Eran Mukamel

Title(s)Associate Professor, Cognitive Science
SchoolVc-academic Affairs
Address9500 Gilman Drive #
La Jolla CA 92093
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    3/3 High-resolution mapping of cell type-specific DNA (hydroxy)methylation in the human brain during postnatal development and in psychiatric disease
    NIH U01MH122592May 1, 2020 - Feb 28, 2025
    Role: Principal Investigator
    Single Neuron Analyzer for Multi-modal, Cross-dataset (Epi)genomic Cell Type Datasets
    NIH RF1MH120015Sep 18, 2019 - Aug 31, 2022
    Role: Principal Investigator
    Global cortical dynamics in sleep and general anesthesia
    NIH R00NS080911Jul 1, 2014 - Jun 30, 2018
    Role: Principal Investigator
    Global cortical dynamics in sleep and general anesthesia
    NIH K99NS080911Sep 1, 2012 - Aug 31, 2014
    Role: Principal Investigator

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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details 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. Comprehensive analysis of single cell ATAC-seq data with SnapATAC. Nat Commun. 2021 02 26; 12(1):1337. 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, Ren B. PMID: 33637727.
      View in: PubMed   Mentions: 12     Fields:    Translation:AnimalsCells
    2. Single-Cell Sequencing of Brain Cell Transcriptomes and Epigenomes. Neuron. 2021 01 06; 109(1):11-26. Armand EJ, Li J, Xie F, Luo C, Mukamel EA. PMID: 33412093.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    3. Evolution of regulatory signatures in primate cortical neurons at cell-type resolution. Proc Natl Acad Sci U S A. 2020 11 10; 117(45):28422-28432. 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. PMID: 33109720.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    4. Maternal immune activation impairs cognitive flexibility and alters transcription in frontal cortex. Neurobiol Dis. 2019 05; 125:211-218. Amodeo DA, Lai CY, Hassan O, Mukamel EA, Behrens MM, Powell SB. PMID: 30716470.
      View in: PubMed   Mentions: 7     Fields:    Translation:AnimalsCells
    5. Perspectives on defining cell types in the brain. Curr Opin Neurobiol. 2019 06; 56:61-68. Mukamel EA, Ngai J. PMID: 30530112.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    6. A unique role for DNA (hydroxy)methylation in epigenetic regulation of human inhibitory neurons. Sci Adv. 2018 09; 4(9):eaau6190. Kozlenkov A, Li J, Apontes P, Hurd YL, Byne WM, Koonin EV, Wegner M, Mukamel EA, Dracheva S. PMID: 30263963.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansCells
    7. A transient cortical state with sleep-like sensory responses precedes emergence from general anesthesia in humans. Elife. 2018 08 10; 7. Lewis LD, Piantoni G, Peterfreund RA, Eskandar EN, Harrell PG, Akeju O, Aglio LS, Cash SS, Brown EN, Mukamel EA, Purdon PL. PMID: 30095069.
      View in: PubMed   Mentions: 6     Fields:    Translation:Humans
    8. Environmental enrichment increases transcriptional and epigenetic differentiation between mouse dorsal and ventral dentate gyrus. Nat Commun. 2018 01 19; 9(1):298. 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. PMID: 29352183.
      View in: PubMed   Mentions: 30     Fields:    Translation:AnimalsCells
    9. Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex. Science. 2017 08 11; 357(6351):600-604. 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, Ecker JR. PMID: 28798132.
      View in: PubMed   Mentions: 122     Fields:    Translation:HumansAnimalsCells
    10. Allele-specific non-CG DNA methylation marks domains of active chromatin in female mouse brain. Proc Natl Acad Sci U S A. 2017 04 04; 114(14):E2882-E2890. Keown CL, Berletch JB, Castanon R, Nery JR, Disteche CM, Ecker JR, Mukamel EA. PMID: 28320934.
      View in: PubMed   Mentions: 21     Fields:    Translation:AnimalsCells
    11. Epigenomic landscapes of retinal rods and cones. Elife. 2016 Mar 07; 5:e11613. 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. PMID: 26949250.
      View in: PubMed   Mentions: 52     Fields:    Translation:AnimalsCells
    12. Corrigendum: Human body epigenome maps reveal noncanonical DNA methylation variation. Nature. 2016 Feb 11; 530(7589):242. 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, Ren B, Sejnowski TJ, Wang W, Ecker JR. PMID: 26605523.
      View in: PubMed   Mentions: 3     Fields:    
    13. Disruption of mGluR5 in parvalbumin-positive interneurons induces core features of neurodevelopmental disorders. Mol Psychiatry. 2015 Oct; 20(10):1161-72. Barnes SA, Pinto-Duarte A, Kappe A, Zembrzycki A, Metzler A, Mukamel EA, Lucero J, Wang X, Sejnowski TJ, Markou A, Behrens MM. PMID: 26260494.
      View in: PubMed   Mentions: 36     Fields:    Translation:AnimalsCells
    14. Turning over DNA methylation in the mind. Front Neurosci. 2015; 9:252. Lister R, Mukamel EA. PMID: 26283895.
      View in: PubMed   Mentions:
    15. Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain. Neuron. 2015 Jun 17; 86(6):1369-84. 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. PMID: 26087164.
      View in: PubMed   Mentions: 215     Fields:    Translation:AnimalsCells
    16. Human body epigenome maps reveal noncanonical DNA methylation variation. Nature. 2015 Jul 09; 523(7559):212-6. 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, Ren B, Sejnowski TJ, Wang W, Ecker JR. PMID: 26030523.
      View in: PubMed   Mentions: 238     Fields:    Translation:HumansCells
    17. A transition in brain state during propofol-induced unconsciousness. J Neurosci. 2014 Jan 15; 34(3):839-45. Mukamel EA, Pirondini E, Babadi B, Wong KF, Pierce ET, Harrell PG, Walsh JL, Salazar-Gomez AF, Cash SS, Eskandar EN, Weiner VS, Brown EN, Purdon PL. PMID: 24431442.
      View in: PubMed   Mentions: 42     Fields:    Translation:Humans
    18. Global epigenomic reconfiguration during mammalian brain development. Science. 2013 Aug 09; 341(6146):1237905. 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, Rao A, Esteller M, He C, Haghighi FG, Sejnowski TJ, Behrens MM, Ecker JR. PMID: 23828890.
      View in: PubMed   Mentions: 746     Fields:    Translation:HumansAnimalsCells
    19. Electroencephalogram signatures of loss and recovery of consciousness from propofol. Proc Natl Acad Sci U S A. 2013 Mar 19; 110(12):E1142-51. Purdon PL, Pierce ET, Mukamel EA, Prerau MJ, Walsh JL, Wong KF, Salazar-Gomez AF, Harrell PG, Sampson AL, Cimenser A, Ching S, Kopell NJ, Tavares-Stoeckel C, Habeeb K, Merhar R, Brown EN. PMID: 23487781.
      View in: PubMed   Mentions: 196     Fields:    Translation:HumansCTClinical Trials
    20. Rapid fragmentation of neuronal networks at the onset of propofol-induced unconsciousness. Proc Natl Acad Sci U S A. 2012 Dec 04; 109(49):E3377-86. Lewis LD, Weiner VS, Mukamel EA, Donoghue JA, Eskandar EN, Madsen JR, Anderson WS, Hochberg LR, Cash SS, Brown EN, Purdon PL. PMID: 23129622.
      View in: PubMed   Mentions: 139     Fields:    Translation:Humans
    21. Unified resolution bounds for conventional and stochastic localization fluorescence microscopy. Phys Rev Lett. 2012 Oct 19; 109(16):168102. Mukamel EA, Schnitzer MJ. PMID: 23215134.
      View in: PubMed   Mentions: 12     Fields:    
    22. Statistical deconvolution for superresolution fluorescence microscopy. Biophys J. 2012 May 16; 102(10):2391-400. Mukamel EA, Babcock H, Zhuang X. PMID: 22677393.
      View in: PubMed   Mentions: 47     Fields:    Translation:Cells
    23. Beamforming approach to phase-amplitude modulation analysis of multi-channel EEG. Annu Int Conf IEEE Eng Med Biol Soc. 2012; 2012:6731-4. Sampson AL, Babadi B, Prerau MJ, Mukamel EA, Brown EN, Purdon PL. PMID: 23367474.
      View in: PubMed   Mentions:
    24. Robust time-varying multivariate coherence estimation: application to electroencephalogram recordings during general anesthesia. Annu Int Conf IEEE Eng Med Biol Soc. 2011; 2011:4725-8. Wong KF, Mukamel EA, Salazar AF, Pierce ET, Harrell PG, Walsh JL, Sampson A, Brown EN, Purdon PL. PMID: 22255393.
      View in: PubMed   Mentions:
    25. Phase-based measures of cross-frequency coupling in brain electrical dynamics under general anesthesia. Annu Int Conf IEEE Eng Med Biol Soc. 2011; 2011:1981-4. Mukamel EA, Wong KF, Prerau MJ, Brown EN, Purdon PL. PMID: 22254722.
      View in: PubMed   Mentions:
    26. Bayesian analysis of trinomial data in behavioral experiments and its application to human studies of general anesthesia. Annu Int Conf IEEE Eng Med Biol Soc. 2011; 2011:4705-8. Wong KF, Smith AC, Pierce ET, Harrell PG, Walsh JL, Salazar AF, Tavares CL, Cimenser A, Prerau MJ, Mukamel EA, Sampson A, Purdon PL, Brown EN. PMID: 22255388.
      View in: PubMed   Mentions:
    27. Automated analysis of cellular signals from large-scale calcium imaging data. Neuron. 2009 Sep 24; 63(6):747-60. Mukamel EA, Nimmerjahn A, Schnitzer MJ. PMID: 19778505.
      View in: PubMed   Mentions: 230     Fields:    Translation:HumansAnimalsCells
    28. Motor behavior activates Bergmann glial networks. Neuron. 2009 May 14; 62(3):400-12. Nimmerjahn A, Mukamel EA, Schnitzer MJ. PMID: 19447095.
      View in: PubMed   Mentions: 115     Fields:    Translation:AnimalsCells
    29. Advances in light microscopy for neuroscience. Annu Rev Neurosci. 2009; 32:435-506. Wilt BA, Burns LD, Wei Ho ET, Ghosh KK, Mukamel EA, Schnitzer MJ. PMID: 19555292.
      View in: PubMed   Mentions: 88     Fields:    Translation:HumansAnimalsCells
    30. High-speed, miniaturized fluorescence microscopy in freely moving mice. Nat Methods. 2008 Nov; 5(11):935-8. Flusberg BA, Nimmerjahn A, Cocker ED, Mukamel EA, Barretto RP, Ko TH, Burns LD, Jung JC, Schnitzer MJ. PMID: 18836457.
      View in: PubMed   Mentions: 130     Fields:    Translation:Animals
    31. Lock-and-key mechanisms of cerebellar memory recall based on rebound currents. J Neurophysiol. 2008 Oct; 100(4):2328-47. Wetmore DZ, Mukamel EA, Schnitzer MJ. PMID: 17671105.
      View in: PubMed   Mentions: 17     Fields:    Translation:Cells
    32. Retinal coding of visual scenes -- repetitive and redundant too? Neuron. 2005 May 05; 46(3):357-9. Mukamel EA, Schnitzer MJ. PMID: 15882630.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    33. Direct measurement of the spatial Wigner function with area-integrated detection. Opt Lett. 2003 Aug 01; 28(15):1317-9. Mukamel E, Banaszek K, Walmsley IA, Dorrer C. PMID: 12906075.
      View in: PubMed   Mentions: 3     Fields:    
    34. Managing photons for quantum information processing. Philos Trans A Math Phys Eng Sci. 2003 Jul 15; 361(1808):1493-506. U'Ren AB, Mukamel E, Banaszek K, Walmsley IA. PMID: 12869324.
      View in: PubMed   Mentions:    Fields:    
    35. Phase diagram for unzipping DNA with long-range interactions. Phys Rev E Stat Nonlin Soft Matter Phys. 2002 Sep; 66(3 Pt 1):032901. Mukamel EA, Shakhnovich EI. PMID: 12366167.
      View in: PubMed   Mentions: 3     Fields:    
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