Cited by 1,199Epigenetics and DNA MethylationGenomics and Chromatin DynamicsCancer-related gene regulation

The DOI matches its Crossref record; 62 of the 62 references it cites were found in a registry or an index.

Gene Body Methylation Can Alter Gene Expression and Is a Therapeutic Target in Cancer

Open access

Yang, Xiaojing, Han, Han, De Carvalho, Daniel D., Lay, Fides D., Jones, Peter A., Liang, Gangning·2014·Cancer Cell

DOI 10.1016/j.ccr.2014.07.028PMC PMC4224113

Open this paper in CoChat — free account Open PDF

Abstract

DNA methylation in promoters is well known to silence genes and is the presumed therapeutic target of methylation inhibitors. Gene body methylation is positively correlated with expression, yet its function is unknown. We show that 5-aza-2'-deoxycytidine treatment not only reactivates genes but decreases the overexpression of genes, many of which are involved in metabolic processes regulated by c-MYC. Downregulation is caused by DNA demethylation of the gene bodies and restoration of high levels of expression requires remethylation by DNMT3B. Gene body methylation may, therefore, be an unexpected therapeutic target for DNA methylation inhibitors, resulting in the normalization of gene overexpression induced during carcinogenesis. Our results provide direct evidence for a causal relationship between gene body methylation and transcription.

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

Integrity signals

Registry

Crossref · 10.1016/j.ccr.2014.07.028

Cites

62 of 62 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Hallmarks of Cancer: The Next Generation
Hanahan, D., & Weinberg, R. A. (2011) · Cell · doi:10.1016/j.cell.2011.02.013 · Cited by 66,590
An integrated encyclopedia of DNA elements in the human genome
The ENCODE Project Consortium (2012) · Nature · doi:10.1038/nature11247 · Cited by 18,072
Functions of DNA methylation: islands, start sites, gene bodies and beyond
Jones, P. A. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3230 · Cited by 6,061
Self-citation
ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking
Wilkerson, M. D., & Hayes, D. N. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq170 · Cited by 5,645
Human DNA methylomes at base resolution show widespread epigenomic differences
Lister, R., Pelizzola, M., Dowen, R. H., Hawkins, R. D., Hon, G., Tonti-Filippini, J., Nery, J. R., Lee, L., Ye, Z., Ngo, Q.-M., et al. (2009) · Nature · doi:10.1038/nature08514 · Cited by 4,673
MYC on the Path to Cancer
Dang, C. V. (2012) · Cell · doi:10.1016/j.cell.2012.03.003 · Cited by 3,390
Metabolic Reprogramming: A Cancer Hallmark Even Warburg Did Not Anticipate
Ward, P. S., & Thompson, C. B. (2012) · Cancer Cell · doi:10.1016/j.ccr.2012.02.014 · Cited by 3,233
BET Bromodomain Inhibition as a Therapeutic Strategy to Target c-Myc
Delmore, J. E., Issa, G. C., Lemieux, M. E., Rahl, P. B., Shi, J., Jacobs, H. M., Kastritis, E., Gilpatrick, T., Paranal, R. M., Qi, J., et al. (2011) · Cell · doi:10.1016/j.cell.2011.08.017 · Cited by 2,888
A decade of exploring the cancer epigenome—biological and translational implications
Baylin, S. B., & Jones, P. A. (2011) · Nature Reviews Cancer · doi:10.1038/nrc3130 · Cited by 2,871
Self-citation
Cellular differentiation, cytidine analogs and DNA methylation
Jones, P. A., & Taylor, S. M. (1980) · Cell · doi:10.1016/0092-8674(80)90237-8 · Cited by 1,831
Self-citation

Flagged first, then by citations

Show all 62 references

Sorted by citations

Items 201–300 of 999

In Utero Exposure to a High-Fat Diet Programs Hepatic Hypermethylation and Gene Dysregulation and Development of Metabolic Syndrome in Male Mice
Seki, Y., Suzuki, M., Guo, X., Glenn, A. S., Vuguin, P. M., Fiallo, A., Du, Q., Ko, Y.-A., Yu, Y., Suszták, K., et al. (2017) · Endocrinology · doi:10.1210/en.2017-00334 · Cited by 54
SMYD2 promoter DNA methylation is associated with abdominal aortic aneurysm (AAA) and SMYD2 expression in vascular smooth muscle cells
collaborators, U., Toghill, B. J., Saratzis, A. N., Freeman, P., Sylvius, N. B., & Bown, M. J. (2018) · Clinical Epigenetics · doi:10.1186/s13148-018-0460-9 · Cited by 53
An integrated -omics analysis of the epigenetic landscape of gene expression in human blood cells
Kennedy, E. M., Goehring, G. N., Nichols, M. H., Robins, C., Mehta, D., Klengel, T., Eskin, E., Smith, A. K., & Conneely, K. N. (2018) · BMC Genomics · doi:10.1186/s12864-018-4842-3 · Cited by 50
Klotho suppresses colorectal cancer through modulation of the unfolded protein response
Rubinstein, T. A., Shahmoon, S., Zigmond, E., Etan, T., Merenbakh-Lamin, K., Pasmanik, M., Har-Zahav, G., Barshack, I., Vainer, G. W., Skalka, N., et al. (2018) · Oncogene · doi:10.1038/s41388-018-0489-4 · Cited by 53
Induction of DNMT3B by PGE2 and IL6 at Distant Metastatic Sites Promotes Epigenetic Modification and Breast Cancer Colonization
So, J. Y., Skrypek, N., Yang, H. H., Merchant, A. S., Nelson, G. W., Chen, W.-D. D., Ishii, H., Chen, J. M., Hu, G., Achyut, B. R., et al. (2020) · Cancer Research · doi:10.1158/0008-5472.can-19-3339 · Cited by 53
DNA methylation patterns identify subgroups of pancreatic neuroendocrine tumors with clinical association
Lakis, V., Lawlor, R. T., Newell, F., Patch, A., Mafficini, A., Sadanandam, A., Koufariotis, L. T., Johnston, R. L., Leonard, C., Wood, S., et al. (2021) · Communications Biology · doi:10.1038/s42003-020-01469-0 · Cited by 53
DNA Methylation Signatures of Bone Metabolism in Osteoporosis and Osteoarthritis Aging-Related Diseases: An Updated Review
Visconti, V. V., Cariati, I., Fittipaldi, S., Iundusi, R., Gasbarra, E., Tarantino, U., & Botta, A. (2021) · International Journal of Molecular Sciences · doi:10.3390/ijms22084244 · Cited by 53
Prostate Cancer Epigenetics: From Basic Mechanisms to Clinical ImplicationsPreprint
Yegnasubramanian, S., Marzo, A. M. D., & Nelson, W. G. (2018) · Cold Spring Harbor Perspectives in Medicine · doi:10.1101/cshperspect.a030445 · Cited by 53
Increased BDNF methylation in saliva, but not blood, of patients with borderline personality disorder
Thomas, M., Knoblich, N., Wallisch, A., Glowacz, K., Becker-Sadzio, J., Gundel, F., Brückmann, C., & Nieratschker, V. (2018) · Clinical Epigenetics · doi:10.1186/s13148-018-0544-6 · Cited by 51
Acute lymphoblastic leukemia displays a distinct highly methylated genome
Hetzel, S., Mattei, A. L., Kretzmer, H., Qu, C., Chen, X. '., Fan, Y., Wu, G., Roberts, K. G., Luger, S. M., Litzow, M. R., et al. (2022) · Nature Cancer · doi:10.1038/s43018-022-00370-5 · Cited by 52
An integrated analysis of genome‐wide DNA methylation and gene expression data in hepatocellular carcinoma
Sun, X., Wang, M., Zhang, F., & Kong, X. (2018) · FEBS Open Bio · doi:10.1002/2211-5463.12433 · Cited by 52
Exposure to polybrominated biphenyl (PBB) associates with genome-wide DNA methylation differences in peripheral blood
Curtis, S. W., Cobb, D. O., Kilaru, V., Terrell, M. L., Kennedy, E. M., Marder, M. E., Barr, D. B., Marsit, C. J., Marcus, M., Conneely, K. N., et al. (2019) · Epigenetics · doi:10.1080/15592294.2019.1565590 · Cited by 51
The evolving (epi)genetic landscape of pancreatic neuroendocrine tumours
Pipinikas, C., Berner, A., Sposito, T., & Thirlwell, C. (2019) · Endocrine Related Cancer · doi:10.1530/erc-19-0175 · Cited by 52
The role of DNA-demethylating agents in cancer therapy
Mehdipour, P., Murphy, T., & Carvalho, D. D. D. (2019) · Pharmacology & Therapeutics · doi:10.1016/j.pharmthera.2019.107416 · Cited by 55
Genome-wide detection of imprinted differentially methylated regions using nanopore sequencing
Akbari, V., Garant, J., O’Neill, K., Pandoh, P. K., Moore, R. A., Marra, M. A., Hirst, M., & Jones, S. J. M. (2022) · eLife · doi:10.7554/elife.77898 · Cited by 54
A DNA methylation signature discriminates between excellent and non-response to lithium in patients with bipolar disorder type 1
Cynthia Marie-claire, A., Lejeune, F., Mundwiller, E., Ulveling, D., Moszer, I., Bellivier, F., & Étain, B. (2020) · Scientific Reports · doi:10.1038/s41598-020-69073-0 · Cited by 50
Intragenic DNA methylation regulates insect gene expression and reproduction through the MBD/Tip60 complex
Xu, G., Lyu, H., Yi, Y., Peng, Y., Feng, Q., Song, Q., Gong, C., Peng, X., Palli, S. R., & Zheng, S. (2021) · iScience · doi:10.1016/j.isci.2021.102040 · Cited by 48
Epigenetic research in multiple sclerosis: progress, challenges, and opportunities
Zheleznyakova, G. Y., Piket, E., Marabita, F., Kakhki, M. P., Ewing, E., Ruhrmann, S., Needhamsen, M., Jagodic, M., & Kular, L. (2017) · Physiological Genomics · doi:10.1152/physiolgenomics.00060.2017 · Cited by 53
Nutritional Factors, DNA Methylation, and Risk of Type 2 Diabetes and Obesity: Perspectives and Challenges
Parrillo, L., Spinelli, R., Nicolò, A., Longo, M., Mirra, P., Raciti, G. A., Miele, C., & Bèguinot, F. (2019) · International Journal of Molecular Sciences · doi:10.3390/ijms20122983 · Cited by 52
Expression signature of six‐snoRNA serves as novel non‐invasive biomarker for diagnosis and prognosis prediction of renal clear cell carcinoma
Zhao, Y., Yan, Y., Ma, R., Lv, X., Zhang, L., Wang, J., Zhu, W., Zhao, L., Jiang, L., Zhao, L., et al. (2020) · Journal of Cellular and Molecular Medicine · doi:10.1111/jcmm.14886 · Cited by 47
Locus-level L1 DNA methylation profiling reveals the epigenetic and transcriptional interplay between L1s and their integration sites
Lanciano, S., Philippe, C., Sarkar, A., Pratella, D., Domrane, C., Doucet, A. J., van Essen, D., Saccani, S., Ferry, L., Defossez, P., et al. (2024) · Cell Genomics · doi:10.1016/j.xgen.2024.100498 · Cited by 58
Circadian gene methylation profiles are associated with obesity, metabolic disturbances and carbohydrate intake
Ramos-López, O., Samblas, M., Milagro, F. I., Riezu‐Boj, J. I., Crujeiras, A. B., Martínez, J. A., & MENA Project (2018) · Chronobiology International · doi:10.1080/07420528.2018.1446021 · Cited by 51
Mechanisms of DNA Methyltransferase Recruitment in Mammals
Laisné, M., Gupta, N., Kirsh, O., Pradhan, S., & Defossez, P. (2018) · Genes · doi:10.3390/genes9120617 · Cited by 58
SurvivalMeth: a web server to investigate the effect of DNA methylation-related functional elements on prognosis
Zhang, C., Zhao, N., Zhang, X., Xiao, J. Y., Li, J., Lv, D., Zhou, W., Li, Y., Xu, J., & Li, X. (2020) · Briefings in Bioinformatics · doi:10.1093/bib/bbaa162 · Cited by 49
Well-TEMP-seq as a microwell-based strategy for massively parallel profiling of single-cell temporal RNA dynamics
Lin, S., Yin, K., Zhang, Y., Lin, F., Chen, X., Zeng, X., Guo, X., Zhang, H., Song, J. T., & Yang, C. J. (2023) · Nature Communications · doi:10.1038/s41467-023-36902-5 · Cited by 46
Fine-tuning of gene expression through the Mettl3-Mettl14-Dnmt1 axis controls ESC differentiation
Quarto, G., Li Greci, A., Bizet, M., Penning, A., Primac, I., Murisier, F., Garcia-Martinez, L., Borges, R. L., Gao, Q., Cingaram, P. K. R., et al. (2025) · Cell · doi:10.1016/j.cell.2024.12.009 · Cited by 50
Systematic DNA methylation analysis of multiple cell lines reveals common and specific patterns within and across tissues of origin
Yang, X., Shao, X., Gao, L., & Zhang, S. (2015) · Human Molecular Genetics · doi:10.1093/hmg/ddv172 · Cited by 48
Self-citation
Chronic adolescent stress sex-specifically alters the hippocampal transcriptome in adulthood
Rowson, S. A., Bekhbat, M., Kelly, S. D., Binder, E. B., Hyer, M. M., Shaw, G. A., Bent, M. A. M., Hodes, G. E., Tharp, G. K., Weinshenker, D., et al. (2019) · Neuropsychopharmacology · doi:10.1038/s41386-019-0321-z · Cited by 53
Signaling pathways and clinical application of RASSF1A and SHOX2 in lung cancer
Li, N., Zeng, Y., & Huang, J. (2020) · Journal of Cancer Research and Clinical Oncology · doi:10.1007/s00432-020-03188-9 · Cited by 51
Transcriptional and post-transcriptional controls for tuning gene expression in plants
Zhong, V., Archibald, B. N., & Brophy, J. A. N. (2022) · Current Opinion in Plant Biology · doi:10.1016/j.pbi.2022.102315 · Cited by 48
The potential role of DNA methylation in the pathogenesis of abdominal aortic aneurysm
Toghill, B. J., Saratzis, A. N., Harrison, S. C., Verissimo, A. R., Mallon, E. B., & Bown, M. J. (2015) · Atherosclerosis · doi:10.1016/j.atherosclerosis.2015.05.001 · Cited by 50
Inhibition of DNMT suppresses the stemness of colorectal cancer cells through down-regulating Wnt signaling pathway
Li, S., Han, Z., Zhao, N., Zhu, B., Zhang, Q., Yang, X. F., Sheng, D., Hou, J., Guo, S., Wei, L., et al. (2018) · Cellular Signalling · doi:10.1016/j.cellsig.2018.03.014 · Cited by 49
Self-citation
Predicting gene expression using DNA methylation in three human populations
Zhong, H., Kim, S., Zhi, D., & Cui, X. (2019) · PeerJ · doi:10.7717/peerj.6757 · Cited by 47
DNA methyltransferase 3A controls intestinal epithelial barrier function and regeneration in the colon
Fazio, A., Bordoni, D., Kuiper, J. W., Weber‐Stiehl, S., Stengel, S. T., Arnold, P., Ellinghaus, D., Ito, G., Tran, F., Messner, B., et al. (2022) · Nature Communications · doi:10.1038/s41467-022-33844-2 · Cited by 52
Epigenomic Blood-Based Early Detection of Pancreatic Cancer Employing Cell-Free DNA
Haan, D., Bergamaschi, A., Friedl, V., Guler, G. D., Ning, Y., Reggiardo, R. E., Kesling, M., Collins, M., Gibb, B., Hazen, K., et al. (2023) · Clinical Gastroenterology and Hepatology · doi:10.1016/j.cgh.2023.03.016 · Cited by 47
Emerging technologies for studying DNA methylation for the molecular diagnosis of cancer
Marzese, D. M., & Hoon, D. S. �. (2015) · Expert Review of Molecular Diagnostics · doi:10.1586/14737159.2015.1027194 · Cited by 47
DNA methylation of METTL7A gene body regulates its transcriptional level in thyroid cancer
Zhou, S., Shen, Y., Zheng, M. H., Wang, L., Che, R., Hu, W., & Li, P. (2017) · Oncotarget · doi:10.18632/oncotarget.16147 · Cited by 47
DNA methylation of candidate genes in peripheral blood from patients with type 2 diabetes or the metabolic syndrome
van Otterdijk, S. D., Binder, A. M., Szic, K. S. V., Schwald, J., & Michels, K. B. (2017) · PLoS ONE · doi:10.1371/journal.pone.0180955 · Cited by 48
MethHC 2.0: information repository of DNA methylation and gene expression in human cancer
Huang, H., Li, J., Huang, Y., Huang, Y.-X., Chen, Y.-G., Xie, Y., Zhou, Z.-Y., Chen, X., Ding, S.-Y., Luo, M.-F., et al. (2020) · Nucleic Acids Research · doi:10.1093/nar/gkaa1104 · Cited by 47
The transition from acute to chronic pain: dynamic epigenetic reprogramming of the mouse prefrontal cortex up to 1 year after nerve injury
Topham, L., Grégoire, S., Kang, H., Salmon‐Divon, M., Lax, E., Millecamps, M., Szyf, M., & Stone, L. S. (2020) · Pain · doi:10.1097/j.pain.0000000000001917 · Cited by 48
ITPKA Gene Body Methylation Regulates Gene Expression and Serves as an Early Diagnostic Marker in Lung and Other Cancers
Wang, Y.-W., Ma, X., Zhang, Y.-A., Wang, M.-J., Yatabe, Y., Lam, S. C., Girard, L., Chen, J.-Y., & Gazdar, A. F. (2016) · Journal of Thoracic Oncology · doi:10.1016/j.jtho.2016.05.010 · Cited by 46
Genome‐wide DNA methylation profiling of peripheral blood mononuclear cells in irritable bowel syndrome
Mahurkar‐Joshi, S., Polytarchou, C., Iliopoulos, D., Pothoulakis, C., Mayer, E. A., & Chang, L. (2015) · Neurogastroenterology & Motility · doi:10.1111/nmo.12741 · Cited by 45
Epigenetic regulation of hematopoiesis by DNA methylation
Gore, A. V., Athans, B., Iben, J., Johnson, K., RUSSANOVA, V. R., Castranova, D., Pham, V. N., Butler, M. G., Williams‐Simons, L., Nichols, J. T., et al. (2016) · eLife · doi:10.7554/elife.11813 · Cited by 44
Integrative modelling of tumour DNA methylation quantifies the contribution of metabolism
Mehrmohamadi, M., Mentch, L., Clark, A. G., & Locasale, J. W. (2016) · Nature Communications · doi:10.1038/ncomms13666 · Cited by 49
Epigenetic Regulation of Adult Myogenesis
Robinson, D. C. L., & Dilworth, F. J. (2017) · Current topics in developmental biology/Current Topics in Developmental Biology · doi:10.1016/bs.ctdb.2017.08.002 · Cited by 43
Epigenetics of Bladder Cancer: Where Biomarkers and Therapeutic Targets Meet
Martínez, V. G., Munera-Maravilla, E., Bernardini, A., Rubio, C., Suárez-Cabrera, C., Segovia, C., Lodewijk, I., Dueñas, M., Martínez‐Fernández, M., & Paramio, J. M. (2019) · Frontiers in Genetics · doi:10.3389/fgene.2019.01125 · Cited by 45
Natural, modified DNA bases
Bilyard, M. K., Becker, S. M., & Balasubramanian, S. (2020) · Current Opinion in Chemical Biology · doi:10.1016/j.cbpa.2020.01.014 · Cited by 45
Epigenetic Regulation: A Link between Inflammation and Carcinogenesis
Vezzani, B., Carinci, M., Previati, M., Giacovazzi, S., Sala, M. D., Gafà, R., Lanza, G., Wieckowski, M. R., Pinton, P., & Giorgi, C. (2022) · Cancers · doi:10.3390/cancers14051221 · Cited by 50
Epigenetic Changes in the Regulation of Nicotiana tabacum Response to Cucumber Mosaic Virus Infection and Symptom Recovery through Single-Base Resolution Methylomes
Wang, C., Wang, C., Xu, W., Zou, J., Qiu, Y., Kong, J., Yang, Y., Zhang, B., & Zhu, S. (2018) · Viruses · doi:10.3390/v10080402 · Cited by 42
Genome-wide DNA Methylation and RNAseq Analyses Identify Aberrant Signalling Pathways in Focal Cortical Dysplasia (FCD) Type II
Dixit, A. B., Sharma, D., Tripathi, M., Srivastava, A., Paul, D., Prakash, D., Sarkar, C., Kumar, K., Banerjee, J., & Chandra, P. S. (2018) · Scientific Reports · doi:10.1038/s41598-018-35892-5 · Cited by 44
Overview of DNA methylation in adult diffuse gliomas
Aoki, K., & Natsume, A. (2019) · Brain Tumor Pathology · doi:10.1007/s10014-019-00339-w · Cited by 45
DNA Methylation and Immune Memory Response
Mittelstaedt, N. N., Becker, A. L., de Freitas, D. N., Zanin, R. F., Stein, R. T., & de Souza, A. P. D. (2021) · Cells · doi:10.3390/cells10112943 · Cited by 45
Epigenetic therapy restores normal hematopoiesis in a zebrafish model of NUP98–HOXA9-induced myeloid disease
Deveau, A. P., Forrester, A. M., Coombs, A. J., Wagner, G. S., Grabher, C., Chute, I. C., Léger, D., Mingay, M., Alexe, G., Rajan, V., et al. (2015) · Leukemia · doi:10.1038/leu.2015.126 · Cited by 43
DNA Methylation Machinery in the Endometrium and Endometrial Cancer
CAPLAKOVA, V., Babušíková, E., Blahovcova, E., Balhárek, T., Zelieskova, M., & Hatok, J. (2016) · Anticancer Research · doi:10.21873/anticanres.10984 · Cited by 43
Catalytically inactive Dnmt3b rescues mouse embryonic development by accessory and repressive functions
Nowialis, P., Lopušná, K., Opavska, J., Haney, S. L., Abraham, A., Sheng, P., Riva, A., Natarajan, A., Guryanova, O. A., Simpson, M. A., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-12355-7 · Cited by 46
Genome‐wide DNA methylation profiling and identification of potential pan‐cancer and tumor‐specific biomarkers
Ibrahim, J., de Beeck, K. O., Fransén, E., Peeters, M., & Camp, G. V. (2022) · Molecular Oncology · doi:10.1002/1878-0261.13176 · Cited by 42
Select EZH2 inhibitors enhance viral mimicry effects of DNMT inhibition through a mechanism involving NFAT:AP-1 signaling
Chomiak, A. A., Tiedemann, R. L., Liu, Y., Kong, X., Cui, Y., Wiseman, A. K., Thurlow, K. E., Cornett, E. M., Topper, M. J., Baylin, S. B., et al. (2024) · Science Advances · doi:10.1126/sciadv.adk4423 · Cited by 44
Integrative omics reveals MYCN as a global suppressor of cellular signalling and enables network-based therapeutic target discovery in neuroblastoma
Duffy, D. J., Krstić, A., Halász, M., Schwarzl, T., Fey, D., Iljin, K., Mehta, J. P., Killick, K. E., Whilde, J., Turriziani, B., et al. (2015) · Oncotarget · doi:10.18632/oncotarget.6568 · Cited by 42
Modulation of mitochondrial DNA copy number in a model of glioblastoma induces changes to DNA methylation and gene expression of the nuclear genome in tumours
Sun, X., & John, J. C. S. (2018) · Epigenetics & Chromatin · doi:10.1186/s13072-018-0223-z · Cited by 42
Hypermethylator Phenotype and Ectopic GIP Receptor in GNAS Mutation-Negative Somatotropinomas
Hage, M. P., Chaligné, R., Viengchareun, S., Villa, C., Salenave, S., Bouligand, J., Letouzé, É., Tosca, L., Rouquette, A., Tachdjian, G., et al. (2018) · The Journal of Clinical Endocrinology & Metabolism · doi:10.1210/jc.2018-01504 · Cited by 42
DNA methylation identifies genetically and prognostically distinct subtypes of myelodysplastic syndromes
Reilly, B. M., Tanaka, T. N., Diep, D. H., Yeerna, H., Tamayo, P., Zhang, K., & Bejar, R. L. (2019) · Blood Advances · doi:10.1182/bloodadvances.2019000192 · Cited by 43
Exploratory analysis of age and sex dependent DNA methylation patterns on the X-chromosome in whole blood samples
Li, S., Lund, J., Christensen, K., Baumbach, J., Mengel‐From, J., Kruse, T. A., Li, W., Mohammadnejad, A., Pattie, A., Marioni, R. E., et al. (2020) · Genome Medicine · doi:10.1186/s13073-020-00736-3 · Cited by 42
Genome-wide DNA methylation patterns reveal clinically relevant predictive and prognostic subtypes in human osteosarcoma
Lietz, C. E., Newman, E. T., Kelly, A. D., Xiang, D. H., Zhang, Z., Luscko, C. A., Lozano‐Calderón, S. A., Ebb, D. H., Raskin, K. A., Cote, G. M., et al. (2022) · Communications Biology · doi:10.1038/s42003-022-03117-1 · Cited by 45
Dnmt1, Dnmt3a and Dnmt3b cooperate in photoreceptor and outer plexiform layer development in the mammalian retina
Singh, R. K., Mallela, R. K., Moye, A. R., Dunham, N. R., Hedden, M., Enke, R. A., Fariss, R. N., Sternberg, H., West, M. D., & Nasonkin, I. O. (2016) · Experimental Eye Research · doi:10.1016/j.exer.2016.11.014 · Cited by 43
DNMT3A overexpression is associated with aggressive behavior and enteroblastic differentiation of gastric adenocarcinoma
Kataoka, I., Funata, S., Nagahama, K., Isogaya, K., Takeuchi, H., Abe, N., & Shibahara, J. (2019) · Annals of Diagnostic Pathology · doi:10.1016/j.anndiagpath.2019.151456 · Cited by 40
The potential of epigenetic therapy to target the 3D epigenome in endocrine-resistant breast cancer
Achinger-Kawecka, J., Stirzaker, C., Portman, N., Campbell, E. M., Chia, K.-M., Du, Q., Laven‐Law, G., Nair, S. S., Yong, A., Wilkinson, A., et al. (2024) · Nature Structural & Molecular Biology · doi:10.1038/s41594-023-01181-7 · Cited by 46
Epigenomic profiling of prostate cancer identifies differentially methylated genes in TMPRSS2:ERG fusion-positive versus fusion-negative tumors
Geybels, M. S., Alumkal, J. J., Luedeke, M., Rinckleb, A. E., Zhao, S., Shui, I. M., Bibikova, M. V., Klotzle, B., van den Brandt, P. A., Ostrander, E. A., et al. (2015) · Clinical Epigenetics · doi:10.1186/s13148-015-0161-6 · Cited by 41
Loss of Dnmt3b accelerates MLL-AF9 leukemia progression
Zheng, Y., Zhang, H., Wang, Y., Li, X., Lu, P., Dong, F., Pang, Y., Ma, S., Cheng, H., Hao, S., et al. (2016) · Leukemia · doi:10.1038/leu.2016.112 · Cited by 41
Goldmine integrates information placing genomic ranges into meaningful biological contexts
Bhasin, J., & Ting, A. H. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkw477 · Cited by 41
Body-hypomethylated human genes harbor extensive intragenic transcriptional activity and are prone to cancer-associated dysregulation
Mendizabal, I., Zeng, J., Keller, T. E., & Yi, S. V. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkx020 · Cited by 40
Comprehensive characterization of DNA methylation changes in Fuchs endothelial corneal dystrophy
Khuc, E., Bainer, R. O., Wolf, M., Clay, S. M., Weisenberger, D. J., Kemmer, J. D., Weaver, V. M., Hwang, D. G., & Chan, M. F. (2017) · PLoS ONE · doi:10.1371/journal.pone.0175112 · Cited by 44
DNA Methylation Targets Influenced by Bisphenol A and/or Genistein Are Associated with Survival Outcomes in Breast Cancer Patients
Jadhav, R. R., Santucci-Pereira, J., Wang, Y., Liu, J., Nguyen, T. H.-A., Wang, J., Jenkins, S. B., Russo, J., Huang, T. H. ‐., Jin, V. X., et al. (2017) · Genes · doi:10.3390/genes8050144 · Cited by 43
The development and validation of EpiComet‐Chip, a modified high‐throughput comet assay for the assessment of DNA methylation status
Townsend, T. A., Parrish, M. C., Engelward, B. P., & Manjanatha, M. G. (2017) · Environmental and Molecular Mutagenesis · doi:10.1002/em.22101 · Cited by 42
DNA methylation changes in human lung epithelia cells exposed to multi-walled carbon nanotubes
Sierra, M., Rubio, L., Bayón, G. F., Cobo, I., Menéndez, P. R., Morales-Sánchez, P., Mangas, C., Urdinguio, R. G., López, V., Valdes, A., et al. (2017) · Nanotoxicology · doi:10.1080/17435390.2017.1371350 · Cited by 42
Targeting DNA methyltransferases in non-small-cell lung cancer
Al-Yozbaki, M., Jabre, I., Syed, N. H., & Wilson, C. M. (2021) · Seminars in Cancer Biology · doi:10.1016/j.semcancer.2021.01.005 · Cited by 42
IDH Inhibitors and Beyond: The Cornerstone of Targeted Glioma Treatment
Gatto, L., Franceschi, E., Tosoni, A., Nunno, V. D., Maggio, I., Lodi, R., & Brandes, A. A. (2021) · Molecular Diagnosis & Therapy · doi:10.1007/s40291-021-00537-3 · Cited by 44
The Potential Role of DNA Methylation in Abdominal Aortic Aneurysms
Ryer, E. J., Ronning, K. E., Erdman, R., Schworer, C. M., Elmore, J. R., Peeler, T. C., Nevius, C. D., Lillvis, J. H., Garvin, R. P., Franklin, D. P., et al. (2015) · International Journal of Molecular Sciences · doi:10.3390/ijms160511259 · Cited by 40
Global DNA methylation patterns in Barrett’s esophagus, dysplastic Barrett’s, and esophageal adenocarcinoma are associated with BMI, gender, and tobacco use
Kaz, A. M., Wong, C.-J., Varadan, V., Willis, J. E., Chak, A., & Grady, W. M. (2016) · Clinical Epigenetics · doi:10.1186/s13148-016-0273-7 · Cited by 40
Genome-wide DNA methylation and transcriptome analyses reveal genes involved in immune responses of pig peripheral blood mononuclear cells to poly I:C
Wang, H., Wang, J., Ning, C., Zheng, X., Fu, J., Wang, A., Zhang, Q., & Liu, J. (2017) · Scientific Reports · doi:10.1038/s41598-017-10648-9 · Cited by 42
MethGET: web-based bioinformatics software for correlating genome-wide DNA methylation and gene expression
Teng, C.-S., Wu, B., Yen, M., & Chen, P. (2020) · BMC Genomics · doi:10.1186/s12864-020-6722-x · Cited by 40
Single-cell analysis of transcriptome and DNA methylome in human oocyte maturation
Yu, B., Jayavelu, N. D., Battle, S. L., Smith, T. H., Zimmerman, S. E., Schimmel, T., Cohen, J., Mar, J. C., & Hawkins, R. D. (2020) · PLoS ONE · doi:10.1371/journal.pone.0241698 · Cited by 45
Integrative survival analysis of breast cancer with gene expression and DNA methylation data
Bichindaritz, I., Liu, G., & Bartlett, C. (2021) · Bioinformatics · doi:10.1093/bioinformatics/btab140 · Cited by 41
The kidney and hypertension: over 70 years of research
Campese, V. M., & Park, J. (2006) · Journal of Nephrology · doi:10.1093/joneph/19.6.691 · Cited by 40
Epigenetic clocks provide clues to the mystery of uterine ageing
Deryabin, P. I., & Borodkina, A. V. (2022) · Human Reproduction Update · doi:10.1093/humupd/dmac042 · Cited by 40
UHRF1 inhibition epigenetically reprograms cancer stem cells to suppress the tumorigenic phenotype of hepatocellular carcinoma
Wang, Y., Hu, P., Wang, F., Xi, S., Wu, S., Sun, L.-Z., Du, Y., Zheng, J., Yang, H., Tang, M., et al. (2023) · Cell Death and Disease · doi:10.1038/s41419-023-05895-w · Cited by 40
Spatial joint profiling of DNA methylome and transcriptome in tissues
Lee, C. N., Fu, H., Cardilla, A., Zhou, W., & Deng, Y. (2025) · Nature · doi:10.1038/s41586-025-09478-x · Cited by 42
DNA Methylation–Targeted Drugs
Costa, E. M. D., McInnes, G., Beaudry, A., & Raynal, N. J. ‐. (2017) · The Cancer Journal · doi:10.1097/ppo.0000000000000278 · Cited by 42
Loss of Dnmt3b in Chondrocytes Leads to Delayed Endochondral Ossification and Fracture Repair
Wang, C., Abu‐Amer, Y., O’Keefe, R. J., & Shen, J. (2017) · Journal of Bone and Mineral Research · doi:10.1002/jbmr.3305 · Cited by 39
Nc886 is epigenetically repressed in prostate cancer and acts as a tumor suppressor through the inhibition of cell growth
Fort, R. S., Mathó, C., Geraldo, M. V., Ottati, M. C., Yamashita, A. S., Saito, K. C., Leite, K. R. M., Méndez, M., Maedo, N., Méndez, L., et al. (2018) · BMC Cancer · doi:10.1186/s12885-018-4049-7 · Cited by 39
Integrative analysis of methylomic and transcriptomic data in fetal sheep muscle tissues in response to maternal diet during pregnancy
Namous, H., Peñagaricano, F., Corvo, M. D., Capra, E., Thomas, D. L., Stella, A., Williams, J. L., Ajmone‐Marsan, P., & Khatib, H. (2018) · BMC Genomics · doi:10.1186/s12864-018-4509-0 · Cited by 39
Obesogen effect of bisphenol S alters mRNA expression and DNA methylation profiling in male mouse liver
Brulport, A., Vaiman, D., Chagnon, M., & Corre, L. L. (2019) · Chemosphere · doi:10.1016/j.chemosphere.2019.125092 · Cited by 39
DNA Methylation and Establishing Memory
Bernstein, C. (2022) · Epigenetics Insights · doi:10.1177/25168657211072499 · Cited by 37
Role of epigenomic mechanisms in the onset and management of insulin resistance
Izquierdo, A. G., & Crujeiras, A. B. (2019) · Reviews in Endocrine and Metabolic Disorders · doi:10.1007/s11154-019-09485-0 · Cited by 39
Profiling the genome-wide DNA methylation pattern of porcine ovaries using reduced representation bisulfite sequencing
Yuan, X., Gao, N., Xing, Y., Zhang, H.-B., Zhang, A., Liu, J., He, J., Xu, Y., Lin, W.-M., Chen, Z.-M., et al. (2016) · Scientific Reports · doi:10.1038/srep22138 · Cited by 40
Discovering DNA methylation patterns for long non-coding RNAs associated with cancer subtypes
Ma, X., Yu, L., Wang, P., & Yang, X. (2017) · Computational Biology and Chemistry · doi:10.1016/j.compbiolchem.2017.03.014 · Cited by 38
Self-citation
DNA methylation rather than single nucleotide polymorphisms regulates the production of an aberrant splice variant of IL6R in mastitic cows
Zhang, Y., Wang, X., Jiang, Q., Hao, H., Ju, Z., Yang, C., Sun, Y., Wang, C., Zhong, J., Huang, J., et al. (2018) · Cell Stress and Chaperones · doi:10.1007/s12192-017-0871-0 · Cited by 38
The Seagrass Methylome Is Associated With Variation in Photosynthetic Performance Among Clonal Shoots
Jueterbock, A. O., Boström, C., Coyer, J. A., Olsen, J., Kopp, M., Dhanasiri, A. K. S., Smolina, I., Arnaud‐Haond, S., de Peer, Y. V., & Hoarau, G. G. (2020) · Frontiers in Plant Science · doi:10.3389/fpls.2020.571646 · Cited by 44
Alcohol consumption, depression, overweight and cortisol levels as determining factors for NR3C1 gene methylation
Pinheiro, J. D. A., Freitas, F. V., Borçoi, A. R., Mendes, S. O., Conti, C. L., Arpini, J. K., Vieira, T. D. S., de Souza, R. A., dos Santos, D. P., Barbosa, W. M., et al. (2021) · Scientific Reports · doi:10.1038/s41598-021-86189-z · Cited by 39
Methylation levels of P16 and TP53 that are involved in DNA strand breakage of 16HBE cells treated by hexavalent chromium
Hu, G., Li, P., Li, Y., Wang, T., Gao, X., Zhang, W., & Jia, G. (2016) · Toxicology Letters · doi:10.1016/j.toxlet.2016.03.003 · Cited by 39
Emerging Roles of Vitamin B12 in Aging and Inflammation
Simonenko, S. Y., Bogdanova, D. A., & Kuldyushev, N. A. (2024) · International Journal of Molecular Sciences · doi:10.3390/ijms25095044 · Cited by 41

Authors: Yang, X., Han, H., De Carvalho, D. D., Lay, F. D., Jones, P. A., & Liang, G.
Affiliations: University of Southern California (US)
Corresponding author: Jones, Peter A.
Liang, Gangning
ORCID: Yang, Xiaojing
Han, Han
Jones, Peter A.
Liang, Gangning
Venue: Cancer Cell
Publisher: Elsevier BV
Published: 2014-10
Volume: 26
Issue: 4
Pages: 577-590
ISSN: 1535-6108 (ISSN-L)
DOI: 10.1016/j.ccr.2014.07.028
PMC: PMC4224113
OpenAlex: W2055986128
Cited by: 1,199
References: 62
Citations by year: 2026: 61 · 2025: 77 · 2024: 104 · 2023: 109 · 2022: 105 · 2021: 120 · 2020: 120 · 2019: 134 · 2018: 128 · 2017: 97 · 2016: 79 · 2015: 55 · 2014: 8
FWCI: 32.82
Type: journal article
Language: en
Open access: bronze
doi.org
Licence: www.elsevier.com/tdm/userlicense/1.0/ (tdm)
www.elsevier.com/open-access/userlicense/1.0/ (vor, 377 d)
Locations: Cancer Cell (publishedVersion)
PubMed (publishedVersion)
Europe PMC (PubMed Central) (acceptedVersion)
PubMed Central (acceptedVersion)
Funders: Princess Margaret Cancer Foundation
National Institutes of Health
National Cancer Institute (R01CA170550, R01CA124518, R01CA082422, P30CA014089, R37CA082422)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Cancer-related gene regulation
Keywords: gene body methylation, DNA methylation, decitabine, DNA demethylation, DNMT3B, c-Myc, gene overexpression, transcriptional regulation, DNA methylation inhibitors, cancer therapy, carcinogenesis, metabolic genes
MeSH terms: Cell Division, Colonic Neoplasms, Humans, Promoter Regions, Genetic, Gene Expression, DNA Methylation

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review

Gene Body Methylation Can Alter Gene Expression and Is a Therapeutic Target in Cancer

Abstract

Overview

Integrity signals

Verification

Claims the paper makes

Claims other papers make about this one

Self-check

Citations

Cites

Cited by

Related

Metadata

Record

About these checks