Now showing items 1-20 of 43

    • 24-Hour Rhythms of DNA Methylation and Their Relation with Rhythms of RNA Expression in the Human Dorsolateral Prefrontal Cortex 

      Lim, Andrew S. P.; Srivastava, Gyan P.; Yu, Lei; Chibnik, Lori B.; Xu, Jishu; Buchman, Aron S.; Schneider, Julie A.; Myers, Amanda J.; Bennett, David A.; De Jager, Philip L. (Public Library of Science, 2014)
      Circadian rhythms modulate the biology of many human tissues, including brain tissues, and are driven by a near 24-hour transcriptional feedback loop. These rhythms are paralleled by 24-hour rhythms of large portions of ...
    • Aging and Environmental Exposures Alter Tissue-Specific DNA Methylation Dependent upon CpG Island Context 

      Christensen, Brock C.; Marsit, Carmen J.; Zheng, Shichun; Wrensch, Margaret R.; Wiemels, Joseph L.; Nelson, Heather H.; Karagas, Margaret R.; Padbury, James F.; Yeh, Ru-Fang; Wiencke, John K.; Kelsey, Karl T.; Houseman, Eugene Andres; Bueno, Raphael; Sugarbaker, David John (Public Library of Science, 2009)
      Epigenetic control of gene transcription is critical for normal human development and cellular differentiation. While alterations of epigenetic marks such as DNA methylation have been linked to cancers and many other human ...
    • Biomarkers of Lead Exposure and DNA Methylation within Retrotransposons 

      Bollati, Valentina; Tarantini, Letizia; Hu, Howard; Schwartz, Joel David; Wright, Rosalind Jo; Park, Sung Kyun; Sparrow, David; Vokonas, Pantel S; Baccarelli, Andrea; Wright, Robert O. (National Institute of Environmental Health Sciences, 2010)
      Background: DNA methylation is an epigenetic mark that regulates gene expression. Changes in DNA methylation within white blood cells may result from cumulative exposure to environmental metals such as lead. Bone lead, a ...
    • Birth weight-for-gestational age is associated with DNA methylation at birth and in childhood 

      Agha, Golareh; Hajj, Hanine; Rifas-Shiman, Sheryl L.; Just, Allan C.; Hivert, Marie-France; Burris, Heather H.; Lin, Xihong; Litonjua, Augusto A.; Oken, Emily; DeMeo, Dawn L.; Gillman, Matthew W.; Baccarelli, Andrea A. (BioMed Central, 2016)
      Background: Both higher and lower fetal growth are associated with cardio-metabolic health later in life, suggesting that prenatal developmental programming determines long-term cardiovascular disease risk. Epigenetic ...
    • Blood Epigenetic Age may Predict Cancer Incidence and Mortality 

      Zheng, Yinan; Joyce, Brian T.; Colicino, Elena; Liu, Lei; Zhang, Wei; Dai, Qi; Shrubsole, Martha J.; Kibbe, Warren A.; Gao, Tao; Zhang, Zhou; Jafari, Nadereh; Vokonas, Pantel; Schwartz, Joel; Baccarelli, Andrea A.; Hou, Lifang (Elsevier, 2016)
      Biological measures of aging are important for understanding the health of an aging population, with epigenetics particularly promising. Previous studies found that tumor tissue is epigenetically older than its donors are ...
    • The causal effect of red blood cell folate on genome-wide methylation in cord blood: a Mendelian randomization approach 

      Binder, Alexandra M; Michels, Karin B (BioMed Central, 2013)
      Background: Investigation of the biological mechanism by which folate acts to affect fetal development can inform appraisal of expected benefits and risk management. This research is ethically imperative given the ubiquity ...
    • A cell epigenotype specific model for the correction of brain cellular heterogeneity bias and its application to age, brain region and major depression 

      Guintivano, Jerry; Aryee, Martin J.; Kaminsky, Zachary A. (Landes Bioscience, 2013)
      Brain cellular heterogeneity may bias cell type specific DNA methylation patterns, influencing findings in psychiatric epigenetic studies. We performed fluorescence activated cell sorting (FACS) of neuronal nuclei and ...
    • Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications 

      Harris, R Alan; Wang, Ting; Coarfa, Cristian; Nagarajan, Raman P; Hong, Chibo; Downey, Sara L; Johnson, Brett E; Fouse, Shaun D; Delaney, Allen; Zhao, Yongjun; Olshen, Adam; Ballinger, Tracy; Zhou, Xin; Forsberg, Kevin J; Gu, Junchen; Echipare, Lorigail; O, Henriette; Lister, Ryan; Pelizzola, Mattia; Xi, Yuanxin; Epstein, Charles B; Bernstein, Bradley E.; Hawkins, R David; Ren, Bing; Chung, Wen-Yu; Gu, Hongcang; Bock, Christoph; Gnirke, Andreas; Zhang, Michael Q; Haussler, David; Ecker, Joseph R; Li, Wei; Farnham, Peggy J; Waterland, Robert A; Meissner, Alexander; Marra, Marco A; Hirst, Martin; Milosavljevic, Aleksandar; Costello, Joseph F (Nature Publishing Group, 2010)
      Sequencing-based DNA methylation profiling methods are comprehensive and, as accuracy and affordability improve, will increasingly supplant microarrays for genome-scale analyses. Here, four sequencing-based methodologies ...
    • CRISPR/Cas9-Mediated Phage Resistance Is Not Impeded by the DNA Modifications of Phage T4 

      Yaung, Stephanie J.; Esvelt, Kevin M.; Church, George M. (Public Library of Science, 2014)
      Bacteria rely on two known DNA-level defenses against their bacteriophage predators: restriction-modification and Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)-CRISPR-associated (Cas) systems. Certain ...
    • Discovery and replication of a peripheral tissue DNA methylation biosignature to augment a suicide prediction model 

      Clive, Makena L.; Boks, Marco P.; Vinkers, Christiaan H.; Osborne, Lauren M.; Payne, Jennifer L.; Ressler, Kerry J.; Smith, Alicia K.; Wilcox, Holly C.; Kaminsky, Zachary (BioMed Central, 2016)
      Background: Suicide is the second leading cause of death among adolescents in the USA, and rates are rising. Methods to identify individuals at risk are essential for implementing prevention strategies, and the development ...
    • Discovery of Genetic Variation on Chromosome 5q22 Associated with Mortality in Heart Failure 

      Smith, J. Gustav; Felix, Janine F.; Morrison, Alanna C.; Kalogeropoulos, Andreas; Trompet, Stella; Wilk, Jemma B.; Gidlöf, Olof; Wang, Xinchen; Morley, Michael; Mendelson, Michael; Joehanes, Roby; Ligthart, Symen; Shan, Xiaoyin; Bis, Joshua C.; Wang, Ying A.; Sjögren, Marketa; Ngwa, Julius; Brandimarto, Jeffrey; Stott, David J.; Aguilar, David; Rice, Kenneth M.; Sesso, Howard D.; Demissie, Serkalem; Buckley, Brendan M.; Taylor, Kent D.; Ford, Ian; Yao, Chen; Liu, Chunyu; Sotoodehnia, Nona; van der Harst, Pim; Stricker, Bruno H. Ch.; Kritchevsky, Stephen B.; Liu, Yongmei; Gaziano, J. Michael; Hofman, Albert; Moravec, Christine S.; Uitterlinden, André G.; Kellis, Manolis; van Meurs, Joyce B.; Margulies, Kenneth B.; Dehghan, Abbas; Levy, Daniel; Olde, Björn; Psaty, Bruce M.; Cupples, L. Adrienne; Jukema, J. Wouter; Djousse, Luc; Franco, Oscar H.; Boerwinkle, Eric; Boyer, Laurie A.; Newton-Cheh, Christopher; Butler, Javed; Vasan, Ramachandran S.; Cappola, Thomas P.; Smith, Nicholas L. (Public Library of Science, 2016)
      Failure of the human heart to maintain sufficient output of blood for the demands of the body, heart failure, is a common condition with high mortality even with modern therapeutic alternatives. To identify molecular ...
    • DNA Hypomethylation, Ambient Particulate Matter, and Increased Blood Pressure: Findings From Controlled Human Exposure Experiments 

      Bellavia, Andrea; Urch, Bruce; Speck, Mary; Brook, Robert D.; Scott, Jeremy A.; Albetti, Benedetta; Behbod, Behrooz; North, Michelle; Valeri, Linda; Bertazzi, Pier Alberto; Silverman, Frances; Gold, Diane; A. Baccarelli, Andrea (Blackwell Publishing Ltd, 2013)
      Background: Short‐term exposures to fine (<2.5 μm aerodynamic diameter) ambient particulate‐matter (PM) have been related with increased blood pressure (BP) in controlled‐human exposure and community‐based studies. However, ...
    • DNA METHYLATION BY DNMT1 AND DNMT3b METHYLTRANSFERASES IS DRIVEN BY THE MUC1-C ONCOPROTEIN IN HUMAN CARCINOMA CELLS 

      Rajabi, Hasan; Tagde, Ashujit; Alam, Maroof; Bouillez, Audrey; Pitroda, Sean; Suzuki, Yozo; Kufe, Donald (2016)
      Aberrant expression of the DNA methyltransferases (DNMTs) and disruption of DNA methylation patterns are associated with carcinogenesis and cancer cell survival. The oncogenic MUC1-C protein is aberrantly overexpressed in ...
    • DNA methylation map of mouse and human brain identifies target genes in Alzheimer’s disease 

      Sanchez-Mut, Jose V.; Aso, Ester; Panayotis, Nicolas; Lott, Ira; Dierssen, Mara; Rabano, Alberto; Urdinguio, Rocio G.; Fernandez, Agustin F.; Astudillo, Aurora; Martin-Subero, Jose I.; Balint, Balazs; Fraga, Mario F.; Gomez, Antonio; Gurnot, Cecile; Roux, Jean-Christophe; Avila, Jesus; Hensch, Takao K.; Ferrer, Isidre; Esteller, Manel (Oxford University Press, 2013)
      The central nervous system has a pattern of gene expression that is closely regulated with respect to functional and anatomical regions. DNA methylation is a major regulator of transcriptional activity, and aberrations in ...
    • DNA methylation signatures of chronic low-grade inflammation are associated with complex diseases 

      Ligthart, Symen; Marzi, Carola; Aslibekyan, Stella; Mendelson, Michael M.; Conneely, Karen N.; Tanaka, Toshiko; Colicino, Elena; Waite, Lindsay L.; Joehanes, Roby; Guan, Weihua; Brody, Jennifer A.; Elks, Cathy; Marioni, Riccardo; Jhun, Min A.; Agha, Golareh; Bressler, Jan; Ward-Caviness, Cavin K.; Chen, Brian H.; Huan, Tianxiao; Bakulski, Kelly; Salfati, Elias L.; Fiorito, Giovanni; Wahl, Simone; Schramm, Katharina; Sha, Jin; Hernandez, Dena G.; Just, Allan C.; Smith, Jennifer A.; Sotoodehnia, Nona; Pilling, Luke C.; Pankow, James S.; Tsao, Phil S.; Liu, Chunyu; Zhao, Wei; Guarrera, Simonetta; Michopoulos, Vasiliki J.; Smith, Alicia K.; Peters, Marjolein J.; Melzer, David; Vokonas, Pantel; Fornage, Myriam; Prokisch, Holger; Bis, Joshua C.; Chu, Audrey Y.; Herder, Christian; Grallert, Harald; Yao, Chen; Shah, Sonia; McRae, Allan F.; Lin, Honghuang; Horvath, Steve; Fallin, Daniele; Hofman, Albert; Wareham, Nicholas J.; Wiggins, Kerri L.; Feinberg, Andrew P.; Starr, John M.; Visscher, Peter M.; Murabito, Joanne M.; Kardia, Sharon L. R.; Absher, Devin M.; Binder, Elisabeth B.; Singleton, Andrew B.; Bandinelli, Stefania; Peters, Annette; Waldenberger, Melanie; Matullo, Giuseppe; Schwartz, Joel D.; Demerath, Ellen W.; Uitterlinden, André G.; van Meurs, Joyce B. J.; Franco, Oscar H.; Chen, Yii-Der Ida; Levy, Daniel; Turner, Stephen T.; Deary, Ian J.; Ressler, Kerry J.; Dupuis, Josée; Ferrucci, Luigi; Ong, Ken K.; Assimes, Themistocles L.; Boerwinkle, Eric; Koenig, Wolfgang; Arnett, Donna K.; Baccarelli, Andrea A.; Benjamin, Emelia J.; Dehghan, Abbas (BioMed Central, 2016)
      Background: Chronic low-grade inflammation reflects a subclinical immune response implicated in the pathogenesis of complex diseases. Identifying genetic loci where DNA methylation is associated with chronic low-grade ...
    • DNA methylation-based measures of biological age: meta-analysis predicting time to death 

      Chen, Brian H.; Marioni, Riccardo E.; Colicino, Elena; Peters, Marjolein J.; Ward-Caviness, Cavin K.; Tsai, Pei-Chien; Roetker, Nicholas S.; Just, Allan C.; Demerath, Ellen W.; Guan, Weihua; Bressler, Jan; Fornage, Myriam; Studenski, Stephanie; Vandiver, Amy R.; Moore, Ann Zenobia; Tanaka, Toshiko; Kiel, Douglas P.; Liang, Liming; Vokonas, Pantel; Schwartz, Joel; Lunetta, Kathryn L.; Murabito, Joanne M.; Bandinelli, Stefania; Hernandez, Dena G.; Melzer, David; Nalls, Michael; Pilling, Luke C.; Price, Timothy R.; Singleton, Andrew B.; Gieger, Christian; Holle, Rolf; Kretschmer, Anja; Kronenberg, Florian; Kunze, Sonja; Linseisen, Jakob; Meisinger, Christine; Rathmann, Wolfgang; Waldenberger, Melanie; Visscher, Peter M.; Shah, Sonia; Wray, Naomi R.; McRae, Allan F.; Franco, Oscar H.; Hofman, Albert; Uitterlinden, André G.; Absher, Devin; Assimes, Themistocles; Levine, Morgan E.; Lu, Ake T.; Tsao, Philip S.; Hou, Lifang; Manson, JoAnn E.; Carty, Cara L.; LaCroix, Andrea Z.; Reiner, Alexander P.; Spector, Tim D.; Feinberg, Andrew P.; Levy, Daniel; Baccarelli, Andrea; van Meurs, Joyce; Bell, Jordana T.; Peters, Annette; Deary, Ian J.; Pankow, James S.; Ferrucci, Luigi; Horvath, Steve (Impact Journals LLC, 2016)
      Estimates of biological age based on DNA methylation patterns, often referred to as “epigenetic age”, “DNAm age”, have been shown to be robust biomarkers of age in humans. We previously demonstrated that independent of ...
    • Effects of particulate matter exposure on blood 5-hydroxymethylation: results from the Beijing truck driver air pollution study 

      Sanchez-Guerra, Marco; Zheng, Yinan; Osorio-Yanez, Citlalli; Zhong, Jia; Chervona, Yana; Wang, Sheng; Chang, Dou; McCracken, John P; Díaz, Anaite; Bertazzi, Pier Alberto; Koutrakis, Petros; Kang, Choong-Min; Zhang, Xiao; Zhang, Wei; Byun, Hyang-Min; Schwartz, Joel; Hou, Lifang; Baccarelli, Andrea A (Taylor & Francis, 2015)
      Previous studies have reported epigenetic changes induced by environmental exposures. However, previous investigations did not distinguish 5-methylcytosine (5mC) from a similar oxidative form with opposite functions, ...
    • Effects of Particulate Matter on Genomic DNA Methylation Content and iNOS Promoter Methylation 

      Tarantini, Letizia; Bonzini, Matteo; Apostoli, Pietro; Pegoraro, Valeria; Bollati, Valentina; Marinelli, Barbara; Cantone, Laura; Rizzo, Giovanna; Hou, Lifang; Bertazzi, Pier Alberto; Schwartz, Joel David; Baccarelli, Andrea (National Institute of Environmental Health Sciences, 2008)
      Background: Altered patterns of gene expression mediate the effects of particulate matter (PM) on human health, but mechanisms through which PM modifies gene expression are largely undetermined.Objectives We aimed at ...
    • Environmental Susceptibility of the Sperm Epigenome During Windows of Male Germ Cell Development 

      Wu, Haotian; Hauser, Russ; Krawetz, Stephen A.; Pilsner, J. Richard (Springer International Publishing, 2015)
      Male germ cells require multiple epigenetic reprogramming events during their lifespan to achieve reproductive capacity. An emerging body of compelling data demonstrates that environmental exposures can be embodied within ...
    • An epigenetic clock for gestational age at birth based on blood methylation data 

      Knight, Anna K.; Craig, Jeffrey M.; Theda, Christiane; Bækvad-Hansen, Marie; Bybjerg-Grauholm, Jonas; Hansen, Christine S.; Hollegaard, Mads V.; Hougaard, David M.; Mortensen, Preben B.; Weinsheimer, Shantel M.; Werge, Thomas M.; Brennan, Patricia A.; Cubells, Joseph F.; Newport, D. Jeffrey; Stowe, Zachary N.; Cheong, Jeanie L. Y.; Dalach, Philippa; Doyle, Lex W.; Loke, Yuk J.; Baccarelli, Andrea A.; Just, Allan C.; Wright, Robert O.; Téllez-Rojo, Mara M.; Svensson, Katherine; Trevisi, Letizia; Kennedy, Elizabeth M.; Binder, Elisabeth B.; Iurato, Stella; Czamara, Darina; Räikkönen, Katri; Lahti, Jari M. T.; Pesonen, Anu-Katriina; Kajantie, Eero; Villa, Pia M.; Laivuori, Hannele; Hämäläinen, Esa; Park, Hea Jin; Bailey, Lynn B.; Parets, Sasha E.; Kilaru, Varun; Menon, Ramkumar; Horvath, Steve; Bush, Nicole R.; LeWinn, Kaja Z.; Tylavsky, Frances A.; Conneely, Karen N.; Smith, Alicia K. (BioMed Central, 2016)
      Background: Gestational age is often used as a proxy for developmental maturity by clinicians and researchers alike. DNA methylation has previously been shown to be associated with age and has been used to accurately ...