Review
Genetics & Heredity
John P. Brabson, Tiffany Leesang, Sofia Mohammad, Luisa Cimmino
Summary: DNA methylation is regulated by TET enzymes through oxidation, while vitamin C acts as a cofactor to promote DNA demethylation. This interaction plays a crucial role in maintaining genomic stability.
FRONTIERS IN GENETICS
(2021)
Article
Chemistry, Analytical
Zi-yue Wang, Huimin Yuan, Dong-ling Li, Juan Hu, Jian-Ge Qiu, Chun-yang Zhang
Summary: In this study, a ligation-mediated nanosensor was developed for sensitive quantification of 5hmC modification in cancer cells. The nanosensor showed excellent specificity and high amplification efficiency, and could detect as low as 0.001% 5hmC DNA in complex mixtures. It also had the ability to monitor cellular 5hmC level and distinguish cancer cells from normal cells.
ANALYTICAL CHEMISTRY
(2022)
Article
Developmental Biology
Pooja Sagvekar, Gayatri Shinde, Vijay Mangoli, Sadhana K. Desai, Srabani Mukherjee
Summary: This study identifies alterations in DNA methylation and demethylation levels in cumulus granulosa cells (CGCs) of women with polycystic ovary syndrome (PCOS), and demonstrates a correlation between these alterations and the expression levels of DNA methylating and demethylating enzymes. These findings suggest that the development of PCOS may be linked to intrinsic changes in the transcriptional regulation of these enzymes.
MOLECULAR HUMAN REPRODUCTION
(2022)
Article
Developmental Biology
Xiaohong Wang, Aaron L. Sarver, Qiyuan Han, Christopher L. Seiler, Chencheng Xie, Huarui Lu, Colleen L. Forster, Natalia Y. Tretyakova, Timothy C. Hallstrom
Summary: This study reveals a novel role of UHRF2 in controlling the transition from retinal progenitor cells to differentiated cells by regulating cell cycle, epigenetic changes, and gene expression decisions.
Review
Oncology
Bo Xu, Hao Wang, Li Tan
Summary: Both genetic and epigenetic mechanisms contribute to breast cancer pathogenesis. Aberrant 5mC oxidation and dysregulated TET family genes are associated with diseases, including breast cancer, playing critical roles in various physiological and pathophysiological processes. The impacts of these alterations have been extensively investigated in the past decade.
Article
Chemistry, Multidisciplinary
Yang Feng, Juan-Juan Chen, Neng-Bin Xie, Jiang-Hui Ding, Xue-Jiao You, Wan-Bing Tao, Xiaoxue Zhang, Chengqi Yi, Xiang Zhou, Bi-Feng Yuan, Yu-Qi Feng
Summary: DNA cytosine methylation, specifically 5mC, is a crucial epigenetic process in higher eukaryotes, regulated by DNMTs, TET, and TDG. Active demethylation of 5mC can occur through the TET-TDG-BER pathway or direct decarboxylation of 5caC, both of which may impact genome integrity.
Article
Virology
Claudia E. Oropeza, Grant Tarnow, Taha Y. Taha, Rasha E. Shalaby, Marieta V. Hyde, Mark Maienschein-Cline, Stefan J. Green, Alan McLachlan
Summary: Research indicates that HBV biosynthesis increases during early postnatal liver development, correlating with the loss of DNA methylation. Increased activity of FoxA and Tet is associated with HBV gene expression, while decreased Dnmt leads to demethylation of HBV DNA.
JOURNAL OF VIROLOGY
(2021)
Article
Medicine, General & Internal
Xin-Xin Yan, Na Guo, Song-Wei Ru, Zhi-Yuan Wang, Hai-Juan Sui, Yin-Shi Xu, Zhen-Dan Yao
Summary: The incidence and mortality of colon cancer are increasing, and effective biomarkers for its diagnosis are limited. This study aimed to identify the predictors of colon cancer prognosis by detecting the levels of 5mC, 5hmC, 5fC, and 5caC in colon cancer and adjacent non-tumor tissues. The results showed that 5mC and 5hmC can serve as biomarkers for colon cancer and are stable predictors and therapeutic targets.
Article
Biochemistry & Molecular Biology
Paulina Kolodziej-Wojnar, Joanna Borkowska, Zofia Wicik, Anna Domaszewska-Szostek, Jacek Polosak, Marta Cakala-Jakimowicz, Olga Bujanowska, Monika Puzianowska-Kuznicka
Summary: The distribution of 5hmC in DNA of in vivo aged human fibroblasts underwent age-associated modifications, and the identified DHMRs are likely marker changes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Janina Licyte, Kotryna Kvederaviciute, Audrone Ruksenaite, Egle Godliauskaite, Povilas Gibas, Vita Tomkute, Grazina Petraityte, Viktoras Masevicius, Saulius Klimasauskas, Edita Kriukiene
Summary: This study systematically investigated the content and distribution of oxi-mCs in the DNA and RNA of the fungi Laccaria bicolor and Coprinopsis cinerea, revealing their significant roles in gene expression regulation and transposable element silencing.
Review
Biochemistry & Molecular Biology
Marion Turpin, Gilles Salbert
Summary: DNA methylation is a highly dynamic process regulated by the cooperative actions of DNMT and TET enzymes, influenced by factors such as chromatin environment and protein partners. Mathematical models can help explain variable methylation levels during development and reveal cell-type epigenetic heterogeneity. These discoveries hold significant implications for disease treatment and the development of epigenetic drugs.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Article
Cell & Tissue Engineering
Shaohai Fang, Dan Cui, Tingting Hong, Lei Guo, Yi-Tsang Lee, Minjung Lee, Sevinj Isgandarova, Margarita Martinez-Moczygemba, Yubin Zhou, Jia Li, Yun Huang
Summary: This study investigates the role of Ten-eleven Translocation (TET) dioxygenases in the differentiation of embryonic stem cells (ESCs). The researchers found that the depletion of Tet1 and Tet2 significantly impairs the differentiation of mouse ESCs into cardiac progenitor cells. It was also discovered that Tet deletion leads to the accumulation of mesoderm progenitors, which hampers cardiac differentiation.
Article
Chemistry, Analytical
Sitian He, Songcheng Yu, Yinhua Feng, Leiliang He, Lie Liu, Clement Yaw Effah, Yongjun Wu
Summary: This study aimed to develop an ultrasensitive and specific immunosorbent assay for simultaneous detection of double DNA methylation marks. The approach showed low detection limits and a wide dynamic range for the detection of 5mC and 5hmC, as well as good specificity, repeatability, and stability.
ANALYTICA CHIMICA ACTA
(2022)
Article
Biochemistry & Molecular Biology
Lu Gao, Zhou Zhang, Xiao-Long Cui, Diana West-Szymanski, Chang Ye, Chuan He, Wei Zhang, Marc Bissonnette
Summary: In this study, we compared the compatibility of heparin and EDTA as anticoagulants for 5hmC Seal assay. Our findings demonstrate that heparin is a viable alternative to EDTA for generating genome-wide 5hmC profiling. This expands the potential use of heparin samples in epigenetic research.
Article
Cell Biology
Zhangting Wang, Kai-Kei Miu, See-Wing Chan, Fanghong Ou, Patrick Wai-Nok Law, Wai-Yee Chan
Summary: In this study, scientists used an in vitro model to differentiate mouse embryonic stem cells and investigated the genome-wide distribution and impact of 5hmC during neuronal differentiation. They found that 5hmC was associated with gene activation and repression, and identified phosphatase and tensin homolog (Pten) as a key regulator for neuronal development. Additionally, thousands of differentially hydroxymethylated regions (DhMRs) were identified during differentiation, which were associated with neurogenesis and signal transduction. Combinational analysis also revealed Pten as a toggle to modulate mitochondrial associated pathways.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Meeting Abstract
Oncology
Hamzah Abu-Sbeih, Faisal Ali, Abdul Rafeh Naqash, Dwight Hall Owen, Sandip H. Patel, Gregory Alan Otterson, Kari Lynn Kendra, Biagio Ricciuti, Rita Chiari, Andrea De Giglio, Joseph Sleiman, Pauline Funchain, Wills Beatriz, Jiajia Zhang, Jarushka Naidoo, Jessica Philpott, Jianjun Gao, Sumit Kumar Subudhi, Yinghong Wang
JOURNAL OF CLINICAL ONCOLOGY
(2019)
Meeting Abstract
Oncology
Abdul Rafeh Naqash, Paul R. Walker, Mahvish Muzaffar, Rebecca Feldman, Maida Hafiz, Stephen V. Liu, Hirva Mamdani, Anokhi Patel, Hossein Borghaei, Nitika Sharma, Jorge J. Nieva, Yanis Boumber, Ari M. Vanderwalde, Patrick C. Ma, Ihab Eldessouki, David Craig Portnoy, Alexander I. Spira, Li V. Yang, Nagla Fawzy Abdel Karim
JOURNAL OF CLINICAL ONCOLOGY
(2019)
Meeting Abstract
Oncology
G. Bravo Montenegro, M. Nagasaka, P. Ma, A. R. Naqash, H. Mamdani, A. Spira, D. Subramaniam, R. Feldman, C. Kim
JOURNAL OF THORACIC ONCOLOGY
(2019)
Article
Oncology
Abdul Rafeh Naqash, Biagio Ricciuti, Dwight H. Owen, Vaia Florou, Yukihiro Toi, Cynthia Cherry, Maida Hafiz, Andrea De Giglio, Mavish Muzaffar, Sandip H. Patel, Shunichi Sugawara, Jarred Burkart, Wungki Park, Rita Chiari, Jun Sugisaka, Gregory A. Otterson, Gilberto de Lima Lopes, Paul R. Walker
CANCER IMMUNOLOGY IMMUNOTHERAPY
(2020)
Letter
Oncology
Hamzah Abu-Sbeih, Faisal S. Ali, Dwight H. Owen, Biagio Ricciuti, Abdul Rafeh Naqash, Yinghong Wang
JOURNAL OF CLINICAL ONCOLOGY
(2019)
Article
Oncology
Hamzah Abu-Sbeih, David M. Faleck, Biagio Ricciuti, Robin B. Mendelsohn, Abdul R. Naqash, Justine V. Cohen, Maclean C. Sellers, Aanika Balaji, Guy Ben-Betzalel, Ibraheim Hajir, Jiajia Zhang, Mark M. Awad, Giulia C. Leonardi, Douglas B. Johnson, David J. Pinato, Dwight H. Owen, Sarah A. Weiss, Giuseppe Lamberti, Mark P. Lythgoe, Lisa Manuzzi, Christina Arnold, Wei Qiao, Jarushka Naidoo, Gal Markel, Nick Powell, Sai-Ching J. Yeung, Elad Sharon, Michael Dougan, Yinghong Wang
JOURNAL OF CLINICAL ONCOLOGY
(2020)
Correction
Oncology
Abdul Rafeh Naqash, Biagio Ricciuti, Dwight H. Owen, Vaia Florou, Yukihiro Toi, Cynthia Cherry, Maida Hafiz, Andrea De Giglio, Mavish Muzaffar, Sandip H. Patel, Shunichi Sugawara, Jarred Burkart, Wungki Park, Rita Chiari, Jun Sugisaka, Gregory A. Otterson, Gilberto de Lima Lopes, Paul R. Walker
CANCER IMMUNOLOGY IMMUNOTHERAPY
(2020)
Article
Oncology
David J. Pinato, Takahiro Kaneko, Anwaar Saeed, Tiziana Pressiani, Ahmed Kaseb, Yinghong Wang, David Szafron, Tomi Jun, Sirish Dharmapuri, Abdul Rafeh Naqash, Mahvish Muzaffar, Musharraf Navaid, Chieh-Ju Lee, Anushi Bulumulle, Bo Yu, Sonal Paul, Neil Nimkar, Dominik Bettinger, Hannah Hildebrand, Yehia Abugabal, Celina Ang, Thomas U. Marron, Uqba Khan, Nicola Personeni, Lorenza Rimassa, Yi-Hsiang Huang
Article
Oncology
Petros Fessas, Ahmed Kaseb, Yinghong Wang, Anwaar Saeed, David Szafron, Tomi Jun, Sirish Dharmapuri, Abdul Rafeh Naqash, Mahvish Muzaffar, Musharraf Navaid, Uqba Khan, ChiehJu Lee, Anushi Bulumulle, Bo Yu, Sonal Paul, Neil Nimkar, Dominik Bettinger, Francesca Benevento, Hannah Hildebrand, Tiziana Pressiani, Yehia Abugabal, Nicola Personeni, Yi-Hsiang Huang, Lorenza Rimassa, Celina Ang, Thomas Marron, David J. Pinato
JOURNAL FOR IMMUNOTHERAPY OF CANCER
(2020)
Article
Oncology
David J. Pinato, Ahmed Kaseb, Yinghong Wang, Anwaar Saeed, David Szafron, Tomi Jun, Sirish Dharmapuri, Abdul Rafeh Naqash, Mahvish Muzaffar, Musharraf Navaid, Uqba Khan, ChiehJu Lee, Anushi Bulumulle, Bo Yu, Sonal Paul, Petros Fessas, Neil Nimkar, Dominik Bettinger, Hannah Hildebrand, Tiziana Pressiani, Yehia Abugabal, Nicola Personeni, Yi-Hsiang Huang, Jingky Lozano-Kuehne, Lorenza Rimassa, Celina Ang, Thomas U. Marron
JOURNAL FOR IMMUNOTHERAPY OF CANCER
(2020)
Article
Biotechnology & Applied Microbiology
Arjun Mittra, Naoko Takebe, Vaia Florou, Alice P. Chen, Abdul Rafeh Naqash
Summary: Rare cancers, which account for approximately 20% of adult cancers in the US, have been underrepresented in research and clinical trials, leading to limited treatment options. The recent introduction of immune checkpoint inhibitors has started to show promise in the treatment of certain rare cancers, with efficacy depending more on tumor intrinsic factors and less on histology.
HUMAN VACCINES & IMMUNOTHERAPEUTICS
(2021)
Article
Oncology
Bairavi Shankar, Jiajia Zhang, Abdul Rafeh Naqash, Patrick M. Forde, Josephine L. Feliciano, Kristen A. Marrone, David S. Ettinger, Christine L. Hann, Julie R. Brahmer, Biagio Ricciuti, Dwight Owen, Yukihiro Toi, Paul Walker, Gregory A. Otterson, Sandip H. Patel, Shunichi Sugawara, Jarushka Naidoo
Article
Oncology
Zachary L. Brumberger, Mary E. Branch, Max W. Klein, Austin Seals, Michael D. Shapiro, Sujethra Vasu
Summary: Checkpoint inhibitor immunotherapies have significantly improved the treatment of cancer by inhibiting T-cell response to malignancy. However, these agents can cause cardiotoxic events such as pericarditis and atrial fibrillation. This study identified female gender, African American race, and tobacco use as significant risk factors for these events.
Meeting Abstract
Oncology
Abdul Rafeh Naqash, Arjun Mittra, Geraldine Helen O'Sullivan Coyne, Li Chen, Biswajit Das, Shivaani Kummar, Khanh T. Do, Ting-Chia Chang, Ashley Bruns, Lamin Juwara, Brandon Miller, Robert J. Kinders, Ralph E. Parchment, Larry Rubinstein, Jiuping Jay Ji, Deborah Wilsker, Angie B. Dull, James H. Doroshow, Alice P. Chen, Naoko Takebe
JOURNAL OF CLINICAL ONCOLOGY
(2020)
Meeting Abstract
Oncology
David James Pinato, Ahmed Omar Kaseb, Yinghong Wang, Anwaar Saeed, David Szafron, Tomi Jun, Abdul Rafeh Naqash, ChiehJu Lee, Uqba Khan, Neil Satish Nimkar, Sonal D. Paul, Dominik Bettinger, Hannah Hildebrand, Tiziana Pressiani, Yehia I. Abugabal, Nicola Personeni, Yi-Hsiang Huang, Lorenza Rimassa, Celina Ang, Thomas Urban Marron
JOURNAL OF CLINICAL ONCOLOGY
(2020)
