Meshorer Lab Hebrew University ELSC













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Full publication list on PubMed

Selected articles

Reviews and commentaries

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    Link to PDF Sorek M and Meshorer E (2022) Can’t smell the virus: SARS-CoV2, chromatin organization, and anosmia Dev Cell57:1081-1082

    Link to PDF Bar S, Vershkov D, Keshet G, Lezmi E, Meller N, Yilmaz A, Yanuka O, Nissim-Rafinia M, Meshorer E, Eldar-Geva T& Benvenisty N (2021) Identifying regulators of parental imprinting by CRISPR/Cas9 screening in haploid human embryonic stem cells Nat Commun

    Link to PDF Leader Y, Lev Maor G, Sorek M, Shayevitch R, Hussein M, Hameiri O, Tammer L, Zonszain J, Keydar I, Hollander D, Meshorer E & Ast G (2021) The upstream 5′ splice site remains associated to the transcription machinery during intron synthesis Nat Commun 12:4545

    Link to PDF Bavli D, Sun X, Kozulin C, Ennis D, Motzik A, Biran A, Brielle S, Alajem A, Meshorer E, Buxboim A, Ram O (2021) CloneSeq: A highly sensitive analysis platform for the characterization of 3D-cultured single-cell-derived clones Dev Cell PMID: 34010629

    Link to PDF Gomez-Garcia PA, Portillo-Ledesma S, Neguembor MV, Pesaresi M, Oweis W, Rohrlich T, Wieser S, Meshorer E, Schlick T, Cosma MP, Lakadamyali M (2021) Mesoscale Modeling and Single-Nucleosome Tracking Reveal Remodeling of Clutch Folding and Dynamics in Stem Cell Differentiation Cell Rep 34, 108614

    Link to PDF Sorek M, Oweis W, Nissim-Rafinia M, Maman M, Simon S , Hession CC, Adiconis X, Simmons SK, Sanjana N, Shi X, Lu C, Pan JQ, Xu X, Pouladi MA, Ellerby LM, Zhang F, Levin JZ, Meshorer E (2021) Pluripotent stem cell-derived models of neurological diseases reveal early transcriptional heterogeneity Genome Biol 22(1):73

    Link to PDF Harikumar A, Lim PSL, Nissim-Rafinia M, Park JE, Sze SK, Meshorer E (2020) Embryonic Stem Cell Differentiation Is Regulated by SET through Interactions with p53 and b-Catenin Stem Cell Rep PMID: 33296674

    Link to PDF Meshorer E, Plath K (2020) Chromatin and Nuclear Architecture in Stem Cells Stem Cell Rep PMID: 33296671

    Link to PDF Pattabiraman S, Azad GK, Amen T, Brielle S, Park JE, Sze SK, Meshorer E, Kaganovich D (2020) Vimentin protects differentiating stem cells from stress Sci Rep doi: 10.1038/s41598-020-76076-4

    Link to PDF Lim PSL and Meshorer E (2020) Organization of the Pluripotent Genome Cold Spring Harb Perspect Biol doi: 10.1101/cshperspect.a040204

    Link to PDF Meshorer E (2020) What are Embryonic Stem Cells and How Can They Help Us Frontiers for Young Minds doi: 10.3389/frym.2020.00032

    Link to PDF Lim PSL and Meshorer E (2020) Dppa2 and Dppa4 Safeguard Bivalent Chromatin in order to Establish a Pluripotent Epigenome Nat Struct Mol Biol

    Link to PDF Mathov Y*, Batyrev D*, Meshorer E, Carmel L (2020) Harnessing Epigenetics to Study Human Evolution Curr Opin Genet Dev 62:23–29

    Link to PDF Lezmi E, Weissbein U, Golan-Lev T, Nissim-Rafinia M, Meshorer E, Benvenisty N (2020) The Chromatin Regulator ZMYM2 Restricts Human Pluripotent Stem Cell Growth and Is Essential for Teratoma Formation Stem Cell Rep

    Link to PDF Gokhman D, Nissim-Rafinia M, ... , Meshorer E, Carmel L (2020) Differential DNA methylation of vocal and facial anatomy genes in modern humans Nat Commun11:1189

    Link to PDF Goldshtein M, Mellul M, Deutch G, Imashimizu M, Takeuchi K, Meshorer E, Ram O and Lukatsky DB (2020) Transcription Factor Binding in Embryonic Stem Cells Is Constrained by DNA Sequence Repeat Symmetry Biophys J 118, 1–12,

    Link to PDF Mallm JP, Windisch P, Biran A, Gal Z, Schumacher S, Glass R, Herold-Mende C, Meshorer E, Barbus M, Rippe K (2020) Glioblastoma initiating cells are sensitive to histone demethylase inhibition due to epigenetic deregulation Int J Cancer 146(5):1281-1292’

    Link to PDF Batyrev D*, Lapid E*, Carmel L, Meshorer E (2019) Predicted Archaic 3D Genome Organization Reveals Genes Related to Head and Spinal Cord Separating Modern from Archaic Humans Cells 24;9(1). pii: E48. doi: 10.3390/cells9010048

    Link to PDF Cohen-Carmon D*, Sorek M*, Lerner V, Mundackal DS, Nissim-Rafinia M, Yarom Y, Meshorer E (2019) Progerin-Induced Transcriptional Changes in Huntington’s Disease Human Pluripotent Stem Cell-Derived Neurons Mol Neurobiol doi: 10.1007/s12035-019-01839-8. [Epub ahead of print]

    Link to PDF Gokhman D, Mishol N, de Manuel M, de Juan D, Shuqrun J, Meshorer E, Marques-Bonet T, Rak Y, and Carmel L (2019) Reconstructing Denisovan Anatomy Using DNA Methylation Maps Cell vol. 179, no. 1, 2019

    Link to PDF Sorek M*, Cohen LRZ* and Meshorer E (2019) Open chromatin structure in PolyQ disease-related genes: a potential mechanism for CAG repeat expansion in the normal human population NAR Genomics and Bioinformatics 1(1),e3:1-9

    Link to PDF Monderer-Rothkoff G, Tal N, Risman M, Shani O, Nissim-Rafinia M, Malki-Feldman L, Medvedeva V, Groszer M, Meshorer E and Shifman S (2019) AUTS2 isoforms control neuronal differentiation Mol Psychiatry

    Link to PDF Schlesinger S and Meshorer E (2019) Open chromatin, epigenetic plasticity and nuclear organization in pluripotency. Dev Cell 48(2):135-150

    Link to PDF Gold A, Eini L, Nissim-Rafinia M, Ezer S, Erez K, Nasma A, Viner R, Hanania R, Milyavsky M, Meshorer E* and Goldberg M* (2019) Spironolactone inhibits growth of cancer stem cells by impairing the DNA damage response. Oncogene PMID: 30622338

    Link to PDF Azad GK, Ito K, Sailaja BS, Biran A, Nissim-Rafinia M, Yamada Y, Brown DT, Takizawa T & Meshorer E (2018) PARP1-dependent eviction of the linker histone H1 mediates immediate early gene expression during neuronal activation. J Cell Biol, 217(2):473-481

    Link to PDF Harikumar A*, Edupuganti RR*, Sorek M, Azad GK, Markoulaki S, Sehnalova P, Legartova S, Bartova E, Farkash-Amar S, Jaenisch R, Alon U & Meshorer E (2017) An Endogenously Tagged Fluorescent Fusion Protein Library in Mouse Embryonic Stem Cells. Stem Cell Reports, 9(4):1304-1314

    Link to PDF Edupuganti RR*, Harikumar A*, Aaronson Y, Biran A, Sailaja BS, Nissim-Rafinia M, Azad GK, Cohen MA, Park JE, Shivalila CS, Markoulaki S, Sze SK, Jaenisch R & Meshorer E (2017) Alternative SET/TAFI Promoters Regulate Embryonic Stem Cell Differentiation. Stem Cell Reports. 9(4):1291-1303

    Link to PDF Schlesinger S, Kaffe B, Melcer S, Aguilera JD, Sivaraman DM, Kaplan T & Meshorer E (2017) A hyperdynamic H3.3 nucleosome marks promoter regions in pluripotent embryonic stem cells. Nucleic Acids Res, 45(21):12181-12194

    Link to PDF Torres CM*, Biran A*, Burney MJ, Patel H, Henser-Brownhill T,Shapira Cohen A-H, Li Y, Ben-Hamo R,Nye E, Spencer-Dene B, Chakravarty P, Efroni S, Matthews N, Misteli T, Meshorer E & Scaffidi P (2016) The linker histone H1.0 generates epigenetic and functional intratumor heterogeneity. Science, 353(6307):1514

    Preview by Almouzni et al.:

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    • The Epigenome and Cancer Stem Cell Fate: Connected by a Linker Histone Variant

    Link to PDF Aaronson Y, Livyatan I, Gokhman D & Meshorer E (2016) Systematic identification of gene family regulators in mouse and human embryonic stem cells. Nucleic Acids Res, 44(9):4080-9

    Link to PDF Gokhman D, Meshorer E & Carmel L (2016) Epigenetics: It's Getting Old. Past Meets Future in Paleoepigenetics. Trends Ecol Evol, 31(4):290-300

    Link to PDF Livyatan I, Aaronson Y, Gokhman D, Ashkenazi R & Meshorer E (2015) BindDB: An integrated database and webtool platform for “Reverse-ChIP” epigenomic analysis. Cell Stem Cell, 17(6):647-648

    Link to PDF Harikumar A & Meshorer E (2015) Chromatin remodeling and bivalent histone modifications in embryonic stem cells. EMBO Rep. 15(12):1609-1619

    Link to PDF Mattout A, Aaronson Y, Sailaja BS, Raghu Ram EV, Harikumar A, Mallm JP, Sim KH, Nissim-Rafinia M, Supper E, Singh PB, Sze SK, Gasser SM, Rippe K & Meshorer E (2015) Heterochromatin Protein 1? (HP1?) has distinct functions and distinct nuclear distribution in pluripotent versus differentiated cells.. Genome Biol, 16(1):213-233

    Link to PDF Kfir N, Lev-Maor G, Glaich O, Alajem A, Datta A, Sze SK, Meshorer E, Ast G (2015) SF3B1 Association with Chromatin Determines Splicing Outcomes. Cell Rep, 11(4):618-629

    Link to PDF Alajem A, Biran A, Harikumar A, Sailaja BS, Aaronson Y, Livyatan I, Nissim-Rafinia M, Sommer AG, Mostoslavsky G, Gerbasi VR, Golden, DE, Datta A, Sze SK & Meshorer E (2015) Differential association of chromatin proteins identifies BAF60a/SMARCD1 as a regulator of embryonic stem cell differentiation. Cell Rep, 10(12):2019-2031

    Link to PDF Moussaieff A, Rouleau M, Kitsberg D, Cohen M, Levy G, Barasch D, Nemirovski A, Shen-Orr S, Laevsky I, Amit M, Bomze D, Elena-Herrmann B, Scherf T, Nissim-Rafinia M, Kempa S, Itskovitz-Eldor J, Meshorer E, Aberdam D & Nahmias Y (2015) Glycolysis-Mediated Changes in Acetyl-CoA and Histone Acetylation Control the Early Differentiation of Embryonic Stem Cells. Cell Metab, 21(3):392-402

    Preview by Daley et al.:

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    • Metabolic switches linked to pluripotency and embryonic stem cell differentiation

    Link to PDF Yearim A, Gelfman S, Shayevitch R, Melcer S, Glaich O, Mallm JP, Nissim-Rafinia M, Cohen AS, Rippe K, Meshorer E & Ast G (2015) HP1 Is Involved in Regulating the Global Impact of DNA Methylation on Alternative Splicing. Cell Rep, 10(7):1122-34

    Link to PDF Boskovic A, Eid A, Pontabry J, Ishiuchi T, Spiegelhalter C, Raghu Ram EV, Meshorer E, Torres-Padilla ME (2014) Higher chromatin mobility supports totipotency and precedes pluripotency in vivo. Genes Dev, 28(10):1042-7

    Link to PDF Gokhman D, Lavi E, Pr?fer K, Fraga MF, Riancho JA, Kelso J, P??bo S, Meshorer E and Carmel L (2014) Reconstructing the DNA Methylation Maps of the Neandertal and the Denisovan. Science, 344(6183):523-7


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    • How to build a Neanderthal / Nature

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    • Ancient DNA Holds Clues to Gene Activity in Extinct Humans / Science

    Link to PDF Schlesinger S, Meshorer E and Goff SP (2014) Asynchronous transcriptional silencing of individual retroviral genomes in embryonic cells. Retrovirology, 11(1):31

    Link to PDF Ben-David U, Biran A, Scaffidi P, Herold-Mende C, Boehringer M, Meshorer E and Benvenisty N (2014) Elimination of undifferentiated cancer cells by pluripotent stem cell inhibitors. J Mol Cell Biol, 6(3):267-9

    Link to PDF Bodaker M, Meshorer E, Mitrani E and Louzoun Y (2014) Genes related to differentiation are correlated with the gene regulatory network structure. Bioinformatics, 30(3):406-13

    Link to PDF Meshorer E (2014) Epigenetics one stem at a time. Cell Stem Cell. 14(6):708

    Link to PDF Livyatan I, Harikumar A, Nissim-Rafinia M, Duttagupta R, Gingeras TR and Meshorer E (2013) Non-polyadenylated transcription in embryonic stem cells reveals novel non-coding RNA related to pluripotency and differentiation. Nucl. Acids Res, 41(12):6300-15 [Featured article - Cover]
    Link to PDF Gokhman D, Livyatan I, Sailaja BS, Melcer S and Meshorer E (2013) Multilayered chromatin analysis reveals E2f, Smad and Zfxas transcriptional regulators of histones. Nat Struct Mol Biol, 20(1):119-26

    Link to PDF Livyatan I and Meshorer E (2013) SON sheds light on RNA splicing and pluripotency. Nat Cell Biol. 15, 1139–1140

    Link to PDF Harikumar A and Meshorer E (2013) Measuring the dynamics of chromatin proteins during differentiation. Methods Mol Biol. 1042, 173-80.

    Link to PDF Meshorer E (2013) SyStem cell biology, A systems biology approach to pluripotent stem cells. Systems Biomed 1:1-3

    Link to PDF Livyatan I and Meshorer E (2013) The HDAC interaction network. Mol Syst Biol 9, 671

    Link to PDF Aaronson Y and Meshorer E (2013) Stem cells: Regulation by alternative splicing. Nature 498, 176-177

    Link to PDF Sailaja BS, Cohen-Carmon D, Zimmerman G, Soreq H and Meshorer E (2012) Stress-induced epigenetic transcriptional memory of acetylcholinesterase by HDAC4. Proc Natl Acad Sci U S A, 109(52):E3687-95

    Link to PDF Melcer S, Hezroni H, Nissim-Rafinia M, Rand E, Skoultchi A, Stewart C L, Bustin M and Meshorer E (2012) Histone modifications and lamin A regulate chromatin protein dynamics in early embryonic stem cell differentiation. Nat Commun 3:910. [Featured Image]

    Link to PDF Shahar OD, Ram EV, Shimshoni E, Hareli S, Meshorer E and Goldberg M (2012) Live imaging of induced and controlled DNA double-strand break formation reveals extremely low repair by homologous recombination in human cells. Oncogene, 31(30):3495-504

    Link to PDF Cohen-Carmon D and Meshorer E (2012) Polyglutamine (polyQ) disorders: The chromatin connection. Nucleus, 3(5):433-41

    Link to PDF Biran A and Meshorer E (2012) Chromatin and genome organization in reprogramming. Stem Cells, 30(9):1793-9

    Link to PDF Sailaja BS, Takizawa T and Meshorer E (2012) Chromatin immunoprecipitation in mouse hippocampal cells and tissues. Methods Mol Biol, 809:353-64.

    Link to PDF Mattout A, Biran A and Meshorer E (2011) Global epigenetic changes during somatic cell reprogramming to iPS cells. J Mol Cell Biol, 3(6):341-50. [Cover]

    Link to PDF Hezroni H, Sailaja BS and Meshorer E (2011) Pluripotency-related, VPA-induced genome-wide H3K9 acetylation patterns in embryonic stem cells. J Biol Chem, 286:35977-88.

    Link to PDF Hezroni H, Tzchori I, Davidi A, Mattout A, Biran A, Nissim-Rafinia M, Westphal H and Meshorer E (2011) H3K9 histone acetylation predicts pluripotency and reprogramming capacity of ES cells. Nucleus, 2(4):300-309.

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    Nissim-Rafinia M and Meshorer E (2011) Photobleaching Assays (FRAP & FLIP) to Measure Chromatin Protein Dynamics in Living Embryonic Stem Cells. JoVE. 52.

    Link to PDF Gaspar-Maia A, Alajem A, Meshorer E and Ramalho-Santos M (2011) Open chromatin in pluripotency and reprogramming. Nat Rev Mol Cell Biol. 12:36-47

    Link to PDF Melcer S and Meshorer E (2010) Chromatin plasticity in pluripotent cells. Essays Biochem 48(1): 245-62.

    Link to PDF Melcer S and Meshorer E (2010) The silence of the LADs: dynamic genome-lamina interactions during ESC differentiation. Cell Stem Cell, 6:495-7.

    Link to PDF Mattout A and Meshorer E (2010) Chromatin plasticity and genome organization in pluripotent embryonic stem cells. Curr Opin Cell Biol, 22:334-41

    Link to PDF Gaspar-Maia A, Alajem A, Heidersbach A, McManus MT, Meshorer E and Ramalho-Santos M (2009) Chd1 regulates open chromatin and pluripotency of ES cells. Nature, 460:863-8

    Link to PDF Schwartz S, Meshorer E and Ast G (2009) Chromatin structure marks exon-intron architecture. Nat Struct Mol Biol, 16:990-995 [Cover]


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    • When chromatin meets splicing / Nat Struct Mol Biol

    Link to PDF Raghu Ram E and Meshorer E (2009) Transcriptional competence in pluripotency. Genes Dev, 23:2393-8

    Link to PDF Meshorer and Gruenbaum (2009) NURD keeps chromatin young. Nat Cell Biol, 11:1176-1177

    Link to PDF Prokocimer M, Davidovich M, Nissim-Rafinia M, Wiesel-Motiuk N, Bar D, Barkan R, Meshorer E and Gruenbaum Y (2009) Nuclear lamins: key regulators of nuclear structure and activities. J Cell Mol Med, 13:1059-85

    Link to PDF Efroni, S, Melcer S, Nissim-Rafinia M and Meshorer E (2009) Cells do play with dice: a statistical physics view of transcription. Cell Cycle. 8:43-48.

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    Efroni S, Duttagupta R, Cheng J, Dehghani H, Hoeppner DJ, Dash C, Bazett-Jones DP, Le Grice S, McKay RDG, Buetow KH, Gingeras TR, Misteli T and Meshorer E (2008) Global transcription in pluripotent embryonic stem cells. Cell Stem Cell, 2:437-447.

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    • Open chromatin and hypertranscription in embryonic stem cells / Cell Stem Cell

    Link to PDF Meshorer E (2008) Imaging chromatin in embryonic stem cells. StemBook,

    Link to PDF Meshorer E and Gruenbaum Y (2008) Rejuvenating premature aging disease. Nat Med. 14:713-715.

    Link to PDF Takizawa T and Meshorer E (2008) Chromatin and nuclear architecture in the central nervous system. Trends Neurosci. 31:343-352.

    Link to PDF Meshorer E and Gruenbaum Y (2008) Gone with the Wnt/Notch: stem cells in laminopathies, progeria and aging. J Cell Biol. 181:9-13.

    Link to PDF Meshorer E (2007) Chromatin in embryonic stem cell neuronal differentiation. Histol. Histopathol. 22:311-319.

    Link to PDF Meshorer E, Yellajoshula D, George E, Scambler PJ, Brown D and Misteli T (2006) Hyperdynamic plasticity of chromatin proteins in pluripotent embryonic stem cells. Dev Cell, 10:105-116.

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    • Breathing chromatin in ES cells / Dev Cell

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    • Hyperdynamic proteins keep stem cells on their toes / J Cell Biol

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    • The open secret of pluripotency / Nat Rev Genet

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    • Movers and shakers in embryonic stem cell chromatin / Cell

    Link to PDF Meshorer E and Misteli T (2006) Chromatin in pluripotency and embryonic stem cell differentiation. Nat Rev Mol Cell Biol. 7:540-546

    Link to PDF Meshorer E and Soreq H (2006) Virtues and woes of acetylcholinesterase alternative splicing in stress related neuropathology. Trends Neurosci. 29:216-224

    2005 and earlier
    Link to PDF Meshorer E, Bryk B, Toiber D, Cohen J, Podoly E, Dori A and Soreq H (2005) SC35 promotes sustainable stress-induced alternative splicing of neuronal acetylcholinesterase mRNA. Mol. Psych. 10:985-997. [Lilly award winner. Cover]

    Link to PDF Meshorer E, Biton I, Ben-Shaul Y, Assaf Y, Soreq H and Cohen Y (2005) Brain diffusion and transport abnormalities under cholinergic imbalance. FASEB J. 19:910-22

    Link to PDF Meshorer E and Misteli T (2005) Splicing misplaced. Cell, 122:317-318

    Link to PDF Meshorer E, Toiber D, Zurel D, Sahly I, Dori A, Cagnano E, Schreiber L, Grisaru D, Tronche F and Soreq H (2004) Combinatorial Complexity of 5’ Alternative ACHE Transcripts and Protein Products. J. Biol. Chem. 279:29740-29751

    Link to PDF Stoilov P*, Meshorer E*, Gencheva M, Glick D, Soreq H and Stamm S (2002) Defects in pre-mRNA processing as causes of and predisposition to diseases. DNA Cell Biol. 21:803-81

    Link to PDF Meshorer E and Soreq H (2002) Pre-mRNA splicing modulations in senescence. Aging Cell 1:10-16 [Cover]

    Link to PDF Meshorer E, Erb C, Gazit R, Pavlovsky L, Kaufer D, Friedman A, Glick D, Ben-Arie N and Soreq H (2002) Alternative splicing and neuritic mRNA translocation under long-term neuronal hypersensitivity. Science, 295:508-512.



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