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Publications
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| 2024 |
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Mathov Y, Nissim-Rafinia M, Leibson C, Galun N, Marques-Bonet T, Kandel A, Liebergal M, Meshorer E, Carmel L (2024) Inferring DNA methylation in non-skeletal tissues of ancient specimens Nat Ecol Evol https://doi.org/10.1038/s41559-024-02571-w
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Cohen LRZ, Meshorer E (2024) The many faces of H3.3 in regulating chromatin in embryonic stem cells and beyond. Trends Cell Biol doi.org/10.1016/j.tcb.2024.03.003
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| 2023 |
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Pascal C, Zonszain J, Hameiri O, Gargi-Levi C, Lev-Maor G, Tammer L, Levy T, Tarabeih A, Roy VR, Ben-Salmon S, Elbaz L, Eid M, Hakim T, Abu Rabe'a S, Shalev N, Jordan A, Meshorer E, Ast G (2023). Human histone H1 variants impact splicing outcome by controlling RNA polymerase II elongation. Mol Cell PMID: 37922872
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Sebastian-Perez R, Nakagawa S, Tu X, Aranda S, Pesaresi M, Gomez-Garcia PA, Alcoverro-Bertran M, Gomez-Vazquez JL, Carnevali D, Borràs E, Sabidó E, Martin L, Nissim-Rafinia M, Meshorer E, Neguembor MV, Di Croce L, Pia Cosma M (2023) SMARCAD1 and TOPBP1 contribute to heterochromatin maintenance at the transition from the 2C-like to the pluripotent state eLife doi.org/10.7554/eLife.87742.1
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Joron K, Viegas JO, Haas-Neil L, Bier S, Drori P, Dvir S, Siang Lin Lim P, Rauscher S, Meshorer E, Lerner E (2023) Fluorescent protein lifetimes report densities and phases of nuclear condensates during embryonic stem-cell differentiation Nat Commun PMID: 37573411
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Viegas JO, Lior Fishman L, Meshorer E, Rabani M (2023) Calculating RNA degradation rates using large-scale normalization in mouse embryonic stem cells STAR Protoc PMID: 37656628
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Omer D, Cohen Zontag O, Gnatek Y, Harari-Steinberg O, Pleniceanu O, Namestnikov M, Cohen AH, Nissim-Rafinia M, Tam G, Kalisky T, Meshorer E, Dekel B (2023) OCT4 induces long-lived dedifferentiated kidney progenitors poised to redifferentiate in 3D kidney spheroids Mol. Ther. - Methods Clin. Dev. doi.org/10.1016/j.omtm.2023.04.005
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| 2022 |
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Viegas JO, Kumar Azad G, Lv Y, Fishman L, Paltiel T, Pattabiraman S, Eun Park J, Kaganovich D, Kwan Sze S, Rabani M, Esteban MA, Meshorer E (2022) RNA degradation eliminates developmental transcripts during murine embryonic stem cell differentiation via CAPRIN1-XRN2 Dev Cell doi.org/10.1016/j.devcel.2022.11.014
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Cohen LRZ*, Kaffe B*, Deri E, Leibson C, Nissim-Rafinia M, Maman M, Harpaz N, Ron G, Shema E, Meshore E (2022) PRC2-independent actions of H3.3K27M in embryonic stem cell differentiation Nucleic Acids Res doi.org/10.1093/nar/gkac800
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Sorek M , Meshorer E , Schlesinger S (2022) Impaired activation of transposable elements in SARS-CoV-2 infection EMBO reports 10.15252/embr.202255101
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Sorek M and Meshorer E (2022) Can’t smell the virus: SARS-CoV2, chromatin organization, and anosmia Dev Cell 57:1081-1082
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| 2021 |
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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 12(1):6718
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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
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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
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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
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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
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| 2020 |
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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
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Meshorer E, Plath K (2020) Chromatin and Nuclear Architecture in Stem Cells Stem Cell Rep PMID: 33296671
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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
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Lim PSL and Meshorer E (2020) Organization of the Pluripotent Genome Cold Spring Harb Perspect Biol doi: 10.1101/cshperspect.a040204
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Meshorer E (2020) What are Embryonic Stem Cells and How Can They Help Us Frontiers for Young Minds doi: 10.3389/frym.2020.00032
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Lim PSL and Meshorer E (2020) Dppa2 and Dppa4 Safeguard Bivalent Chromatin in order to Establish a Pluripotent Epigenome Nat Struct Mol Biol doi.org/10.1038/s41594-020-0453-1
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Mathov Y*, Batyrev D*, Meshorer E, Carmel L (2020) Harnessing Epigenetics to Study Human Evolution Curr Opin Genet Dev 62:23–29
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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 doi.org/10.1016/j.stemcr.2020.05.014
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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
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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,
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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’
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| 2019 |
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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
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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]
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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
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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
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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 https://doi.org/10.1038/s41380-019-0409-1
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Schlesinger S and Meshorer E (2019) Open chromatin, epigenetic plasticity and nuclear organization in pluripotency. Dev Cell 48(2):135-150
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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
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| 2018 |
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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
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| 2017 |
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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
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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
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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
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| 2016 |
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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
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Preview by Almouzni et al.: |
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- The Epigenome and Cancer Stem Cell Fate: Connected by a Linker Histone Variant
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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
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Gokhman D, Meshorer E & Carmel L (2016) Epigenetics: It's Getting Old. Past Meets Future in Paleoepigenetics. Trends Ecol Evol, 31(4):290-300
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| 2015 |
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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
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Harikumar A & Meshorer E (2015) Chromatin remodeling and bivalent histone modifications in embryonic stem cells. EMBO Rep. 15(12):1609-1619
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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 1β (HP1β) has distinct functions and distinct nuclear distribution in pluripotent versus differentiated cells.. Genome Biol, 16(1):213-233
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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
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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
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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
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Preview by Daley et al.: |
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- Metabolic switches linked to pluripotency and embryonic stem cell differentiation
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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
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| 2014 |
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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
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Gokhman D, Lavi E, Prüfer K, Fraga MF, Riancho JA, Kelso J, Pääbo S, Meshorer E, 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
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Schlesinger S, Meshorer E and Goff SP (2014) Asynchronous transcriptional silencing of individual retroviral genomes in embryonic cells. Retrovirology, 11(1):31
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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
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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
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Meshorer E (2014) Epigenetics one stem at a time. Cell Stem Cell. 14(6):708
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| 2013 |
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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]
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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
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Livyatan I and Meshorer E (2013) SON sheds light on RNA splicing and pluripotency. Nat Cell Biol. 15, 1139–1140
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Harikumar A and Meshorer E (2013) Measuring the dynamics of chromatin proteins during differentiation. Methods Mol Biol. 1042, 173-80.
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Meshorer E (2013) SyStem cell biology, A systems biology approach to pluripotent stem cells. Systems Biomed 1:1-3
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Livyatan I and Meshorer E (2013) The HDAC interaction network. Mol Syst Biol 9, 671
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Aaronson Y and Meshorer E (2013) Stem cells: Regulation by alternative splicing. Nature 498, 176-177
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| 2012 |
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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
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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]
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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
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Cohen-Carmon D and Meshorer E (2012) Polyglutamine (polyQ) disorders: The chromatin connection. Nucleus, 3(5):433-41
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Biran A and Meshorer E (2012) Chromatin and genome organization in reprogramming. Stem Cells, 30(9):1793-9
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Sailaja BS, Takizawa T and Meshorer E (2012) Chromatin immunoprecipitation in mouse hippocampal cells and tissues. Methods Mol Biol, 809:353-64.
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| 2011 |
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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]
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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.
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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.
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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
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| 2010 |
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Melcer S and Meshorer E (2010) Chromatin plasticity in pluripotent cells. Essays Biochem 48(1): 245-62.
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Melcer S and Meshorer E (2010) The silence of the LADs: dynamic genome-lamina interactions during ESC differentiation. Cell Stem Cell, 6:495-7.
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Mattout A and Meshorer E (2010) Chromatin plasticity and genome organization in pluripotent embryonic stem cells. Curr Opin Cell Biol, 22:334-41
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| 2009 |
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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
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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
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Raghu Ram E and Meshorer E (2009) Transcriptional competence in pluripotency. Genes Dev, 23:2393-8
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Meshorer and Gruenbaum (2009) NURD keeps chromatin young. Nat Cell Biol, 11:1176-1177
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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
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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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| 2008 |
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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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Meshorer E (2008) Imaging chromatin in embryonic stem cells. StemBook, http://www.stembook.org.
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Meshorer E and Gruenbaum Y (2008) Rejuvenating premature aging disease. Nat Med. 14:713-715.
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Takizawa T and Meshorer E (2008) Chromatin and nuclear architecture in the central nervous system. Trends Neurosci. 31:343-352.
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Meshorer E and Gruenbaum Y (2008) Gone with the Wnt/Notch: stem cells in laminopathies, progeria and aging. J Cell Biol. 181:9-13.
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2007 |
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Meshorer E (2007) Chromatin in embryonic stem cell neuronal differentiation. Histol. Histopathol. 22:311-319.
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| 2006 |
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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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| Previews: |
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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
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Meshorer E and Misteli T (2006) Chromatin in pluripotency and embryonic stem cell differentiation. Nat Rev Mol Cell Biol. 7:540-546
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Meshorer E and Soreq H (2006) Virtues and woes of acetylcholinesterase alternative splicing in stress related neuropathology. Trends Neurosci. 29:216-224
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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]
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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
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Meshorer E and Misteli T (2005) Splicing misplaced. Cell, 122:317-318
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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
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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
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Meshorer E and Soreq H (2002) Pre-mRNA splicing modulations in senescence. Aging Cell 1:10-16 [Cover]
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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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