgene.2021.664654/full Verlag kostenfrei Volltext, https://doi.org/10.3389/fgene.2021.664654 LFER, https://www.frontiersin.org/articles/10.3389/fgene.2021.664654/full LFER, LFER 2021-10-04T16:09:29Z |
| spellingShingle | Wang, Qi, Wu, Yonghe, Vorberg, Tim, Eils, Roland, Herrmann, Carl, Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer, Regulation of gene expression through multiple epigenetic components is a highly combinatorial process. Alterations in any of these layers, as is commonly found in cancer diseases, can lead to a cascade of downstream effects on tumor suppressor or oncogenes. Hence, deciphering the effects of epigenetic alterations on regulatory elements requires innovative computational approaches that can benefit from the huge amounts of epigenomic datasets that are available from multiple consortia, such as Roadmap or BluePrint. We developed a software tool named IRENE (Integrative Ranking of Epigenetic Network of Enhancers), which performs quantitative analyses on differential epigenetic modifications through an integrated, network-based approach. The method takes into account the additive effect of alterations on multiple regulatory elements of a gene. Applying this tool to well-characterized test cases, it successfully found many known cancer genes from publicly available cancer epigenome datasets. |
| title | Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer |
| title_auth | Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer |
| title_full | Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer Qi Wang, Yonghe Wu, Tim Vorberg, Roland Eils and Carl Herrmann |
| title_fullStr | Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer Qi Wang, Yonghe Wu, Tim Vorberg, Roland Eils and Carl Herrmann |
| title_full_unstemmed | Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer Qi Wang, Yonghe Wu, Tim Vorberg, Roland Eils and Carl Herrmann |
| title_in_hierarchy | Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer / Qi Wang, Yonghe Wu, Tim Vorberg, Roland Eils and Carl Herrmann, |
| title_short | Integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer |
| title_sort | integrative ranking of enhancer networks facilitates the discovery of epigenetic markers in cancer |
| url | https://doi.org/10.3389/fgene.2021.664654, https://www.frontiersin.org/articles/10.3389/fgene.2021.664654/full |