Additional file 13: of Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Jolein Mijnes (3155121)
JĂźrgen Veeck (3777349)
Nadine Gaisa (4831452)
Eduard Burghardt (4831449)
Tim de Ruijter (4831455)
Sonja Gostek (4831458)
Edgar Dahl (42758)
David Pfister (2570215)
Sebastian Schmid (775115)
Ruth KnĂźchel (3777352)
Michael Rose (321021)

Publication date

February 2018

DOI

10.6084/m9.figshare.5862849.v1

Abstract

Illustrating the definition of probe sets near a TSS using three different genes (RBBP8, MGMT, and LIG4). (DOCX 1053Â kb

Extracted data

We use cookies to provide a better user experience.

Data Protection

Additional file 13: of Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Jolein Mijnes (3155121)
JĂźrgen Veeck (3777349)
Nadine Gaisa (4831452)
Eduard Burghardt (4831449)
Tim de Ruijter (4831455)
Sonja Gostek (4831458)
Edgar Dahl (42758)
David Pfister (2570215)
Sebastian Schmid (775115)
Ruth KnĂźchel (3777352)
Michael Rose (321021)

Open link

Publication date

February 2018

DOI

10.6084/m9.figshare.5862849.v1

Abstract

Illustrating the definition of probe sets near a TSS using three different genes (RBBP8, MGMT, and LIG4). (DOCX 1053Â kb

Extracted data

Antoine van der Heijden (2038363)
Lourdes Mengual (95546)
Mercedes Ingelmo-Torres (3488972)
Juan Lozano (3488975)
Cindy van Rijt-van de Westerlo (5314490)
Montserrat Baixauli (5314496)
Bogdan Geavlete (5314493)
Cristian Moldoveanud (5314478)
Cosmin Ene (5314487)
Colin Dinney (188670)
Bogdan Czerniak (111162)
Jack Schalken (3964190)
Lambertus Kiemeney (5314484)
Maria Ribal (5314475)
J. Witjes (5314481)
Antonio Alcaraz (95550)

May 2018

Figure S1. Flowchart of the entire study. A total of seven hypermethylated genes, differentially exp...

Additional file 3: of CpG promoter methylation of the ALKBH3 alkylation repair gene in breast cancer

Olafur Stefansson (4227460)
Stefan Hermanowicz (4227466)
Jasper van der Horst (4227457)
Holmfridur Hilmarsdottir (23567)
Zuzanna Staszczak (4227463)
Jon Jonasson (495667)
Laufey Tryggvadottir (403720)
Thorkell Gudjonsson (4227469)
Stefan Sigurdsson (4227454)

July 2017

ALKBH3 methylation analysed with respect to prognostic parameters (breast cancer subtype, histologic...

Additional file 8: Table S4. of Epigenetic silencing of CREB3L1 by DNA methylation is associated with high-grade metastatic breast cancers with poor prognosis and is prevalent in triple negative breast cancers

Alison Ward (518675)
Paul Mellor (499155)
Shari Smith (3508343)
Stephanie Kendall (3508355)
Natasha Just (3508346)
Frederick Vizeacoumar (483154)
Sabuj Sarker (3508334)
Zoe Phillips (3508352)
Riaz Alvi (3508337)
Anurag Saxena (3445325)
Franco Vizeacoumar (3508349)
Svein Carlsen (3508331)
Deborah Anderson (3508340)

January 2016

Probe information used in The Cancer Genome Atlas (TCGA) database to analyze CREB3L1 gene methylatio...

Additional file 12: of Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Jolein Mijnes (3155121)
JĂźrgen Veeck (3777349)
Nadine Gaisa (4831452)
Eduard Burghardt (4831449)
Tim de Ruijter (4831455)
Sonja Gostek (4831458)
Edgar Dahl (42758)
David Pfister (2570215)
Sebastian Schmid (775115)
Ruth KnĂźchel (3777352)
Michael Rose (321021)

February 2018

This dataset illustrates a summary of the TCGA samples used in this study. (XLS 27Â kb

Additional file 2: of Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Jolein Mijnes (3155121)
JĂźrgen Veeck (3777349)
Nadine Gaisa (4831452)
Eduard Burghardt (4831449)
Tim de Ruijter (4831455)
Sonja Gostek (4831458)
Edgar Dahl (42758)
David Pfister (2570215)
Sebastian Schmid (775115)
Ruth KnĂźchel (3777352)
Michael Rose (321021)

February 2018

Detailed frequency of DNAm of BRCA1, MGMT, and ERCC1 across cancer entities and corresponding normal...

Additional file 6: of Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Jolein Mijnes (3155121)
JĂźrgen Veeck (3777349)
Nadine Gaisa (4831452)
Eduard Burghardt (4831449)
Tim de Ruijter (4831455)
Sonja Gostek (4831458)
Edgar Dahl (42758)
David Pfister (2570215)
Sebastian Schmid (775115)
Ruth KnĂźchel (3777352)
Michael Rose (321021)

February 2018

This table summarizes the results from the multivariate Cox regression analysis including all factor...

Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Mijnes, Jolein
Veeck, Juergen
Gaisa, Nadine T.
Burghardt, Eduard
de Ruijter, Tim C.
Gostek, Sonja
Dahl, Edgar
Pfister, David
Schmid, Sebastian C.
Knuchel, Ruth
Rose, Michael

February 2018

Background: Genome-wide studies identified pan-cancer genes and shared biological networks affected ...

Promoter methylation of DNA damage repair (DDR) genes in human tumor entities:<i>RBBP8/CtIP</i> is almost exclusively methylated in bladder cancer

Mijnes, Jolein
Veeck, Juergen
Gaisa, Nadine T.
Burghardt, Eduard
de Ruijter, Tim C.
Gostek, Sonja
Dahl, Edgar
Pfister, David
Schmid, Sebastian C.
Knuchel, Ruth
Rose, Michael

February 2018

Background: Genome-wide studies identified pan-cancer genes and shared biological networks affected ...

Additional file 1: Table S1. of Clinical significance of CDH13 promoter methylation as a biomarker for bladder cancer: a meta-analysis

Feng Chen (25347)
Tao Huang (110613)
Yu Ren (428662)
Junjun Wei (3543962)
Zhongguan Lou (3543959)
Xue Wang (102830)
Xiaoxiao Fan (680758)
Yirun Chen (3543968)
Guobin Weng (3543965)
Xuping Yao (3543971)

August 2016

Eggerâs funnel plot of the publication bias test for CDH13 methylation. (DOCX 21Â kb

Additional file 1: of Comparing diagnostic and prognostic performance of two-gene promoter methylation panels in tissue biopsies and urines of prostate cancer patients

Catarina Moreira-Barbosa (5907095)
Daniela Barros-Silva (4922425)
Pedro Costa-Pinheiro (816456)
Jorge Torres-Ferreira (3764845)
Vera Constâncio (5907098)
Rui Freitas (3764833)
Jorge Oliveira (33493)
Luís Antunes (701921)
Rui Henrique (33490)
Carmen Jerónimo (33496)

October 2018

Table S1. Primer sequences for β-Actin, miR-34b/c, and miR-193b (panel #1). Table S2. Scorpion prime...

Additional file 2 of Characterizing DNA methylation signatures and their potential functional roles in Merkel cell carcinoma

Hemant Gujar (4952221)
Arjun Mehta (807381)
Hong-Tao Li (277766)
Yvonne C. Tsai (11282782)
Xiangning Qiu (240807)
Daniel J. Weisenberger (10142945)
Miriam Galvonas Jasiulionis (11110287)
Gino K. In (11282785)
Gangning Liang (174746)

August 2021

Additional file 2. Supplemental Table 1: Top 10 differentially methylated probes based on MCPyV and ...

Additional file 9: of Urine cell-based DNA methylation classifier for monitoring bladder cancer

Antoine van der Heijden (2038363)
Lourdes Mengual (95546)
Mercedes Ingelmo-Torres (3488972)
Juan Lozano (3488975)
Cindy van Rijt-van de Westerlo (5314490)
Montserrat Baixauli (5314496)
Bogdan Geavlete (5314493)
Cristian Moldoveanud (5314478)
Cosmin Ene (5314487)
Colin Dinney (188670)
Bogdan Czerniak (111162)
Jack Schalken (3964190)
Lambertus Kiemeney (5314484)
Maria Ribal (5314475)
J. Witjes (5314481)
Antonio Alcaraz (95550)

May 2018

Figure S6. DNA methylation profiles for bladder cancer and control tissue samples for the three-gene...

Additional file 9: of Exploring targets of TET2-mediated methylation reprogramming as potential discriminators of prostate cancer progression

Shivani Kamdar (3423416)
Ruth Isserlin (237394)
Theodorus Kwast (3423422)
Alexandre Zlotta (3423419)
Gary Bader (3423413)
Neil Fleshner (361896)
Bharati Bapat (112041)

March 2019

Table S3. Characteristics of the 61 genes exhibiting significantly increased promoter methylation an...

Additional file 2: of Gene promoter and exon DNA methylation changes in colon cancer development – mRNA expression and tumor mutation alterations

Béla Molnár (123745)
Orsolya Galamb (123720)
Bálint Péterfia (130981)
Barnabás Wichmann (123721)
István Csabai (130985)
András Bodor (439486)
Alexandra Kalmár (123738)
Krisztina Szigeti (5454470)
Barbara Barták (764299)
Zsófia Nagy (3515417)
Gábor Valcz (466332)
Árpád Patai (785267)
Péter Igaz (628519)
Zsolt Tulassay (123741)

June 2018

Figure S1. Box plots of significant DMRs in TP53 pathway gene promoters between CRC and NAT samples....

Additional file 13: of Exploring targets of TET2-mediated methylation reprogramming as potential discriminators of prostate cancer progression

Shivani Kamdar (3423416)
Ruth Isserlin (237394)
Theodorus Kwast (3423422)
Alexandre Zlotta (3423419)
Gary Bader (3423413)
Neil Fleshner (361896)
Bharati Bapat (112041)

March 2019

Table S5. Association of candidate gene probe methylation with ERG fusion status. (XLSX 19 kb

Additional file 1: of Urine cell-based DNA methylation classifier for monitoring bladder cancer

Antoine van der Heijden (2038363)
Lourdes Mengual (95546)
Mercedes Ingelmo-Torres (3488972)
Juan Lozano (3488975)
Cindy van Rijt-van de Westerlo (5314490)
Montserrat Baixauli (5314496)
Bogdan Geavlete (5314493)
Cristian Moldoveanud (5314478)
Cosmin Ene (5314487)
Colin Dinney (188670)
Bogdan Czerniak (111162)
Jack Schalken (3964190)
Lambertus Kiemeney (5314484)
Maria Ribal (5314475)
J. Witjes (5314481)
Antonio Alcaraz (95550)

May 2018

Figure S1. Flowchart of the entire study. A total of seven hypermethylated genes, differentially exp...

Additional file 3: of CpG promoter methylation of the ALKBH3 alkylation repair gene in breast cancer

Olafur Stefansson (4227460)
Stefan Hermanowicz (4227466)
Jasper van der Horst (4227457)
Holmfridur Hilmarsdottir (23567)
Zuzanna Staszczak (4227463)
Jon Jonasson (495667)
Laufey Tryggvadottir (403720)
Thorkell Gudjonsson (4227469)
Stefan Sigurdsson (4227454)

July 2017

ALKBH3 methylation analysed with respect to prognostic parameters (breast cancer subtype, histologic...

Alison Ward (518675)
Paul Mellor (499155)
Shari Smith (3508343)
Stephanie Kendall (3508355)
Natasha Just (3508346)
Frederick Vizeacoumar (483154)
Sabuj Sarker (3508334)
Zoe Phillips (3508352)
Riaz Alvi (3508337)
Anurag Saxena (3445325)
Franco Vizeacoumar (3508349)
Svein Carlsen (3508331)
Deborah Anderson (3508340)

January 2016

Probe information used in The Cancer Genome Atlas (TCGA) database to analyze CREB3L1 gene methylatio...

Additional file 12: of Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Jolein Mijnes (3155121)
JĂźrgen Veeck (3777349)
Nadine Gaisa (4831452)
Eduard Burghardt (4831449)
Tim de Ruijter (4831455)
Sonja Gostek (4831458)
Edgar Dahl (42758)
David Pfister (2570215)
Sebastian Schmid (775115)
Ruth KnĂźchel (3777352)
Michael Rose (321021)

February 2018

This dataset illustrates a summary of the TCGA samples used in this study. (XLS 27Â kb

Additional file 2: of Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Jolein Mijnes (3155121)
JĂźrgen Veeck (3777349)
Nadine Gaisa (4831452)
Eduard Burghardt (4831449)
Tim de Ruijter (4831455)
Sonja Gostek (4831458)
Edgar Dahl (42758)
David Pfister (2570215)
Sebastian Schmid (775115)
Ruth KnĂźchel (3777352)
Michael Rose (321021)

February 2018

Detailed frequency of DNAm of BRCA1, MGMT, and ERCC1 across cancer entities and corresponding normal...

Additional file 6: of Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Jolein Mijnes (3155121)
JĂźrgen Veeck (3777349)
Nadine Gaisa (4831452)
Eduard Burghardt (4831449)
Tim de Ruijter (4831455)
Sonja Gostek (4831458)
Edgar Dahl (42758)
David Pfister (2570215)
Sebastian Schmid (775115)
Ruth KnĂźchel (3777352)
Michael Rose (321021)

February 2018

This table summarizes the results from the multivariate Cox regression analysis including all factor...

Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Mijnes, Jolein
Veeck, Juergen
Gaisa, Nadine T.
Burghardt, Eduard
de Ruijter, Tim C.
Gostek, Sonja
Dahl, Edgar
Pfister, David
Schmid, Sebastian C.
Knuchel, Ruth
Rose, Michael

February 2018

Background: Genome-wide studies identified pan-cancer genes and shared biological networks affected ...

Promoter methylation of DNA damage repair (DDR) genes in human tumor entities:<i>RBBP8/CtIP</i> is almost exclusively methylated in bladder cancer

Mijnes, Jolein
Veeck, Juergen
Gaisa, Nadine T.
Burghardt, Eduard
de Ruijter, Tim C.
Gostek, Sonja
Dahl, Edgar
Pfister, David
Schmid, Sebastian C.
Knuchel, Ruth
Rose, Michael

February 2018

Background: Genome-wide studies identified pan-cancer genes and shared biological networks affected ...

Additional file 1: Table S1. of Clinical significance of CDH13 promoter methylation as a biomarker for bladder cancer: a meta-analysis

Feng Chen (25347)
Tao Huang (110613)
Yu Ren (428662)
Junjun Wei (3543962)
Zhongguan Lou (3543959)
Xue Wang (102830)
Xiaoxiao Fan (680758)
Yirun Chen (3543968)
Guobin Weng (3543965)
Xuping Yao (3543971)

August 2016

Eggerâs funnel plot of the publication bias test for CDH13 methylation. (DOCX 21Â kb

Additional file 1: of Comparing diagnostic and prognostic performance of two-gene promoter methylation panels in tissue biopsies and urines of prostate cancer patients

Catarina Moreira-Barbosa (5907095)
Daniela Barros-Silva (4922425)
Pedro Costa-Pinheiro (816456)
Jorge Torres-Ferreira (3764845)
Vera Constâncio (5907098)
Rui Freitas (3764833)
Jorge Oliveira (33493)
Luís Antunes (701921)
Rui Henrique (33490)
Carmen Jerónimo (33496)

October 2018

Table S1. Primer sequences for β-Actin, miR-34b/c, and miR-193b (panel #1). Table S2. Scorpion prime...

Additional file 2 of Characterizing DNA methylation signatures and their potential functional roles in Merkel cell carcinoma

Hemant Gujar (4952221)
Arjun Mehta (807381)
Hong-Tao Li (277766)
Yvonne C. Tsai (11282782)
Xiangning Qiu (240807)
Daniel J. Weisenberger (10142945)
Miriam Galvonas Jasiulionis (11110287)
Gino K. In (11282785)
Gangning Liang (174746)

August 2021

Additional file 2. Supplemental Table 1: Top 10 differentially methylated probes based on MCPyV and ...

Additional file 9: of Urine cell-based DNA methylation classifier for monitoring bladder cancer

Antoine van der Heijden (2038363)
Lourdes Mengual (95546)
Mercedes Ingelmo-Torres (3488972)
Juan Lozano (3488975)
Cindy van Rijt-van de Westerlo (5314490)
Montserrat Baixauli (5314496)
Bogdan Geavlete (5314493)
Cristian Moldoveanud (5314478)
Cosmin Ene (5314487)
Colin Dinney (188670)
Bogdan Czerniak (111162)
Jack Schalken (3964190)
Lambertus Kiemeney (5314484)
Maria Ribal (5314475)
J. Witjes (5314481)
Antonio Alcaraz (95550)

May 2018

Figure S6. DNA methylation profiles for bladder cancer and control tissue samples for the three-gene...

Additional file 9: of Exploring targets of TET2-mediated methylation reprogramming as potential discriminators of prostate cancer progression

Shivani Kamdar (3423416)
Ruth Isserlin (237394)
Theodorus Kwast (3423422)
Alexandre Zlotta (3423419)
Gary Bader (3423413)
Neil Fleshner (361896)
Bharati Bapat (112041)

March 2019

Table S3. Characteristics of the 61 genes exhibiting significantly increased promoter methylation an...

Additional file 2: of Gene promoter and exon DNA methylation changes in colon cancer development – mRNA expression and tumor mutation alterations

Béla Molnár (123745)
Orsolya Galamb (123720)
Bálint Péterfia (130981)
Barnabás Wichmann (123721)
István Csabai (130985)
András Bodor (439486)
Alexandra Kalmár (123738)
Krisztina Szigeti (5454470)
Barbara Barták (764299)
Zsófia Nagy (3515417)
Gábor Valcz (466332)
Árpád Patai (785267)
Péter Igaz (628519)
Zsolt Tulassay (123741)

June 2018

Figure S1. Box plots of significant DMRs in TP53 pathway gene promoters between CRC and NAT samples....

Additional file 13: of Exploring targets of TET2-mediated methylation reprogramming as potential discriminators of prostate cancer progression

Shivani Kamdar (3423416)
Ruth Isserlin (237394)
Theodorus Kwast (3423422)
Alexandre Zlotta (3423419)
Gary Bader (3423413)
Neil Fleshner (361896)
Bharati Bapat (112041)

March 2019

Table S5. Association of candidate gene probe methylation with ERG fusion status. (XLSX 19 kb

Additional file 1: of Urine cell-based DNA methylation classifier for monitoring bladder cancer

Antoine van der Heijden (2038363)
Lourdes Mengual (95546)
Mercedes Ingelmo-Torres (3488972)
Juan Lozano (3488975)
Cindy van Rijt-van de Westerlo (5314490)
Montserrat Baixauli (5314496)
Bogdan Geavlete (5314493)
Cristian Moldoveanud (5314478)
Cosmin Ene (5314487)
Colin Dinney (188670)
Bogdan Czerniak (111162)
Jack Schalken (3964190)
Lambertus Kiemeney (5314484)
Maria Ribal (5314475)
J. Witjes (5314481)
Antonio Alcaraz (95550)

May 2018

Figure S1. Flowchart of the entire study. A total of seven hypermethylated genes, differentially exp...

Additional file 3: of CpG promoter methylation of the ALKBH3 alkylation repair gene in breast cancer

Olafur Stefansson (4227460)
Stefan Hermanowicz (4227466)
Jasper van der Horst (4227457)
Holmfridur Hilmarsdottir (23567)
Zuzanna Staszczak (4227463)
Jon Jonasson (495667)
Laufey Tryggvadottir (403720)
Thorkell Gudjonsson (4227469)
Stefan Sigurdsson (4227454)

July 2017

ALKBH3 methylation analysed with respect to prognostic parameters (breast cancer subtype, histologic...

Alison Ward (518675)
Paul Mellor (499155)
Shari Smith (3508343)
Stephanie Kendall (3508355)
Natasha Just (3508346)
Frederick Vizeacoumar (483154)
Sabuj Sarker (3508334)
Zoe Phillips (3508352)
Riaz Alvi (3508337)
Anurag Saxena (3445325)
Franco Vizeacoumar (3508349)
Svein Carlsen (3508331)
Deborah Anderson (3508340)

January 2016

Probe information used in The Cancer Genome Atlas (TCGA) database to analyze CREB3L1 gene methylatio...

Additional file 13: of Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Abstract

Extracted data

Additional file 13: of Promoter methylation of DNA damage repair (DDR) genes in human tumor entities: RBBP8/CtIP is almost exclusively methylated in bladder cancer

Abstract

Extracted data

Related items

Related items