Figure 5 from The 5-Hydroxymethylcytosine Landscape of Prostate Cancer
<p>Activating <i>TMPRSS2-ERG</i> fusions and the downstream cistrome are marked by 5hmC. <b>A</b> and <b>B,</b> 5hmC locations and hypomethylation at the <i>ERG</i> and <i>TMPRSS2</i> loci. 5hmC levels are shown as frequency of sample...
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2025
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| author | Martin Sjöström (14845882) |
| author2 | Shuang G. Zhao (12227671) Samuel Levy (14960811) Meng Zhang (14960814) Yuhong Ning (279537) Raunak Shrestha (14949693) Arian Lundberg (14960817) Cameron Herberts (14960820) Adam Foye (14960823) Rahul Aggarwal (14960826) Junjie T. Hua (14960829) Haolong Li (1532230) Anna Bergamaschi (14960832) Corinne Maurice-Dror (14960835) Ashutosh Maheshwari (14960838) Sujun Chen (3553841) Sarah W.S. Ng (14960841) Wenbin Ye (14960844) Jessica Petricca (14960847) Michael Fraser (522709) Lisa Chesner (14960850) Marc D. Perry (14960853) Thaidy Moreno-Rodriguez (14960856) William S. Chen (14960859) Joshi J. Alumkal (14950518) Jonathan Chou (14957015) Alicia K. Morgans (5600567) Tomasz M. Beer (14960862) George V. Thomas (13187926) Martin Gleave (146446) Paul Lloyd (14960865) Tierney Phillips (4664332) Erin McCarthy (14960868) Michael C. Haffner (14960871) Amina Zoubeidi (14960874) Matti Annala (219688) Robert E. Reiter (14960877) Matthew B. Rettig (14960880) Owen N. Witte (14960883) Lawrence Fong (14960886) Rohit Bose (14960889) Franklin W. Huang (10726678) Jianhua Luo (14960892) Anders Bjartell (199682) Joshua M. Lang (12227674) Nupam P. Mahajan (14960895) Primo N. Lara (13009812) Christopher P. Evans (14960898) Phuoc T. Tran (14960901) Edwin M. Posadas (14960904) Chuan He (178952) Xiao-Long Cui (2020402) Jiaoti Huang (88989) Wilbert Zwart (14960907) Luke A. Gilbert (5513207) Christopher A. Maher (14960910) Paul C. Boutros (14954698) Kim N. Chi (14960913) Alan Ashworth (14957030) Eric J. Small (14960916) Housheng H. He (14960919) Alexander W. Wyatt (14960922) David A. Quigley (14957012) Felix Y. Feng (14845891) |
| author2_role | author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author |
| author_facet | Martin Sjöström (14845882) Shuang G. Zhao (12227671) Samuel Levy (14960811) Meng Zhang (14960814) Yuhong Ning (279537) Raunak Shrestha (14949693) Arian Lundberg (14960817) Cameron Herberts (14960820) Adam Foye (14960823) Rahul Aggarwal (14960826) Junjie T. Hua (14960829) Haolong Li (1532230) Anna Bergamaschi (14960832) Corinne Maurice-Dror (14960835) Ashutosh Maheshwari (14960838) Sujun Chen (3553841) Sarah W.S. Ng (14960841) Wenbin Ye (14960844) Jessica Petricca (14960847) Michael Fraser (522709) Lisa Chesner (14960850) Marc D. Perry (14960853) Thaidy Moreno-Rodriguez (14960856) William S. Chen (14960859) Joshi J. Alumkal (14950518) Jonathan Chou (14957015) Alicia K. Morgans (5600567) Tomasz M. Beer (14960862) George V. Thomas (13187926) Martin Gleave (146446) Paul Lloyd (14960865) Tierney Phillips (4664332) Erin McCarthy (14960868) Michael C. Haffner (14960871) Amina Zoubeidi (14960874) Matti Annala (219688) Robert E. Reiter (14960877) Matthew B. Rettig (14960880) Owen N. Witte (14960883) Lawrence Fong (14960886) Rohit Bose (14960889) Franklin W. Huang (10726678) Jianhua Luo (14960892) Anders Bjartell (199682) Joshua M. Lang (12227674) Nupam P. Mahajan (14960895) Primo N. Lara (13009812) Christopher P. Evans (14960898) Phuoc T. Tran (14960901) Edwin M. Posadas (14960904) Chuan He (178952) Xiao-Long Cui (2020402) Jiaoti Huang (88989) Wilbert Zwart (14960907) Luke A. Gilbert (5513207) Christopher A. Maher (14960910) Paul C. Boutros (14954698) Kim N. Chi (14960913) Alan Ashworth (14957030) Eric J. Small (14960916) Housheng H. He (14960919) Alexander W. Wyatt (14960922) David A. Quigley (14957012) Felix Y. Feng (14845891) |
| author_role | author |
| dc.creator.none.fl_str_mv | Martin Sjöström (14845882) Shuang G. Zhao (12227671) Samuel Levy (14960811) Meng Zhang (14960814) Yuhong Ning (279537) Raunak Shrestha (14949693) Arian Lundberg (14960817) Cameron Herberts (14960820) Adam Foye (14960823) Rahul Aggarwal (14960826) Junjie T. Hua (14960829) Haolong Li (1532230) Anna Bergamaschi (14960832) Corinne Maurice-Dror (14960835) Ashutosh Maheshwari (14960838) Sujun Chen (3553841) Sarah W.S. Ng (14960841) Wenbin Ye (14960844) Jessica Petricca (14960847) Michael Fraser (522709) Lisa Chesner (14960850) Marc D. Perry (14960853) Thaidy Moreno-Rodriguez (14960856) William S. Chen (14960859) Joshi J. Alumkal (14950518) Jonathan Chou (14957015) Alicia K. Morgans (5600567) Tomasz M. Beer (14960862) George V. Thomas (13187926) Martin Gleave (146446) Paul Lloyd (14960865) Tierney Phillips (4664332) Erin McCarthy (14960868) Michael C. Haffner (14960871) Amina Zoubeidi (14960874) Matti Annala (219688) Robert E. Reiter (14960877) Matthew B. Rettig (14960880) Owen N. Witte (14960883) Lawrence Fong (14960886) Rohit Bose (14960889) Franklin W. Huang (10726678) Jianhua Luo (14960892) Anders Bjartell (199682) Joshua M. Lang (12227674) Nupam P. Mahajan (14960895) Primo N. Lara (13009812) Christopher P. Evans (14960898) Phuoc T. Tran (14960901) Edwin M. Posadas (14960904) Chuan He (178952) Xiao-Long Cui (2020402) Jiaoti Huang (88989) Wilbert Zwart (14960907) Luke A. Gilbert (5513207) Christopher A. Maher (14960910) Paul C. Boutros (14954698) Kim N. Chi (14960913) Alan Ashworth (14957030) Eric J. Small (14960916) Housheng H. He (14960919) Alexander W. Wyatt (14960922) David A. Quigley (14957012) Felix Y. Feng (14845891) |
| dc.date.none.fl_str_mv | 2025-11-24T22:43:39Z |
| dc.identifier.none.fl_str_mv | 10.1158/0008-5472.30699409 |
| dc.relation.none.fl_str_mv | https://figshare.com/articles/figure/Figure_5_from_The_5-Hydroxymethylcytosine_Landscape_of_Prostate_Cancer/30699409 |
| dc.rights.none.fl_str_mv | CC BY info:eu-repo/semantics/openAccess |
| dc.subject.none.fl_str_mv | Cancer Cancer Risk Factors Molecular and Cellular Biology Methods and Technology Epigenetics Epigenomics Genitourinary Cancers Prostate cancer Liquid Biopsy |
| dc.title.none.fl_str_mv | Figure 5 from The 5-Hydroxymethylcytosine Landscape of Prostate Cancer |
| dc.type.none.fl_str_mv | Image Figure info:eu-repo/semantics/publishedVersion image |
| description | <p>Activating <i>TMPRSS2-ERG</i> fusions and the downstream cistrome are marked by 5hmC. <b>A</b> and <b>B,</b> 5hmC locations and hypomethylation at the <i>ERG</i> and <i>TMPRSS2</i> loci. 5hmC levels are shown as frequency of samples, with a 5hmC peak called by MACS2 at each position and hypomethylation as frequency of samples with a HMR called from whole-genome bisulfite sequencing. Samples are split based on the presence of a <i>TMPRSS2-ERG</i> fusion (T2E). Red symbols mark the position of the 3′ and 5′ break-ends for each sample harboring a <i>TMPRSS2-ERG</i> fusion. <b>C,</b> Location of 5hmC peaks are shifted relative to the 3′ break-end in <i>TMPRSS2-ERG</i> fusion positive samples. <b>D,</b><i>ERG</i> 5hmC gene body levels and gene expression per fusion status (T2E-negative, <i>N</i> = 53; T2E-positive, <i>N</i> = 40). Two of the T2E-negative samples had a <i>SLC45A3-ERG</i> fusion. <b>E,</b> The top 10 enriched transcription factor binding motifs analyzed by HOMER for loci that have enriched 5hmC levels in <i>TMPRSS2-ERG</i> fusion–positive samples. GEX, gene expression; T2E-pos, samples harboring a <i>TMPRSS2-ERG</i> gene fusion; T2E-neg, samples not harboring a <i>TMPRSS2-ERG</i> gene fusion. Boxplot shows median with hinges at 25th and 75th percentiles and whiskers at largest/smallest value within 1.5 × interquartile range.</p> |
| eu_rights_str_mv | openAccess |
| id | Manara_2461a51193212ddbc131e3e55eaa8625 |
| identifier_str_mv | 10.1158/0008-5472.30699409 |
| network_acronym_str | Manara |
| network_name_str | ManaraRepo |
| oai_identifier_str | oai:figshare.com:article/30699409 |
| publishDate | 2025 |
| repository.mail.fl_str_mv | |
| repository.name.fl_str_mv | |
| repository_id_str | |
| rights_invalid_str_mv | CC BY |
| spelling | Figure 5 from The 5-Hydroxymethylcytosine Landscape of Prostate CancerMartin Sjöström (14845882)Shuang G. Zhao (12227671)Samuel Levy (14960811)Meng Zhang (14960814)Yuhong Ning (279537)Raunak Shrestha (14949693)Arian Lundberg (14960817)Cameron Herberts (14960820)Adam Foye (14960823)Rahul Aggarwal (14960826)Junjie T. Hua (14960829)Haolong Li (1532230)Anna Bergamaschi (14960832)Corinne Maurice-Dror (14960835)Ashutosh Maheshwari (14960838)Sujun Chen (3553841)Sarah W.S. Ng (14960841)Wenbin Ye (14960844)Jessica Petricca (14960847)Michael Fraser (522709)Lisa Chesner (14960850)Marc D. Perry (14960853)Thaidy Moreno-Rodriguez (14960856)William S. Chen (14960859)Joshi J. Alumkal (14950518)Jonathan Chou (14957015)Alicia K. Morgans (5600567)Tomasz M. Beer (14960862)George V. Thomas (13187926)Martin Gleave (146446)Paul Lloyd (14960865)Tierney Phillips (4664332)Erin McCarthy (14960868)Michael C. Haffner (14960871)Amina Zoubeidi (14960874)Matti Annala (219688)Robert E. Reiter (14960877)Matthew B. Rettig (14960880)Owen N. Witte (14960883)Lawrence Fong (14960886)Rohit Bose (14960889)Franklin W. Huang (10726678)Jianhua Luo (14960892)Anders Bjartell (199682)Joshua M. Lang (12227674)Nupam P. Mahajan (14960895)Primo N. Lara (13009812)Christopher P. Evans (14960898)Phuoc T. Tran (14960901)Edwin M. Posadas (14960904)Chuan He (178952)Xiao-Long Cui (2020402)Jiaoti Huang (88989)Wilbert Zwart (14960907)Luke A. Gilbert (5513207)Christopher A. Maher (14960910)Paul C. Boutros (14954698)Kim N. Chi (14960913)Alan Ashworth (14957030)Eric J. Small (14960916)Housheng H. He (14960919)Alexander W. Wyatt (14960922)David A. Quigley (14957012)Felix Y. Feng (14845891)CancerCancer Risk FactorsMolecular and Cellular BiologyMethods and TechnologyEpigeneticsEpigenomicsGenitourinary CancersProstate cancerLiquid Biopsy<p>Activating <i>TMPRSS2-ERG</i> fusions and the downstream cistrome are marked by 5hmC. <b>A</b> and <b>B,</b> 5hmC locations and hypomethylation at the <i>ERG</i> and <i>TMPRSS2</i> loci. 5hmC levels are shown as frequency of samples, with a 5hmC peak called by MACS2 at each position and hypomethylation as frequency of samples with a HMR called from whole-genome bisulfite sequencing. Samples are split based on the presence of a <i>TMPRSS2-ERG</i> fusion (T2E). Red symbols mark the position of the 3′ and 5′ break-ends for each sample harboring a <i>TMPRSS2-ERG</i> fusion. <b>C,</b> Location of 5hmC peaks are shifted relative to the 3′ break-end in <i>TMPRSS2-ERG</i> fusion positive samples. <b>D,</b><i>ERG</i> 5hmC gene body levels and gene expression per fusion status (T2E-negative, <i>N</i> = 53; T2E-positive, <i>N</i> = 40). Two of the T2E-negative samples had a <i>SLC45A3-ERG</i> fusion. <b>E,</b> The top 10 enriched transcription factor binding motifs analyzed by HOMER for loci that have enriched 5hmC levels in <i>TMPRSS2-ERG</i> fusion–positive samples. GEX, gene expression; T2E-pos, samples harboring a <i>TMPRSS2-ERG</i> gene fusion; T2E-neg, samples not harboring a <i>TMPRSS2-ERG</i> gene fusion. Boxplot shows median with hinges at 25th and 75th percentiles and whiskers at largest/smallest value within 1.5 × interquartile range.</p>2025-11-24T22:43:39ZImageFigureinfo:eu-repo/semantics/publishedVersionimage10.1158/0008-5472.30699409https://figshare.com/articles/figure/Figure_5_from_The_5-Hydroxymethylcytosine_Landscape_of_Prostate_Cancer/30699409CC BYinfo:eu-repo/semantics/openAccessoai:figshare.com:article/306994092025-11-24T22:43:39Z |
| spellingShingle | Figure 5 from The 5-Hydroxymethylcytosine Landscape of Prostate Cancer Martin Sjöström (14845882) Cancer Cancer Risk Factors Molecular and Cellular Biology Methods and Technology Epigenetics Epigenomics Genitourinary Cancers Prostate cancer Liquid Biopsy |
| status_str | publishedVersion |
| title | Figure 5 from The 5-Hydroxymethylcytosine Landscape of Prostate Cancer |
| title_full | Figure 5 from The 5-Hydroxymethylcytosine Landscape of Prostate Cancer |
| title_fullStr | Figure 5 from The 5-Hydroxymethylcytosine Landscape of Prostate Cancer |
| title_full_unstemmed | Figure 5 from The 5-Hydroxymethylcytosine Landscape of Prostate Cancer |
| title_short | Figure 5 from The 5-Hydroxymethylcytosine Landscape of Prostate Cancer |
| title_sort | Figure 5 from The 5-Hydroxymethylcytosine Landscape of Prostate Cancer |
| topic | Cancer Cancer Risk Factors Molecular and Cellular Biology Methods and Technology Epigenetics Epigenomics Genitourinary Cancers Prostate cancer Liquid Biopsy |