Article
Biochemical Research Methods
Michela Carlotta Massi, Lorenzo Dominoni, Francesca Ieva, Giovanni Fiorito
Summary: This study aims to identify blood DNA methylation (DNAm) profiles associated with Time To Diagnosis (TTD) in cancer biomarker discovery. A deep learning-based approach is developed to assess the relevance of individual CpG Islands in determining TTD and model their combined effect in a survival analysis scenario. This approach effectively deals with the complexities arising from epidemiological studies and demonstrates better performance in identifying biologically relevant pathways.
PLOS COMPUTATIONAL BIOLOGY
(2022)
Article
Oncology
Ruth Pidsley, Dilys Lam, Wenjia Qu, Timothy J. Peters, Phuc-Loi Luu, Darren Korbie, Clare Stirzaker, Roger J. Daly, Phillip Stricker, James G. Kench, Lisa G. Horvath, Susan J. Clark
Summary: This study used methylome sequencing to investigate the DNA methylation patterns in prostate cancer patients, and identified methylation patterns associated with prostate cancer-specific mortality, as well as prognostic biomarkers. The combination of DNA methylation biomarkers and clinicopathological measures improved the prognostic models for prostate cancer mortality.
CLINICAL AND TRANSLATIONAL MEDICINE
(2022)
Article
Pathology
Yuri Tolkach, Romina Zarbl, Simone Bauer, Manuel Ritter, Joerg Ellinger, Stephan Hauser, Laura Hueser, Sabine M. Klauck, Peter Altevogt, Holger Sultmann, Dimo Dietrich, Glen Kristiansen
Summary: CD24 is overexpressed in many human cancers, including prostate cancer, and its up-regulation can be influenced by DNA methylation of the CD24 promoter. Higher levels of CD24 expression are associated with poorer outcomes in prostate cancer patients, including shorter biochemical recurrence-free survival. Overexpression of ERG and PTEN deficiency are also correlated with increased CD24 expression levels in prostate cancer.
AMERICAN JOURNAL OF PATHOLOGY
(2021)
Review
Oncology
Hyun Jin Shin, Junjie T. Hua, Haolong Li
Summary: Epigenetic modifications, particularly DNA methylation, are extensively studied in cancer and have been shown to distinguish between benign and malignant tumors in various cancers, including prostate cancer. Aberrant DNA methylation patterns, such as the CpG island hypermethylator phenotype (CIMP), are associated with aggressive subtypes, higher Gleason score, and overall worse prognosis in prostate cancer. DNA methylation alterations can serve as potential biomarkers for prostate cancer and have the potential for targeted treatment development.
FRONTIERS IN ONCOLOGY
(2023)
Article
Biochemical Research Methods
Yiyi Pu, Chao Li, Haining Yuan, Xiaoju Wang
Summary: This study identified and validated a panel of prostate cancer specific DNA methylation biomarkers with diagnostic value using multi-cancer data from TCGA and GEO. The biomarkers were able to differentiate between non-aggressive and aggressive prostate cancer, as well as distinguish between PRAD and normal prostate tissues and other urinary samples.
BMC BIOINFORMATICS
(2021)
Article
Medicine, Research & Experimental
Chun-Wu Pan, Simeng Wen, Lei Chen, Yulei Wei, Yuanjie Niu, Yu Zhao
Summary: In this study, it was found that antisense eRNA is regulated by androgen receptor activity in prostate cancer cells, negatively regulating antisense ncRNA in AR-related target genes' loci through DNA methylation. The chromatin interaction among enhancer, promoter, and gene-ending regions facilitated the expression of sense-eRNA and antisense-eRNA in cis, impacting cancer growth and patient outcomes. The suppression of antisense eRNA may serve as a potential novel target for improving prostate cancer therapy and diagnosis.
Review
Biochemistry & Molecular Biology
Yitong Liu, Ping Leng, Yan Liu, Jinlin Guo, Hao Zhou
Summary: Breast cancer, a highly heterogeneous malignant tumor, is a leading cause of death among females worldwide. The development of breast cancer involves aberrant epigenetic mechanisms and abnormal expression of specific non-coding RNA (ncRNAs). Epigenetic regulation types such as DNA methylation, N6-methyladenosine (m6A), and histone methylation, as well as various types of ncRNAs like microRNA (miRNAs) and long non-coding RNA (lncRNAs), interact and regulate each other to mediate breast cancer genesis. This review explores the crosstalk between major methylation modifications and ncRNAs, highlighting their role in promoting breast cancer oncogenesis. The findings of this review can guide the development of a new diagnostic marker system based on ncRNA methylation patterns and provide insights into the therapeutic potential of combining ncRNA oligonucleotides and phytochemical drugs for breast cancer treatment.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Medicine, Research & Experimental
Erolcan Sayar, Radhika A. Patel, Ilsa M. Coleman, Martine P. Roudier, Ailin Zhang, Pallabi Mustafi, Jin-Yih Low, Brian Hanratty, Lisa S. Ang, Vipul Bhatia, Mohamed Adil, Hasim Bakbak, David A. Quigley, Michael T. Schweizer, Jessica E. Hawley, Lori Kollath, Lawrence D. True, Felix Y. Feng, Neil H. Bander, Eva Corey, John K. Lee, Colm Morrissey, Roman Gulati, Peter S. Nelson, Michael C. Haffner
Summary: Prostate-specific membrane antigen (PSMA) expression is heterogeneous in metastatic castration-resistant prostate cancer (mCRPC), with some cases showing no detectable PSMA and others showing heterogeneous expression across metastases. Loss of PSMA is associated with epigenetic changes, including CpG methylation and loss of H3K27 acetylation at the FOLH1 locus. Treatment with HDAC inhibitors can reverse this repression and restore PSMA expression. These findings provide insights into PSMA expression patterns and regulation in mCRPC, and suggest a potential therapeutic strategy using epigenetic therapies to augment PSMA levels.
Article
Biochemistry & Molecular Biology
Naisi Zhao, Mengyuan Ruan, Devin C. Koestler, Jiayun Lu, Carmen J. Marsit, Karl T. Kelsey, Elizabeth A. Platz, Dominique S. Michaud
Summary: This study investigated the association between blood DNA methylation levels and lung cancer risk, identifying novel genomic regions and single CpG sites significantly associated with lung cancer risk. These findings serve as potential biomarkers for lung cancer risk stratification and may indicate causal relationships with lung cancer.
Article
Oncology
Gulab Sher, Nadia Aziz Salman, Abdul Q. Khan, Kirti S. Prabhu, Afsheen Raza, Michal Kulinski, Said Dermime, Mohammad Haris, Kulsoom Junejo, Shahab Uddin
Summary: Epigenetic alterations play a crucial role in the pathogenesis of breast cancer, including drug resistance and stemness features. Understanding and utilizing these modifications for breast cancer management is challenging, but holds promise for providing novel diagnostic, prognostic markers, and therapeutic options.
SEMINARS IN CANCER BIOLOGY
(2022)
Article
Endocrinology & Metabolism
Mousa Vatanmakanian, Joshua J. Steffan, Sweaty Koul, Augusto C. Ochoa, Lakshmi S. Chaturvedi, Hari K. Koul
Summary: Prostate cancer progression is characterized by decreased SPDEF expression due to hypermethylation, which can be partially reversed through inhibition of DNMTs. This study highlights the important role of epigenetic regulation in prostate cancer development and suggests DNMTs as a potential therapeutic target for limiting tumor progression and therapy resistance.
FRONTIERS IN ENDOCRINOLOGY
(2023)
Article
Oncology
James McDonald, Noor Diab, Elisa Arthofer, Melissa Hadley, Tomas Kanholm, Uzma Rentia, Stephanie Gomez, Angela Yu, Erin E. Grundy, Olivia Cox, Michael J. Topper, Xiaoyun Xing, Pamela L. Strissel, Reiner Strick, Ting Wang, Stephen B. Baylin, Katherine B. Chiappinelli
Summary: The study shows that epigenetic therapies can enhance immune response and recruit immune cells to fight ovarian carcinoma by targeting the epigenome, with a role for p53 in this process. Different types of epigenetic therapy result in upregulation of different repetitive elements, and cell lines with TP53 mutations exhibit weaker response.
Article
Oncology
Nicolas Destefanis, Valentina Fiano, Lorenzo Milani, Paolo Vasapolli, Michelangelo Fiorentino, Francesca Giunchi, Luca Lianas, Mauro Del Rio, Francesca Frexia, Luca Pireddu, Luca Molinaro, Paola Cassoni, Mauro Giulio Papotti, Paolo Gontero, Giorgio Calleris, Marco Oderda, Umberto Ricardi, Giuseppe Carlo Iorio, Piero Fariselli, Elena Isaevska, Olof Akre, Renata Zelic, Andreas Pettersson, Daniela Zugna, Lorenzo Richiardi
Summary: Introduction Prostate cancer (PCa) is the most common tumor among men in Europe, and this study presents a new Italian cohort called the Turin Prostate Cancer Prognostication (TPCP) cohort, aiming to improve the current prognostication models for PCa. The cohort consists of non-metastatic patients with PCa who underwent a positive biopsy between 2008 and 2013 in Turin, Italy. The study includes various clinical variables, along with histopathologic information, tumor DNA methylation, and features extracted from digitized slide images. The primary outcome is the occurrence of metastasis, while death from PCa and overall mortality are the secondary outcomes. The cohort provides valuable resources for updating and developing new prognostic models for PCa in Italy.
FRONTIERS IN ONCOLOGY
(2023)
Review
Oncology
Bianca C. T. Flores, Margareta P. Correia, Jose G. Rodriguez, Rui Henrique, Carmen Jeronimo
Summary: Prostate cancer presents with high variability in clinical outcomes, making diagnosis and treatment challenging. Studies suggest that using DNA methylation and circulating tumor cells as biomarkers can improve diagnostic and treatment decisions in prostate cancer patients.
Article
Health Care Sciences & Services
Ting Lan, Lingyu Yin, Haoliang Zhang, Bing Gu, Ping Ma, Shibao Li, Hongchun Li
Summary: This study found that the level of DACT-2 promoter methylation in the serum of patients with prostate cancer was significantly higher than in patients with benign prostatic hyperplasia (BPH) and healthy subjects, indicating its potential as a diagnostic marker for prostate cancer. The high methylation rate of DACT-2 showed high sensitivity and specificity, with better diagnostic value compared to PSA.
ANNALS OF PALLIATIVE MEDICINE
(2021)
Article
Environmental Sciences
Danielle N. Medgyesi, Jared A. Fisher, Abigail R. Flory, Richard B. Hayes, George D. Thurston, Linda M. Liao, Mary H. Ward, Debra T. Silverman, Rena R. Jones
Summary: The study evaluated the performance of a commercial database in finding residences and estimating environmental exposures. Results showed that time period and population characteristics influenced the attainment of addresses, but accuracy and subsequent estimation of specific air pollution exposures were high in the older study population.
ENVIRONMENTAL RESEARCH
(2021)
Article
Public, Environmental & Occupational Health
Jongeun Rhee, Erikka Loftfield, Neal D. Freedman, Linda M. Liao, Rashmi Sinha, Mark P. Purdue
Summary: The study found a 20% reduced risk of RCC with a daily intake of >= 2 cups of coffee. This suggests that coffee consumption may help reduce the risk of cancer, especially with a more significant reduction observed among never-smokers.
INTERNATIONAL JOURNAL OF EPIDEMIOLOGY
(2021)
Article
Nutrition & Dietetics
You Wu, Ruyi Huang, Molin Wang, Leslie Bernstein, Traci N. Bethea, Chu Chen, Yu Chen, A. Heather Eliassen, Neal D. Freedman, Mia M. Gaudet, Gretchen L. Gierach, Graham G. Giles, Vittorio Krogh, Susanna C. Larsson, Linda M. Liao, Marjorie L. McCullough, Anthony B. Miller, Roger L. Milne, Kristine R. Monroe, Marian L. Neuhouser, Julie R. Palmer, Anna Prizment, Peggy Reynolds, Kim Robien, Thomas E. Rohan, Sven Sandin, Norie Sawada, Sabina Sieri, Rashmi Sinha, Rachael Z. Stolzenberg-Solomon, Shoichiro Tsugane, Piet A. van den Brandt, Kala Visvanathan, Elisabete Weiderpass, Lynne R. Wilkens, Walter C. Willett, Alicja Wolk, Anne Zeleniuch-Jacquotte, Regina G. Ziegler, Stephanie A. Smith-Warner
Summary: The study found that overall dairy product and calcium intakes were not significantly associated with the risk of breast cancer, but higher intakes of yogurt and cottage/ricotta cheese may be inversely associated with the risk of ER-negative breast cancer.
AMERICAN JOURNAL OF CLINICAL NUTRITION
(2021)
Article
Oncology
Amina Amadou, Heinz Freisling, Mazda Jenab, Konstantinos K. Tsilidis, Antonia Trichopoulou, Paolo Boffetta, Bethany Van Guelpen, Olatz Mokoroa, Tom Wilsgaard, Frank Kee, Ben Schoettker, Jose M. Ordonez-Mena, Satu Mannisto, Stefan Soderberg, Roel C. H. Vermeulen, J. Ramon Quiros, Linda M. Liao, Rashmi Sinha, Kari Kuulasmaa, Hermann Brenner, Isabelle Romieu
Summary: The study found that prevalent diabetes was positively associated with colorectal cancer risk and inversely associated with prostate cancer risk in older Europeans and Americans. Additionally, in men with overweight or obesity, diabetes was inversely associated with prostate cancer risk.
BRITISH JOURNAL OF CANCER
(2021)
Article
Oncology
Barbara J. Fuhrman, Steven C. Moore, Celia Byrne, Issam Makhoul, Cari M. Kitahara, Amy Berrington de Gonzalez, Martha S. Linet, Elisabete Weiderpass, Hans-Olov Adami, Neal D. Freedman, Linda M. Liao, Charles E. Matthews, Rachael Z. Stolzenberg-Solomon, Mia M. Gaudet, Alpa V. Patel, I-Min Lee, Julie E. Buring, Alicja Wolk, Susanna C. Larsson, Anna E. Prizment, Kim Robien, Michael Spriggs, David P. Check, Neil Murphy, Marc J. Gunter, Harold L. Van Dusen, Regina G. Ziegler, Robert N. Hoover
Summary: The age at menarche is associated with the risk of seven cancers in middle-aged women, indicating shared underlying causal pathways that could lead to new avenues for cancer prevention.
Correction
Oncology
J. M. Genkinger, K. Wu, M. Wang, D. Albanes, A. Black, P. A. van den Brandt, K. A. Burke, M. B. Cook, S. M. Gapstur, G. G. Giles, E. Giovannucci, G. G. Goodman, P. J. Goodman, N. Hakansson, T. J. Key, S. Mannisto, L. Le Marchand, L. M. Liao, R. J. MacInnis, M. L. Neuhouser, E. A. Platz, N. Sawada, J. M. Schenk, V. L. Stevens, R. C. Travis, S. Tsugane, K. Visvanathan, L. R. Wilkens, A. Wolk, S. A. Smith-Warner
ANNALS OF ONCOLOGY
(2021)
Article
Oncology
Yingxi Chen, Nan Hu, Linda Liao, Kai Yu, Xiao-Ou Shu, Wei Zheng, Jian-Min Yuan, Woon-Puay Koh, You-Lin Qiao, Jin-Hu Fan, Sanford M. Dawsey, Neal D. Freedman, Philip R. Taylor, Alisa M. Goldstein, Christian C. Abnet
Summary: Blood type has been associated with the risk of gastric cancer, and this study reveals a significant association between blood type and the risk of ESCC. Blood type B and AB were found to have a higher risk for ESCC compared to type O. The study also highlights the association of blood type with gastric noncardia adenocarcinoma, providing important evidence for further understanding the mechanisms of action.
Article
Oncology
Georgia Martimianaki, Paola Bertuccio, Gianfranco Alicandro, Claudio Pelucchi, Francesca Bravi, Greta Carioli, Rossella Bonzi, Charles S. Rabkin, Linda M. Liao, Rashmi Sinha, Ken Johnson, Jinfu Hu, Domenico Palli, Monica Ferraroni, Nuno Lunet, Samantha Morais, Shoichiro Tsugane, Akihisa Hidaka, Gerson Shigueaki Hamada, Lizbeth Lopez-Carrillo, Raul Ulises Hernandez-Ramirez, David Zaridze, Dmitry Maximovitch, Nuria Aragones, Vicente Martin, Mary H. Ward, Jesus Vioque, Manoli Garcia de la Hera, Zuo-Feng Zhang, Robert C. Kurtz, Pagona Lagiou, Areti Lagiou, Antonia Trichopoulou, Anna Karakatsani, Reza Malekzadeh, M. Constanza Camargo, Maria Paula Curado, Stefania Boccia, Paolo Boffetta, Eva Negri, Carlo La Vecchia
Summary: This study aims to evaluate the relationship between coffee consumption and gastric cancer and finds no significant association between coffee consumption and gastric cancer. A positive association is observed between high coffee consumption (five or more cups per day) and gastric cardia cancer.
EUROPEAN JOURNAL OF CANCER PREVENTION
(2022)
Article
Nutrition & Dietetics
Jung-Eun Lim, Stephanie J. Weinstein, Linda M. Liao, Rashmi Sinha, Jiaqi Huang, Demetrius Albanes
Summary: This study found little evidence to support the preventive role of multivitamin use in cancer, except for a slight inverse association with colon cancer. Higher intake of multivitamins was associated with slightly higher risks of overall, prostate, lung, and leukemia cancer in men, and a higher risk of oropharyngeal cancer in women.
JOURNAL OF NUTRITION
(2022)
Article
Oncology
Gianfranco Alicandro, Paola Bertuccio, Giulia Collatuzzo, Claudio Pelucchi, Rossella Bonzi, Linda M. Liao, Charles S. Rabkin, Rashmi Sinha, Eva Negri, Michela Dalmartello, David Zaridze, Dmitry Maximovich, Jesus Vioque, Manoli Garcia de la Hera, Shoichiro Tsugane, Akihisa Hidaka, Gerson Shigueaki Hamada, Lizbeth Lopez-Carrillo, Raul Ulises Hernandez-Ramirez, Reza Malekzadeh, Farhad Pourfarzi, Zuo-Feng Zhang, Robert C. Kurtz, M. Constanza Camargo, Maria Paula Curado, Nuno Lunet, Paolo Boffetta, Carlo La Vecchia
Summary: This study evaluated the mediating role of lifestyle factors in the relationship between education and gastric cancer. The results showed that the relationship between education and gastric cancer is mediated by lifestyle factors, and this mediation effect is limited to men.
BRITISH JOURNAL OF CANCER
(2022)
Article
Oncology
Georgia Martimianaki, Gianfranco Alicandro, Claudio Pelucchi, Rossella Bonzi, Matteo Rota, Jinfu Hu, Kenneth C. Johnson, Charles S. Rabkin, Linda M. Liao, Rashmi Sinha, Zuo-Feng Zhang, Michela Dalmartello, Nuno Lunet, Samantha Morais, Domenico Palli, Monica Ferraroni, Guo-Pei Yu, Shoichiro Tsugane, Akihisa Hidaka, Maria Paula Curado, Emmanuel Dias-Neto, David Zaridze, Dmitry Maximovitch, Jesus Vioque, Manoli Garcia de la Hera, Lizbeth Lopez-Carrillo, Raul Ulises Hernandez-Ramirez, Gerson Shigueaki Hamada, Mary H. Ward, Lina Mu, Reza Malekzadeh, Farhad Pourfarzi, Antonia Trichopoulou, Anna Karakatsani, Robert C. Kurtz, Areti Lagiou, Pagona Lagiou, Stefania Boccia, Paolo Boffetta, M. Constanza Camargo, Eva Negri, Carlo La Vecchia
Summary: There is a weak inverse association between tea consumption and gastric cancer, especially among regular green tea drinkers in China and Japan, individuals with H. pylori infection, and those with gastric cardia cancer.
BRITISH JOURNAL OF CANCER
(2022)
Article
Oncology
Samantha Morais, Adriana Costa, Gabriela Albuquerque, Natalia Araujo, Claudio Pelucchi, Charles S. Rabkin, Linda M. Liao, Rashmi Sinha, Zuo-Feng Zhang, Jinfu Hu, Kenneth C. Johnson, Domenico Palli, Monica Ferraroni, Rossella Bonzi, Guo-Pei Yu, Lizbeth Lopez-Carrillo, Reza Malekzadeh, Shoichiro Tsugane, Akihisa Hidaka, Gerson Shigueaki Hamada, David Zaridze, Dmitry Maximovitch, Jesus Vioque, Manoli Garcia de la Hera, Victor Moreno, Mercedes Vanaclocha-Espi, Mary H. Ward, Mohammadreza Pakseresht, Raul Ulises Hernandez-Ramirez, Malaquias Lopez-Cervantes, Farhad Pourfarzi, Lina Mu, Robert C. Kurtz, Stefania Boccia, Roberta Pastorino, Areti Lagiou, Pagona Lagiou, Paolo Boffetta, M. Constanza Camargo, Maria Paula Curado, Eva Negri, Carlo La Vecchia, Nuno Lunet
Summary: Salty taste preference, always using table salt, and a greater intake of high-salt and salt-preserved foods are associated with an increased risk of gastric cancer. However, the association with total sodium intake was not significant. The results were consistent across various factors such as anatomic sites and Helicobacter pylori infection.
CANCER CAUSES & CONTROL
(2022)
Article
Environmental Sciences
Jongeun Rhee, Erikka Loftfield, Demetrius Albanes, Tracy M. Layne, Rachael Stolzenberg-Solomon, Linda M. Liao, Mary C. Playdon, Sonja I. Berndt, Joshua N. Sampson, Neal D. Freedman, Steven C. Moore, Mark P. Purdue
Summary: This study aimed to investigate the biological effects of PFOS and PFOA on the human body. Through metabolomic analysis, several metabolites associated with PFOS and PFOA were identified, with lipids and xenobiotics being the most common types. These findings provide insights into the potential hazards of PFOS and PFOA.
ENVIRONMENT INTERNATIONAL
(2023)
Article
Biochemical Research Methods
Lusheng Song, Minkyo Song, Charles S. Rabkin, Stacy Williams, Yunro Chung, Jennifer Van Duine, Linda M. Liao, Kailash Karthikeyan, Weimin Gao, Jin G. Park, Yanyang Tang, Jolanta Lissowska, Ji Qiu, Joshua LaBaer, M. Constanza Camargo
Summary: This study evaluated humoral responses to a nearly complete H. pylori immunoproteome among GC cases and controls, finding higher prevalence of certain antibodies in controls and lower seroprevalence in GC cases, suggesting immune protection and potential changes in specific proteins.
JOURNAL OF PROTEOME RESEARCH
(2021)
Article
Public, Environmental & Occupational Health
Piet A. van den Brandt, Regina G. Ziegler, Molin Wang, Tao Hou, Ruifeng Li, Hans-Olov Adami, Claudia Agnoli, Leslie Bernstein, Julie E. Buring, Yu Chen, Avonne E. Connor, A. Heather Eliassen, Jeanine M. Genkinger, Gretchen Gierach, Graham G. Giles, Gary G. Goodman, Niclas Hakansson, Vittorio Krogh, Loic Le Marchand, I-Min Lee, Linda M. Liao, M. Elena Martinez, Anthony B. Miller, Roger L. Milne, Marian L. Neuhouser, Alpa V. Patel, Anna Prizment, Kim Robien, Thomas E. Rohan, Norie Sawada, Leo J. Schouten, Rashmi Sinha, Rachael Z. Stolzenberg-Solomon, Lauren R. Teras, Shoichiro Tsugane, Kala Visvanathan, Elisabete Weiderpass, Kami K. White, Walter C. Willett, Alicja Wolk, Anne Zeleniuch-Jacquotte, Stephanie A. Smith-Warner
Summary: The associations between anthropometric factors and breast cancer risk vary inconsistently by estrogen and progesterone receptor status. Height, body mass index, adult weight gain show different strengths and directions of associations with breast cancer risk.
EUROPEAN JOURNAL OF EPIDEMIOLOGY
(2021)