Harvard Catalyst Profiles

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Alexander Meissner, Ph.D., Ph.D.

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Research
The research activities and funding listed below are automatically derived from NIH ExPORTER and other sources, which might result in incorrect or missing items. Faculty can login to make corrections and additions.
  1. DP3DK111898 (MEISSNER, ALEXANDER) Sep 30, 2016 - Jun 30, 2021
    NIH/NIDDK
    Deciphering the molecular basis of T1D in human cells using functional genomics
    Role: Co-Principal Investigator
  2. R01HD078679 (MCCARREY, JOHN R) Sep 1, 2014 - May 31, 2019
    NIH/NICHD
    Epimutations in Offspring Produced by Assisted Reproductive Technologies (ART)
    Role: Co-Principal Investigator
  3. R01DA036898 (MEISSNER, ALEXANDER) Sep 30, 2013 - May 31, 2018
    NIH/NIDA
    Generation and characterization of tools for target-specific de novo DNA methylat
    Role: Principal Investigator
  4. P01GM099117 (MEISSNER, ALEXANDER) Aug 1, 2011 - Mar 31, 2022
    NIH/NIGMS
    Dissecting the establishment and regulation of human pluripotency
    Role: Principal Investigator
  5. RC1AA019317 (FEIG, LARRY) Sep 30, 2009 - Aug 31, 2011
    NIH/NIAAA
    Epigenetics behind long-term and transgenerational effects of adolescent behavior
    Role: Co-Principal Investigator

Bibliographic
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
  1. Hinohara K, Wu HJ, McDonald TO, Igarashi KJ, Yamamoto KN, Madsen T, Fassl A, Egri SB, Papanastasiou M, Ding L, Peluffo G, Cohen O, Kales SC, Lal-Nag M, Rai G, Maloney DJ, Jadhav A, Simeonov A, Wagle N, Brown M, Meissner A, Sicinski P, Jaffe JD, Jeselsohn R, Gimelbrant AA, Michor F, Polyak K. KDM5 Histone Demethylase Activity Links Cellular Transcriptomic Heterogeneity to Therapeutic Resistance. Cancer Cell. 2019 Feb 11; 35(2):330-332. PMID: 30753830.
    Citations:    
  2. Klein HU, McCabe C, Gjoneska E, Sullivan SE, Kaskow BJ, Tang A, Smith RV, Xu J, Pfenning AR, Bernstein BE, Meissner A, Schneider JA, Mostafavi S, Tsai LH, Young-Pearse TL, Bennett DA, De Jager PL. Epigenome-wide study uncovers large-scale changes in histone acetylation driven by tau pathology in aging and Alzheimer's human brains. Nat Neurosci. 2019 Jan; 22(1):37-46. PMID: 30559478.
    Citations:    Fields:    
  3. Zhang Y, Charlton J, Karnik R, Beerman I, Smith ZD, Gu H, Boyle P, Mi X, Clement K, Pop R, Gnirke A, Rossi DJ, Meissner A. Targets and genomic constraints of ectopic Dnmt3b expression. Elife. 2018 11 23; 7. PMID: 30468428.
    Citations: 1     Fields:    
  4. Hinohara K, Wu HJ, Vigneau S, McDonald TO, Igarashi KJ, Yamamoto KN, Madsen T, Fassl A, Egri SB, Papanastasiou M, Ding L, Peluffo G, Cohen O, Kales SC, Lal-Nag M, Rai G, Maloney DJ, Jadhav A, Simeonov A, Wagle N, Brown M, Meissner A, Sicinski P, Jaffe JD, Jeselsohn R, Gimelbrant AA, Michor F, Polyak K. KDM5 Histone Demethylase Activity Links Cellular Transcriptomic Heterogeneity to Therapeutic Resistance. Cancer Cell. 2018 Dec 10; 34(6):939-953.e9. PMID: 30472020.
    Citations:    Fields:    
  5. Ichida JK, Staats KA, Davis-Dusenbery BN, Clement K, Galloway KE, Babos KN, Shi Y, Son EY, Kiskinis E, Atwater N, Gu H, Gnirke A, Meissner A, Eggan K. Comparative genomic analysis of embryonic, lineage-converted and stem cell-derived motor neurons. Development. 2018 11 21; 145(22). PMID: 30337375.
    Citations:    Fields:    
  6. Bernstein E, Meissner A, Ramalho-Santos M. Paying PIs from grants blocks talent and diversity. Nature. 2018 11; 563(7731):325. PMID: 30429558.
    Citations:    
  7. Rajavelu A, Lungu C, Emperle M, Dukatz M, Bröhm A, Broche J, Hanelt I, Parsa E, Schiffers S, Karnik R, Meissner A, Carell T, Rathert P, Jurkowska RZ, Jeltsch A. Chromatin-dependent allosteric regulation of DNMT3A activity by MeCP2. Nucleic Acids Res. 2018 Sep 28; 46(17):9044-9056. PMID: 30102379.
    Citations:    Fields:    
  8. Cacchiarelli D, Qiu X, Srivatsan S, Manfredi A, Ziller M, Overbey E, Grimaldi A, Grimsby J, Pokharel P, Livak KJ, Li S, Meissner A, Mikkelsen TS, Rinn JL, Trapnell C. Aligning Single-Cell Developmental and Reprogramming Trajectories Identifies Molecular Determinants of Myogenic Reprogramming Outcome. Cell Syst. 2018 Sep 26; 7(3):258-268.e3. PMID: 30195438.
    Citations:    Fields:    
  9. Di Stefano B, Ueda M, Sabri S, Brumbaugh J, Huebner AJ, Sahakyan A, Clement K, Clowers KJ, Erickson AR, Shioda K, Gygi SP, Gu H, Shioda T, Meissner A, Takashima Y, Plath K, Hochedlinger K. Reduced MEK inhibition preserves genomic stability in naive human embryonic stem cells. Nat Methods. 2018 Sep; 15(9):732-740. PMID: 30127506.
    Citations: 1     Fields:    
  10. Schwarz BA, Cetinbas M, Clement K, Walsh RM, Cheloufi S, Gu H, Langkabel J, Kamiya A, Schorle H, Meissner A, Sadreyev RI, Hochedlinger K. Prospective Isolation of Poised iPSC Intermediates Reveals Principles of Cellular Reprogramming. Cell Stem Cell. 2018 Aug 02; 23(2):289-305.e5. PMID: 30017590.
    Citations: 1     Fields:    
  11. Du P, Pirouz M, Choi J, Huebner AJ, Clement K, Meissner A, Hochedlinger K, Gregory RI. An Intermediate Pluripotent State Controlled by MicroRNAs Is Required for the Naive-to-Primed Stem Cell Transition. Cell Stem Cell. 2018 Jun 01; 22(6):851-864.e5. PMID: 29804889.
    Citations:    Fields:    
  12. Nehme R, Zuccaro E, Ghosh SD, Li C, Sherwood JL, Pietilainen O, Barrett LE, Limone F, Worringer KA, Kommineni S, Zang Y, Cacchiarelli D, Meissner A, Adolfsson R, Haggarty S, Madison J, Muller M, Arlotta P, Fu Z, Feng G, Eggan K. Combining NGN2 Programming with Developmental Patterning Generates Human Excitatory Neurons with NMDAR-Mediated Synaptic Transmission. Cell Rep. 2018 May 22; 23(8):2509-2523. PMID: 29791859.
    Citations: 4     Fields:    
  13. Pasque V, Karnik R, Chronis C, Petrella P, Langerman J, Bonora G, Song J, Vanheer L, Sadhu Dimashkie A, Meissner A, Plath K. X Chromosome Dosage Influences DNA Methylation Dynamics during Reprogramming to Mouse iPSCs. Stem Cell Reports. 2018 May 08; 10(5):1537-1550. PMID: 29681539.
    Citations: 2     Fields:    
  14. Shukla SA, Bachireddy P, Schilling B, Galonska C, Zhan Q, Bango C, Langer R, Lee PC, Gusenleitner D, Keskin DB, Babadi M, Mohammad A, Gnirke A, Clement K, Cartun ZJ, Van Allen EM, Miao D, Huang Y, Snyder A, Merghoub T, Wolchok JD, Garraway LA, Meissner A, Weber JS, Hacohen N, Neuberg D, Potts PR, Murphy GF, Lian CG, Schadendorf D, Hodi FS, Wu CJ. Cancer-Germline Antigen Expression Discriminates Clinical Outcome to CTLA-4 Blockade. Cell. 2018 04 19; 173(3):624-633.e8. PMID: 29656892.
    Citations: 1     Fields:    
  15. Cesana M, Guo MH, Cacchiarelli D, Wahlster L, Barragan J, Doulatov S, Vo LT, Salvatori B, Trapnell C, Clement K, Cahan P, Tsanov KM, Sousa PM, Tazon-Vega B, Bolondi A, Giorgi FM, Califano A, Rinn JL, Meissner A, Hirschhorn JN, Daley GQ. A CLK3-HMGA2 Alternative Splicing Axis Impacts Human Hematopoietic Stem Cell Molecular Identity throughout Development. Cell Stem Cell. 2018 Apr 05; 22(4):575-588.e7. PMID: 29625070.
    Citations: 1     Fields:    
  16. Ziller MJ, Ortega JA, Quinlan KA, Santos DP, Gu H, Martin EJ, Galonska C, Pop R, Maidl S, Di Pardo A, Huang M, Meltzer HY, Gnirke A, Heckman CJ, Meissner A, Kiskinis E. Dissecting the Functional Consequences of De Novo DNA Methylation Dynamics in Human Motor Neuron Differentiation and Physiology. Cell Stem Cell. 2018 Apr 05; 22(4):559-574.e9. PMID: 29551301.
    Citations:    Fields:    
  17. Galonska C, Charlton J, Mattei AL, Donaghey J, Clement K, Gu H, Mohammad AW, Stamenova EK, Cacchiarelli D, Klages S, Timmermann B, Cantz T, Schöler HR, Gnirke A, Ziller MJ, Meissner A. Genome-wide tracking of dCas9-methyltransferase footprints. Nat Commun. 2018 02 09; 9(1):597. PMID: 29426832.
    Citations: 2     Fields:    Translation:HumansAnimalsCells
  18. Janssens S, Schotsaert M, Karnik R, Balasubramaniam V, Dejosez M, Meissner A, García-Sastre A, Zwaka TP. Zika Virus Alters DNA Methylation of Neural Genes in an Organoid Model of the Developing Human Brain. mSystems. 2018 Jan-Feb; 3(1). PMID: 29435496.
    Citations: 1     
  19. Donaghey J, Thakurela S, Charlton J, Chen JS, Smith ZD, Gu H, Pop R, Clement K, Stamenova EK, Karnik R, Kelley DR, Gifford CA, Cacchiarelli D, Rinn JL, Gnirke A, Ziller MJ, Meissner A. Genetic determinants and epigenetic effects of pioneer-factor occupancy. Nat Genet. 2018 Feb; 50(2):250-258. PMID: 29358654.
    Citations: 5     Fields:    
  20. Smith ZD, Shi J, Gu H, Donaghey J, Clement K, Cacchiarelli D, Gnirke A, Michor F, Meissner A. Epigenetic restriction of extraembryonic lineages mirrors the somatic transition to cancer. Nature. 2017 09 28; 549(7673):543-547. PMID: 28959968.
    Citations: 6     Fields:    Translation:HumansAnimalsCells
  21. Choi J, Huebner AJ, Clement K, Walsh RM, Savol A, Lin K, Gu H, Di Stefano B, Brumbaugh J, Kim SY, Sharif J, Rose CM, Mohammad A, Odajima J, Charron J, Shioda T, Gnirke A, Gygi S, Koseki H, Sadreyev RI, Xiao A, Meissner A, Hochedlinger K. Prolonged Mek1/2 suppression impairs the developmental potential of embryonic stem cells. Nature. 2017 08 10; 548(7666):219-223. PMID: 28746311.
    Citations: 14     Fields:    Translation:AnimalsCells
  22. Warren CR, O'Sullivan JF, Friesen M, Becker CE, Zhang X, Liu P, Wakabayashi Y, Morningstar JE, Shi X, Choi J, Xia F, Peters DT, Florido MHC, Tsankov AM, Duberow E, Comisar L, Shay J, Jiang X, Meissner A, Musunuru K, Kathiresan S, Daheron L, Zhu J, Gerszten RE, Deo RC, Vasan RS, O'Donnell CJ, Cowan CA. Induced Pluripotent Stem Cell Differentiation Enables Functional Validation of GWAS Variants in Metabolic Disease. Cell Stem Cell. 2017 04 06; 20(4):547-557.e7. PMID: 28388431.
    Citations: 9     Fields:    Translation:HumansCells
  23. Choi J, Clement K, Huebner AJ, Webster J, Rose CM, Brumbaugh J, Walsh RM, Lee S, Savol A, Etchegaray JP, Gu H, Boyle P, Elling U, Mostoslavsky R, Sadreyev R, Park PJ, Gygi SP, Meissner A, Hochedlinger K. DUSP9 Modulates DNA Hypomethylation in Female Mouse Pluripotent Stem Cells. Cell Stem Cell. 2017 05 04; 20(5):706-719.e7. PMID: 28366588.
    Citations: 6     Fields:    Translation:AnimalsCells
  24. Yu VWC, Yusuf RZ, Oki T, Wu J, Saez B, Wang X, Cook C, Baryawno N, Ziller MJ, Lee E, Gu H, Meissner A, Lin CP, Kharchenko PV, Scadden DT. Epigenetic Memory Underlies Cell-Autonomous Heterogeneous Behavior of Hematopoietic Stem Cells. Cell. 2017 02 23; 168(5):944-945. PMID: 28235203.
    Citations: 5     Fields:    
  25. Liu LL, Brumbaugh J, Bar-Nur O, Smith Z, Stadtfeld M, Meissner A, Hochedlinger K, Michor F. Probabilistic Modeling of Reprogramming to Induced Pluripotent Stem Cells. Cell Rep. 2016 12 20; 17(12):3395-3406. PMID: 28009305.
    Citations: 1     Fields:    Translation:HumansCells
  26. Ziller MJ, Stamenova EK, Gu H, Gnirke A, Meissner A. Targeted bisulfite sequencing of the dynamic DNA methylome. Epigenetics Chromatin. 2016; 9:55. PMID: 27980681.
    Citations: 4     Fields:    Translation:HumansCells
  27. Yu VWC, Yusuf RZ, Oki T, Wu J, Saez B, Wang X, Cook C, Baryawno N, Ziller MJ, Lee E, Gu H, Meissner A, Lin CP, Kharchenko PV, Scadden DT. Epigenetic Memory Underlies Cell-Autonomous Heterogeneous Behavior of Hematopoietic Stem Cells. Cell. 2016 11 17; 167(5):1310-1322.e17. PMID: 27863245.
    Citations: 24     Fields:    Translation:AnimalsCells
  28. Kottakis F, Nicolay BN, Roumane A, Karnik R, Gu H, Nagle JM, Boukhali M, Hayward MC, Li YY, Chen T, Liesa M, Hammerman PS, Wong KK, Hayes DN, Shirihai OS, Dyson NJ, Haas W, Meissner A, Bardeesy N. LKB1 loss links serine metabolism to DNA methylation and tumorigenesis. Nature. 2016 11 17; 539(7629):390-395. PMID: 27799657.
    Citations: 25     Fields:    Translation:HumansAnimalsCells
  29. Aguilar CA, Pop R, Shcherbina A, Watts A, Matheny RW, Cacchiarelli D, Han WM, Shin E, Nakhai SA, Jang YC, Carrigan CT, Gifford CA, Kottke MA, Cesana M, Lee J, Urso ML, Meissner A. Transcriptional and Chromatin Dynamics of Muscle Regeneration after Severe Trauma. Stem Cell Reports. 2016 11 08; 7(5):983-997. PMID: 27773702.
    Citations: 2     Fields:    Translation:AnimalsCells
  30. Libertini E, Heath SC, Hamoudi RA, Gut M, Ziller MJ, Czyz A, Ruotti V, Stunnenberg HG, Frontini M, Ouwehand WH, Meissner A, Gut IG, Beck S. Information recovery from low coverage whole-genome bisulfite sequencing. Nat Commun. 2016 06 27; 7:11306. PMID: 27346250.
    Citations: 6     Fields:    Translation:HumansCells
  31. Libertini E, Heath SC, Hamoudi RA, Gut M, Ziller MJ, Herrero J, Czyz A, Ruotti V, Stunnenberg HG, Frontini M, Ouwehand WH, Meissner A, Gut IG, Beck S. Saturation analysis for whole-genome bisulfite sequencing data. Nat Biotechnol. 2016 07; 34(7):691-693. PMID: 27347755.
    Citations: 3     Fields:    
  32. Smith ZD, Sindhu C, Meissner A. Molecular features of cellular reprogramming and development. Nat Rev Mol Cell Biol. 2016 Mar; 17(3):139-54. PMID: 26883001.
    Citations: 21     Fields:    Translation:HumansAnimalsCells
  33. Shea JM, Serra RW, Carone BR, Shulha HP, Kucukural A, Ziller MJ, Vallaster MP, Gu H, Tapper AR, Gardner PD, Meissner A, Garber M, Rando OJ. Genetic and Epigenetic Variation, but Not Diet, Shape the Sperm Methylome. Dev Cell. 2015 Dec 21; 35(6):750-8. PMID: 26702833; PMCID: PMC4691283.
    Citations: 21     Fields:    Translation:AnimalsCells
  34. Choi J, Lee S, Mallard W, Clement K, Tagliazucchi GM, Lim H, Choi IY, Ferrari F, Tsankov AM, Pop R, Lee G, Rinn JL, Meissner A, Park PJ, Hochedlinger K. A comparison of genetically matched cell lines reveals the equivalence of human iPSCs and ESCs. Nat Biotechnol. 2015 Nov; 33(11):1173-81. PMID: 26501951; PMCID: PMC4847940.
    Citations: 57     Fields:    Translation:HumansCells
  35. Tsankov AM, Akopian V, Pop R, Chetty S, Gifford CA, Daheron L, Tsankova NM, Meissner A. A qPCR ScoreCard quantifies the differentiation potential of human pluripotent stem cells. Nat Biotechnol. 2015 Nov; 33(11):1182-92. PMID: 26501952; PMCID: PMC4636964.
    Citations: 17     Fields:    Translation:HumansAnimalsCells
  36. Aguilar CA, Shcherbina A, Ricke DO, Pop R, Carrigan CT, Gifford CA, Urso ML, Kottke MA, Meissner A. In vivo Monitoring of Transcriptional Dynamics After Lower-Limb Muscle Injury Enables Quantitative Classification of Healing. Sci Rep. 2015 Sep 18; 5:13885. PMID: 26381351; PMCID: PMC4585378.
    Citations: 7     Fields:    Translation:AnimalsCells
  37. Das PP, Hendrix DA, Apostolou E, Buchner AH, Canver MC, Beyaz S, Ljuboja D, Kuintzle R, Kim W, Karnik R, Shao Z, Xie H, Xu J, De Los Angeles A, Zhang Y, Choe J, Jun DL, Shen X, Gregory RI, Daley GQ, Meissner A, Kellis M, Hochedlinger K, Kim J, Orkin SH. PRC2 Is Required to Maintain Expression of the Maternal Gtl2-Rian-Mirg Locus by Preventing De Novo DNA Methylation in Mouse Embryonic Stem Cells. Cell Rep. 2015 Sep 01; 12(9):1456-70. PMID: 26299972.
    Citations: 10     Fields:    Translation:AnimalsCells
  38. Paull D, Sevilla A, Zhou H, Hahn AK, Kim H, Napolitano C, Tsankov A, Shang L, Krumholz K, Jagadeesan P, Woodard CM, Sun B, Vilboux T, Zimmer M, Forero E, Moroziewicz DN, Martinez H, Malicdan MC, Weiss KA, Vensand LB, Dusenberry CR, Polus H, Sy KT, Kahler DJ, Gahl WA, Solomon SL, Chang S, Meissner A, Eggan K, Noggle SA. Automated, high-throughput derivation, characterization and differentiation of induced pluripotent stem cells. Nat Methods. 2015 Sep; 12(9):885-92. PMID: 26237226.
    Citations: 41     Fields:    Translation:HumansCells
  39. Li W, Cavelti-Weder C, Zhang Y, Clement K, Donovan S, Gonzalez G, Zhu J, Stemann M, Xu K, Hashimoto T, Yamada T, Nakanishi M, Zhang Y, Zeng S, Gifford D, Meissner A, Weir G, Zhou Q. Corrigendum: Long-term persistence and development of induced pancreatic beta cells generated by lineage conversion of acinar cells. Nat Biotechnol. 2015 Aug; 33(8):882. PMID: 26252147.
    Citations:    Fields:    
  40. Galonska C, Ziller MJ, Karnik R, Meissner A. Ground State Conditions Induce Rapid Reorganization of Core Pluripotency Factor Binding before Global Epigenetic Reprogramming. Cell Stem Cell. 2015 Oct 01; 17(4):462-70. PMID: 26235340; PMCID: PMC4592414.
    Citations: 25     Fields:    Translation:AnimalsCells
  41. Cacchiarelli D, Trapnell C, Ziller MJ, Soumillon M, Cesana M, Karnik R, Donaghey J, Smith ZD, Ratanasirintrawoot S, Zhang X, Ho Sui SJ, Wu Z, Akopian V, Gifford CA, Doench J, Rinn JL, Daley GQ, Meissner A, Lander ES, Mikkelsen TS. Integrative Analyses of Human Reprogramming Reveal Dynamic Nature of Induced Pluripotency. Cell. 2015 Jul 16; 162(2):412-424. PMID: 26186193; PMCID: PMC4511597.
    Citations: 39     Fields:    Translation:HumansCells
  42. Tobi EW, Goeman JJ, Monajemi R, Gu H, Putter H, Zhang Y, Slieker RC, Stok AP, Thijssen PE, Müller F, van Zwet EW, Bock C, Meissner A, Lumey LH, Eline Slagboom P, Heijmans BT. Corrigendum: DNA methylation signatures link prenatal famine exposure to growth and metabolism. Nat Commun. 2015 Jul 07; 6:7740. PMID: 26151124.
    Citations: 2     Fields:    
  43. Yang J, Yu L, Gaiteri C, Srivastava GP, Chibnik LB, Leurgans SE, Schneider JA, Meissner A, De Jager PL, Bennett DA. Association of DNA methylation in the brain with age in older persons is confounded by common neuropathologies. Int J Biochem Cell Biol. 2015 Oct; 67:58-64. PMID: 26003740; PMCID: PMC4564337.
    Citations: 10     Fields:    Translation:HumansCells
  44. Liao J, Karnik R, Gu H, Ziller MJ, Clement K, Tsankov AM, Akopian V, Gifford CA, Donaghey J, Galonska C, Pop R, Reyon D, Tsai SQ, Mallard W, Joung JK, Rinn JL, Gnirke A, Meissner A. Targeted disruption of DNMT1, DNMT3A and DNMT3B in human embryonic stem cells. Nat Genet. 2015 May; 47(5):469-78. PMID: 25822089; PMCID: PMC4414868.
    Citations: 86     Fields:    Translation:HumansAnimalsCells
  45. Edri R, Yaffe Y, Ziller MJ, Mutukula N, Volkman R, David E, Jacob-Hirsch J, Malcov H, Levy C, Rechavi G, Gat-Viks I, Meissner A, Elkabetz Y. Analysing human neural stem cell ontogeny by consecutive isolation of Notch active neural progenitors. Nat Commun. 2015 Mar 23; 6:6500. PMID: 25799239; PMCID: PMC4383005.
    Citations: 13     Fields:    Translation:HumansCells
  46. Tsankov AM, Gu H, Akopian V, Ziller MJ, Donaghey J, Amit I, Gnirke A, Meissner A. Transcription factor binding dynamics during human ES cell differentiation. Nature. 2015 Feb 19; 518(7539):344-9. PMID: 25693565; PMCID: PMC4499331.
    Citations: 61     Fields:    Translation:HumansCells
  47. Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ, Amin V, Whitaker JW, Schultz MD, Ward LD, Sarkar A, Quon G, Sandstrom RS, Eaton ML, Wu YC, Pfenning AR, Wang X, Claussnitzer M, Liu Y, Coarfa C, Harris RA, Shoresh N, Epstein CB, Gjoneska E, Leung D, Xie W, Hawkins RD, Lister R, Hong C, Gascard P, Mungall AJ, Moore R, Chuah E, Tam A, Canfield TK, Hansen RS, Kaul R, Sabo PJ, Bansal MS, Carles A, Dixon JR, Farh KH, Feizi S, Karlic R, Kim AR, Kulkarni A, Li D, Lowdon R, Elliott G, Mercer TR, Neph SJ, Onuchic V, Polak P, Rajagopal N, Ray P, Sallari RC, Siebenthall KT, Sinnott-Armstrong NA, Stevens M, Thurman RE, Wu J, Zhang B, Zhou X, Beaudet AE, Boyer LA, De Jager PL, Farnham PJ, Fisher SJ, Haussler D, Jones SJ, Li W, Marra MA, McManus MT, Sunyaev S, Thomson JA, Tlsty TD, Tsai LH, Wang W, Waterland RA, Zhang MQ, Chadwick LH, Bernstein BE, Costello JF, Ecker JR, Hirst M, Meissner A, Milosavljevic A, Ren B, Stamatoyannopoulos JA, Wang T, Kellis M. Integrative analysis of 111 reference human epigenomes. Nature. 2015 Feb 19; 518(7539):317-30. PMID: 25693563; PMCID: PMC4530010.
    Citations: 964     Fields:    Translation:HumansCells
  48. French A, Bravery C, Smith J, Chandra A, Archibald P, Gold JD, Artzi N, Kim HW, Barker RW, Meissner A, Wu JC, Knowles JC, Williams D, García-Cardeña G, Sipp D, Oh S, Loring JF, Rao MS, Reeve B, Wall I, Carr AJ, Bure K, Stacey G, Karp JM, Snyder EY, Brindley DA. Enabling consistency in pluripotent stem cell-derived products for research and development and clinical applications through material standards. Stem Cells Transl Med. 2015 Mar; 4(3):217-23. PMID: 25650438; PMCID: PMC4339854.
    Citations: 9     Fields:    Translation:HumansCells
  49. Huh SJ, Clement K, Jee D, Merlini A, Choudhury S, Maruyama R, Yoo R, Chytil A, Boyle P, Ran FA, Moses HL, Barcellos-Hoff MH, Jackson-Grusby L, Meissner A, Polyak K. Age- and pregnancy-associated DNA methylation changes in mammary epithelial cells. Stem Cell Reports. 2015 Feb 10; 4(2):297-311. PMID: 25619437; PMCID: PMC4325231.
    Citations: 9     Fields:    Translation:AnimalsCells
  50. Pour M, Pilzer I, Rosner R, Smith ZD, Meissner A, Nachman I. Epigenetic predisposition to reprogramming fates in somatic cells. EMBO Rep. 2015 Mar; 16(3):370-8. PMID: 25600117; PMCID: PMC4364876.
    Citations: 5     Fields:    Translation:AnimalsCells
  51. Meissner A. (Epi)genomics approaches and their applications. Methods. 2015 Jan 15; 72:1-2. PMID: 25597875.
    Citations: 1     Fields:    Translation:Humans
  52. Yu L, Chibnik LB, Srivastava GP, Pochet N, Yang J, Xu J, Kozubek J, Obholzer N, Leurgans SE, Schneider JA, Meissner A, De Jager PL, Bennett DA. Association of Brain DNA methylation in SORL1, ABCA7, HLA-DRB5, SLC24A4, and BIN1 with pathological diagnosis of Alzheimer disease. JAMA Neurol. 2015 Jan; 72(1):15-24. PMID: 25365775; PMCID: PMC4344367.
    Citations: 47     Fields:    Translation:HumansCells
  53. Ziller MJ, Edri R, Yaffe Y, Donaghey J, Pop R, Mallard W, Issner R, Gifford CA, Goren A, Xing J, Gu H, Cachiarelli D, Tsankov A, Epstein C, Rinn JR, Mikkelsen TS, Kohlbacher O, Gnirke A, Bernstein BE, Elkabetz Y, Meissner A. Dissecting neural differentiation regulatory networks through epigenetic footprinting. Nature. 2015 Feb 19; 518(7539):355-359. PMID: 25533951; PMCID: PMC4336237.
    Citations: 48     Fields:    Translation:HumansCells
  54. Pasque V, Tchieu J, Karnik R, Uyeda M, Sadhu Dimashkie A, Case D, Papp B, Bonora G, Patel S, Ho R, Schmidt R, McKee R, Sado T, Tada T, Meissner A, Plath K. X chromosome reactivation dynamics reveal stages of reprogramming to pluripotency. Cell. 2014 Dec 18; 159(7):1681-97. PMID: 25525883.
    Citations: 20     Fields:    Translation:AnimalsCells
  55. Landau DA, Clement K, Ziller MJ, Boyle P, Fan J, Gu H, Stevenson K, Sougnez C, Wang L, Li S, Kotliar D, Zhang W, Ghandi M, Garraway L, Fernandes SM, Livak KJ, Gabriel S, Gnirke A, Lander ES, Brown JR, Neuberg D, Kharchenko PV, Hacohen N, Getz G, Meissner A, Wu CJ. Locally disordered methylation forms the basis of intratumor methylome variation in chronic lymphocytic leukemia. Cancer Cell. 2014 Dec 08; 26(6):813-825. PMID: 25490447.
    Citations: 59     Fields:    Translation:HumansCells
  56. Schlaeger TM, Daheron L, Brickler TR, Entwisle S, Chan K, Cianci A, DeVine A, Ettenger A, Fitzgerald K, Godfrey M, Gupta D, McPherson J, Malwadkar P, Gupta M, Bell B, Doi A, Jung N, Li X, Lynes MS, Brookes E, Cherry AB, Demirbas D, Tsankov AM, Zon LI, Rubin LL, Feinberg AP, Meissner A, Cowan CA, Daley GQ. A comparison of non-integrating reprogramming methods. Nat Biotechnol. 2015 Jan; 33(1):58-63. PMID: 25437882.
    Citations: 78     Fields:    Translation:HumansCells
  57. Tobi EW, Goeman JJ, Monajemi R, Gu H, Putter H, Zhang Y, Slieker RC, Stok AP, Thijssen PE, Müller F, van Zwet EW, Bock C, Meissner A, Lumey LH, Eline Slagboom P, Heijmans BT. DNA methylation signatures link prenatal famine exposure to growth and metabolism. Nat Commun. 2014 Nov 26; 5:5592. PMID: 25424739; PMCID: PMC4246417.
    Citations: 70     Fields:    Translation:HumansCells
  58. Li W, Cavelti-Weder C, Zhang Y, Zhang Y, Clement K, Donovan S, Gonzalez G, Zhu J, Stemann M, Xu K, Hashimoto T, Yamada T, Nakanishi M, Zhang Y, Zeng S, Gifford D, Meissner A, Weir G, Zhou Q. Long-term persistence and development of induced pancreatic beta cells generated by lineage conversion of acinar cells. Nat Biotechnol. 2014 Dec; 32(12):1223-30. PMID: 25402613.
    Citations: 26     Fields:    Translation:HumansAnimalsCells
  59. Ichida JK, W JT, Williams LA, Carter AC, Shi Y, Moura MT, Ziller M, Singh S, Amabile G, Bock C, Umezawa A, Rubin LL, Bradner JE, Akutsu H, Meissner A, Eggan K. Erratum: Notch inhibition allows oncogene-independent generation of iPS cells. Nat Chem Biol. 2014 Nov 13; 10(12):1074. PMID: 25393494.
    Citations:    
  60. Ichida JK, W JT, Williams LA, Carter AC, Shi Y, Moura MT, Ziller M, Singh S, Amabile G, Bock C, Umezawa A, Rubin LL, Bradner JE, Akutsu H, Meissner A, Eggan K. Erratum: Notch inhibition allows oncogene-independent generation of iPS cells. Nat Chem Biol. 2014 Nov 13; 10(12):1074. PMID: 25393496.
    Citations:    
  61. Ziller MJ, Hansen KD, Meissner A, Aryee MJ. Coverage recommendations for methylation analysis by whole-genome bisulfite sequencing. Nat Methods. 2015 Mar; 12(3):230-2, 1 p following 232. PMID: 25362363; PMCID: PMC4344394.
    Citations: 42     Fields:    Translation:HumansCells
  62. De Jager PL, Srivastava G, Lunnon K, Burgess J, Schalkwyk LC, Yu L, Eaton ML, Keenan BT, Ernst J, McCabe C, Tang A, Raj T, Replogle J, Brodeur W, Gabriel S, Chai HS, Younkin C, Younkin SG, Zou F, Szyf M, Epstein CB, Schneider JA, Bernstein BE, Meissner A, Ertekin-Taner N, Chibnik LB, Kellis M, Mill J, Bennett DA. Alzheimer's disease: early alterations in brain DNA methylation at ANK1, BIN1, RHBDF2 and other loci. Nat Neurosci. 2014 Sep; 17(9):1156-63. PMID: 25129075; PMCID: PMC4292795.
    Citations: 126     Fields:    Translation:HumansCells
  63. Smith ZD, Chan MM, Humm KC, Karnik R, Mekhoubad S, Regev A, Eggan K, Meissner A. DNA methylation dynamics of the human preimplantation embryo. Nature. 2014 Jul 31; 511(7511):611-5. PMID: 25079558; PMCID: PMC4178976.
    Citations: 123     Fields:    Translation:HumansAnimalsCells
  64. Ichida JK, Tcw J, Williams LA, Carter AC, Shi Y, Moura MT, Ziller M, Singh S, Amabile G, Bock C, Umezawa A, Rubin LL, Bradner JE, Akutsu H, Meissner A, Eggan K. Notch inhibition allows oncogene-independent generation of iPS cells. Nat Chem Biol. 2014 Aug; 10(8):632-639. PMID: 24952596; PMCID: PMC4310751.
    Citations: 15     Fields:    Translation:HumansAnimalsCells
  65. Sun D, Luo M, Jeong M, Rodriguez B, Xia Z, Hannah R, Wang H, Le T, Faull KF, Chen R, Gu H, Bock C, Meissner A, Göttgens B, Darlington GJ, Li W, Goodell MA. Epigenomic profiling of young and aged HSCs reveals concerted changes during aging that reinforce self-renewal. Cell Stem Cell. 2014 May 01; 14(5):673-88. PMID: 24792119.
    Citations: 105     Fields:    Translation:AnimalsCells
  66. Galonska C, Smith ZD, Meissner A. In Vivo and in vitro dynamics of undifferentiated embryonic cell transcription factor 1. Stem Cell Reports. 2014 Mar 11; 2(3):245-52. PMID: 24672748; PMCID: PMC3964277.
    Citations: 4     Fields:    Translation:AnimalsCells
  67. Kats LM, Reschke M, Taulli R, Pozdnyakova O, Burgess K, Bhargava P, Straley K, Karnik R, Meissner A, Small D, Su SM, Yen K, Zhang J, Pandolfi PP. Proto-oncogenic role of mutant IDH2 in leukemia initiation and maintenance. Cell Stem Cell. 2014 Mar 06; 14(3):329-41. PMID: 24440599; PMCID: PMC4380188.
    Citations: 47     Fields:    Translation:AnimalsCells
  68. Federation AJ, Bradner JE, Meissner A. The use of small molecules in somatic-cell reprogramming. Trends Cell Biol. 2014 Mar; 24(3):179-87. PMID: 24183602; PMCID: PMC3943685.
    Citations: 12     Fields:    Translation:HumansCells
  69. 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. Nat Methods. 2013 Oct; 10(10):949-55. PMID: 24076989.
    Citations: 102     Fields:    Translation:HumansAnimalsCells
  70. Ziller MJ, Gu H, Müller F, Donaghey J, Tsai LT, Kohlbacher O, De Jager PL, Rosen ED, Bennett DA, Bernstein BE, Gnirke A, Meissner A. Charting a dynamic DNA methylation landscape of the human genome. Nature. 2013 Aug 22; 500(7463):477-81. PMID: 23925113.
    Citations: 389     Fields:    Translation:HumansCells
  71. Karnik R, Meissner A. Browsing (Epi)genomes: a guide to data resources and epigenome browsers for stem cell researchers. Cell Stem Cell. 2013 Jul 03; 13(1):14-21. PMID: 23827707; PMCID: PMC3750740.
    Citations: 8     Fields:    Translation:Humans
  72. Kearns NA, Genga RM, Ziller M, Kapinas K, Peters H, Brehm MA, Meissner A, Maehr R. Generation of organized anterior foregut epithelia from pluripotent stem cells using small molecules. Stem Cell Res. 2013 Nov; 11(3):1003-12. PMID: 23917481.
    Citations: 4     Fields:    Translation:HumansAnimalsCells
  73. Zhang RR, Cui QY, Murai K, Lim YC, Smith ZD, Jin S, Ye P, Rosa L, Lee YK, Wu HP, Liu W, Xu ZM, Yang L, Ding YQ, Tang F, Meissner A, Ding C, Shi Y, Xu GL. Tet1 regulates adult hippocampal neurogenesis and cognition. Cell Stem Cell. 2013 Aug 01; 13(2):237-45. PMID: 23770080; PMCID: PMC4474382.
    Citations: 98     Fields:    Translation:AnimalsCells
  74. Stelzer Y, Ronen D, Bock C, Boyle P, Meissner A, Benvenisty N. Identification of novel imprinted differentially methylated regions by global analysis of human-parthenogenetic-induced pluripotent stem cells. Stem Cell Reports. 2013; 1(1):79-89. PMID: 24052944; PMCID: PMC3757747.
    Citations: 11     Fields:    Translation:HumansCells
  75. Gifford CA, Ziller MJ, Gu H, Trapnell C, Donaghey J, Tsankov A, Shalek AK, Kelley DR, Shishkin AA, Issner R, Zhang X, Coyne M, Fostel JL, Holmes L, Meldrim J, Guttman M, Epstein C, Park H, Kohlbacher O, Rinn J, Gnirke A, Lander ES, Bernstein BE, Meissner A. Transcriptional and epigenetic dynamics during specification of human embryonic stem cells. Cell. 2013 May 23; 153(5):1149-63. PMID: 23664763; PMCID: PMC3709577.
    Citations: 148     Fields:    Translation:HumansCells
  76. Beerman I, Bock C, Garrison BS, Smith ZD, Gu H, Meissner A, Rossi DJ. Proliferation-dependent alterations of the DNA methylation landscape underlie hematopoietic stem cell aging. Cell Stem Cell. 2013 Apr 04; 12(4):413-25. PMID: 23415915.
    Citations: 115     Fields:    Translation:AnimalsCells
  77. Smith ZD, Meissner A. DNA methylation: roles in mammalian development. Nat Rev Genet. 2013 Mar; 14(3):204-20. PMID: 23400093.
    Citations: 526     Fields:    Translation:HumansAnimalsCells
  78. Zhu J, Adli M, Zou JY, Verstappen G, Coyne M, Zhang X, Durham T, Miri M, Deshpande V, De Jager PL, Bennett DA, Houmard JA, Muoio DM, Onder TT, Camahort R, Cowan CA, Meissner A, Epstein CB, Shoresh N, Bernstein BE. Genome-wide chromatin state transitions associated with developmental and environmental cues. Cell. 2013 Jan 31; 152(3):642-54. PMID: 23333102; PMCID: PMC3563935.
    Citations: 202     Fields:    Translation:HumansCells
  79. Ogino S, Lochhead P, Chan AT, Nishihara R, Cho E, Wolpin BM, Meyerhardt JA, Meissner A, Schernhammer ES, Fuchs CS, Giovannucci E. Molecular pathological epidemiology of epigenetics: emerging integrative science to analyze environment, host, and disease. Mod Pathol. 2013 Apr; 26(4):465-84. PMID: 23307060; PMCID: PMC3637979.
    Citations: 75     Fields:    Translation:Humans
  80. Smith ZD, Meissner A. The simplest explanation: passive DNA demethylation in PGCs. EMBO J. 2013 Feb 06; 32(3):318-21. PMID: 23299938; PMCID: PMC3567498.
    Citations: 4     Fields:    Translation:AnimalsCells
  81. Meissner A. What can epigenomics do for you? Genome Biol. 2012 Oct 23; 13(10):420. PMID: 23095436; PMCID: PMC3491409.
    Citations: 3     Fields:    Translation:HumansAnimalsCells
  82. Boyle P, Clement K, Gu H, Smith ZD, Ziller M, Fostel JL, Holmes L, Meldrim J, Kelley F, Gnirke A, Meissner A. Gel-free multiplexed reduced representation bisulfite sequencing for large-scale DNA methylation profiling. Genome Biol. 2012 Oct 03; 13(10):R92. PMID: 23034176; PMCID: PMC3491420.
    Citations: 64     Fields:    Translation:HumansAnimalsCells
  83. Sindhu C, Samavarchi-Tehrani P, Meissner A. Transcription factor-mediated epigenetic reprogramming. J Biol Chem. 2012 Sep 07; 287(37):30922-31. PMID: 22952239; PMCID: PMC3438925.
    Citations: 6     Fields:    Translation:Humans
  84. Gifford CA, Meissner A. Epigenetic obstacles encountered by transcription factors: reprogramming against all odds. Curr Opin Genet Dev. 2012 Oct; 22(5):409-15. PMID: 22922161; PMCID: PMC3490009.
    Citations: 13     Fields:    Translation:HumansAnimals
  85. Chan MM, Smith ZD, Egli D, Regev A, Meissner A. Mouse ooplasm confers context-specific reprogramming capacity. Nat Genet. 2012 Sep; 44(9):978-80. PMID: 22902786; PMCID: PMC3432711.
    Citations: 18     Fields:    Translation:AnimalsCells
  86. Bock C, Beerman I, Lien WH, Smith ZD, Gu H, Boyle P, Gnirke A, Fuchs E, Rossi DJ, Meissner A. DNA methylation dynamics during in vivo differentiation of blood and skin stem cells. Mol Cell. 2012 Aug 24; 47(4):633-47. PMID: 22841485; PMCID: PMC3428428.
    Citations: 119     Fields:    Translation:AnimalsCells
  87. Arand J, Spieler D, Karius T, Branco MR, Meilinger D, Meissner A, Jenuwein T, Xu G, Leonhardt H, Wolf V, Walter J. In vivo control of CpG and non-CpG DNA methylation by DNA methyltransferases. PLoS Genet. 2012 Jun; 8(6):e1002750. PMID: 22761581; PMCID: PMC3386304.
    Citations: 103     Fields:    Translation:AnimalsCells
  88. Mekhoubad S, Bock C, de Boer AS, Kiskinis E, Meissner A, Eggan K. Erosion of dosage compensation impacts human iPSC disease modeling. Cell Stem Cell. 2012 May 04; 10(5):595-609. PMID: 22560080; PMCID: PMC3603710.
    Citations: 104     Fields:    Translation:HumansCells
  89. Brinkman AB, Gu H, Bartels SJ, Zhang Y, Matarese F, Simmer F, Marks H, Bock C, Gnirke A, Meissner A, Stunnenberg HG. Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk. Genome Res. 2012 Jun; 22(6):1128-38. PMID: 22466170; PMCID: PMC3371717.
    Citations: 112     Fields:    Translation:HumansAnimalsCells
  90. Smith ZD, Chan MM, Mikkelsen TS, Gu H, Gnirke A, Regev A, Meissner A. A unique regulatory phase of DNA methylation in the early mammalian embryo. Nature. 2012 Mar 28; 484(7394):339-44. PMID: 22456710; PMCID: PMC3331945.
    Citations: 305     Fields:    Translation:AnimalsCells
  91. Akopian V, Chan MM, Clement K, Galonska C, Gifford CA, Lehtola E, Liao J, Samavarchi-Tehrani P, Sindhu C, Smith ZD, Tsankov AM, Webster J, Zhang Y, Ziller MJ, Meissner A. Epigenomics and chromatin dynamics. Genome Biol. 2012 Feb 24; 13(2):313. PMID: 22364154; PMCID: PMC3334565.
    Citations: 2     Fields:    Translation:HumansAnimalsCells
  92. Ziller MJ, Müller F, Liao J, Zhang Y, Gu H, Bock C, Boyle P, Epstein CB, Bernstein BE, Lengauer T, Gnirke A, Meissner A. Genomic distribution and inter-sample variation of non-CpG methylation across human cell types. PLoS Genet. 2011 Dec; 7(12):e1002389. PMID: 22174693; PMCID: PMC3234221.
    Citations: 135     Fields:    Translation:HumansAnimalsCells
  93. Xi Y, Bock C, Müller F, Sun D, Meissner A, Li W. RRBSMAP: a fast, accurate and user-friendly alignment tool for reduced representation bisulfite sequencing. Bioinformatics. 2012 Feb 01; 28(3):430-2. PMID: 22155871; PMCID: PMC3268241.
    Citations: 27     Fields:    Translation:HumansCells
  94. Challen GA, Sun D, Jeong M, Luo M, Jelinek J, Berg JS, Bock C, Vasanthakumar A, Gu H, Xi Y, Liang S, Lu Y, Darlington GJ, Meissner A, Issa JP, Godley LA, Li W, Goodell MA. Dnmt3a is essential for hematopoietic stem cell differentiation. Nat Genet. 2011 Dec 04; 44(1):23-31. PMID: 22138693; PMCID: PMC3637952.
    Citations: 282     Fields:    Translation:HumansAnimalsCells
  95. Shearstone JR, Pop R, Bock C, Boyle P, Meissner A, Socolovsky M. Global DNA demethylation during mouse erythropoiesis in vivo. Science. 2011 Nov 11; 334(6057):799-802. PMID: 22076376; PMCID: PMC3230325.
    Citations: 60     Fields:    Translation:AnimalsCells
  96. Xu H, Yi BA, Wu H, Bock C, Gu H, Lui KO, Park JH, Shao Y, Riley AK, Domian IJ, Hu E, Willette R, Lepore J, Meissner A, Wang Z, Chien KR. Highly efficient derivation of ventricular cardiomyocytes from induced pluripotent stem cells with a distinct epigenetic signature. Cell Res. 2012 Jan; 22(1):142-54. PMID: 22064699; PMCID: PMC3351933.
    Citations: 25     Fields:    Translation:AnimalsCells
  97. Meissner A. Guiding DNA methylation. Cell Stem Cell. 2011 Nov 04; 9(5):388-90. PMID: 22056134.
    Citations: 6     Fields:    
  98. Zacharek SJ, Fillmore CM, Lau AN, Gludish DW, Chou A, Ho JW, Zamponi R, Gazit R, Bock C, Jäger N, Smith ZD, Kim TM, Saunders AH, Wong J, Lee JH, Roach RR, Rossi DJ, Meissner A, Gimelbrant AA, Park PJ, Kim CF. Lung stem cell self-renewal relies on BMI1-dependent control of expression at imprinted loci. Cell Stem Cell. 2011 Sep 02; 9(3):272-81. PMID: 21885022.
    Citations: 53     Fields:    Translation:AnimalsCells
  99. Guttman M, Donaghey J, Carey BW, Garber M, Grenier JK, Munson G, Young G, Lucas AB, Ach R, Bruhn L, Yang X, Amit I, Meissner A, Regev A, Rinn JL, Root DE, Lander ES. lincRNAs act in the circuitry controlling pluripotency and differentiation. Nature. 2011 Aug 28; 477(7364):295-300. PMID: 21874018; PMCID: PMC3175327.
    Citations: 731     Fields:    Translation:AnimalsCells
  100. Thomson M, Liu SJ, Zou LN, Smith Z, Meissner A, Ramanathan S. Pluripotency factors in embryonic stem cells regulate differentiation into germ layers. Cell. 2011 Jun 10; 145(6):875-89. PMID: 21663792.
    Citations: 158     Fields:    Translation:AnimalsCells
  101. Gu H, Smith ZD, Bock C, Boyle P, Gnirke A, Meissner A. Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling. Nat Protoc. 2011 Apr; 6(4):468-81. PMID: 21412275.
    Citations: 191     Fields:    Translation:Cells
  102. Bock C, Kiskinis E, Verstappen G, Gu H, Boulting G, Smith ZD, Ziller M, Croft GF, Amoroso MW, Oakley DH, Gnirke A, Eggan K, Meissner A. Reference Maps of human ES and iPS cell variation enable high-throughput characterization of pluripotent cell lines. Cell. 2011 Feb 04; 144(3):439-52. PMID: 21295703; PMCID: PMC3063454.
    Citations: 345     Fields:    Translation:HumansCells
  103. Koche RP, Smith ZD, Adli M, Gu H, Ku M, Gnirke A, Bernstein BE, Meissner A. Reprogramming factor expression initiates widespread targeted chromatin remodeling. Cell Stem Cell. 2011 Jan 07; 8(1):96-105. PMID: 21211784; PMCID: PMC3220622.
    Citations: 139     Fields:    Translation:AnimalsCells
  104. Carone BR, Fauquier L, Habib N, Shea JM, Hart CE, Li R, Bock C, Li C, Gu H, Zamore PD, Meissner A, Weng Z, Hofmann HA, Friedman N, Rando OJ. Paternally induced transgenerational environmental reprogramming of metabolic gene expression in mammals. Cell. 2010 Dec 23; 143(7):1084-96. PMID: 21183072; PMCID: PMC3039484.
    Citations: 276     Fields:    Translation:HumansAnimalsCells
  105. Bernstein BE, Stamatoyannopoulos JA, Costello JF, Ren B, Milosavljevic A, Meissner A, Kellis M, Marra MA, Beaudet AL, Ecker JR, Farnham PJ, Hirst M, Lander ES, Mikkelsen TS, Thomson JA. The NIH Roadmap Epigenomics Mapping Consortium. Nat Biotechnol. 2010 Oct; 28(10):1045-8. PMID: 20944595; PMCID: PMC3607281.
    Citations: 547     Fields:    Translation:HumansCells
  106. Meissner A. Epigenetic modifications in pluripotent and differentiated cells. Nat Biotechnol. 2010 Oct; 28(10):1079-88. PMID: 20944600.
    Citations: 144     Fields:    Translation:HumansCells
  107. Warren L, Manos PD, Ahfeldt T, Loh YH, Li H, Lau F, Ebina W, Mandal PK, Smith ZD, Meissner A, Daley GQ, Brack AS, Collins JJ, Cowan C, Schlaeger TM, Rossi DJ. Highly efficient reprogramming to pluripotency and directed differentiation of human cells with synthetic modified mRNA. Cell Stem Cell. 2010 Nov 05; 7(5):618-30. PMID: 20888316; PMCID: PMC3656821.
    Citations: 786     Fields:    Translation:HumansCells
  108. Bock C, Tomazou EM, Brinkman AB, Müller F, Simmer F, Gu H, Jäger N, Gnirke A, Stunnenberg HG, Meissner A. Quantitative comparison of genome-wide DNA methylation mapping technologies. Nat Biotechnol. 2010 Oct; 28(10):1106-14. PMID: 20852634; PMCID: PMC3066564.
    Citations: 242     Fields:    Translation:HumansCells
  109. Harris RA, Wang T, Coarfa C, Nagarajan RP, Hong C, Downey SL, Johnson BE, Fouse SD, Delaney A, Zhao Y, Olshen A, Ballinger T, Zhou X, Forsberg KJ, Gu J, Echipare L, O'Geen H, Lister R, Pelizzola M, Xi Y, Epstein CB, Bernstein BE, Hawkins RD, Ren B, Chung WY, Gu H, Bock C, Gnirke A, Zhang MQ, Haussler D, Ecker JR, Li W, Farnham PJ, Waterland RA, Meissner A, Marra MA, Hirst M, Milosavljevic A, Costello JF. Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications. Nat Biotechnol. 2010 Oct; 28(10):1097-105. PMID: 20852635; PMCID: PMC2955169.
    Citations: 258     Fields:    Translation:HumansCells
  110. Artyomov MN, Meissner A, Chakraborty AK. A model for genetic and epigenetic regulatory networks identifies rare pathways for transcription factor induced pluripotency. PLoS Comput Biol. 2010 May 13; 6(5):e1000785. PMID: 20485562; PMCID: PMC2869311.
    Citations: 13     Fields:    Translation:AnimalsCells
  111. Smith ZD, Nachman I, Regev A, Meissner A. Dynamic single-cell imaging of direct reprogramming reveals an early specifying event. Nat Biotechnol. 2010 May; 28(5):521-6. PMID: 20436460; PMCID: PMC2908494.
    Citations: 91     Fields:    Translation:AnimalsCells
  112. Gu H, Bock C, Mikkelsen TS, Jäger N, Smith ZD, Tomazou E, Gnirke A, Lander ES, Meissner A. Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution. Nat Methods. 2010 Feb; 7(2):133-6. PMID: 20062050; PMCID: PMC2860480.
    Citations: 118     Fields:    Translation:HumansCells
  113. Tomazou EM, Meissner A. Epigenetic regulation of pluripotency. Adv Exp Med Biol. 2010; 695:26-40. PMID: 21222197.
    Citations: 4     Fields:    Translation:HumansCells
  114. Amit I, Garber M, Chevrier N, Leite AP, Donner Y, Eisenhaure T, Guttman M, Grenier JK, Li W, Zuk O, Schubert LA, Birditt B, Shay T, Goren A, Zhang X, Smith Z, Deering R, McDonald RC, Cabili M, Bernstein BE, Rinn JL, Meissner A, Root DE, Hacohen N, Regev A. Unbiased reconstruction of a mammalian transcriptional network mediating pathogen responses. Science. 2009 Oct 09; 326(5950):257-63. PMID: 19729616; PMCID: PMC2879337.
    Citations: 240     Fields:    Translation:AnimalsCells
  115. Meissner A. Alexander Meissner: learning the reprogramming code. J Cell Biol. 2009 Aug 24; 186(4):450-1. PMID: 19704017; PMCID: PMC2733751.
    Citations:    Fields:    Translation:HumansCells
  116. Smith ZD, Gu H, Bock C, Gnirke A, Meissner A. High-throughput bisulfite sequencing in mammalian genomes. Methods. 2009 Jul; 48(3):226-32. PMID: 19442738; PMCID: PMC2864123.
    Citations: 72     Fields:    Translation:HumansAnimalsCells
  117. Han DW, Do JT, Araúzo-Bravo MJ, Lee SH, Meissner A, Lee HT, Jaenisch R, Schöler HR. Epigenetic hierarchy governing Nestin expression. Stem Cells. 2009 May; 27(5):1088-97. PMID: 19415779.
    Citations: 17     Fields:    Translation:AnimalsCells
  118. Amabile G, Meissner A. Induced pluripotent stem cells: current progress and potential for regenerative medicine. Trends Mol Med. 2009 Feb; 15(2):59-68. PMID: 19162546.
    Citations: 104     Fields:    Translation:HumansAnimalsCells
  119. Meissner A, Eminli S, Jaenisch R. Derivation and manipulation of murine embryonic stem cells. Methods Mol Biol. 2009; 482:3-19. PMID: 19089346.
    Citations: 13     Fields:    Translation:AnimalsCells
  120. Meissner A, Mikkelsen TS, Gu H, Wernig M, Hanna J, Sivachenko A, Zhang X, Bernstein BE, Nusbaum C, Jaffe DB, Gnirke A, Jaenisch R, Lander ES. Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature. 2008 Aug 07; 454(7205):766-70. PMID: 18600261; PMCID: PMC2896277.
    Citations: 1022     Fields:    Translation:AnimalsCells
  121. Markoulaki S, Meissner A, Jaenisch R. Somatic cell nuclear transfer and derivation of embryonic stem cells in the mouse. Methods. 2008 Jun; 45(2):101-14. PMID: 18593608.
    Citations: 20     Fields:    Translation:AnimalsCells
  122. Mikkelsen TS, Hanna J, Zhang X, Ku M, Wernig M, Schorderet P, Bernstein BE, Jaenisch R, Lander ES, Meissner A. Dissecting direct reprogramming through integrative genomic analysis. Nature. 2008 Jul 03; 454(7200):49-55. PMID: 18509334.
    Citations: 549     Fields:    Translation:AnimalsCells
  123. Fouse SD, Shen Y, Pellegrini M, Cole S, Meissner A, Van Neste L, Jaenisch R, Fan G. Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation. Cell Stem Cell. 2008 Feb 07; 2(2):160-9. PMID: 18371437; PMCID: PMC3070208.
    Citations: 174     Fields:    Translation:AnimalsCells
  124. Wernig M, Meissner A, Cassady JP, Jaenisch R. c-Myc is dispensable for direct reprogramming of mouse fibroblasts. Cell Stem Cell. 2008 Jan 10; 2(1):10-2. PMID: 18371415.
    Citations: 206     Fields:    Translation:AnimalsCells
  125. Hanna J, Wernig M, Markoulaki S, Sun CW, Meissner A, Cassady JP, Beard C, Brambrink T, Wu LC, Townes TM, Jaenisch R. Treatment of sickle cell anemia mouse model with iPS cells generated from autologous skin. Science. 2007 Dec 21; 318(5858):1920-3. PMID: 18063756.
    Citations: 482     Fields:    Translation:HumansAnimalsCells
  126. Linhart HG, Lin H, Yamada Y, Moran E, Steine EJ, Gokhale S, Lo G, Cantu E, Ehrich M, He T, Meissner A, Jaenisch R. Dnmt3b promotes tumorigenesis in vivo by gene-specific de novo methylation and transcriptional silencing. Genes Dev. 2007 Dec 01; 21(23):3110-22. PMID: 18056424; PMCID: PMC2081977.
    Citations: 102     Fields:    Translation:HumansAnimalsCells
  127. Meissner A, Wernig M, Jaenisch R. Direct reprogramming of genetically unmodified fibroblasts into pluripotent stem cells. Nat Biotechnol. 2007 Oct; 25(10):1177-81. PMID: 17724450.
    Citations: 236     Fields:    Translation:AnimalsCells
  128. Mikkelsen TS, Ku M, Jaffe DB, Issac B, Lieberman E, Giannoukos G, Alvarez P, Brockman W, Kim TK, Koche RP, Lee W, Mendenhall E, O'Donovan A, Presser A, Russ C, Xie X, Meissner A, Wernig M, Jaenisch R, Nusbaum C, Lander ES, Bernstein BE. Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature. 2007 Aug 02; 448(7153):553-60. PMID: 17603471; PMCID: PMC2921165.
    Citations: 1746     Fields:    Translation:AnimalsCells
  129. Wernig M, Meissner A, Foreman R, Brambrink T, Ku M, Hochedlinger K, Bernstein BE, Jaenisch R. In vitro reprogramming of fibroblasts into a pluripotent ES-cell-like state. Nature. 2007 Jul 19; 448(7151):318-24. PMID: 17554336.
    Citations: 880     Fields:    Translation:AnimalsCells
  130. Shaw AT, Meissner A, Dowdle JA, Crowley D, Magendantz M, Ouyang C, Parisi T, Rajagopal J, Blank LJ, Bronson RT, Stone JR, Tuveson DA, Jaenisch R, Jacks T. Sprouty-2 regulates oncogenic K-ras in lung development and tumorigenesis. Genes Dev. 2007 Mar 15; 21(6):694-707. PMID: 17369402; PMCID: PMC1820943.
    Citations: 58     Fields:    Translation:HumansAnimalsCells
  131. Bernstein BE, Meissner A, Lander ES. The mammalian epigenome. Cell. 2007 Feb 23; 128(4):669-81. PMID: 17320505.
    Citations: 663     Fields:    Translation:HumansAnimalsCells
  132. Meissner A, Jaenisch R. Mammalian nuclear transfer. Dev Dyn. 2006 Sep; 235(9):2460-9. PMID: 16881069.
    Citations: 30     Fields:    Translation:AnimalsCells
  133. Blelloch R, Wang Z, Meissner A, Pollard S, Smith A, Jaenisch R. Reprogramming efficiency following somatic cell nuclear transfer is influenced by the differentiation and methylation state of the donor nucleus. Stem Cells. 2006 Sep; 24(9):2007-13. PMID: 16709876; PMCID: PMC3000431.
    Citations: 75     Fields:    Translation:AnimalsCells
  134. Bernstein BE, Mikkelsen TS, Xie X, Kamal M, Huebert DJ, Cuff J, Fry B, Meissner A, Wernig M, Plath K, Jaenisch R, Wagschal A, Feil R, Schreiber SL, Lander ES. A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell. 2006 Apr 21; 125(2):315-26. PMID: 16630819.
    Citations: 1897     Fields:    Translation:AnimalsCells
  135. Lin H, Yamada Y, Nguyen S, Linhart H, Jackson-Grusby L, Meissner A, Meletis K, Lo G, Jaenisch R. Suppression of intestinal neoplasia by deletion of Dnmt3b. Mol Cell Biol. 2006 Apr; 26(8):2976-83. PMID: 16581773; PMCID: PMC1446955.
    Citations: 36     Fields:    Translation:AnimalsCells
  136. Meissner A, Jaenisch R. Generation of nuclear transfer-derived pluripotent ES cells from cloned Cdx2-deficient blastocysts. Nature. 2006 Jan 12; 439(7073):212-5. PMID: 16227971.
    Citations: 38     Fields:    Translation:AnimalsCells
  137. Meissner A, Gnirke A, Bell GW, Ramsahoye B, Lander ES, Jaenisch R. Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis. Nucleic Acids Res. 2005; 33(18):5868-77. PMID: 16224102; PMCID: PMC1258174.
    Citations: 257     Fields:    Translation:AnimalsCells
  138. Yamada Y, Jackson-Grusby L, Linhart H, Meissner A, Eden A, Lin H, Jaenisch R. Opposing effects of DNA hypomethylation on intestinal and liver carcinogenesis. Proc Natl Acad Sci U S A. 2005 Sep 20; 102(38):13580-5. PMID: 16174748; PMCID: PMC1224663.
    Citations: 82     Fields:    Translation:HumansAnimalsCells
  139. Ventura A, Meissner A, Dillon CP, McManus M, Sharp PA, Van Parijs L, Jaenisch R, Jacks T. Cre-lox-regulated conditional RNA interference from transgenes. Proc Natl Acad Sci U S A. 2004 Jul 13; 101(28):10380-5. PMID: 15240889; PMCID: PMC478580.
    Citations: 244     Fields:    Translation:AnimalsCells
  140. Chen WG, Chang Q, Lin Y, Meissner A, West AE, Griffith EC, Jaenisch R, Greenberg ME. Derepression of BDNF transcription involves calcium-dependent phosphorylation of MeCP2. Science. 2003 Oct 31; 302(5646):885-9. PMID: 14593183.
    Citations: 419     Fields:    Translation:AnimalsCells
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Funded by the NIH/NCATS Clinical and Translational Science Award (CTSA) program, grant number UL1TR001102, and through institutional support from Harvard University, Harvard Medical School, Harvard T.H. Chan School of Public Health, Beth Israel Deaconess Medical Center, Boston Children's Hospital, Brigham and Women's Hospital, Massachusetts General Hospital and the Dana Farber Cancer Institute.