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Cancer Epigenetics - Solid Tumors

Section information

Section Editors : Maria Berdasco and Carmen Jeronimo 

Associate Editors : Nita Ahuja, Tiziana Bonaldi (histones), Rene Cortese, James Flanagan (cervical/ovarian), Thomas Fleischer, Mario Fraga, Michéle Hoffmann (prostate), Bozena Kaminska (gliomas), Gwen Lomberk, Arpad Patai (colorectal/GI cancers), Qian Tao, Raul Urrutia, Stefan Wiemann (breast), Keishi Yamashita

The development of genome-wide techniques has rapidly improved the comprehensive knowledge of epigenetic alterations in cancer. Currently, a vast number of genes and their associated molecular pathways that show epigenetic differences between normal and tumoral cells have been identified, emphasizing the crucial role of epigenetic factors in cancer etiology and progression.  This section publishes original epigenetic research focused on the identification of epigenetic biomarkers associated with cancer diagnosis or tumor progression. Manuscripts on epigenetic biomarkers leading to a better definition of therapy response are also accepted (pharmacoepigenetics). Submissions on reports from human clinical trials providing insights on the clinical application of epigenetic biomarkers are welcomed.

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  1. Ovarian cancer is the most fatal tumor of the female reproductive system and the fifth leading cause of cancer death among women in the USA. The prognosis is poor due to the lack of biomarkers for treatment op...

    Authors: Wenna Guo, Liucun Zhu, Minghao Yu, Rui Zhu, Qihan Chen and Qiang Wang
    Citation: Clinical Epigenetics 2018 10:142
  2. Altered methylation patterns are driving forces in colorectal carcinogenesis. The serrated adenocarcinoma (SAC) and sporadic colorectal carcinoma showing histological and molecular features of microsatellite i...

    Authors: José García-Solano, María C. Turpin, Daniel Torres-Moreno, Francisco Huertas-López, Anne Tuomisto, Markus J. Mäkinen, Ana Conesa and Pablo Conesa-Zamora
    Citation: Clinical Epigenetics 2018 10:141

    The Data Descriptor to this article has been published in Scientific Data 2019 6:255

  3. Cancer treatments have substantially improved childhood cancer survival but are accompanied by long-term complications, notably chronic inflammatory diseases. We hypothesize that cancer treatments could lead t...

    Authors: Sara Daniel, Vibe Nylander, Lars R. Ingerslev, Ling Zhong, Odile Fabre, Briana Clifford, Karen Johnston, Richard J. Cohn, Romain Barres and David Simar
    Citation: Clinical Epigenetics 2018 10:138
  4. Prostate cancer (PCa) is one of the most common cancers among men worldwide. Current screening methods for PCa display limited sensitivity and specificity, not stratifying for disease aggressiveness. Hence, de...

    Authors: Catarina Moreira-Barbosa, Daniela Barros-Silva, Pedro Costa-Pinheiro, Jorge Torres-Ferreira, Vera Constâncio, Rui Freitas, Jorge Oliveira, Luís Antunes, Rui Henrique and Carmen Jerónimo
    Citation: Clinical Epigenetics 2018 10:132
  5. SUV39H2 (suppressor of variegation 3-9 homolog 2), which introduces H3K9me3 to induce transcriptional repression, has been reported to play critical roles in heterochromatin maintenance, DNA repair, and recent...

    Authors: Yu Zheng, Baihui Li, Jian Wang, Yanjuan Xiong, Kaiyuan Wang, Ying Qi, Houfang Sun, Lei Wu and Lili Yang
    Citation: Clinical Epigenetics 2018 10:129
  6. In this letter, we respond to and discuss the recent publication by Al-Moghrabi et al.: Methylation of BRCA1 and MGMT genes in white blood cells are transmitted from mothers to daughters. We discuss their finding...

    Authors: Per Eystein Lønning and Stian Knappskog
    Citation: Clinical Epigenetics 2018 10:128
  7. DNA methylation is a key epigenetic mark in mammalian organisms that plays key roles in chromatin organization and gene expression. Although DNA methylation in gene promoters is generally associated with gene ...

    Authors: Saigopal Somasundaram, Megan E Forrest, Helen Moinova, Allison Cohen, Vinay Varadan, Thomas LaFramboise, Sanford Markowitz and Ahmad M Khalil
    Citation: Clinical Epigenetics 2018 10:127
  8. In colorectal cancer, CDX2 expression is lost in approximately 20% of cases and associated with poor outcome. Here, we aim to validate the clinical impact of CDX2 and investigate the role of promoter methylati...

    Authors: Janina Graule, Kristin Uth, Elia Fischer, Irene Centeno, José A. Galván, Micha Eichmann, Tilman T. Rau, Rupert Langer, Heather Dawson, Ulrich Nitsche, Peter Traeger, Martin D. Berger, Beat Schnüriger, Marion Hädrich, Peter Studer, Daniel Inderbitzin…
    Citation: Clinical Epigenetics 2018 10:120
  9. The melanoma antigen gene (MAGE) proteins are a group of highly conserved family members that contain a common MAGE homology domain. Type I MAGEs are relevant cancer-testis antigens (CTAs), and originally cons...

    Authors: Yishui Lian, Lingjiao Meng, Pingan Ding and Meixiang Sang
    Citation: Clinical Epigenetics 2018 10:115
  10. Age is one of the most important risk factors for developing breast cancer. However, age-related changes in normal breast tissue that potentially lead to breast cancer are incompletely understood. Quantifying ...

    Authors: Erin W. Hofstatter, Steve Horvath, Disha Dalela, Piyush Gupta, Anees B. Chagpar, Vikram B. Wali, Veerle Bossuyt, Anna Maria Storniolo, Christos Hatzis, Gauri Patwardhan, Marie-Kristin Von Wahlde, Meghan Butler, Lianne Epstein, Karen Stavris, Tracy Sturrock, Alexander Au…
    Citation: Clinical Epigenetics 2018 10:112
  11. Inhibitor of differentiation protein 4 (ID4) is a dominant negative regulator of the basic helix-loop-helix (bHLH) family of transcription factors. During tumorigenesis, ID4 may act as a tumor suppressor or as...

    Authors: Daniela Nasif, Emanuel Campoy, Sergio Laurito, Richard Branham, Guillermo Urrutia, María Roqué and María T. Branham
    Citation: Clinical Epigenetics 2018 10:111
  12. Lung cancer is the leading cause of cancer death worldwide. Recently, epigenetic dysregulation has been known to promote tumor progression and therefore may be a therapeutic target for anticancer therapy. JARI...

    Authors: Kuang-Tai Kuo, Wen-Chien Huang, Oluwaseun Adebayo Bamodu, Wei-Hwa Lee, Chun-Hua Wang, M. Hsiao, Liang-Shun Wang and Chi-Tai Yeh
    Citation: Clinical Epigenetics 2018 10:107
  13. Colorectal cancer (CRC) is the third most commonly diagnosed human malignancy worldwide. Upregulation of inhibitory immune checkpoints by tumor-infiltrating immune cells (TIICs) or their ligands by tumor cells...

    Authors: Varun Sasidharan Nair, Salman M. Toor, Rowaida Z. Taha, Hibah Shaath and Eyad Elkord
    Citation: Clinical Epigenetics 2018 10:104
  14. TET1 is a tumor suppressor gene (TSG) that codes for ten-eleven translocation methyl cytosine dioxygenase1 (TET1) catalyzing the conversion of 5-methylcytosine to 5-hydroxy methyl cytosine as a first step of T...

    Authors: Jiangxia Fan, Yan Zhang, Junhao Mu, Xiaoqian He, Bianfei Shao, Dishu Zhou, Weiyan Peng, Jun Tang, Yu Jiang, Guosheng Ren and Tingxiu Xiang
    Citation: Clinical Epigenetics 2018 10:103
  15. 5-Hydroxymethylcytosine (5hmC) is converted from 5-methylcytosine (5mC) by a group of enzymes termed ten-eleven translocation (TET) family dioxygenases. The loss of 5hmC has been identified as a hallmark of mo...

    Authors: Ding Peng, Guangzhe Ge, Yanqing Gong, Yonghao Zhan, Shiming He, Bao Guan, Yifan Li, Ziying Xu, Han Hao, Zhisong He, Gengyan Xiong, Cuijian Zhang, Yue Shi, Yuanyuan Zhou, Weimin Ci, Xuesong Li…
    Citation: Clinical Epigenetics 2018 10:94
  16. Methylation-associated SOX family genes have been proved to be involved in multiple essential processes during carcinogenesis and act as potential biomarkers for cancer diagnosis, staging, prediction of prognosis...

    Authors: Jing-dong Zhou, Yu-xin Wang, Ting-juan Zhang, Xi-xi Li, Yu Gu, Wei Zhang, Ji-chun Ma, Jiang Lin and Jun Qian
    Citation: Clinical Epigenetics 2018 10:92
  17. Early screening for prostate cancer (PCA) remains controversial because of overdiagnosis and overtreatment of clinically insignificant cancers. Even though a number of diagnostic tests have been developed to i...

    Authors: Igor Brikun, Deborah Nusskern, Andrew Decatus, Eric Harvey, Lin Li and Diha Freije
    Citation: Clinical Epigenetics 2018 10:91
  18. Triple-negative breast cancer (TNBC) has been clinically difficult to manage because of tumor aggressiveness, cellular and histological heterogeneity, and molecular mechanisms’ complexity. All this in turn lea...

    Authors: Rubén Rodríguez Bautista, Alette Ortega Gómez, Alfredo Hidalgo Miranda, Alejandro Zentella Dehesa, Cynthia Villarreal-Garza, Federico Ávila-Moreno and Oscar Arrieta
    Citation: Clinical Epigenetics 2018 10:88

    The Correction to this article has been published in Clinical Epigenetics 2018 10:106

  19. High expression of immune checkpoints in tumor microenvironment plays significant roles in inhibiting anti-tumor immunity, which is associated with poor prognosis and cancer progression. Major epigenetic modif...

    Authors: Varun Sasidharan Nair, Haytham El Salhat, Rowaida Z. Taha, Anne John, Bassam R. Ali and Eyad Elkord
    Citation: Clinical Epigenetics 2018 10:78
  20. Primary testing for high-risk HPV (hrHPV) is increasingly implemented in cervical cancer screening programs. Many hrHPV-positive women, however, harbor clinically irrelevant infections, demanding additional di...

    Authors: Iris Babion, Barbara C. Snoek, Putri W. Novianti, Annelieke Jaspers, Nienke van Trommel, Daniëlle A. M. Heideman, Chris J. L. M. Meijer, Peter J. F. Snijders, Renske D. M. Steenbergen and Saskia M. Wilting
    Citation: Clinical Epigenetics 2018 10:76
  21. Active demethylation of 5-methyl-2′-deoxycytidine (5-mdC) in DNA occurs by oxidation to 5-(hydroxymethyl)-2′-deoxycytidine (5-hmdC) and further oxidation to 5-formyl-2′-deoxycytidine (5-fdC) and 5-carboxy-2′-d...

    Authors: Tomasz Dziaman, Daniel Gackowski, Jolanta Guz, Kinga Linowiecka, Magdalena Bodnar, Marta Starczak, Ewelina Zarakowska, Martyna Modrzejewska, Anna Szpila, Justyna Szpotan, Maciej Gawronski, Anna Labejszo, Ariel Liebert, Zbigniew Banaszkiewicz, Maria Klopocka, Marek Foksinski…
    Citation: Clinical Epigenetics 2018 10:72
  22. Current standard methods used to detect and monitor bladder cancer (BC) are invasive or have low sensitivity. This study aimed to develop a urine methylation biomarker classifier for BC monitoring and validate...

    Authors: Antoine G. van der Heijden, Lourdes Mengual, Mercedes Ingelmo-Torres, Juan J. Lozano, Cindy C. M. van Rijt-van de Westerlo, Montserrat Baixauli, Bogdan Geavlete, Cristian Moldoveanud, Cosmin Ene, Colin P. Dinney, Bogdan Czerniak, Jack A. Schalken, Lambertus A. L. M. Kiemeney, Maria J. Ribal, J. Alfred Witjes and Antonio Alcaraz
    Citation: Clinical Epigenetics 2018 10:71
  23. Reduced expression of retinoic acid-induced 2 (RAI2) was found in breast cancer. The regulation and function of RAI2 in human colorectal cancer (CRC) remain unclear.

    Authors: Wenji Yan, Kongming Wu, James G. Herman, Xiuduan Xu, Yunsheng Yang, Guanghai Dai and Mingzhou Guo
    Citation: Clinical Epigenetics 2018 10:69
  24. Methylated genes detected in sputum are promise biomarkers for lung cancer. Yet the current PCR technologies for quantification of DNA methylation and diagnostic value of the sputum biomarkers are not sufficie...

    Authors: Yun Su, Hong Bin Fang and Feng Jiang
    Citation: Clinical Epigenetics 2018 10:68
  25. The objective of this study was to discover DNA methylation biomarkers for detecting non-small lung cancer (NSCLC) in bronchial washings and understanding the association between DNA methylation and smoking ce...

    Authors: Sang-Won Um, Yujin Kim, Bo Bin Lee, Dongho Kim, Kyung-Jong Lee, Hong Kwan Kim, Joungho Han, Hojoong Kim, Young Mog Shim and Duk-Hwan Kim
    Citation: Clinical Epigenetics 2018 10:65
  26. miR-29c has been associated with the progression of many cancers. However, the function and mechanism of miR-29c have not been well investigated in breast cancers.

    Authors: Wan Li, Jie Yi, Xiangjin Zheng, Shiwei Liu, Weiqi Fu, Liwen Ren, Li Li, Dave S. B. Hoon, Jinhua Wang and Guanhua Du
    Citation: Clinical Epigenetics 2018 10:64

    The Correction to this article has been published in Clinical Epigenetics 2022 14:97

  27. Cell-free circulating tumour-derived DNA (ctDNA) can be detected by testing for methylated BCAT1 and IKZF1 DNA, which has proven sensitivity for colorectal cancer (CRC). A prospective correlative biomarker study ...

    Authors: Erin L. Symonds, Susanne K. Pedersen, David H. Murray, Maher Jedi, Susan E. Byrne, Philippa Rabbitt, Rohan T. Baker, Dawn Bastin and Graeme P. Young
    Citation: Clinical Epigenetics 2018 10:63
  28. Periprostatic adipose tissue (PPAT) has been recognized to associate with prostate cancer (PCa) aggressiveness and progression. Here, we sought to investigate whether excess adiposity modulates the methylome o...

    Authors: Yan Cheng, Cátia Monteiro, Andreia Matos, Jiaying You, Avelino Fraga, Carina Pereira, Victoria Catalán, Amaia Rodríguez, Javier Gómez-Ambrosi, Gema Frühbeck, Ricardo Ribeiro and Pingzhao Hu
    Citation: Clinical Epigenetics 2018 10:54
  29. Colorectal cancer is the fourth cause of cancer-related deaths worldwide, though detection at early stages associates with good prognosis. Thus, there is a clear demand for novel non-invasive tests for the ear...

    Authors: María Gallardo-Gómez, Sebastian Moran, María Páez de la Cadena, Vicenta Soledad Martínez-Zorzano, Francisco Javier Rodríguez-Berrocal, Mar Rodríguez-Girondo, Manel Esteller, Joaquín Cubiella, Luis Bujanda, Antoni Castells, Francesc Balaguer, Rodrigo Jover and Loretta De Chiara
    Citation: Clinical Epigenetics 2018 10:53
  30. Staging and pathological grading systems are convenient but imperfect predictors of recurrence in head and neck squamous cell carcinoma (HNSCC). Identifying biomarkers for HNSCC that will progress and cause de...

    Authors: Kiyoshi Misawa, Masato Mima, Atsushi Imai, Daiki Mochizuki, Yuki Misawa, Shiori Endo, Ryuji Ishikawa, Takeharu Kanazawa and Hiroyuki Mineta
    Citation: Clinical Epigenetics 2018 10:52
  31. Breast cancer is the most frequent cancer among women worldwide. Biomarkers for early detection and prognosis of these patients are needed. We hypothesized that deafness, autosomal dominant 5 (DFNA5) may be a val...

    Authors: Lieselot Croes, Matthias Beyens, Erik Fransen, Joe Ibrahim, Wim Vanden Berghe, Arvid Suls, Marc Peeters, Patrick Pauwels, Guy Van Camp and Ken Op de Beeck
    Citation: Clinical Epigenetics 2018 10:51
  32. The long non-coding RNA H19 plays a crucial role in solid tumor initiation and progression. However, the potential role of H19 and its clinical significance in acute myeloid leukemia (AML) remain largely elusive.

    Authors: Ting-juan Zhang, Jing-dong Zhou, Wei Zhang, Jiang Lin, Ji-chun Ma, Xiang-mei Wen, Qian Yuan, Xi-xi Li, Zi-jun Xu and Jun Qian
    Citation: Clinical Epigenetics 2018 10:47
  33. Kidney cancer and clear cell renal carcinoma (ccRCC) are the 16th most common cause of death worldwide. ccRCC is often metastasized at diagnosis, and surgery remains the main treatment; therefore, early diagno...

    Authors: Elisa Cocco, Manuela Leo, Claudia Canzonetta, Serena Di Vito, Antonello Mai, Dante Rotili, Arianna Di Napoli, Andrea Vecchione, Cosimo De Nunzio, Patrizia Filetici and Antonella Stoppacciaro
    Citation: Clinical Epigenetics 2018 10:44
  34. To identify aberrant promoter methylation of genomic loci encoding microRNA (mgmiR) in head and neck squamous cell carcinoma (HNSCC) and to evaluate a biomarker panel of mgmiRs to improve the diagnostic accura...

    Authors: Yu Cao, Katherine Green, Steve Quattlebaum, Ben Milam, Ling Lu, Dexiang Gao, Hui He, Ningning Li, Liwei Gao, Francis Hall, Matthew Whinery, Elyse Handley, Yi Ma, Tao Xu, Feng Jin, Jing Xiao…
    Citation: Clinical Epigenetics 2018 10:43
  35. DNMT3A gene mutation has been associated with poor prognosis in acute myeloid leukemia, but its clinical implications in myelodysplastic syndrome (MDS) and dynamic changes during disease progression remain contro...

    Authors: Ming-En Lin, Hsin-An Hou, Cheng-Hong Tsai, Shang-Ju Wu, Yuan-Yeh Kuo, Mei-Hsuan Tseng, Ming-Chih Liu, Chia-Wen Liu, Wen-Chien Chou, Chien-Yuan Chen, Jih-Luh Tang, Ming Yao, Chi-Cheng Li, Shang-Yi Huang, Bor-Sheng Ko, Szu-Chun Hsu…
    Citation: Clinical Epigenetics 2018 10:42
  36. KDM lysine demethylase family members are related to lung cancer clinical outcomes and are potential biomarkers for chemotherapeutics. However, little is known about epigenetic alterations in KDM genes and their ...

    Authors: Yongyue Wei, Junya Liang, Ruyang Zhang, Yichen Guo, Sipeng Shen, Li Su, Xihong Lin, Sebastian Moran, Åslaug Helland, Maria M. Bjaanæs, Anna Karlsson, Maria Planck, Manel Esteller, Thomas Fleischer, Johan Staaf, Yang Zhao…
    Citation: Clinical Epigenetics 2018 10:41
  37. Prostate cancer (PCa) is a major cause of morbidity and mortality in men worldwide. MicroRNAs are globally downregulated in PCa, especially in poorly differentiated tumors. Nonetheless, the underlying mechanis...

    Authors: João Ramalho-Carvalho, Céline S. Gonçalves, Inês Graça, David Bidarra, Eva Pereira-Silva, Sofia Salta, Maria Inês Godinho, Antonio Gomez, Manel Esteller, Bruno M. Costa, Rui Henrique and Carmen Jerónimo
    Citation: Clinical Epigenetics 2018 10:40
  38. Biomarkers that can predict the prognosis of colorectal cancer (CRC) patients and that can stratify high-risk early stage patients from low-risk early stage patients are urgently needed for better management o...

    Authors: Muriel X. G. Draht, Danny Goudkade, Alexander Koch, Heike I. Grabsch, Matty P. Weijenberg, Manon van Engeland, Veerle Melotte and Kim M. Smits
    Citation: Clinical Epigenetics 2018 10:35
  39. Few biological markers are associated with survival after relapse of B-cell precursor acute lymphoblastic leukemia (BCP-ALL). In pediatric T-cell ALL, we have identified promoter-associated methylation alterat...

    Authors: Magnus Borssén, Jessica Nordlund, Zahra Haider, Mattias Landfors, Pär Larsson, Jukka Kanerva, Kjeld Schmiegelow, Trond Flaegstad, Ólafur Gísli Jónsson, Britt-Marie Frost, Josefine Palle, Erik Forestier, Mats Heyman, Magnus Hultdin, Gudmar Lönnerholm and Sofie Degerman
    Citation: Clinical Epigenetics 2018 10:31
  40. DNA methylation is an important epigenetic modification, associated with gene expression. 5-Methylcytosine and 5-hydroxymethylcytosine are two epigenetic hallmarks that maintain the equilibrium of epigenetic r...

    Authors: Yimin Zhu, Hanlin Lu, Dandan Zhang, Meiyan Li, Xiaohui Sun, Ledong Wan, Dan Yu, Yiping Tian, Hongchuan Jin, Aifen Lin, Fei Gao and Maode Lai
    Citation: Clinical Epigenetics 2018 10:30
  41. Hepatoblastoma (HB) is the most common liver tumor of childhood and occurs predominantly within the first 3 years of life. In accordance to its early manifestation, HB has been described to display an extremel...

    Authors: Alexander Beck, Franziska Trippel, Alexandra Wagner, Saskia Joppien, Max Felle, Christian Vokuhl, Thomas Schwarzmayr, Tim M. Strom, Dietrich von Schweinitz, Gernot Längst and Roland Kappler
    Citation: Clinical Epigenetics 2018 10:27
  42. Nasopharyngeal carcinoma (NPC) is prevalent in South China, including Hong Kong and Southeast Asia, constantly associated with Epstein-Barr virus (EBV) infection. Epigenetic etiology attributed to EBV plays a ...

    Authors: Yan Zhang, Jiangxia Fan, Yichao Fan, Lili Li, Xiaoqian He, Qin Xiang, Junhao Mu, Danfeng Zhou, Xuejuan Sun, Yucheng Yang, Guosheng Ren, Qian Tao and Tingxiu Xiang
    Citation: Clinical Epigenetics 2018 10:26
  43. Droplet digital PCR (ddPCR) allows absolute quantification of nucleic acids and has potential for improved non-invasive detection of DNA methylation. For increased precision of the methylation analysis, we aim...

    Authors: Heidi D. Pharo, Kim Andresen, Kaja C. G. Berg, Ragnhild A. Lothe, Marine Jeanmougin and Guro E. Lind
    Citation: Clinical Epigenetics 2018 10:24
  44. Elucidation of epigenetic alterations in bladder cancer will lead to further understanding of the biology of the disease and hopefully improved therapies. Our aim was to perform an integrative epigenetic analy...

    Authors: Thomas Sanford, Maxwell V. Meng, Reema Railkar, Piyush K. Agarwal and Sima P. Porten
    Citation: Clinical Epigenetics 2018 10:19
  45. Genome-wide studies identified pan-cancer genes and shared biological networks affected by epigenetic dysregulation among diverse tumor entities. Here, we systematically screened for hypermethylation of DNA da...

    Authors: Jolein Mijnes, Jürgen Veeck, Nadine T. Gaisa, Eduard Burghardt, Tim C. de Ruijter, Sonja Gostek, Edgar Dahl, David Pfister, Sebastian C. Schmid, Ruth Knüchel and Michael Rose
    Citation: Clinical Epigenetics 2018 10:15
  46. MicroRNAs (miRNA) play a relevant role in carcinogenesis, cancer progression, invasion, and metastasis. Thus, they can serve as diagnostic/prognostic biomarkers. The knowledge on circulating miRNAs for clear c...

    Authors: Frauke G. Heinemann, Yuri Tolkach, Mario Deng, Doris Schmidt, Sven Perner, Glen Kristiansen, Stefan C. Müller and Jörg Ellinger
    Citation: Clinical Epigenetics 2018 10:11
  47. The dynamic methylation of human papillomavirus (HPV) 16 DNA is thought to be associated with the progression of cervical lesions. Previous studies that did not consider the physical status of HPV 16 may have ...

    Authors: Lu Liu, Chunmei Ying, Zhen Zhao, Long Sui, Xinyan Zhang, Chunyan Qian, Qing Wang, Limei Chen, Qisang Guo and Jiangnan Wu
    Citation: Clinical Epigenetics 2018 10:10