Editing the Epigenome to Tackle Brain Disorders

Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals

Jaenisch, R., & Bird, A. (2003) · Nature Genetics · doi:10.1038/ng1089 · Cited by 6,325 · see citing works

Rett syndrome is caused by mutations in X-linked MECP2, encoding methyl-CpG-binding protein 2

Amir, R. E., Van den Veyver, I. B., Wan, M., Tran, C. Q., Francke, U., & Zoghbi, H. Y. (1999) · Nature Genetics · doi:10.1038/13810 · Cited by 4,990 · see citing works

CRISPR-Mediated Modular RNA-Guided Regulation of Transcription in Eukaryotes

Gilbert, L. A., Larson, M. H., Morsut, L., Liu, Z., Brar, G. A., Torres, S. E., Stern-Ginossar, N., Brandman, O., Whitehead, E. H., Doudna, J. A., et al. (2013) · Cell · doi:10.1016/j.cell.2013.06.044 · Cited by 3,696 · see citing works

The Mammalian Epigenome

Bernstein, B. E., Meissner, A., & Lander, E. S. (2007) · Cell · doi:10.1016/j.cell.2007.01.033 · Cited by 2,086 · see citing works

The NIH Roadmap Epigenomics Mapping Consortium

Bernstein, B. E., Stamatoyannopoulos, J. A., Costello, J. F., Ren, B., Milosavljevic, A., Meissner, A., Kellis, M., Marra, M. A., Beaudet, A. L., Ecker, J. R., et al. (2010) · Nature Biotechnology · doi:10.1038/nbt1010-1045 · Cited by 1,892 · see citing works

Epigenome editing by a CRISPR-Cas9-based acetyltransferase activates genes from promoters and enhancers

Hilton, I. B., D’Ippolito, A. M., Vockley, C. M., Thakore, P. I., Crawford, G. E., Reddy, T. E., & Gersbach, C. A. (2015) · Nature Biotechnology · doi:10.1038/nbt.3199 · Cited by 1,879 · see citing works

RNA editing with CRISPR-Cas13

Cox, D. B. T., Gootenberg, J. S., Abudayyeh, O. O., Franklin, B., Kellner, M. J., Joung, J., & Zhang, F. (2017) · Science · doi:10.1126/science.aaq0180 · Cited by 1,806 · see citing works

Nanoparticle-mediated brain drug delivery: Overcoming blood–brain barrier to treat neurodegenerative diseases

Saraiva, C., Praça, C., Ferreira, R., Santos, T., Ferreira, L., & Bernardino, L. (2016) · Journal of Controlled Release · doi:10.1016/j.jconrel.2016.05.044 · Cited by 1,609 · see citing works

CRISPR-Cas guides the future of genetic engineering

Knott, G. J., & Doudna, J. A. (2018) · Science · doi:10.1126/science.aat5011 · Cited by 1,410 · see citing works

DNA Methylation-Related Chromatin Remodeling in Activity-Dependent <i>Bdnf</i> Gene Regulation

Martinowich, K., Hattori, D., Wu, H., Fouse, S., He, F., Hu, Y., Fan, G., & Sun, Y. E. (2003) · Science · doi:10.1126/science.1090842 · Cited by 1,405 · see citing works

Hydroxylation of 5-Methylcytosine by TET1 Promotes Active DNA Demethylation in the Adult Brain

Guo, J. U., Su, Y., Zhong, C., Ming, G., & Song, H. (2011) · Cell · doi:10.1016/j.cell.2011.03.022 · Cited by 1,355 · see citing works

Reversal of Neurological Defects in a Mouse Model of Rett Syndrome

Guy, J., Gan, J., Selfridge, J., Cobb, S., & Bird, A. (2007) · Science · doi:10.1126/science.1138389 · Cited by 1,230 · see citing works

Editing DNA Methylation in the Mammalian Genome

Liu, X. S., Wu, H., Ji, X., Stelzer, Y., Wu, X., Czauderna, S., Shu, J., Dadon, D., Young, R. A., & Jaenisch, R. (2016) · Cell · doi:10.1016/j.cell.2016.08.056 · Cited by 1,224 · see citing works

Highly specific epigenome editing by CRISPR-Cas9 repressors for silencing of distal regulatory elements

Thakore, P. I., D'Ippolito, A. M., Song, L., Safi, A., Shivakumar, N. K., Kabadi, A. M., Reddy, T. E., Crawford, G. E., & Gersbach, C. A. (2015) · Nature Methods · doi:10.1038/nmeth.3630 · Cited by 1,012 · see citing works

CRISPR-Based Technologies for the Manipulation of Eukaryotic Genomes

Komor, A. C., Badran, A. H., & Liu, D. R. (2016) · Cell · doi:10.1016/j.cell.2016.10.044 · Cited by 1,011 · see citing works

Alzheimer's disease: early alterations in brain DNA methylation at ANK1, BIN1, RHBDF2 and other loci

De Jager, P. L., Srivastava, G., Lunnon, K., Burgess, J., Schalkwyk, L. C., Yu, L., Eaton, M. L., Keenan, B. T., Ernst, J., McCabe, C., et al. (2014) · Nature Neuroscience · doi:10.1038/nn.3786 · Cited by 956 · see citing works

Optical control of mammalian endogenous transcription and epigenetic states

Konermann, S., Brigham, M. D., Trevino, A. E., Hsu, P. D., Heidenreich, M., Cong, L., Platt, R. J., Scott, D. A., Church, G. M., & Zhang, F. (2013) · Nature · doi:10.1038/nature12466 · Cited by 803 · see citing works

Repurposing the CRISPR-Cas9 system for targeted DNA methylation

Vojta, A., Dobrinić, P., Tadić, V., Bočkor, L., Korać, P., Jülg, B. D., Klasić, M., & Zoldoš, V. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkw159 · Cited by 772 · see citing works

Controlling long-range genomic interactions at a native locus by targeted tethering of a looping factor

Deng, W., Lee, J., Wang, H., Miller, J., Reik, A., Gregory, P. D., Dean, A., & Blobel, G. A. (2012) · Cell · doi:10.1016/j.cell.2012.03.051 · Cited by 734 · see citing works

Functional annotation of native enhancers with a Cas9–histone demethylase fusion

Kearns, N. A., Pham, H., Tabak, B., Genga, R. M., Silverstein, N. J., Garber, M., & Maehr, R. (2015) · Nature Methods · doi:10.1038/nmeth.3325 · Cited by 656 · see citing works

Methylomic profiling implicates cortical deregulation of ANK1 in Alzheimer's disease

Lunnon, K., Smith, R., Hannon, E., De Jager, P. L., Srivastava, G., Volta, M., Troakes, C., Al-Sarraj, S., Burrage, J., Macdonald, R., et al. (2014) · Nature Neuroscience · doi:10.1038/nn.3782 · Cited by 574 · see citing works

Inheritable silencing of endogenous genes by hit-and-run targeted epigenetic editing

Amabile, A., Migliara, A., Capasso, P., Biffi, M., Cittaro, D., Naldini, L., & Lombardo, A. (2016) · Cell · doi:10.1016/j.cell.2016.09.006 · Cited by 516 · see citing works

Rescue of Fragile X Syndrome Neurons by DNA Methylation Editing of the FMR1 Gene

Liu, X. S., Wu, H., Krzisch, M., Wu, X., Graef, J. D., Muffat, J., Hnisz, D., Li, C. H., Yuan, B., Xu, C., et al. (2018) · Cell · doi:10.1016/j.cell.2018.01.012 · Cited by 506 · see citing works

Targeted DNA demethylation and activation of endogenous genes using programmable TALE-TET1 fusion proteins

Maeder, M. L., Angstman, J. F., Richardson, M. E., Linder, S. J., Cascio, V. M., Tsai, S. Q., Ho, Q. V., Sander, J. D., Reyon, D., Bernstein, B., et al. (2013) · Nature Biotechnology · doi:10.1038/nbt.2726 · Cited by 498 · see citing works

DNA methylation and DNA methyltransferases

Edwards, J. R., Yarychkivska, O., Boulard, M., & Bestor, T. H. (2017) · Epigenetics & Chromatin · doi:10.1186/s13072-017-0130-8 · Cited by 487 · see citing works

Genetic Heterogeneity in Rubinstein-Taybi Syndrome: Mutations in Both the CBP and EP300 Genes Cause Disease

Roelfsema, J. H., White, S. J., Ariyürek, Y., Bartholdi, D., Niedrist, D., Papadia, F., Bacino, C. A., den Dunnen, J. T., van Ommen, G. B., Breuning, M. H., et al. (2005) · The American Journal of Human Genetics · doi:10.1086/429130 · Cited by 481 · see citing works

A cytosine deaminase for programmable single-base RNA editing

Abudayyeh, O. O., Gootenberg, J. S., Franklin, B., Koob, J. G., Kellner, M. J., Ladha, A., Joung, J., Kirchgatterer, P. C., Cox, D. B. T., & Zhang, F. (2019) · Science · doi:10.1126/science.aax7063 · Cited by 456 · see citing works

Reactivation of developmentally silenced globin genes by forced chromatin looping

Deng, W., Rupon, J. W., Krivega, I., Breda, L., Motta, I., Jahn, K. S., Reik, A., Gregory, P. D., Rivella, S., Dean, A., et al. (2014) · Cell · doi:10.1016/j.cell.2014.05.050 · Cited by 443 · see citing works

Angelman syndrome — insights into a rare neurogenetic disorder

Buiting, K., Williams, C. A., & Horsthemke, B. (2016) · Nature Reviews Neurology · doi:10.1038/nrneurol.2016.133 · Cited by 398 · see citing works

Synaptopathies: synaptic dysfunction in neurological disorders – A review from students to students

Lepeta, K., Lourenco, M. V., Schweitzer, B. C., Martino Adami, P. V., Banerjee, P., Catuara‐Solarz, S., de La Fuente Revenga, M., Guillem, A. M., Haidar, M., Ijomone, O. M., et al. (2016) · Journal of Neurochemistry · doi:10.1111/jnc.13713 · Cited by 386 · see citing works

A CRISPR-based approach for targeted DNA demethylation

Xu, X., Tao, Y., Gao, X., Zhang, L., Li, X., Zou, W., Ruan, K., Wang, F., Xu, G., & Hu, R. (2016) · Cell Discovery · doi:10.1038/celldisc.2016.9 · Cited by 377 · see citing works

Understanding the molecular basis of fragile X syndrome

Jin, P. (2000) · Human Molecular Genetics · doi:10.1093/hmg/9.6.901 · Cited by 368 · see citing works

Locus-specific editing of histone modifications at endogenous enhancers

Mendenhall, E. M., Williamson, K. E., Reyon, D., Zou, J., Ram, O., Joung, J. K., & Bernstein, B. (2013) · Nature Biotechnology · doi:10.1038/nbt.2701 · Cited by 362 · see citing works

CRISPR-dCas9 mediated TET1 targeting for selective DNA demethylation at BRCA1 promoter

Choudhury, S. R., Cui, Y., Lubecka, K., Stefañska, B., & Irudayaraj, J. (2016) · Oncotarget · doi:10.18632/oncotarget.10234 · Cited by 352 · see citing works

The Emerging Field of Neuroepigenetics

Sweatt, J. D. (2013) · Neuron · doi:10.1016/j.neuron.2013.10.023 · Cited by 324 · see citing works

Manipulation of nuclear architecture through CRISPR-mediated chromosomal looping

Morgan, S. L., Mariano, N. C., Bermudez, A., Arruda, N. L., Wu, F., Luo, Y., Shankar, G., Jia, L., Chen, H., Hu, J.-F., et al. (2017) · Nature Communications · doi:10.1038/ncomms15993 · Cited by 279 · see citing works

Writing of H3K4Me3 overcomes epigenetic silencing in a sustained but context-dependent manner

Cano-Rodríguez, D., Gjaltema, R. A. F., Jilderda, L. J., Jellema, P. G., Dokter‐Fokkens, J., Ruiters, M. H. J., & Rots, M. G. (2016) · Nature Communications · doi:10.1038/ncomms12284 · Cited by 276 · see citing works

CRISPR-Based Technologies for the Manipulation of Eukaryotic Genomes

Komor, A. C., Badran, A. H., & Liu, D. R. (2017) · Cell · doi:10.1016/j.cell.2017.04.005 · Cited by 276 · see citing works

Partial rescue of MeCP2 deficiency by postnatal activation of MeCP2

Giacometti, E., Luikenhuis, S., Beard, C., & Jaenisch, R. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0610593104 · Cited by 271 · see citing works

Gene-Specific Targeting of H3K9 Methylation Is Sufficient for Initiating Repression In Vivo

Snowden, A. W., Gregory, P. D., Case, C. C., & Pabo, C. O. (2002) · Current Biology · doi:10.1016/s0960-9822(02)01391-x · Cited by 268 · see citing works

Locus-specific histone deacetylation using a synthetic CRISPR-Cas9-based HDAC

Kwon, D. Y., Zhao, Y.-T., Lamonica, J. M., & Zhou, Z. (2017) · Nature Communications · doi:10.1038/ncomms15315 · Cited by 246 · see citing works

dCas9-based epigenome editing suggests acquisition of histone methylation is not sufficient for target gene repression

O’Geen, H., Ren, C., Nicolet, C. M., Perez, A. A., Halmai, J. A. N. M., Le, V. M., Mackay, J. P., Farnham, P., & Segal, D. J. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkx578 · Cited by 242 · see citing works

Locus-specific epigenetic remodeling controls addiction- and depression-related behaviors

Heller, E. A., Cates, H. M., Peña, C. J., Sun, H., Shao, N., Feng, J., Golden, S. A., Herman, J. P., Walsh, J. J., Mazei-Robison, M., et al. (2014) · Nature Neuroscience · doi:10.1038/nn.3871 · Cited by 227 · see citing works

Systemic Delivery of MeCP2 Rescues Behavioral and Cellular Deficits in Female Mouse Models of Rett Syndrome

Garg†, S. K., Lioy, D. T., Cheval, H., McGann, J. C., Bissonnette, J. M., Murtha, M. J., Foust, K. D., Kaspar, B. K., Bird, A. P., & Mandel, G. (2013) · Journal of Neuroscience · doi:10.1523/jneurosci.1854-13.2013 · Cited by 220 · see citing works

CRISPR-Mediated Programmable 3D Genome Positioning and Nuclear Organization

Wang, H., Xu, X., Nguyen, C. M., Liu, Y., Gao, Y., Lin, X., Daley, T., Kipniss, N. H., Russa, M. F. L., & Qi, L. S. (2018) · Cell · doi:10.1016/j.cell.2018.09.013 · Cited by 215 · see citing works

Epigenetics: The origins and evolution of a fashionable topic

Deichmann, U. (2016) · Developmental Biology · doi:10.1016/j.ydbio.2016.06.005 · Cited by 214 · see citing works

Epigenetic mechanisms in neurological and neurodegenerative diseases

Landgrave-Gómez, J., Mercado-Gómez, O. F., & Guevara‐Guzmán, R. (2015) · Frontiers in Cellular Neuroscience · doi:10.3389/fncel.2015.00058 · Cited by 201 · see citing works

Reversal of phenotypes in MECP2 duplication mice using genetic rescue or antisense oligonucleotides

Sztainberg, Y., Chen, H., Swann, J. W., Hao, S., Tang, B., Wu, Z., Tang, J., Wan, Y., Liu, Z., Rigo, F., et al. (2015) · Nature · doi:10.1038/nature16159 · Cited by 201 · see citing works

A modular dCas9-SunTag DNMT3A epigenome editing system overcomes pervasive off-target activity of direct fusion dCas9-DNMT3A constructs

Pflueger, C., Tan, D., Swain, T., Nguyen, T., Pflueger, J., Nefzger, C., Polo, J. M., Ford, E., & Lister, R. (2018) · Genome Research · doi:10.1101/gr.233049.117 · Cited by 188 · see citing works

Histone H2A.Z subunit exchange controls consolidation of recent and remote memory

Zovkic, I. B., Paulukaitis, B. S., Day, J. J., Etikala, D. M., & Sweatt, J. D. (2014) · Nature · doi:10.1038/nature13707 · Cited by 179 · see citing works

Single-cell DNA methylation profiling: technologies and biological applications

Karemaker, I. D., & Vermeulen, M. (2018) · Trends in Biotechnology · doi:10.1016/j.tibtech.2018.04.002 · Cited by 170 · see citing works

Programmable RNA-Guided RNA Effector Proteins Built from Human Parts

Rauch, S., He, E., Srienc, M., Zhou, H., Zhang, Z. S., & Dickinson, B. C. (2019) · Cell · doi:10.1016/j.cell.2019.05.049 · Cited by 162 · see citing works

Cytosine methylation targetted to pre-determined sequences

Xu, G., & Bestor, T. H. (1997) · Nature Genetics · doi:10.1038/ng1297-376 · Cited by 158 · see citing works

Rapid and reversible epigenome editing by endogenous chromatin regulators

Braun, S. M. G., Kirkland, J. G., Chory, E. J., Husmann, D., Calarco, J. P., & Crabtree, G. R. (2017) · Nature Communications · doi:10.1038/s41467-017-00644-y · Cited by 158 · see citing works

Epigenetics Control Microglia Plasticity

Cheray, M., & Joseph, B. (2018) · Frontiers in Cellular Neuroscience · doi:10.3389/fncel.2018.00243 · Cited by 151 · see citing works

The Epigenetics of Alzheimer’s Disease: Factors and Therapeutic Implications

Liu, X., Jiao, B., & Shen, L. H. (2018) · Frontiers in Genetics · doi:10.3389/fgene.2018.00579 · Cited by 147 · see citing works

Editing the Epigenome: Reshaping the Genomic Landscape

Holtzman, L., & Gersbach, C. A. (2018) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-083117-021632 · Cited by 143 · see citing works

Recent progress and considerations for AAV gene therapies targeting the central nervous system

Lykken, E. A., Shyng, C., Edwards, R. J., Rozenberg, A. J., & Gray, S. J. (2018) · Journal of Neurodevelopmental Disorders · doi:10.1186/s11689-018-9234-0 · Cited by 140 · see citing works

TALE-mediated epigenetic suppression of CDKN2A increases replication in human fibroblasts

Bernstein, D. L., Lay, J. E. L., Ruano, E. G., & Kaestner, K. H. (2015) · Journal of Clinical Investigation · doi:10.1172/jci77321 · Cited by 137 · see citing works

LADL: light-activated dynamic looping for endogenous gene expression control

Kim, J. H., Rege, M., Valeri, J., Dunagin, M. C., Metzger, A., Titus, K. R., Gilgenast, T. G., Gong, W., Beagan, J. A., Raj, A., et al. (2019) · Nature Methods · doi:10.1038/s41592-019-0436-5 · Cited by 135 · see citing works

Viral Vectors and Delivery Strategies for CNS Gene Therapy

Gray, S. J., Woodard, K., & Samulski, R. J. (2010) · Therapeutic Delivery · doi:10.4155/tde.10.50 · Cited by 124 · see citing works

Targeted m6A Reader Proteins To Study Epitranscriptomic Regulation of Single RNAs

Rauch, S., He, C., & Dickinson, B. C. (2018) · Journal of the American Chemical Society · doi:10.1021/jacs.8b05012 · Cited by 122 · see citing works

Cell-Type-Specific Epigenetic Editing at the Fosb Gene Controls Susceptibility to Social Defeat Stress

Hamilton, P. J., Burek, D. J., Lombroso, S. I., Neve, R. L., Robison, A. J., Nestler, E. J., & Heller, E. A. (2018) · Neuropsychopharmacology · doi:10.1038/npp.2017.88 · Cited by 113 · see citing works

Sensory experience remodels genome architecture in neural circuit to drive motor learning

Yamada, T., Yang, Y., Valnegri, P., Juric, I., Abnousi, A., Markwalter, K. H., Guthrie, A. N., Godec, A., Oldenborg, A., Hu, M., et al. (2019) · Nature · doi:10.1038/s41586-019-1190-7 · Cited by 83 · see citing works

Epigenetics in Parkinson’s Disease

Pavlou, M. A. S., & Outeiro, T. F. (2017) · Advances in experimental medicine and biology · doi:10.1007/978-3-319-53889-1_19 · Cited by 81 · see citing works

Programmable DNA looping using engineered bivalent dCas9 complexes

Hao, N., Shearwin, K. E., & Dodd, I. B. (2017) · Nature Communications · doi:10.1038/s41467-017-01873-x · Cited by 78 · see citing works

Perspectives of International Human Epigenome Consortium

Bae, J. (2013) · Genomics & Informatics · doi:10.5808/gi.2013.11.1.7 · Cited by 58 · see citing works

Editing the Epigenome: Overview, Open Questions, and Directions of Future Development

Rots, M. G., & Jeltsch, A. (2018) · Methods in molecular biology · doi:10.1007/978-1-4939-7774-1_1 · Cited by 30 · see citing works

Restoring the Phenotype of Fragile X Syndrome: Insight from the Mouse Model

Gantois, I., Bakker, C. E., Reyniers, E., Willemsen, R., D’Hooge, R., Deyn, P. D., Oostra, B. A., & Kooy, R. F. (2001) · Current Molecular Medicine · doi:10.2174/1566524013363492 · Cited by 29 · see citing works

Herpes simplex virus-based vectors for the treatment of cancer and neurodegenerative disease.

Latchman, D. S. (2005) · PubMed · Cited by 23 · see citing works

Epigenetics and the human brain: Where nurture meets nature

Mansuy, I. M., & Mohanna, S. (2011) · Europe PMC (PubMed Central) · doi:10.5167/uzh-54258 · Cited by 12 · see citing works

Gut dysbiosis, defective autophagy and altered immune responses in neurodegenerative diseases: Tales of a vicious cycle

Chidambaram, S. B., Essa, M. M., Rathipriya, A. G., Bishir, M., Ray, B., Mahalakshmi, A. M., Tousif, A. H., Sakharkar, M. K., Kashyap, R. S., Friedland, R. P., et al. (2022) · Pharmacology &amp; Therapeutics · doi:10.1016/j.pharmthera.2021.107988 · Cited by 204 · see citing works

Adeno-Associated Virus Toolkit to Target Diverse Brain Cells

Challis, R. C., Ravindra Kumar, S., Chen, X., Goertsen, D., Coughlin, G. M., Hori, A. M., Chuapoco, M. R., Otis, T. S., Miles, T. F., & Gradinaru, V. (2022) · Annual Review of Neuroscience · doi:10.1146/annurev-neuro-111020-100834 · Cited by 148 · see citing works

Cell-type-specific epigenetic effects of early life stress on the brain

Rahman, M. F., & McGowan, P. O. (2022) · Translational Psychiatry · doi:10.1038/s41398-022-02076-9 · Cited by 75 · see citing works

In vivo locus-specific editing of the neuroepigenome

Yim, Y. Y., Teague, C. D., & Nestler, E. J. (2020) · Nature Reviews Neuroscience · doi:10.1038/s41583-020-0334-y · Cited by 76 · see citing works

Susquehanna Chorale Spring Concert "Roots and Wings"

Hawkins, D. (2017)

Chemical and Light Inducible Epigenome Editing

Zhao, W., Wang, Y., & Liang, F. (2020) · International Journal of Molecular Sciences · doi:10.3390/ijms21030998 · Cited by 23 · see citing works

The Relationship Between Early-Life Environment, The Epigenome and the Microbiota

Majnik, A. V., & Lane, R. H. (2015) · Epigenomics · doi:10.2217/epi.15.74 · Cited by 28 · see citing works

Dietary Modulation of the Epigenome

Ideraabdullah, F., & Zeisel, S. H. (2018) · Physiological Reviews · doi:10.1152/physrev.00010.2017 · Cited by 98 · see citing works

The Nutriepigenome

Mirisola, M. G. (2023) · Genes · doi:10.3390/genes14111997 · Cited by 7 · see citing works