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Eran A. Mukamel - Publications

Affiliations: 
2012-2014 Computational Neurobiology Lab Salk Institute for Biological Studies, La Jolla, CA, United States 
 2014- Cognitive Science University of California, San Diego, La Jolla, CA 
Area:
Computational neuroscience, epigenomics
Website:
http://brainome.ucsd.edu
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41 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
2024 Heffel MG, Zhou J, Zhang Y, Lee DS, Hou K, Pastor-Alonso O, Abuhanna KD, Galasso J, Kern C, Tai CY, Garcia-Padilla C, Nafisi M, Zhou Y, Schmitt AD, Li T, ... ... Mukamel EA, et al. Temporally distinct 3D multi-omic dynamics in the developing human brain. Nature. PMID 39385032 DOI: 10.1038/s41586-024-08030-7  0.365
2024 Chien JF, Liu H, Wang BA, Luo C, Bartlett A, Castanon R, Johnson ND, Nery JR, Osteen J, Li J, Altshul J, Kenworthy M, Valadon C, Liem M, Claffey N, ... ... Mukamel EA, et al. Cell-type-specific effects of age and sex on human cortical neurons. Neuron. PMID 38838671 DOI: 10.1016/j.neuron.2024.05.013  0.537
2023 Mukamel EA, Liu H, Behrens MM, Ecker JR. Cell type-specific enrichment of somatic aneuploidy in the mammalian brain. Biorxiv : the Preprint Server For Biology. PMID 38187559 DOI: 10.1101/2023.12.18.572285  0.315
2023 Zhou J, Zhang Z, Wu M, Liu H, Pang Y, Bartlett A, Peng Z, Ding W, Rivkin A, Lagos WN, Williams E, Lee CT, Miyazaki PA, Aldridge A, Zeng Q, ... ... Mukamel EA, et al. Brain-wide correspondence of neuronal epigenomics and distant projections. Nature. 624: 355-365. PMID 38092919 DOI: 10.1038/s41586-023-06823-w  0.595
2023 Xie F, Armand EJ, Yao Z, Liu H, Bartlett A, Behrens MM, Li YE, Lucero JD, Luo C, Nery JR, Pinto-Duarte A, Poirion OB, Preissl S, Rivkin AC, Tasic B, ... ... Mukamel EA, et al. Robust enhancer-gene regulation identified by single-cell transcriptomes and epigenomes. Cell Genomics. 3: 100342. PMID 37492103 DOI: 10.1016/j.xgen.2023.100342  0.759
2023 Hawrylycz M, Martone ME, Ascoli GA, Bjaalie JG, Dong HW, Ghosh SS, Gillis J, Hertzano R, Haynor DR, Hof PR, Kim Y, Lein E, Liu Y, Miller JA, Mitra PP, ... Mukamel E, et al. A guide to the BRAIN Initiative Cell Census Network data ecosystem. Plos Biology. 21: e3002133. PMID 37390046 DOI: 10.1371/journal.pbio.3002133  0.745
2022 Li J, Pinto-Duarte A, Zander M, Cuoco MS, Lai CY, Osteen J, Fang L, Luo C, Lucero JD, Gomez-Castanon R, Nery JR, Silva-Garcia I, Pang Y, Sejnowski TJ, Powell SB, ... ... Mukamel EA, et al. knockout in excitatory neurons impairs postnatal synapse maturation and increases the repressive histone modification H3K27me3. Elife. 11. PMID 35604009 DOI: 10.7554/eLife.66909  0.758
2022 Luo C, Liu H, Xie F, Armand EJ, Siletti K, Bakken TE, Fang R, Doyle WI, Stuart T, Hodge RD, Hu L, Wang BA, Zhang Z, Preissl S, Lee DS, ... ... Mukamel EA, et al. Single nucleus multi-omics identifies human cortical cell regulatory genome diversity. Cell Genomics. 2. PMID 35419551 DOI: 10.1016/j.xgen.2022.100107  0.753
2022 Bakken TE, Jorstad NL, Hu Q, Lake BB, Tian W, Kalmbach BE, Crow M, Hodge RD, Krienen FM, Sorensen SA, Eggermont J, Yao Z, Aevermann BD, Aldridge AI, Bartlett A, ... ... Mukamel EA, et al. Author Correction: Comparative cellular analysis of motor cortex in human, marmoset and mouse. Nature. PMID 35319013 DOI: 10.1038/s41586-022-04562-y  0.736
2021 Li YE, Preissl S, Hou X, Zhang Z, Zhang K, Qiu Y, Poirion OB, Li B, Chiou J, Liu H, Pinto-Duarte A, Kubo N, Yang X, Fang R, Wang X, ... ... Mukamel EA, et al. An atlas of gene regulatory elements in adult mouse cerebrum. Nature. 598: 129-136. PMID 34616068 DOI: 10.1038/s41586-021-03604-1  0.814
2021 Yao Z, Liu H, Xie F, Fischer S, Adkins RS, Aldridge AI, Ament SA, Bartlett A, Behrens MM, Van den Berge K, Bertagnolli D, de Bézieux HR, Biancalani T, Booeshaghi AS, Bravo HC, ... ... Mukamel EA, et al. A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex. Nature. 598: 103-110. PMID 34616066 DOI: 10.1038/s41586-021-03500-8  0.788
2021 Zhang Z, Zhou J, Tan P, Pang Y, Rivkin AC, Kirchgessner MA, Williams E, Lee CT, Liu H, Franklin AD, Miyazaki PA, Bartlett A, Aldridge AI, Vu M, Boggeman L, ... ... Mukamel EA, et al. Epigenomic diversity of cortical projection neurons in the mouse brain. Nature. 598: 167-173. PMID 34616065 DOI: 10.1038/s41586-021-03223-w  0.578
2021 Bakken TE, Jorstad NL, Hu Q, Lake BB, Tian W, Kalmbach BE, Crow M, Hodge RD, Krienen FM, Sorensen SA, Eggermont J, Yao Z, Aevermann BD, Aldridge AI, Bartlett A, ... ... Mukamel EA, et al. Comparative cellular analysis of motor cortex in human, marmoset and mouse. Nature. 598: 111-119. PMID 34616062 DOI: 10.1038/s41586-021-03465-8  0.778
2021 Liu H, Zhou J, Tian W, Luo C, Bartlett A, Aldridge A, Lucero J, Osteen JK, Nery JR, Chen H, Rivkin A, Castanon RG, Clock B, Li YE, Hou X, ... ... Mukamel EA, et al. DNA methylation atlas of the mouse brain at single-cell resolution. Nature. 598: 120-128. PMID 34616061 DOI: 10.1038/s41586-020-03182-8  0.8
2021 Fang R, Preissl S, Li Y, Hou X, Lucero J, Wang X, Motamedi A, Shiau AK, Zhou X, Xie F, Mukamel EA, Zhang K, Zhang Y, Behrens MM, Ecker JR, et al. Comprehensive analysis of single cell ATAC-seq data with SnapATAC. Nature Communications. 12: 1337. PMID 33637727 DOI: 10.1038/s41467-021-21583-9  0.758
2021 Armand EJ, Li J, Xie F, Luo C, Mukamel EA. Single-Cell Sequencing of Brain Cell Transcriptomes and Epigenomes. Neuron. 109: 11-26. PMID 33412093 DOI: 10.1016/j.neuron.2020.12.010  0.748
2020 Kozlenkov A, Vermunt MW, Apontes P, Li J, Hao K, Sherwood CC, Hof PR, Ely JJ, Wegner M, Mukamel EA, Creyghton MP, Koonin EV, Dracheva S. Evolution of regulatory signatures in primate cortical neurons at cell-type resolution. Proceedings of the National Academy of Sciences of the United States of America. PMID 33109720 DOI: 10.1073/pnas.2011884117  0.381
2020 Behrens M, Lai C, Pinto-Duarte A, Li J, Luo C, Powell S, Ecker J, Mukamel E. Using the Power of Single-Nucleus Epigenomics to Map the Molecular Complexity of the Adult Brain Biological Psychiatry. 87: S61-S62. DOI: 10.1016/J.Biopsych.2020.02.179  0.732
2019 Amodeo DA, Lai CY, Hassan O, Mukamel EA, Behrens MM, Powell SB. Maternal immune activation impairs cognitive flexibility and alters transcription in frontal cortex. Neurobiology of Disease. PMID 30716470 DOI: 10.1016/J.Nbd.2019.01.025  0.689
2018 Mukamel EA, Ngai J. Perspectives on defining cell types in the brain. Current Opinion in Neurobiology. 56: 61-68. PMID 30530112 DOI: 10.1016/j.conb.2018.11.007  0.442
2018 Kozlenkov A, Li J, Apontes P, Hurd YL, Byne WM, Koonin EV, Wegner M, Mukamel EA, Dracheva S. A unique role for DNA (hydroxy)methylation in epigenetic regulation of human inhibitory neurons. Science Advances. 4: eaau6190. PMID 30263963 DOI: 10.1126/Sciadv.Aau6190  0.475
2018 Lewis LD, Piantoni G, Peterfreund RA, Eskandar EN, Harrell PG, Akeju O, Aglio LS, Cash SS, Brown EN, Mukamel EA, Purdon PL. A transient cortical state with sleep-like sensory responses precedes emergence from general anesthesia in humans. Elife. 7. PMID 30095069 DOI: 10.7554/eLife.33250  0.309
2018 Zhang TY, Keown CL, Wen X, Li J, Vousden DA, Anacker C, Bhattacharyya U, Ryan R, Diorio J, O'Toole N, Lerch JP, Mukamel EA, Meaney MJ. Environmental enrichment increases transcriptional and epigenetic differentiation between mouse dorsal and ventral dentate gyrus. Nature Communications. 9: 298. PMID 29352183 DOI: 10.1038/S41467-017-02748-X  0.341
2017 Luo C, Keown CL, Kurihara L, Zhou J, He Y, Li J, Castanon R, Lucero J, Nery JR, Sandoval JP, Bui B, Sejnowski TJ, Harkins TT, Mukamel EA, Behrens MM, et al. Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex. Science (New York, N.Y.). 357: 600-604. PMID 28798132 DOI: 10.1126/Science.Aan3351  0.598
2017 Keown CL, Berletch JB, Castanon R, Nery JR, Disteche CM, Ecker JR, Mukamel EA. Allele-specific non-CG DNA methylation marks domains of active chromatin in female mouse brain. Proceedings of the National Academy of Sciences of the United States of America. PMID 28320934 DOI: 10.1073/Pnas.1611905114  0.354
2016 Mo A, Luo C, Davis FP, Mukamel EA, Henry GL, Nery JR, Urich MA, Picard S, Lister R, Eddy SR, Beer MA, Ecker JR, Nathans J. Epigenomic landscapes of retinal rods and cones. Elife. 5. PMID 26949250 DOI: 10.7554/Elife.11613  0.375
2015 Schultz MD, He Y, Whitaker JW, Hariharan M, Mukamel EA, Leung D, Rajagopal N, Nery JR, Urich MA, Chen H, Lin S, Lin Y, Jung I, Schmitt AD, Selvaraj S, et al. Corrigendum: Human body epigenome maps reveal noncanonical DNA methylation variation. Nature. PMID 26605523 DOI: 10.1038/Nature16179  0.453
2015 Lister R, Mukamel EA. Turning over DNA methylation in the mind. Frontiers in Neuroscience. 9: 252. PMID 26283895 DOI: 10.3389/Fnins.2015.00252  0.352
2015 Barnes SA, Pinto-Duarte A, Kappe A, Zembrzycki A, Metzler A, Mukamel EA, Lucero J, Wang X, Sejnowski TJ, Markou A, Behrens MM. Disruption of mGluR5 in parvalbumin-positive interneurons induces core features of neurodevelopmental disorders. Molecular Psychiatry. PMID 26260494 DOI: 10.1038/Mp.2015.113  0.764
2015 Mo A, Mukamel EA, Davis FP, Luo C, Henry GL, Picard S, Urich MA, Nery JR, Sejnowski TJ, Lister R, Eddy SR, Ecker JR, Nathans J. Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain. Neuron. 86: 1369-84. PMID 26087164 DOI: 10.1016/J.Neuron.2015.05.018  0.589
2015 Schultz MD, He Y, Whitaker JW, Hariharan M, Mukamel EA, Leung D, Rajagopal N, Nery JR, Urich MA, Chen H, Lin S, Lin Y, Jung I, Schmitt AD, Selvaraj S, et al. Human body epigenome maps reveal noncanonical DNA methylation variation. Nature. 523: 212-6. PMID 26030523 DOI: 10.1038/Nature14465  0.485
2015 Barnes SA, Pinto-Duarte A, Kappe A, Zembrzycki A, Metzler A, Mukamel EA, Lucero J, Wang X, Sejnowski TJ, Markou A, Behrens MM. Disruption of mGluR5 in parvalbumin-positive interneurons induces core features of neurodevelopmental disorders Molecular Psychiatry. DOI: 10.1038/mp.2015.113  0.732
2013 Lister R, Mukamel EA, Nery JR, Urich M, Puddifoot CA, Johnson ND, Lucero J, Huang Y, Dwork AJ, Schultz MD, Yu M, Tonti-Filippini J, Heyn H, Hu S, Wu JC, et al. Global epigenomic reconfiguration during mammalian brain development. Science (New York, N.Y.). 341: 1237905. PMID 23828890 DOI: 10.1126/Science.1237905  0.679
2012 Mukamel EA, Schnitzer MJ. Unified resolution bounds for conventional and stochastic localization fluorescence microscopy. Physical Review Letters. 109: 168102. PMID 23215134 DOI: 10.1103/PhysRevLett.109.168102  0.463
2012 Lewis LD, Weiner VS, Mukamel EA, Donoghue JA, Eskandar EN, Madsen JR, Anderson WS, Hochberg LR, Cash SS, Brown EN, Purdon PL. Rapid fragmentation of neuronal networks at the onset of propofol-induced unconsciousness. Proceedings of the National Academy of Sciences of the United States of America. 109: E3377-86. PMID 23129622 DOI: 10.1073/Pnas.1210907109  0.365
2009 Mukamel EA, Nimmerjahn A, Schnitzer MJ. Automated analysis of cellular signals from large-scale calcium imaging data. Neuron. 63: 747-60. PMID 19778505 DOI: 10.1016/J.Neuron.2009.08.009  0.73
2009 Wilt BA, Burns LD, Wei Ho ET, Ghosh KK, Mukamel EA, Schnitzer MJ. Advances in light microscopy for neuroscience. Annual Review of Neuroscience. 32: 435-506. PMID 19555292 DOI: 10.1146/annurev.neuro.051508.135540  0.517
2009 Nimmerjahn A, Mukamel EA, Schnitzer MJ. Motor behavior activates Bergmann glial networks. Neuron. 62: 400-12. PMID 19447095 DOI: 10.1016/J.Neuron.2009.03.019  0.726
2008 Flusberg BA, Nimmerjahn A, Cocker ED, Mukamel EA, Barretto RP, Ko TH, Burns LD, Jung JC, Schnitzer MJ. High-speed, miniaturized fluorescence microscopy in freely moving mice. Nature Methods. 5: 935-8. PMID 18836457 DOI: 10.1038/Nmeth.1256  0.751
2008 Wetmore DZ, Mukamel EA, Schnitzer MJ. Lock-and-key mechanisms of cerebellar memory recall based on rebound currents. Journal of Neurophysiology. 100: 2328-47. PMID 17671105 DOI: 10.1152/jn.00344.2007  0.771
2005 Mukamel EA, Schnitzer MJ. Retinal coding of visual scenes -- repetitive and redundant too? Neuron. 46: 357-9. PMID 15882630 DOI: 10.1016/j.neuron.2005.04.018  0.464
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