John M. Greally - Publications

Albert Einstein College of Medicine of Yeshiva University, NY, United States 

118 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Bhagat TD, Von Ahrens D, Dawlaty M, Zou Y, Baddour J, Achreja A, Zhao H, Yang L, Patel B, Kang C, Choudhary G, Gordon-Mitchell S, Aluri S, Bhattacharyya S, Sahu S, ... ... Greally J, et al. Lactate-mediated epigenetic reprogramming regulates formation of human pancreatic cancer-associated fibroblasts. Elife. 8. PMID 31663852 DOI: 10.7554/Elife.50663  0.36
2019 Bowler TG, Pradhan K, Kong Y, Bartenstein M, Morrone KA, Shridharan A, Kessel RM, Shastri A, Giricz O, Bhagat TD, Gordon-Mitchell S, Rohanizadegan M, Hooda L, Datt I, Przychodzen BP, ... ... Greally JM, et al. Misidentification of and other mutations in cancer due to highly homologous genomic regions. Leukemia & Lymphoma. 1-6. PMID 31288594 DOI: 10.1080/10428194.2019.1630620  0.36
2019 Sato H, Wu B, Delahaye F, Singer RH, Greally JM. Retargeting of macroH2A following mitosis to cytogenetic-scale heterochromatic domains. The Journal of Cell Biology. PMID 31110057 DOI: 10.1083/Jcb.201811109  0.36
2019 Shenoy N, Bhagat TD, Cheville JC, Lohse C, Bhattacharyya S, Tischer A, Machha V, Gordon-Mitchell S, Choudhary GS, Wong LF, Gross L, Ressegue E, Leibovich BC, Boorjian SA, Steidl U, ... ... Greally JM, et al. Ascorbic acid-induced TET activation mitigates adverse hydroxymethylcystosine loss in renal cell carcinoma. The Journal of Clinical Investigation. PMID 30702441 DOI: 10.1172/Jci98747  0.36
2018 Giricz O, Mo Y, Dahlman KB, Cotto-Rios XM, Vardabasso C, Nguyen H, Matusow B, Bartenstein M, Polishchuk V, Johnson DB, Bhagat TD, Shellooe R, Burton E, Tsai J, Zhang C, ... ... Greally JM, et al. The RUNX1/IL-34/CSF-1R axis is an autocrinally regulated modulator of resistance to BRAF-V600E inhibition in melanoma. Jci Insight. 3. PMID 30046005 DOI: 10.1172/Jci.Insight.120422  0.36
2018 Battachariyya S, Tytarenko R, Heuck C, Greally J, Verma A. Genome Wide Mapping of Methylated and Hydroxyl-Methylated Cytosines Using a Modified HpaII Tiny Fragment Enrichment by Ligation Mediated PCR Tagged Sequencing Protocol. Methods in Molecular Biology (Clifton, N.J.). 1792: 167-177. PMID 29797259 DOI: 10.1007/978-1-4939-7865-6_12  0.36
2018 Tozour J, Delahaye F, Suzuki M, Praiss A, Zhao Y, Cui L, Heo HJ, Greally J, Hughes F. Intrauterine hyperglycemia is associated with an impaired postnatal response to oxidative damage. Stem Cells and Development. PMID 29598691 DOI: 10.1089/Scd.2017.0232  0.36
2018 Giricz O, Mo Y, Dahlman KB, Cotto-Rios XM, Vardabasso C, Nguyen H, Matusow B, Bartenstein M, Polishchuck-Lee V, Johnson DB, Bhagat TB, Shellooe R, Burton E, Habets G, Greally JM, et al. Abstract 2515: Aberrant expression of CSF1R in melanoma is driven through an endogenous viral promoter and it contributes to malignant growth and BRAF-inhibitor resistance Cancer Research. 78: 2515-2515. DOI: 10.1158/1538-7445.Am2018-2515  0.36
2017 Bhattacharyya S, Pradhan K, Campbell N, Mazdo J, Vasantkumar A, Maqbool S, Bhagat TD, Gupta S, Suzuki M, Yu Y, Greally JM, Steidl U, Bradner J, Dawlaty M, Godley L, et al. Altered hydroxymethylation is seen at regulatory regions in pancreatic cancer and regulates oncogenic pathways. Genome Research. PMID 28986391 DOI: 10.1101/Gr.222794.117  0.36
2017 Bhagat T, Chen S, Bartenstein M, Barlowe TS, von Ahrens D, Choudhary GS, Tivnan P, Amin E, Marcondes AM, Sanders MA, Hoogenboezem RM, Kambhampati S, Ramachandra N, Mantzaris I, Sukrithan V, ... ... Greally J, et al. Wnt/ß-catenin activation by epigenetically aberrant stroma drives myelodysplastic syndrome. Cancer Research. PMID 28684528 DOI: 10.1158/0008-5472.Can-17-0282  0.36
2017 Wijetunga NA, Johnston AD, Maekawa R, Delahaye F, Ulahannan N, Kim K, Greally JM. SMITE: an R/Bioconductor package that identifies network modules by integrating genomic and epigenomic information. Bmc Bioinformatics. 18: 41. PMID 28100166 DOI: 10.1186/S12859-017-1477-3  0.36
2017 Giricz O, Mo Y, Hu CY, Yu Y, Pradhan K, Bartenstein M, Ramachandra N, Polishchuck V, Dahlman KB, Bhagat T, Nguyen H, Matusow B, Shellooe R, Burton E, Kenny P, ... Greally J, et al. Abstract 3332: Aberrant expression of CSF1R in melanoma is driven through an endogenous viral promoter and it contributes to malignant growth and the acquisition of resistance against BRAF inhibition Cancer Research. 77: 3332-3332. DOI: 10.1158/1538-7445.Am2017-3332  0.36
2017 Bhagat TD, Zou Y, Huang S, Park J, Palmer MB, Hu C, Li W, Shenoy N, Giricz O, Yu Y, Ko Y, Izquierdo MC, Park E, Vallumsetla N, Laurence R, ... ... Greally J, et al. Abstract 1170: Notch pathway is overexpressed and is a therapeutic target in clear cell renal cancer Cancer Research. 77: 1170-1170. DOI: 10.1158/1538-7445.Am2017-1170  0.36
2016 Bhagat TD, Zou Y, Huang S, Park J, Palmer MB, Hu C, Li W, Shenoy N, Giricz O, Choudhary G, Yu Y, Ko YA, Izquierdo MC, Park AS, Vallumsetla N, ... ... Greally JM, et al. Notch pathway is activated via genetic and epigenetic alterations and is a therapeutic target in clear cell renal cancer. The Journal of Biological Chemistry. PMID 27909050 DOI: 10.1074/Jbc.M116.745208  0.36
2016 Wijetunga NA, Ben-Dayan M, Tozour J, Burk RD, Schlecht NF, Einstein MH, Greally JM. A polycomb-mediated epigenetic field defect precedes invasive cervical carcinoma. Oncotarget. PMID 27557505 DOI: 10.18632/Oncotarget.11390  0.36
2016 Chow JC, Ciaudo C, Fazzari MJ, Mise N, Servant N, Glass JL, Attreed M, Avner P, Wutz A, Barillot E, Greally JM, Voinnet O, Heard E. LINE-1 Activity in Facultative Heterochromatin Formation during X Chromosome Inactivation. Cell. 166: 782. PMID 27471971 DOI: 10.1016/J.Cell.2016.07.013  0.36
2016 Khrapunov S, Tao Y, Cheng H, Padlan CF, Harris R, Galanopoulou AS, Greally JM, Girvin ME, Brenowitz MD. MeCP2 binding cooperativity inhibits DNA modification specific recognition. Biochemistry. PMID 27420643 DOI: 10.1021/Acs.Biochem.6B00451  0.36
2016 Wijetunga NA, Belbin TJ, Burk RD, Whitney K, Abadi M, Greally JM, Einstein MH, Schlecht NF. Novel epigenetic changes in CDKN2A are associated with progression of cervical intraepithelial neoplasia. Gynecologic Oncology. PMID 27401842 DOI: 10.1016/J.Ygyno.2016.07.006  0.36
2016 Suzuki M, Maekawa R, Patterson NE, Reynolds DM, Calder BR, Reznik SE, Heo HJ, Einstein FH, Greally JM. Amnion as a surrogate tissue reporter of the effects of maternal preeclampsia on the fetus. Clinical Epigenetics. 8: 67. PMID 27293492 DOI: 10.1186/S13148-016-0234-1  0.36
2016 Yuan Z, Claros CS, Suzuki M, Maggi EC, Kaner JD, Kinstlinger N, Gorecka J, Quinn TJ, Geha R, Corn A, Pastoriza J, Jing Q, Adem A, Wu H, Alemu G, ... ... Greally JM, et al. Loss of MEN1 activates DNMT1 implicating DNA hypermethylation as a driver of MEN1 tumorigenesis. Oncotarget. PMID 26871472 DOI: 10.18632/Oncotarget.7279  0.36
2016 Giricz O, Mo Y, Hu CH, Dahlman K, Ramachandra N, Bartenstein M, Pradhan K, Bhagat T, Yu Y, Nguyen H, Burton E, Matusow B, Habets G, Shellooe R, Bollag G, ... ... Greally J, et al. Abstract 1885: Integrated epigenomic profiling reveals widespread demethylation in melanoma and points to the role of CSF1R-RUNX1 axis in resistance against BRAF inhibition Cancer Research. 76: 1885-1885. DOI: 10.1158/1538-7445.Am2016-1885  0.36
2016 Wijetunga NA, Pascual M, Tozour J, Delahaye F, Alani M, Adeyeye M, Wolkoff AW, Verma A, Greally JM. A pre-neoplastic epigenetic field defect in HCV-infected liver at transcription factor binding sites and polycomb targets Oncogene. DOI: 10.1038/Onc.2016.340  0.36
2015 Nadel J, Athanasiadou R, Lemetre C, Wijetunga NA, Ó Broin P, Sato H, Zhang Z, Jeddeloh J, Montagna C, Golden A, Seoighe C, Greally JM. RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships. Epigenetics & Chromatin. 8: 46. PMID 26579211 DOI: 10.1186/S13072-015-0040-6  0.36
2015 Delio M, Patel K, Maslov A, Marion RW, McDonald TV, Cadoff EM, Golden A, Greally JM, Vijg J, Morrow B, Montagna C. Development of a Targeted Multi-Disorder High-Throughput Sequencing Assay for the Effective Identification of Disease-Causing Variants. Plos One. 10: e0133742. PMID 26214305 DOI: 10.1371/Journal.Pone.0133742  0.36
2015 Li Q, Suzuki M, Wendt J, Patterson N, Eichten SR, Hermanson PJ, Green D, Jeddeloh J, Richmond T, Rosenbaum H, Burgess D, Springer NM, Greally JM. Post-conversion targeted capture of modified cytosines in mammalian and plant genomes. Nucleic Acids Research. 43: e81. PMID 25813045 DOI: 10.1093/Nar/Gkv244  0.36
2015 Ramos MP, Wijetunga NA, McLellan AS, Suzuki M, Greally JM. DNA demethylation by 5-aza-2'-deoxycytidine is imprinted, targeted to euchromatin, and has limited transcriptional consequences. Epigenetics & Chromatin. 8: 11. PMID 25806086 DOI: 10.1186/S13072-015-0004-X  0.36
2015 Rosenblum JM, Wijetunga NA, Fazzari MJ, Krailo M, Barkauskas DA, Gorlick R, Greally JM. Predictive properties of DNA methylation patterns in primary tumor samples for osteosarcoma relapse status. Epigenetics. 10: 31-9. PMID 25531418 DOI: 10.4161/15592294.2014.989084  0.36
2015 Giricz O, Mo Y, Hu C, Dahlman K, Bhattacharyya S, Nguyen H, Matusow B, Bhagat T, Yu Y, Shellooe R, Burton E, Habets G, Greally J, Paraic K, Sosman J, et al. Abstract PR06: Integrated epigenomic profiling reveals widespread demethylation in melanoma and reveals CSF-1 Receptor as an aberrant regulator of malignant growth and invasion Cancer Research. 74: 4781-4781. DOI: 10.1158/1538-7445.Mel2014-Pr06  0.36
2015 Chadwick LH, Sawa A, Yang IV, Baccarelli A, Breakefield XO, Deng HW, Dolinoy DC, Fallin MD, Holland NT, Houseman EA, Lomvardas S, Rao M, Satterlee JS, Tyson FL, Vijayanand P, ... Greally JM, et al. New insights and updated guidelines for epigenome-wide association studies Neuroepigenetics. 1: 14-19. DOI: 10.1016/J.Nepig.2014.10.004  0.36
2014 Wijetunga NA, Delahaye F, Zhao YM, Golden A, Mar JC, Einstein FH, Greally JM. The meta-epigenomic structure of purified human stem cell populations is defined at cis-regulatory sequences. Nature Communications. 5: 5195. PMID 25327398 DOI: 10.1038/Ncomms6195  0.36
2014 Delahaye F, Wijetunga NA, Heo HJ, Tozour JN, Zhao YM, Greally JM, Einstein FH. Sexual dimorphism in epigenomic responses of stem cells to extreme fetal growth Nature Communications. 5. PMID 25300954 DOI: 10.1038/Ncomms6187  0.36
2014 Pascual M, Roa S, García-Sánchez A, Sanz C, Hernandez-Hernandez L, Greally JM, Lorente F, Dávila I, Isidoro-García M. Genome-wide expression profiling of B lymphocytes reveals IL4R increase in allergic asthma. The Journal of Allergy and Clinical Immunology. 134: 972-5. PMID 24975796 DOI: 10.1016/J.Jaci.2014.05.015  0.36
2014 Hu CY, Mohtat D, Yu Y, Ko YA, Shenoy N, Bhattacharya S, Izquierdo MC, Park AS, Giricz O, Vallumsetla N, Gundabolu K, Ware K, Bhagat TD, Suzuki M, Pullman J, ... ... Greally JM, et al. Kidney cancer is characterized by aberrant methylation of tissue-specific enhancers that are prognostic for overall survival. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. 20: 4349-60. PMID 24916699 DOI: 10.1158/1078-0432.Ccr-14-0494  0.36
2014 Berko ER, Suzuki M, Beren F, Lemetre C, Alaimo CM, Calder RB, Ballaban-Gil K, Gounder B, Kampf K, Kirschen J, Maqbool SB, Momin Z, Reynolds DM, Russo N, Shulman L, ... ... Greally JM, et al. Mosaic epigenetic dysregulation of ectodermal cells in autism spectrum disorder. Plos Genetics. 10: e1004402. PMID 24875834 DOI: 10.1371/Journal.Pgen.1004402  0.36
2014 Bartholdy B, Christopeit M, Will B, Mo Y, Barreyro L, Yu Y, Bhagat TD, Okoye-Okafor UC, Todorova TI, Greally JM, Levine RL, Melnick A, Verma A, Steidl U. HSC commitment-associated epigenetic signature is prognostic in acute myeloid leukemia. The Journal of Clinical Investigation. 124: 1158-67. PMID 24487588 DOI: 10.1172/Jci71264  0.36
2013 Auton A, Rui Li Y, Kidd J, Oliveira K, Nadel J, Holloway JK, Hayward JJ, Cohen PE, Greally JM, Wang J, Bustamante CD, Boyko AR. Genetic recombination is targeted towards gene promoter regions in dogs. Plos Genetics. 9: e1003984. PMID 24348265 DOI: 10.1371/Journal.Pgen.1003984  0.36
2013 Ko YA, Mohtat D, Suzuki M, Park AS, Izquierdo MC, Han SY, Kang HM, Si H, Hostetter T, Pullman JM, Fazzari M, Verma A, Zheng D, Greally JM, Susztak K. Cytosine methylation changes in enhancer regions of core pro-fibrotic genes characterize kidney fibrosis development. Genome Biology. 14: R108. PMID 24098934 DOI: 10.1186/Gb-2013-14-10-R108  0.36
2013 Michels KB, Binder AM, Dedeurwaerder S, Epstein CB, Greally JM, Gut I, Houseman EA, Izzi B, Kelsey KT, Meissner A, Milosavljevic A, Siegmund KD, Bock C, Irizarry RA. Recommendations for the design and analysis of epigenome-wide association studies. Nature Methods. 10: 949-55. PMID 24076989 DOI: 10.1038/Nmeth.2632  0.36
2013 Golden A, Djorgovski S, Greally JM. Astrogenomics: big data, old problems, old solutions? Genome Biology. 14: 129. PMID 23953643 DOI: 10.1186/Gb-2013-14-8-129  0.36
2013 Bhattacharyya S, Yu Y, Suzuki M, Campbell N, Mazdo J, Vasanthakumar A, Bhagat TD, Nischal S, Christopeit M, Parekh S, Steidl U, Godley L, Maitra A, Greally JM, Verma A. Genome-wide hydroxymethylation tested using the HELP-GT assay shows redistribution in cancer. Nucleic Acids Research. 41: e157. PMID 23861445 DOI: 10.1093/Nar/Gkt601  0.36
2013 Ikeda R, Shiura H, Numata K, Sugimoto M, Kondo M, Mise N, Suzuki M, Greally JM, Abe K. Large, male germ cell-specific hypomethylated DNA domains with unique genomic and epigenomic features on the mouse X chromosome. Dna Research : An International Journal For Rapid Publication of Reports On Genes and Genomes. 20: 549-65. PMID 23861320 DOI: 10.1093/Dnares/Dst030  0.36
2013 Rastogi D, Suzuki M, Greally JM. Differential epigenome-wide DNA methylation patterns in childhood obesity-associated asthma. Scientific Reports. 3: 2164. PMID 23857381 DOI: 10.1038/Srep02164  0.36
2013 Gendrel AV, Tang YA, Suzuki M, Godwin J, Nesterova TB, Greally JM, Heard E, Brockdorff N. Epigenetic functions of smchd1 repress gene clusters on the inactive X chromosome and on autosomes. Molecular and Cellular Biology. 33: 3150-65. PMID 23754746 DOI: 10.1128/Mcb.00145-13  0.36
2013 Heuck CJ, Mehta J, Bhagat T, Gundabolu K, Yu Y, Khan S, Chrysofakis G, Schinke C, Tariman J, Vickrey E, Pulliam N, Nischal S, Zhou L, Bhattacharyya S, Meagher R, ... ... Greally J, et al. Myeloma is characterized by stage-specific alterations in DNA methylation that occur early during myelomagenesis. Journal of Immunology (Baltimore, Md. : 1950). 190: 2966-75. PMID 23408834 DOI: 10.4049/Jimmunol.1202493  0.36
2013 Wu W, Bhagat TD, Yang X, Song JH, Cheng Y, Agarwal R, Abraham JM, Ibrahim S, Bartenstein M, Hussain Z, Suzuki M, Yu Y, Chen W, Eng C, Greally J, et al. Hypomethylation of noncoding DNA regions and overexpression of the long noncoding RNA, AFAP1-AS1, in Barrett's esophagus and esophageal adenocarcinoma. Gastroenterology. 144: 956-966.e4. PMID 23333711 DOI: 10.1053/J.Gastro.2013.01.019  0.36
2013 Yu Y, Mo Y, Ebenezer D, Bhattacharyya S, Liu H, Sundaravel S, Giricz O, Wontakal S, Cartier J, Caces B, Artz A, Nischal S, Bhagat T, Bathon K, Maqbool S, ... ... Greally J, et al. High resolution methylome analysis reveals widespread functional hypomethylation during adult human erythropoiesis. The Journal of Biological Chemistry. 288: 8805-14. PMID 23306203 DOI: 10.1074/Jbc.M112.423756  0.36
2013 Nischal S, Bhattacharyya S, Christopeit M, Yu Y, Zhou L, Bhagat TD, Sohal D, Will B, Mo Y, Suzuki M, Pardanani A, McDevitt M, Maciejewski JP, Melnick AM, Greally JM, et al. Methylome profiling reveals distinct alterations in phenotypic and mutational subgroups of myeloproliferative neoplasms. Cancer Research. 73: 1076-85. PMID 23066032 DOI: 10.1158/0008-5472.Can-12-0735  0.36
2013 Mo Y, Giricz O, Hu C, Dahlman K, Bhattacharyya S, Nguyen H, Matusow B, Bhagat T, Yu Y, Shellooe R, Burton E, Habets G, Greally J, Kenny P, Sosman J, et al. Abstract A26: Integrated epigenomic profiling reveals widespread demethylation in melanoma, and reveals aberrant CSF-1 receptor expression as a regulator of malignant growth and invasion inhibited by PLX3397 Cancer Research. 73. DOI: 10.1158/1538-7445.Tim2013-A26  0.36
2013 Bhattacharyya S, Yu Y, Suzuki M, Cambpell N, Mazdo J, Vasantkumar A, Bhagat TD, Nischal S, Steidl U, Godley L, Maitra A, Greally JM, Verma A. Abstract 4231: Genome wide hydroxymethylation tested using the HELP-GT assay shows redistribution in cancer. Cancer Research. 73: 4231-4231. DOI: 10.1158/1538-7445.Am2013-4231  0.36
2013 Bhagat TD, Rattigan Y, Patel B, Mirte S, Yu Y, Sohal D, Bartenstein M, Giricz O, Gordon SA, Vallumsetla N, Polineni R, Walia M, Kenny P, Greally J, Banerjee D, et al. Abstract 1504: Pancreatic cancer associated fibroblasts are characterized by widespread epigenetic reprogramming that leads to aberrant expression of druggable target CXCR4. Cancer Research. 73: 1504-1504. DOI: 10.1158/1538-7445.Am2013-1504  0.36
2013 Bhagat TD, Bartenstein M, Yu Y, Marcondes AM, Sohal D, Greally J, Deeg HJ, Verma A. Abstract 1503: Myelodysplasia bone marrow stromal cells have widespread aberrant hypermethylation that is targeted by treatment with DNMT inhibitors. Cancer Research. 73: 1503-1503. DOI: 10.1158/1538-7445.Am2013-1503  0.36
2012 Beck S, Bernstein BE, Campbell RM, Costello JF, Dhanak D, Ecker JR, Greally JM, Issa JP, Laird PW, Polyak K, Tycko B, Jones PA. A blueprint for an international cancer epigenome consortium. A report from the AACR Cancer Epigenome Task Force. Cancer Research. 72: 6319-24. PMID 23188507 DOI: 10.1158/0008-5472.Can-12-3658  0.36
2012 McLellan AS, Dubin RA, Jing Q, Broin PÓ, Moskowitz D, Suzuki M, Calder RB, Hargitai J, Golden A, Greally JM. The Wasp System: an open source environment for managing and analyzing genomic data. Genomics. 100: 345-51. PMID 22944616 DOI: 10.1016/J.Ygeno.2012.08.005  0.36
2012 Golden A, McLellan AS, Dubin RA, Jing Q, O Broin P, Moskowitz D, Zhang Z, Suzuki M, Hargitai J, Calder RB, Greally JM. The Einstein Genome Gateway using WASP - a high throughput multi-layered life sciences portal for XSEDE. Studies in Health Technology and Informatics. 175: 182-91. PMID 22942009 DOI: 10.3233/978-1-61499-054-3-182  0.36
2012 Das R, Anderson N, Koran MI, Weidman JR, Mikkelsen TS, Kamal M, Murphy SK, Linblad-Toh K, Greally JM, Jirtle RL. Convergent and divergent evolution of genomic imprinting in the marsupial Monodelphis domestica. Bmc Genomics. 13: 394. PMID 22899817 DOI: 10.1186/1471-2164-13-394  0.36
2012 Will B, Zhou L, Vogler TO, Ben-Neriah S, Schinke C, Tamari R, Yu Y, Bhagat TD, Bhattacharyya S, Barreyro L, Heuck C, Mo Y, Parekh S, McMahon C, Pellagatti A, ... ... Greally JM, et al. Stem and progenitor cells in myelodysplastic syndromes show aberrant stage-specific expansion and harbor genetic and epigenetic alterations. Blood. 120: 2076-86. PMID 22753872 DOI: 10.1182/Blood-2011-12-399683  0.36
2012 Haigentz M, Kim M, Sarta C, Lin J, Keresztes RS, Culliney B, Gaba AG, Smith RV, Shapiro GI, Chirieac LR, Mariadason JM, Belbin TJ, Greally JM, Wright JJ, Haddad RI. Phase II trial of the histone deacetylase inhibitor romidepsin in patients with recurrent/metastatic head and neck cancer. Oral Oncology. 48: 1281-8. PMID 22748449 DOI: 10.1016/J.Oraloncology.2012.05.024  0.36
2012 Noh KM, Hwang JY, Follenzi A, Athanasiadou R, Miyawaki T, Greally JM, Bennett MV, Zukin RS. Repressor element-1 silencing transcription factor (REST)-dependent epigenetic remodeling is critical to ischemia-induced neuronal death. Proceedings of the National Academy of Sciences of the United States of America. 109: E962-71. PMID 22371606 DOI: 10.1073/Pnas.1121568109  0.36
2012 Smith AC, Suzuki M, Thompson R, Choufani S, Higgins MJ, Chiu IW, Squire JA, Greally JM, Weksberg R. Maternal gametic transmission of translocations or inversions of human chromosome 11p15.5 results in regional DNA hypermethylation and downregulation of CDKN1C expression. Genomics. 99: 25-35. PMID 22079941 DOI: 10.1016/J.Ygeno.2011.10.007  0.36
2011 Suzuki M, Oda M, Ramos MP, Pascual M, Lau K, Stasiek E, Agyiri F, Thompson RF, Glass JL, Jing Q, Sandstrom R, Fazzari MJ, Hansen RS, Stamatoyannopoulos JA, McLellan AS, ... Greally JM, et al. Late-replicating heterochromatin is characterized by decreased cytosine methylation in the human genome. Genome Research. 21: 1833-40. PMID 21957152 DOI: 10.1101/Gr.116509.110  0.36
2011 Thomas BJ, Rubio ED, Krumm N, Broin PO, Bomsztyk K, Welcsh P, Greally JM, Golden AA, Krumm A. Allele-specific transcriptional elongation regulates monoallelic expression of the IGF2BP1 gene. Epigenetics & Chromatin. 4: 14. PMID 21812971 DOI: 10.1186/1756-8935-4-14  0.36
2011 Zhou L, Opalinska J, Sohal D, Yu Y, Mo Y, Bhagat T, Abdel-Wahab O, Fazzari M, Figueroa M, Alencar C, Zhang J, Kambhampati S, Parmar S, Nischal S, Hueck C, ... ... Greally JM, et al. Aberrant epigenetic and genetic marks are seen in myelodysplastic leukocytes and reveal Dock4 as a candidate pathogenic gene on chromosome 7q. The Journal of Biological Chemistry. 286: 25211-23. PMID 21532034 DOI: 10.1074/Jbc.M111.235028  0.36
2011 Alvarez H, Opalinska J, Zhou L, Sohal D, Fazzari MJ, Yu Y, Montagna C, Montgomery EA, Canto M, Dunbar KB, Wang J, Roa JC, Mo Y, Bhagat T, Ramesh KH, ... ... Greally JM, et al. Widespread hypomethylation occurs early and synergizes with gene amplification during esophageal carcinogenesis. Plos Genetics. 7: e1001356. PMID 21483804 DOI: 10.1371/Journal.Pgen.1001356  0.36
2011 Acosta D, Suzuki M, Connolly D, Thompson RF, Fazzari MJ, Greally JM, Montagna C. DNA methylation changes in murine breast adenocarcinomas allow the identification of candidate genes for human breast carcinogenesis. Mammalian Genome : Official Journal of the International Mammalian Genome Society. 22: 249-59. PMID 21373886 DOI: 10.1007/S00335-011-9318-6  0.36
2011 Lugthart S, Figueroa ME, Bindels E, Skrabanek L, Valk PJ, Li Y, Meyer S, Erpelinck-Verschueren C, Greally J, Löwenberg B, Melnick A, Delwel R. Aberrant DNA hypermethylation signature in acute myeloid leukemia directed by EVI1. Blood. 117: 234-41. PMID 20855866 DOI: 10.1182/Blood-2010-04-281337  0.36
2010 Sharma A, Heuck CJ, Fazzari MJ, Mehta J, Singhal S, Greally JM, Verma A. DNA methylation alterations in multiple myeloma as a model for epigenetic changes in cancer. Wiley Interdisciplinary Reviews. Systems Biology and Medicine. 2: 654-69. PMID 20890963 DOI: 10.1002/Wsbm.89  0.36
2010 Fazzari MJ, Greally JM. Introduction to epigenomics and epigenome-wide analysis. Methods in Molecular Biology (Clifton, N.J.). 620: 243-65. PMID 20652507 DOI: 10.1007/978-1-60761-580-4_7  0.36
2010 Shaknovich R, Geng H, Johnson NA, Tsikitas L, Cerchietti L, Greally JM, Gascoyne RD, Elemento O, Melnick A. DNA methylation signatures define molecular subtypes of diffuse large B-cell lymphoma. Blood. 116: e81-9. PMID 20610814 DOI: 10.1182/Blood-2010-05-285320  0.36
2010 Kinney SR, Moser MT, Pascual M, Greally JM, Foster BA, Karpf AR. Opposing roles of Dnmt1 in early- and late-stage murine prostate cancer. Molecular and Cellular Biology. 30: 4159-74. PMID 20584988 DOI: 10.1128/Mcb.00235-10  0.36
2010 Chow JC, Ciaudo C, Fazzari MJ, Mise N, Servant N, Glass JL, Attreed M, Avner P, Wutz A, Barillot E, Greally JM, Voinnet O, Heard E. LINE-1 activity in facultative heterochromatin formation during X chromosome inactivation. Cell. 141: 956-69. PMID 20550932 DOI: 10.1016/j.cell.2010.04.042  0.36
2010 Thompson RF, Atzmon G, Gheorghe C, Liang HQ, Lowes C, Greally JM, Barzilai N. Tissue-specific dysregulation of DNA methylation in aging. Aging Cell. 9: 506-18. PMID 20497131 DOI: 10.1111/J.1474-9726.2010.00577.X  0.36
2010 Schinke C, Mo Y, Yu Y, Amiri K, Sosman J, Greally J, Verma A. Aberrant DNA methylation in malignant melanoma Melanoma Research. 20: 253-265. PMID 20418788 DOI: 10.1097/Cmr.0B013E328338A35A  0.36
2010 Goldberg AD, Banaszynski LA, Noh KM, Lewis PW, Elsaesser SJ, Stadler S, Dewell S, Law M, Guo X, Li X, Wen D, Chapgier A, DeKelver RC, Miller JC, Lee YL, ... ... Greally JM, et al. Distinct factors control histone variant H3.3 localization at specific genomic regions. Cell. 140: 678-91. PMID 20211137 DOI: 10.1016/J.Cell.2010.01.003  0.36
2010 Thompson RF, Fazzari MJ, Niu H, Barzilai N, Simmons RA, Greally JM. Experimental intrauterine growth restriction induces alterations in DNA methylation and gene expression in pancreatic islets of rats. The Journal of Biological Chemistry. 285: 15111-8. PMID 20194508 DOI: 10.1074/Jbc.M109.095133  0.36
2010 Einstein F, Thompson RF, Bhagat TD, Fazzari MJ, Verma A, Barzilai N, Greally JM. Cytosine methylation dysregulation in neonates following intrauterine growth restriction. Plos One. 5: e8887. PMID 20126273 DOI: 10.1371/Journal.Pone.0008887  0.36
2010 Thompson RF, Fazzari MJ, Greally JM. Experimental approaches to the study of epigenomic dysregulation in ageing. Experimental Gerontology. 45: 255-68. PMID 20060885 DOI: 10.1016/J.Exger.2009.12.013  0.36
2010 Figueroa ME, Lugthart S, Li Y, Erpelinck-Verschueren C, Deng X, Christos PJ, Schifano E, Booth J, van Putten W, Skrabanek L, Campagne F, Mazumdar M, Greally JM, Valk PJ, Löwenberg B, et al. DNA methylation signatures identify biologically distinct subtypes in acute myeloid leukemia. Cancer Cell. 17: 13-27. PMID 20060365 DOI: 10.1016/J.Ccr.2009.11.020  0.36
2010 Nischal S, Zhou L, Yu Y, Bhagat T, Mo Y, Heuck C, Suzuki M, Maqbool S, Pardanani A, Greally J, Moliterno A, Verma A. Epigenomic Profiling of Myeloproliferative Diseases Reveal Idiopathic Myelofibrosis as An Epigenetically Distinct Subgroup and Highlights the Epigenetic Effects of Jak2V617F Mutation Blood. 116: 627-627. DOI: 10.1182/Blood.V116.21.627.627  0.36
2009 McLellan AS, Dubin RA, Jing Q, Maqbool SB, Olea R, Westby G, Broin PÓ, Fazzari MJ, Zheng D, Suzuki M, Greally JM. The Einstein Center for Epigenomics: studying the role of epigenomic dysregulation in human disease. Epigenomics. 1: 33-8. PMID 22122636 DOI: 10.2217/Epi.09.9  0.36
2009 Morey Kinney SR, Zhang W, Pascual M, Greally JM, Gillard BM, Karasik E, Foster BA, Karpf AR. Lack of evidence for green tea polyphenols as DNA methylation inhibitors in murine prostate. Cancer Prevention Research (Philadelphia, Pa.). 2: 1065-75. PMID 19934341 DOI: 10.1158/1940-6207.Capr-09-0010  0.36
2009 Glass JL, Fazzari MJ, Ferguson-Smith AC, Greally JM. CG dinucleotide periodicities recognized by the Dnmt3a-Dnmt3L complex are distinctive at retroelements and imprinted domains. Mammalian Genome : Official Journal of the International Mammalian Genome Society. 20: 633-43. PMID 19921333 DOI: 10.1007/S00335-009-9232-3  0.36
2009 Figueroa ME, Skrabanek L, Li Y, Jiemjit A, Fandy TE, Paietta E, Fernandez H, Tallman MS, Greally JM, Carraway H, Licht JD, Gore SD, Melnick A. MDS and secondary AML display unique patterns and abundance of aberrant DNA methylation. Blood. 114: 3448-58. PMID 19652201 DOI: 10.1182/Blood-2009-01-200519  0.36
2009 Thompson RF, Suzuki M, Lau KW, Greally JM. A pipeline for the quantitative analysis of CG dinucleotide methylation using mass spectrometry. Bioinformatics (Oxford, England). 25: 2164-70. PMID 19561019 DOI: 10.1093/Bioinformatics/Btp382  0.36
2009 Oda M, Glass JL, Thompson RF, Mo Y, Olivier EN, Figueroa ME, Selzer RR, Richmond TA, Zhang X, Dannenberg L, Green RD, Melnick A, Hatchwell E, Bouhassira EE, Verma A, ... ... Greally JM, et al. High-resolution genome-wide cytosine methylation profiling with simultaneous copy number analysis and optimization for limited cell numbers. Nucleic Acids Research. 37: 3829-39. PMID 19386619 DOI: 10.1093/Nar/Gkp260  0.36
2009 Figueroa ME, Melnick A, Greally JM. Genome-wide determination of DNA methylation by Hpa II tiny fragment enrichment by ligation-mediated PCR (HELP) for the study of acute leukemias. Methods in Molecular Biology (Clifton, N.J.). 538: 395-407. PMID 19277580 DOI: 10.1007/978-1-59745-418-6_20  0.36
2009 Figueroa ME, Wouters BJ, Skrabanek L, Glass J, Li Y, Erpelinck-Verschueren CA, Langerak AW, Löwenberg B, Fazzari M, Greally JM, Valk PJ, Melnick A, Delwel R. Genome-wide epigenetic analysis delineates a biologically distinct immature acute leukemia with myeloid/T-lymphoid features. Blood. 113: 2795-804. PMID 19168792 DOI: 10.1182/Blood-2008-08-172387  0.36
2008 Lopes EC, Valls E, Figueroa ME, Mazur A, Meng FG, Chiosis G, Laird PW, Schreiber-Agus N, Greally JM, Prokhortchouk E, Melnick A. Kaiso contributes to DNA methylation-dependent silencing of tumor suppressor genes in colon cancer cell lines. Cancer Research. 68: 7258-63. PMID 18794111 DOI: 10.1158/0008-5472.Can-08-0344  0.36
2008 Jeddeloh JA, Greally JM, Rando OJ. Reduced-representation methylation mapping. Genome Biology. 9: 231. PMID 18771577 DOI: 10.1186/Gb-2008-9-8-231  0.36
2008 Sohal D, Yeatts A, Ye K, Pellagatti A, Zhou L, Pahanish P, Mo Y, Bhagat T, Mariadason J, Boultwood J, Melnick A, Greally J, Verma A. Meta-analysis of microarray studies reveals a novel hematopoietic progenitor cell signature and demonstrates feasibility of inter-platform data integration. Plos One. 3: e2965. PMID 18698424 DOI: 10.1371/Journal.Pone.0002965  0.36
2008 Jones PA, Archer TK, Baylin SB, Beck S, Berger S, Bernstein BE, Carpten JD, Clark SJ, Costello JF, Doerge RW, Esteller M, Feinberg AP, Gingeras TR, Greally JM, Henikoff S, et al. Moving AHEAD with an international human epigenome project Nature. 454: 711-715. PMID 18685699 DOI: 10.1038/454711A  0.36
2008 Figueroa ME, Reimers M, Thompson RF, Ye K, Li Y, Selzer RR, Fridriksson J, Paietta E, Wiernik P, Green RD, Greally JM, Melnick A. An integrative genomic and epigenomic approach for the study of transcriptional regulation. Plos One. 3: e1882. PMID 18365023 DOI: 10.1371/Journal.Pone.0001882  0.36
2008 Thompson RF, Reimers M, Khulan B, Gissot M, Richmond TA, Chen Q, Zheng X, Kim K, Greally JM. An analytical pipeline for genomic representations used for cytosine methylation studies. Bioinformatics (Oxford, England). 24: 1161-7. PMID 18353789 DOI: 10.1093/Bioinformatics/Btn096  0.36
2008 Gissot M, Choi SW, Thompson RF, Greally JM, Kim K. Toxoplasma gondii and Cryptosporidium parvum lack detectable DNA cytosine methylation. Eukaryotic Cell. 7: 537-40. PMID 18178772 DOI: 10.1128/Ec.00448-07  0.36
2008 Zhou L, Opalinska JB, Sohal DP, Mo Y, Kambhampati S, Parmar S, Alencar C, Heuck C, Vigoda I, Ng C, Pahanish P, Goel S, Schinke C, Cytryn L, Friedman E, ... ... Greally J, et al. Integrative Genomic Analysis Reveals Aberrant Epigenetic Marks in MDS That Can Be Seen in Peripheral Blood Leucocytes Blood. 112: 595-595. DOI: 10.1182/Blood.V112.11.595.595  0.36
2007 Glass JL, Thompson RF, Khulan B, Figueroa ME, Olivier EN, Oakley EJ, Van Zant G, Bouhassira EE, Melnick A, Golden A, Fazzari MJ, Greally JM. CG dinucleotide clustering is a species-specific property of the genome. Nucleic Acids Research. 35: 6798-807. PMID 17932072 DOI: 10.1093/Nar/Gkm489  0.36
2007 Gissot M, Kelly KA, Ajioka JW, Greally JM, Kim K. Epigenomic modifications predict active promoters and gene structure in Toxoplasma gondii. Plos Pathogens. 3: e77. PMID 17559302 DOI: 10.1371/Journal.Ppat.0030077  0.36
2007 Mikkelsen TS, Wakefield MJ, Aken B, Amemiya CT, Chang JL, Duke S, Garber M, Gentles AJ, Goodstadt L, Heger A, Jurka J, Kamal M, Mauceli E, Searle SM, Sharpe T, ... ... Greally JM, et al. Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences. Nature. 447: 167-77. PMID 17495919 DOI: 10.1038/Nature05805  0.36
2006 Khulan B, Thompson RF, Ye K, Fazzari MJ, Suzuki M, Stasiek E, Figueroa ME, Glass JL, Chen Q, Montagna C, Hatchwell E, Selzer RR, Richmond TA, Green RD, Melnick A, ... Greally JM, et al. Comparative isoschizomer profiling of cytosine methylation: the HELP assay. Genome Research. 16: 1046-55. PMID 16809668 DOI: 10.1101/Gr.5273806  0.36
2006 Lieb JD, Beck S, Bulyk ML, Farnham P, Hattori N, Henikoff S, Liu XS, Okumura K, Shiota K, Ushijima T, Greally JM. Applying whole-genome studies of epigenetic regulation to study human disease. Cytogenetic and Genome Research. 114: 1-15. PMID 16717444 DOI: 10.1159/000091922  0.36
2004 Fazzari MJ, Greally JM. EPIGENOMICS: BEYOND CpG ISLANDS Nature Reviews Genetics. 5: 446-455. PMID 15153997 DOI: 10.1038/Nrg1349  0.36
2003 Chai JH, Locke DP, Greally JM, Knoll JH, Ohta T, Dunai J, Yavor A, Eichler EE, Nicholls RD. Identification of four highly conserved genes between breakpoint hotspots BP1 and BP2 of the Prader-Willi/Angelman syndromes deletion region that have undergone evolutionary transposition mediated by flanking duplicons. American Journal of Human Genetics. 73: 898-925. PMID 14508708 DOI: 10.1086/378816  0.36
2003 Bayarsaihan D, Enkhmandakh B, Makeyev A, Greally JM, Leckman JF, Ruddle FH. Homez, a homeobox leucine zipper gene specific to the vertebrate lineage. Proceedings of the National Academy of Sciences of the United States of America. 100: 10358-63. PMID 12925734 DOI: 10.1073/Pnas.1834010100  0.36
2003 Alami R, Fan Y, Pack S, Sonbuchner TM, Besse A, Lin Q, Greally JM, Skoultchi AI, Bouhassira EE. Mammalian linker-histone subtypes differentially affect gene expression in vivo. Proceedings of the National Academy of Sciences of the United States of America. 100: 5920-5. PMID 12719535 DOI: 10.1073/Pnas.0736105100  0.36
2003 State MW, Greally JM, Cuker A, Bowers PN, Henegariu O, Morgan TM, Gunel M, DiLuna M, King RA, Nelson C, Donovan A, Anderson GM, Leckman JF, Hawkins T, Pauls DL, et al. Epigenetic abnormalities associated with a chromosome 18(q21-q22) inversion and a Gilles de la Tourette syndrome phenotype. Proceedings of the National Academy of Sciences of the United States of America. 100: 4684-9. PMID 12682296 DOI: 10.1073/Pnas.0730775100  0.36
2002 Suphapeetiporn K, Greally JM, Walpita D, Ashley T, Bale AE. MEN1 tumor-suppressor protein localizes to telomeres during meiosis. Genes, Chromosomes & Cancer. 35: 81-5. PMID 12203793 DOI: 10.1002/Gcc.10113  0.36
2002 Neumeister P, Albanese C, Balent B, Greally J, Pestell RG. Senescence and epigenetic dysregulation in cancer. The International Journal of Biochemistry & Cell Biology. 34: 1475-90. PMID 12200040 DOI: 10.1016/S1357-2725(02)00079-1  0.36
2002 Bayarsaihan D, Dunai J, Greally JM, Kawasaki K, Sumiyama K, Enkhmandakh B, Shimizu N, Ruddle FH. Genomic organization of the genes Gtf2ird1, Gtf2i, and Ncf1 at the mouse chromosome 5 region syntenic to the human chromosome 7q11.23 Williams syndrome critical region. Genomics. 79: 137-43. PMID 11827466 DOI: 10.1006/Geno.2001.6674  0.36
2001 Chai JH, Locke DP, Ohta T, Greally JM, Nicholls RD. Retrotransposed genes such as Frat3 in the mouse Chromosome 7C Prader-Willi syndrome region acquire the imprinted status of their insertion site. Mammalian Genome : Official Journal of the International Mammalian Genome Society. 12: 813-21. PMID 11845283 DOI: 10.1007/S00335-001-2083-1  0.36
2001 Henegariu O, Dunai J, Chen XN, Korenberg JR, Ward DC, Greally JM. A triple color FISH technique for mouse chromosome identification. Mammalian Genome : Official Journal of the International Mammalian Genome Society. 12: 462-5. PMID 11353394 DOI: 10.1007/S003350020038  0.36
2001 Henegariu O, Artan S, Greally JM, Chen XN, Korenberg JR, Vance GH, Stubbs L, Bray-Ward P, Ward DC. Cryptic translocation identification in human and mouse using several telomeric multiplex fish (TM-FISH) strategies. Laboratory Investigation; a Journal of Technical Methods and Pathology. 81: 483-91. PMID 11304567 DOI: 10.1038/Labinvest.3780256  0.36
2000 Greally JM, State MW. Genetics of childhood disorders: XIII. Genomic imprinting: the indelible mark of the gamete. Journal of the American Academy of Child and Adolescent Psychiatry. 39: 532-5. PMID 10761358 DOI: 10.1097/00004583-200004000-00025  0.36
2000 Alami R, Greally JM, Tanimoto K, Hwang S, Feng YQ, Engel JD, Fiering S, Bouhassira EE. β-globin YAC transgenes exhibit uniform expression levels but position effect variegation in mice Human Molecular Genetics. 9: 631-636. PMID 10699186 DOI: 10.1093/Hmg/9.4.631  0.36
1999 Greally JM, Gray TA, Gabriel JM, Song LQ, Zemel S, Nicholls RD. Conserved characteristics of heterochromatin-forming DNA at the 15q11- q13 imprinting center Proceedings of the National Academy of Sciences of the United States of America. 96: 14430-14435. PMID 10588722 DOI: 10.1073/Pnas.96.25.14430  0.36
1999 Greally JM, Lombroso PJ. Genetics of childhood disorders: VIII. Making sense out of nonsense. Journal of the American Academy of Child and Adolescent Psychiatry. 38: 1458-61. PMID 10560234 DOI: 10.1097/00004583-199911000-00022  0.36
1999 Lin X, State MW, Vaccarino FM, Greally J, Hass M, Leckman JF. Identification, chromosomal assignment, and expression analysis of the human homeodomain-containing gene Orthopedia (OTP). Genomics. 60: 96-104. PMID 10458915 DOI: 10.1006/Geno.1999.5882  0.36
1999 Morton CC, Christian SL, Donlon TA, Driscoll DJ, Fink JK, Gabriel JM, Gotway G, Greally JM, Hitchins MP, Howard HC, Ji Y, Leonard S, Lerner T, Magenis E, Malcolm S, et al. Report of the fourth international workshop on human chromosome 15 mapping 1997. Cytogenetics and Cell Genetics. 84: 12-21. PMID 10343092 DOI: 10.1159/000015203  0.36
1998 Greally JM, Starr DJ, Hwang S, Song L, Jaarola M, Zemel S. The mouse H19 locus mediates a transition between imprinted and non-imprinted DNA replication patterns Human Molecular Genetics. 7: 91-95. PMID 9384608 DOI: 10.1093/Hmg/7.1.91  0.36
1996 Greally JM, Neiswanger K, Cummins JH, Boone LY, Lenkey SG, Wenger SL, Lewis JL, Fischer D, Paul RA, Steele MW. A molecular anatomical analysis of mosaic trisomy 16. Human Genetics. 98: 86-90. PMID 8682514 DOI: 10.1007/S004390050165  0.36
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