Additional file 3: of TRH site-specific methylation in oral and oropharyngeal squamous cell carcinoma

Additional file 1: Table S1. of Genome-wide methylation analysis identifies a core set of hypermethylated genes in CIMP-H colorectal cancer

Tyler McInnes (3874525)
Donghui Zou (3874513)
Dasari Rao (3874516)
Francesca Munro (3874534)
Vicky Phillips (3874528)
John McCall (3874522)
Michael Black (246211)
Anthony Reeve (3874519)
Parry Guilford (3874531)

March 2017

258 genes hypermethylated in more than 90% of all CIMP-H tumours. Two-hundred fifty eight CpG island...

Additional file 1: of Analysis of oncogenic activities of protein kinase D1 in head and neck squamous cell carcinoma

Liyong Zhang (4819407)
Zhihong Li (176839)
Yehai Liu (453288)
Shuping Xu (461976)
Manuj Tandon (134658)
Brittany Appelboom (5956790)
Courtney LaValle (5956793)
Simion Chiosea (5956796)
Lin Wang (11986)
Malabika Sen (505755)
Vivian Lui (782799)
Jennifer Grandis (3556283)
Q. Jane Wang (202371)

November 2018

Figure S1 Levels of PRKD1 gene transcript and DNA methylation in HNSCC (TCGA). A. Provisional data o...

Additional file 1: of DNA methylation at an enhancer of the three prime repair exonuclease 2 gene (TREX2) is linked to gene expression and survival in laryngeal cancer

Christoph Weigel (5507255)
Jittiporn Chaisaingmongkol (6665228)
Yassen Assenov (5080553)
Christine Kuhmann (6665231)
Volker Winkler (3478871)
Irene Santi (3399116)
Olga Bogatyrova (6665234)
Simone Kaucher (5735852)
Justo Bermejo (3428108)
Suet Leung (1284948)
Tsun Chan (3620177)
Felix Lasitschka (565896)
Manfred Bohrer (6665237)
Alexander Marx (343033)
Roland HauĂen (6665261)
Christel Herold-Mende (149444)
Gerhard Dyckhoff (638625)
Petra Boukamp (3846)
Klaus Delank (6665243)
Karl HĂśrmann (6665264)
Burkhard Lippert (6665249)
Gerald Baier (6665252)
Andreas Dietz (771782)
Christopher Oakes (398990)
Christoph Plass (14626)
Heiko Becher (44658)
Peter Schmezer (125415)
Heribert Ramroth (63646)
Odilia Popanda (125366)

May 2019

Figure S1. Differential DNA methylation at the TREX2 locus in the TCGA head and neck squamous cell c...

Additional file 2: of TRH site-specific methylation in oral and oropharyngeal squamous cell carcinoma

C. Puttipanyalears (5599376)
A. Arayataweegool (5599379)
K. Chalertpet (5599382)
P. Rattanachayoto (5599385)
P. Mahattanasakul (5599388)
N. Tangjaturonsasme (5599391)
V. Kerekhanjanarong (5599394)
A. Mutirangura (5599397)
N. Kitkumthorn (5599400)

August 2018

Demographic data and TRH methylation percentage in screening experiments. (XLS 29 kb

Additional file 1: of TRH site-specific methylation in oral and oropharyngeal squamous cell carcinoma

C. Puttipanyalears (5599376)
A. Arayataweegool (5599379)
K. Chalertpet (5599382)
P. Rattanachayoto (5599385)
P. Mahattanasakul (5599388)
N. Tangjaturonsasme (5599391)
V. Kerekhanjanarong (5599394)
A. Mutirangura (5599397)
N. Kitkumthorn (5599400)

August 2018

Microsoft Office Excel displayed average methylation percentage of each methylated CpG sites of each...

Additional file 3: of Unique DNA methylation signature in HPV-positive head and neck squamous cell carcinomas

Davide Degli Esposti (72723)
Athena Sklias (3857581)
Sheila Lima (3908227)
StĂŠphanie Beghelli-de la Forest Divonne (3908224)
Vincent Cahais (401764)
Nora Fernandez-Jimenez (193643)
Marie-Pierre Cros (468750)
Szilvia Ecsedi (277982)
Cyrille Cuenin (487673)
Liacine Bouaoun (3438113)
Graham Byrnes (66091)
Rosita Accardi (269874)
Anne Sudaka (3908230)
ValĂŠrie Giordanengo (3908239)
Hector Hernandez-Vargas (251855)
Luis Pinto (3908233)
Ellen Van Obberghen-Schilling (3908248)
Zdenko Herceg (251863)

April 2017

Published methylation signatures in HNSCCs. Ad hoc pathway analysis of common hyper- and hypomethyla...

Additional file 1: of TIPE3 hypermethylation correlates with worse prognosis and promotes tumor progression in nasopharyngeal carcinoma

Xian-Yue Ren (714116)
Xin Wen (470639)
Ying-Qing Li (5750234)
Jian Zhang (1682)
Qing-Mei He (545472)
Xiao-Jing Yang (580274)
Xin-Ran Tang (714117)
Ya-Qin Wang (4522846)
Pan-Pan Zhang (3278736)
Xiao-Zhong Chen (5750237)
Bin Cheng (64483)
Jun Ma (9393)
Na Liu (102929)

September 2018

Table S1. The methylation probes of TIPE3 in Infinium Human Methylation 450Â K BeadChip (Illumina). ...

TRH site-specific methylation in oral and oropharyngeal squamous cell carcinoma

C. Puttipanyalears
A. Arayataweegool
K. Chalertpet
P. Rattanachayoto
P. Mahattanasakul
N. Tangjaturonsasme
V. Kerekhanjanarong
A. Mutirangura
N. Kitkumthorn

August 2018

Abstract Background The incidence of oral squamous cell carcinoma (OSCC) continues to increase each ...

Additional file 5: Table S3. of Integrated data analysis reveals potential drivers and pathways disrupted by DNA methylation in papillary thyroid carcinomas

Caroline Beltrami (3994673)
Mariana dos Reis (3994685)
Mateus Barros-Filho (3994688)
Fabio Marchi (3994682)
Hellen Kuasne (3994676)
Clóvis Pinto (3513587)
Srikant Ambatipudi (228815)
Zdenko Herceg (251863)
Luiz Kowalski (3994670)
Silvia Rogatto (3994691)

May 2017

Integrative analysis between methylation and expression data in PTC samples. Legend. FGD functional ...

Additional file 3: Table S2. of Genome-wide DNA methylation profile identified a unique set of differentially methylated immune genes in oral squamous cell carcinoma patients in India

Baidehi Basu (3717586)
Joyeeta Chakraborty (3717592)
Aditi Chandra (3717583)
Atul Katarkar (282856)
Jadav Baldevbhai (3717589)
Debjit Dhar Chowdhury (3717580)
Jay Ray (3717595)
Keya Chaudhuri (90539)
Raghunath Chatterjee (90538)

February 2017

Clinical and demographic charecteristics of the TCGA samples included in this study. Table S3. Hazar...

Additional file 2: of Methylated genomic loci encoding microRNA as a biomarker panel in tissue and saliva for head and neck squamous cell carcinoma

Yu Cao (274482)
Katherine Green (5055230)
Steve Quattlebaum (5055248)
Ben Milam (5055236)
Ling Lu (53325)
Dexiang Gao (5055245)
Hui He (356808)
Ningning Li (566420)
Liwei Gao (794309)
Francis Hall (5055233)
Matthew Whinery (5055239)
Elyse Handley (5055242)
Yi Ma (167857)
Tao Xu (3537)
Feng Jin (303721)
Jing Xiao (356412)
Minjie Wei (154099)
Derek Smith (399177)
Sophia Bornstein (3515549)
Neil Gross (4425496)
Dohun Pyeon (266665)
John Song (437939)
Shi-Long Lu (1912276)

April 2018

Table S1. Relative methylation levels of mgmiRs in human HNSCC cell lines and normal head and neck c...

Additional file 5: of CpG location and methylation level are crucial factors for the early detection of oral squamous cell carcinoma in brushing samples using bisulfite sequencing of a 13-gene panel

Luca Morandi (324431)
Davide Gissi (4358257)
Achille Tarsitano (4358260)
Sofia Asioli (4358275)
Andrea Gabusi (4358263)
Claudio Marchetti (4358266)
Lucio Montebugnoli (4358269)
Maria Foschini (4358272)

August 2017

LINE1 mean methylation levels among OSCC, HGSIL, normal healthy donors, and contralateral normal muc...

Additional file 2: of Aberrant methylation and downregulation of ZNF667-AS1 and ZNF667 promote the malignant progression of laryngeal squamous cell carcinoma

Wenxia Meng (339912)
Weina Cui (781977)
Lei Zhao (144153)
Weiwei Chi (6267389)
Huan Cao (553305)
Baoshan Wang (1667401)

January 2019

Figure S1. Supplementary data. A. The representative methylation status of three regions of ZNF667 d...

Additional file 3: of The neuropeptide genes SST, TAC1, HCRT, NPY, and GAL are powerful epigenetic biomarkers in head and neck cancer: a site-specific analysis

Kiyoshi Misawa (697436)
Masato Mima (4104466)
Atsushi Imai (504727)
Daiki Mochizuki (697439)
Yuki Misawa (697437)
Shiori Endo (4104463)
Ryuji Ishikawa (5090480)
Takeharu Kanazawa (697441)
Hiroyuki Mineta (697442)

April 2018

Figure S2. ROC curves for the methylation markers in head and neck carcinomas versus adjacent normal...

Additional file 1: of A similar effect of P16 hydroxymethylation and true-methylation on the prediction of malignant transformation of oral epithelial dysplasia: observation from a prospective study

Hongwei Liu (80414)
Zhaojun Liu (238486)
Xue-wei Liu (5783864)
Si Xu (5112953)
Lei Wang (6656)
Yang Liu (4829)
Jing Zhou (168494)
Liankun Gu (238490)
Yan Gao (93649)
Xiao-yong Liu (5783867)
Huidong Shi (103589)
Zheng Sun (261083)
Dajun Deng (168545)

November 2018

Figure S1. Characterization of the true methylation and hydroxymethylation states of CpG sites in th...

Additional file 1: Table S1. of Genome-wide methylation analysis identifies a core set of hypermethylated genes in CIMP-H colorectal cancer

Tyler McInnes (3874525)
Donghui Zou (3874513)
Dasari Rao (3874516)
Francesca Munro (3874534)
Vicky Phillips (3874528)
John McCall (3874522)
Michael Black (246211)
Anthony Reeve (3874519)
Parry Guilford (3874531)

March 2017

258 genes hypermethylated in more than 90% of all CIMP-H tumours. Two-hundred fifty eight CpG island...

Additional file 1: of Analysis of oncogenic activities of protein kinase D1 in head and neck squamous cell carcinoma

Liyong Zhang (4819407)
Zhihong Li (176839)
Yehai Liu (453288)
Shuping Xu (461976)
Manuj Tandon (134658)
Brittany Appelboom (5956790)
Courtney LaValle (5956793)
Simion Chiosea (5956796)
Lin Wang (11986)
Malabika Sen (505755)
Vivian Lui (782799)
Jennifer Grandis (3556283)
Q. Jane Wang (202371)

November 2018

Figure S1 Levels of PRKD1 gene transcript and DNA methylation in HNSCC (TCGA). A. Provisional data o...

Additional file 1: of DNA methylation at an enhancer of the three prime repair exonuclease 2 gene (TREX2) is linked to gene expression and survival in laryngeal cancer

Christoph Weigel (5507255)
Jittiporn Chaisaingmongkol (6665228)
Yassen Assenov (5080553)
Christine Kuhmann (6665231)
Volker Winkler (3478871)
Irene Santi (3399116)
Olga Bogatyrova (6665234)
Simone Kaucher (5735852)
Justo Bermejo (3428108)
Suet Leung (1284948)
Tsun Chan (3620177)
Felix Lasitschka (565896)
Manfred Bohrer (6665237)
Alexander Marx (343033)
Roland HauĂen (6665261)
Christel Herold-Mende (149444)
Gerhard Dyckhoff (638625)
Petra Boukamp (3846)
Klaus Delank (6665243)
Karl HĂśrmann (6665264)
Burkhard Lippert (6665249)
Gerald Baier (6665252)
Andreas Dietz (771782)
Christopher Oakes (398990)
Christoph Plass (14626)
Heiko Becher (44658)
Peter Schmezer (125415)
Heribert Ramroth (63646)
Odilia Popanda (125366)

May 2019

Figure S1. Differential DNA methylation at the TREX2 locus in the TCGA head and neck squamous cell c...

Additional file 2: of TRH site-specific methylation in oral and oropharyngeal squamous cell carcinoma

C. Puttipanyalears (5599376)
A. Arayataweegool (5599379)
K. Chalertpet (5599382)
P. Rattanachayoto (5599385)
P. Mahattanasakul (5599388)
N. Tangjaturonsasme (5599391)
V. Kerekhanjanarong (5599394)
A. Mutirangura (5599397)
N. Kitkumthorn (5599400)

August 2018

Demographic data and TRH methylation percentage in screening experiments. (XLS 29 kb

Additional file 1: of TRH site-specific methylation in oral and oropharyngeal squamous cell carcinoma

C. Puttipanyalears (5599376)
A. Arayataweegool (5599379)
K. Chalertpet (5599382)
P. Rattanachayoto (5599385)
P. Mahattanasakul (5599388)
N. Tangjaturonsasme (5599391)
V. Kerekhanjanarong (5599394)
A. Mutirangura (5599397)
N. Kitkumthorn (5599400)

August 2018

Microsoft Office Excel displayed average methylation percentage of each methylated CpG sites of each...

Additional file 3: of Unique DNA methylation signature in HPV-positive head and neck squamous cell carcinomas

Davide Degli Esposti (72723)
Athena Sklias (3857581)
Sheila Lima (3908227)
StĂŠphanie Beghelli-de la Forest Divonne (3908224)
Vincent Cahais (401764)
Nora Fernandez-Jimenez (193643)
Marie-Pierre Cros (468750)
Szilvia Ecsedi (277982)
Cyrille Cuenin (487673)
Liacine Bouaoun (3438113)
Graham Byrnes (66091)
Rosita Accardi (269874)
Anne Sudaka (3908230)
ValĂŠrie Giordanengo (3908239)
Hector Hernandez-Vargas (251855)
Luis Pinto (3908233)
Ellen Van Obberghen-Schilling (3908248)
Zdenko Herceg (251863)

April 2017

Published methylation signatures in HNSCCs. Ad hoc pathway analysis of common hyper- and hypomethyla...

Additional file 1: of TIPE3 hypermethylation correlates with worse prognosis and promotes tumor progression in nasopharyngeal carcinoma

Xian-Yue Ren (714116)
Xin Wen (470639)
Ying-Qing Li (5750234)
Jian Zhang (1682)
Qing-Mei He (545472)
Xiao-Jing Yang (580274)
Xin-Ran Tang (714117)
Ya-Qin Wang (4522846)
Pan-Pan Zhang (3278736)
Xiao-Zhong Chen (5750237)
Bin Cheng (64483)
Jun Ma (9393)
Na Liu (102929)

September 2018

Table S1. The methylation probes of TIPE3 in Infinium Human Methylation 450Â K BeadChip (Illumina). ...

TRH site-specific methylation in oral and oropharyngeal squamous cell carcinoma

C. Puttipanyalears
A. Arayataweegool
K. Chalertpet
P. Rattanachayoto
P. Mahattanasakul
N. Tangjaturonsasme
V. Kerekhanjanarong
A. Mutirangura
N. Kitkumthorn

August 2018

Abstract Background The incidence of oral squamous cell carcinoma (OSCC) continues to increase each ...

Additional file 5: Table S3. of Integrated data analysis reveals potential drivers and pathways disrupted by DNA methylation in papillary thyroid carcinomas

Caroline Beltrami (3994673)
Mariana dos Reis (3994685)
Mateus Barros-Filho (3994688)
Fabio Marchi (3994682)
Hellen Kuasne (3994676)
Clóvis Pinto (3513587)
Srikant Ambatipudi (228815)
Zdenko Herceg (251863)
Luiz Kowalski (3994670)
Silvia Rogatto (3994691)

May 2017

Integrative analysis between methylation and expression data in PTC samples. Legend. FGD functional ...

Additional file 3: Table S2. of Genome-wide DNA methylation profile identified a unique set of differentially methylated immune genes in oral squamous cell carcinoma patients in India

Baidehi Basu (3717586)
Joyeeta Chakraborty (3717592)
Aditi Chandra (3717583)
Atul Katarkar (282856)
Jadav Baldevbhai (3717589)
Debjit Dhar Chowdhury (3717580)
Jay Ray (3717595)
Keya Chaudhuri (90539)
Raghunath Chatterjee (90538)

February 2017

Clinical and demographic charecteristics of the TCGA samples included in this study. Table S3. Hazar...

Additional file 2: of Methylated genomic loci encoding microRNA as a biomarker panel in tissue and saliva for head and neck squamous cell carcinoma

Yu Cao (274482)
Katherine Green (5055230)
Steve Quattlebaum (5055248)
Ben Milam (5055236)
Ling Lu (53325)
Dexiang Gao (5055245)
Hui He (356808)
Ningning Li (566420)
Liwei Gao (794309)
Francis Hall (5055233)
Matthew Whinery (5055239)
Elyse Handley (5055242)
Yi Ma (167857)
Tao Xu (3537)
Feng Jin (303721)
Jing Xiao (356412)
Minjie Wei (154099)
Derek Smith (399177)
Sophia Bornstein (3515549)
Neil Gross (4425496)
Dohun Pyeon (266665)
John Song (437939)
Shi-Long Lu (1912276)

April 2018

Table S1. Relative methylation levels of mgmiRs in human HNSCC cell lines and normal head and neck c...

Additional file 5: of CpG location and methylation level are crucial factors for the early detection of oral squamous cell carcinoma in brushing samples using bisulfite sequencing of a 13-gene panel

Luca Morandi (324431)
Davide Gissi (4358257)
Achille Tarsitano (4358260)
Sofia Asioli (4358275)
Andrea Gabusi (4358263)
Claudio Marchetti (4358266)
Lucio Montebugnoli (4358269)
Maria Foschini (4358272)

August 2017

LINE1 mean methylation levels among OSCC, HGSIL, normal healthy donors, and contralateral normal muc...

Additional file 2: of Aberrant methylation and downregulation of ZNF667-AS1 and ZNF667 promote the malignant progression of laryngeal squamous cell carcinoma

Wenxia Meng (339912)
Weina Cui (781977)
Lei Zhao (144153)
Weiwei Chi (6267389)
Huan Cao (553305)
Baoshan Wang (1667401)

January 2019

Figure S1. Supplementary data. A. The representative methylation status of three regions of ZNF667 d...

Additional file 3: of The neuropeptide genes SST, TAC1, HCRT, NPY, and GAL are powerful epigenetic biomarkers in head and neck cancer: a site-specific analysis

Kiyoshi Misawa (697436)
Masato Mima (4104466)
Atsushi Imai (504727)
Daiki Mochizuki (697439)
Yuki Misawa (697437)
Shiori Endo (4104463)
Ryuji Ishikawa (5090480)
Takeharu Kanazawa (697441)
Hiroyuki Mineta (697442)

April 2018

Figure S2. ROC curves for the methylation markers in head and neck carcinomas versus adjacent normal...

Additional file 1: of A similar effect of P16 hydroxymethylation and true-methylation on the prediction of malignant transformation of oral epithelial dysplasia: observation from a prospective study

Hongwei Liu (80414)
Zhaojun Liu (238486)
Xue-wei Liu (5783864)
Si Xu (5112953)
Lei Wang (6656)
Yang Liu (4829)
Jing Zhou (168494)
Liankun Gu (238490)
Yan Gao (93649)
Xiao-yong Liu (5783867)
Huidong Shi (103589)
Zheng Sun (261083)
Dajun Deng (168545)

November 2018

Figure S1. Characterization of the true methylation and hydroxymethylation states of CpG sites in th...

Additional file 1: Table S1. of Genome-wide methylation analysis identifies a core set of hypermethylated genes in CIMP-H colorectal cancer

Tyler McInnes (3874525)
Donghui Zou (3874513)
Dasari Rao (3874516)
Francesca Munro (3874534)
Vicky Phillips (3874528)
John McCall (3874522)
Michael Black (246211)
Anthony Reeve (3874519)
Parry Guilford (3874531)

March 2017

258 genes hypermethylated in more than 90% of all CIMP-H tumours. Two-hundred fifty eight CpG island...

Additional file 1: of Analysis of oncogenic activities of protein kinase D1 in head and neck squamous cell carcinoma

Liyong Zhang (4819407)
Zhihong Li (176839)
Yehai Liu (453288)
Shuping Xu (461976)
Manuj Tandon (134658)
Brittany Appelboom (5956790)
Courtney LaValle (5956793)
Simion Chiosea (5956796)
Lin Wang (11986)
Malabika Sen (505755)
Vivian Lui (782799)
Jennifer Grandis (3556283)
Q. Jane Wang (202371)

November 2018

Figure S1 Levels of PRKD1 gene transcript and DNA methylation in HNSCC (TCGA). A. Provisional data o...

Additional file 1: of DNA methylation at an enhancer of the three prime repair exonuclease 2 gene (TREX2) is linked to gene expression and survival in laryngeal cancer

Christoph Weigel (5507255)
Jittiporn Chaisaingmongkol (6665228)
Yassen Assenov (5080553)
Christine Kuhmann (6665231)
Volker Winkler (3478871)
Irene Santi (3399116)
Olga Bogatyrova (6665234)
Simone Kaucher (5735852)
Justo Bermejo (3428108)
Suet Leung (1284948)
Tsun Chan (3620177)
Felix Lasitschka (565896)
Manfred Bohrer (6665237)
Alexander Marx (343033)
Roland HauĂen (6665261)
Christel Herold-Mende (149444)
Gerhard Dyckhoff (638625)
Petra Boukamp (3846)
Klaus Delank (6665243)
Karl HĂśrmann (6665264)
Burkhard Lippert (6665249)
Gerald Baier (6665252)
Andreas Dietz (771782)
Christopher Oakes (398990)
Christoph Plass (14626)
Heiko Becher (44658)
Peter Schmezer (125415)
Heribert Ramroth (63646)
Odilia Popanda (125366)

May 2019

Figure S1. Differential DNA methylation at the TREX2 locus in the TCGA head and neck squamous cell c...

Additional file 3: of TRH site-specific methylation in oral and oropharyngeal squamous cell carcinoma

Abstract

Extracted data

Additional file 3: of TRH site-specific methylation in oral and oropharyngeal squamous cell carcinoma

Abstract

Extracted data

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