Epigenome-wide Association Studies and the Interpretation of Disease -Omics
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Book Review
Chromatin organization in the female mouse brain fluctuates across the oestrous cycle
Jaric, Ivana, Rocks, Devin, Greally, John M., Suzuki, Masako, Kundakovic, Marija
Published in Nature communications (28.06.2019)
Published in Nature communications (28.06.2019)
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Journal Article
Pediatric Obesity-Related Asthma: The Role of Metabolic Dysregulation
Vijayakanthi, Nandini, Greally, John M, Rastogi, Deepa
Published in Pediatrics (Evanston) (01.05.2016)
Published in Pediatrics (Evanston) (01.05.2016)
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Journal Article
Using epigenomics to understand cellular responses to environmental influences in diseases
Wattacheril, Julia J, Raj, Srilakshmi, Knowles, David A, Greally, John M
Published in PLoS genetics (19.01.2023)
Published in PLoS genetics (19.01.2023)
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Journal Article
Genetic-epigenetic interactions in cis: a major focus in the post-GWAS era
Do, Catherine, Shearer, Alyssa, Suzuki, Masako, Terry, Mary Beth, Gelernter, Joel, Greally, John M, Tycko, Benjamin
Published in Genome Biology (19.06.2017)
Published in Genome Biology (19.06.2017)
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Journal Article
The shape of gene expression distributions matter: how incorporating distribution shape improves the interpretation of cancer transcriptomic data
de Torrenté, Laurence, Zimmerman, Samuel, Suzuki, Masako, Christopeit, Maximilian, Greally, John M, Mar, Jessica C
Published in BMC bioinformatics (28.12.2020)
Published in BMC bioinformatics (28.12.2020)
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Journal Article
Genetic recombination is targeted towards gene promoter regions in dogs
Auton, Adam, Rui Li, Ying, Kidd, Jeffrey, Oliveira, Kyle, Nadel, Julie, Holloway, J Kim, Hayward, Jessica J, Cohen, Paula E, Greally, John M, Wang, Jun, Bustamante, Carlos D, Boyko, Adam R
Published in PLoS genetics (01.12.2013)
Published in PLoS genetics (01.12.2013)
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Journal Article
Engineering a haematopoietic stem cell niche by revitalizing mesenchymal stromal cells
Nakahara, Fumio, Borger, Daniel K., Wei, Qiaozhi, Pinho, Sandra, Maryanovich, Maria, Zahalka, Ali H., Suzuki, Masako, Cruz, Cristian D., Wang, Zichen, Xu, Chunliang, Boulais, Philip E., Ma’ayan, Avi, Greally, John M., Frenette, Paul S.
Published in Nature cell biology (01.05.2019)
Published in Nature cell biology (01.05.2019)
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Journal Article
Recommendations for clinical interpretation of variants found in non-coding regions of the genome
Ellingford, Jamie M, Ahn, Joo Wook, Bagnall, Richard D, Baralle, Diana, Barton, Stephanie, Campbell, Chris, Downes, Kate, Ellard, Sian, Duff-Farrier, Celia, FitzPatrick, David R, Greally, John M, Ingles, Jodie, Krishnan, Neesha, Lord, Jenny, Martin, Hilary C, Newman, William G, O'Donnell-Luria, Anne, Ramsden, Simon C, Rehm, Heidi L, Richardson, Ebony, Singer-Berk, Moriel, Taylor, Jenny C, Williams, Maggie, Wood, Jordan C, Wright, Caroline F, Harrison, Steven M, Whiffin, Nicola
Published in Genome medicine (19.07.2022)
Published in Genome medicine (19.07.2022)
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Journal Article
Insights from deconvolution of cell subtype proportions enhance the interpretation of functional genomic data
Kong, Yu, Rastogi, Deepa, Seoighe, Cathal, Greally, John M, Suzuki, Masako
Published in PloS one (25.04.2019)
Published in PloS one (25.04.2019)
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Journal Article
Distinct Factors Control Histone Variant H3.3 Localization at Specific Genomic Regions
Goldberg, Aaron D., Banaszynski, Laura A., Noh, Kyung-Min, Lewis, Peter W., Elsaesser, Simon J., Stadler, Sonja, Dewell, Scott, Law, Martin, Guo, Xingyi, Li, Xuan, Wen, Duancheng, Chapgier, Ariane, DeKelver, Russell C., Miller, Jeffrey C., Lee, Ya-Li, Boydston, Elizabeth A., Holmes, Michael C., Gregory, Philip D., Greally, John M., Rafii, Shahin, Yang, Chingwen, Scambler, Peter J., Garrick, David, Gibbons, Richard J., Higgs, Douglas R., Cristea, Ileana M., Urnov, Fyodor D., Zheng, Deyou, Allis, C. David
Published in Cell (05.03.2010)
Published in Cell (05.03.2010)
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Journal Article
Mosaic epigenetic dysregulation of ectodermal cells in autism spectrum disorder
Berko, Esther R, Suzuki, Masako, Beren, Faygel, Lemetre, Christophe, Alaimo, Christine M, Calder, R Brent, Ballaban-Gil, Karen, Gounder, Batya, Kampf, Kaylee, Kirschen, Jill, Maqbool, Shahina B, Momin, Zeineen, Reynolds, David M, Russo, Natalie, Shulman, Lisa, Stasiek, Edyta, Tozour, Jessica, Valicenti-McDermott, Maria, Wang, Shenglong, Abrahams, Brett S, Hargitai, Joseph, Inbar, Dov, Zhang, Zhengdong, Buxbaum, Joseph D, Molholm, Sophie, Foxe, John J, Marion, Robert W, Auton, Adam, Greally, John M
Published in PLoS genetics (01.05.2014)
Published in PLoS genetics (01.05.2014)
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Ascorbic acid-induced TET activation mitigates adverse hydroxymethylcytosine loss in renal cell carcinoma
Shenoy, Niraj, Bhagat, Tushar D, Cheville, John, Lohse, Christine, Bhattacharyya, Sanchari, Tischer, Alexander, Machha, Venkata, Gordon-Mitchell, Shanisha, Choudhary, Gaurav, Wong, Li-Fan, Gross, LouAnn, Ressigue, Emily, Leibovich, Bradley, Boorjian, Stephen A, Steidl, Ulrich, Wu, Xiaosheng, Pradhan, Kith, Gartrell, Benjamin, Agarwal, Beamon, Pagliaro, Lance, Suzuki, Masako, Greally, John M, Rakheja, Dinesh, Thompson, R Houston, Susztak, Katalin, Witzig, Thomas, Zou, Yiyu, Verma, Amit
Published in The Journal of clinical investigation (01.04.2019)
Published in The Journal of clinical investigation (01.04.2019)
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Journal Article
Redistribution of H3K27me3 upon DNA hypomethylation results in de-repression of Polycomb target genes
Reddington, James P, Perricone, Sara M, Nestor, Colm E, Reichmann, Judith, Youngson, Neil A, Suzuki, Masako, Reinhardt, Diana, Dunican, Donncha S, Prendergast, James G, Mjoseng, Heidi, Ramsahoye, Bernard H, Whitelaw, Emma, Greally, John M, Adams, Ian R, Bickmore, Wendy A, Meehan, Richard R
Published in Genome Biology (25.03.2013)
Published in Genome Biology (25.03.2013)
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Journal Article
Regulatory landscape enrichment analysis (RLEA): a computational toolkit for non-coding variant enrichment and cell type prioritization
Rosean, Samuel, Sosa, Eric A, O'Shea, Dónal, Raj, Srilakshmi M, Seoighe, Cathal, Greally, John M
Published in BMC bioinformatics (07.05.2024)
Published in BMC bioinformatics (07.05.2024)
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Journal Article
MDS and secondary AML display unique patterns and abundance of aberrant DNA methylation
Figueroa, Maria E., Skrabanek, Lucy, Li, Yushan, Jiemjit, Anchalee, Fandy, Tamer E., Paietta, Elisabeth, Fernandez, Hugo, Tallman, Martin S., Greally, John M., Carraway, Hetty, Licht, Jonathan D., Gore, Steven D., Melnick, Ari
Published in Blood (15.10.2009)
Published in Blood (15.10.2009)
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Journal Article
LINE-1 Activity in Facultative Heterochromatin Formation during X Chromosome Inactivation
Chow, Jennifer C., Ciaudo, Constance, Fazzari, Melissa J., Mise, Nathan, Servant, Nicolas, Glass, Jacob L., Attreed, Matthew, Avner, Philip, Wutz, Anton, Barillot, Emmanuel, Greally, John M., Voinnet, Olivier, Heard, Edith
Published in Cell (11.06.2010)
Published in Cell (11.06.2010)
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Journal Article
Early-life stress and ovarian hormones alter transcriptional regulation in the nucleus accumbens resulting in sex-specific responses to cocaine
Rocks, Devin, Jaric, Ivana, Bellia, Fabio, Cham, Heining, Greally, John M., Suzuki, Masako, Kundakovic, Marija
Published in Cell reports (Cambridge) (31.10.2023)
Published in Cell reports (Cambridge) (31.10.2023)
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Journal Article
Repressor element-1 silencing transcription factor (REST)-dependent epigenetic remodeling is critical to ischemia-induced neuronal death
Noh, Kyung-Min, Hwang, Jee-Yeon, Follenzi, Antonia, Athanasiadou, Rodoniki, Miyawaki, Takahiro, Greally, John M, Bennett, Michael V. L, Zukin, R. Suzanne
Published in Proceedings of the National Academy of Sciences - PNAS (17.04.2012)
Published in Proceedings of the National Academy of Sciences - PNAS (17.04.2012)
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