Cell-type specialization is encoded by specific chromatin topologies View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2021-11-17

AUTHORS

Warren Winick-Ng, Alexander Kukalev, Izabela Harabula, Luna Zea-Redondo, Dominik Szabó, Mandy Meijer, Leonid Serebreni, Yingnan Zhang, Simona Bianco, Andrea M. Chiariello, Ibai Irastorza-Azcarate, Christoph J. Thieme, Thomas M. Sparks, Sílvia Carvalho, Luca Fiorillo, Francesco Musella, Ehsan Irani, Elena Torlai Triglia, Aleksandra A. Kolodziejczyk, Andreas Abentung, Galina Apostolova, Eleanor J. Paul, Vedran Franke, Rieke Kempfer, Altuna Akalin, Sarah A. Teichmann, Georg Dechant, Mark A. Ungless, Mario Nicodemi, Lonnie Welch, Gonçalo Castelo-Branco, Ana Pombo

ABSTRACT

The three-dimensional (3D) structure of chromatin is intrinsically associated with gene regulation and cell function1–3. Methods based on chromatin conformation capture have mapped chromatin structures in neuronal systems such as in vitro differentiated neurons, neurons isolated through fluorescence-activated cell sorting from cortical tissues pooled from different animals and from dissociated whole hippocampi4–6. However, changes in chromatin organization captured by imaging, such as the relocation of Bdnf away from the nuclear periphery after activation7, are invisible with such approaches8. Here we developed immunoGAM, an extension of genome architecture mapping (GAM)2,9, to map 3D chromatin topology genome-wide in specific brain cell types, without tissue disruption, from single animals. GAM is a ligation-free technology that maps genome topology by sequencing the DNA content from thin (about 220 nm) nuclear cryosections. Chromatin interactions are identified from the increased probability of co-segregation of contacting loci across a collection of nuclear slices. ImmunoGAM expands the scope of GAM to enable the selection of specific cell types using low cell numbers (approximately 1,000 cells) within a complex tissue and avoids tissue dissociation2,10. We report cell-type specialized 3D chromatin structures at multiple genomic scales that relate to patterns of gene expression. We discover extensive ‘melting’ of long genes when they are highly expressed and/or have high chromatin accessibility. The contacts most specific of neuron subtypes contain genes associated with specialized processes, such as addiction and synaptic plasticity, which harbour putative binding sites for neuronal transcription factors within accessible chromatin regions. Moreover, sensory receptor genes are preferentially found in heterochromatic compartments in brain cells, which establish strong contacts across tens of megabases. Our results demonstrate that highly specific chromatin conformations in brain cells are tightly related to gene regulation mechanisms and specialized functions. More... »

PAGES

684-691

References to SciGraph publications

  • 2020-05-25. Three-dimensional genome restructuring across timescales of activity-induced neuronal gene expression in NATURE NEUROSCIENCE
  • 2018-03-19. Myelin remodeling through experience-dependent oligodendrogenesis in the adult somatosensory cortex in NATURE NEUROSCIENCE
  • 2017-08-28. An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues in NATURE METHODS
  • 1976-03. Gene control in eukaryotes and thec-value paradox “Excess” DNA as an impediment to transcription of coding sequences in JOURNAL OF MOLECULAR EVOLUTION
  • 2020-07-03. Comprehensive identification of mRNA isoforms reveals the diversity of neural cell-surface molecules with roles in retinal development and disease in NATURE COMMUNICATIONS
  • 2020-03-26. Distinct features of nucleolus-associated domains in mouse embryonic stem cells in CHROMOSOMA
  • 2021-05-07. Comparison of the Hi-C, GAM and SPRITE methods using polymer models of chromatin in NATURE METHODS
  • 2003-01-13. Conversion of embryonic stem cells into neuroectodermal precursors in adherent monoculture in NATURE BIOTECHNOLOGY
  • 2014-12-05. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 in GENOME BIOLOGY
  • 2017-06-26. Flipping between Polycomb repressed and active transcriptional states introduces noise in gene expression in NATURE COMMUNICATIONS
  • 2013-08-28. Topoisomerases facilitate transcription of long genes linked to autism in NATURE
  • 2015-02-18. Chromatin architecture reorganization during stem cell differentiation in NATURE
  • 2005-07. Neural crest origins of the neck and shoulder in NATURE
  • 2017-03-08. Complex multi-enhancer contacts captured by genome architecture mapping in NATURE
  • 2018-11-12. Disease-specific oligodendrocyte lineage cells arise in multiple sclerosis in NATURE MEDICINE
  • 2012-03-04. Fast gapped-read alignment with Bowtie 2 in NATURE METHODS
  • 2021-02-25. ArchR is a scalable software package for integrative single-cell chromatin accessibility analysis in NATURE GENETICS
  • 2011-08-04. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome in BMC BIOINFORMATICS
  • 2019-08-29. EGR1 recruits TET1 to shape the brain methylome during development and upon neuronal activity in NATURE COMMUNICATIONS
  • 2019-09-09. A compendium of promoter-centered long-range chromatin interactions in the human genome in NATURE GENETICS
  • 2019-01-09. LHX2- and LDB1-mediated trans interactions regulate olfactory receptor choice in NATURE
  • 2016-07-13. Polymer physics of chromosome large-scale 3D organisation in SCIENTIFIC REPORTS
  • 2019-03-26. From Louvain to Leiden: guaranteeing well-connected communities in SCIENTIFIC REPORTS
  • 2007-09-18. Co-regulation of a large and rapidly evolving repertoire of odorant receptor genes in BMC NEUROSCIENCE
  • 2015-02-02. Identifying candidate drivers of alcohol dependence-induced excessive drinking by assembly and interrogation of brain-specific regulatory networks in GENOME BIOLOGY
  • 2016-03-02. Shisa6 traps AMPA receptors at postsynaptic sites and prevents their desensitization during synaptic activity in NATURE COMMUNICATIONS
  • 2012-06-28. Fiji: an open-source platform for biological-image analysis in NATURE METHODS
  • 2015-06-01. Condensin-driven remodelling of X chromosome topology during dosage compensation in NATURE
  • 2018-04-16. Polymer physics predicts the effects of structural variants on chromatin architecture in NATURE GENETICS
  • 2015-03-11. Disruption of DNA-methylation-dependent long gene repression in Rett syndrome in NATURE
  • Journal

    TITLE

    Nature

    ISSUE

    7886

    VOLUME

    599

    Author Affiliations

  • Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany
  • Institute of Biology, Humboldt-Universität zu Berlin, Berlin, Germany
  • Laboratory of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden
  • Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria
  • School of Electrical Engineering and Computer Science, Ohio University, Athens, OH, USA
  • Dipartimentio di Fisica, Università di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant’Angelo, Naples, Italy
  • Graduate Program in Areas of Basic and Applied Biology, Universidade do Porto, Porto, Portugal
  • Berlin Institute of Health, Berlin, Germany
  • Broad Institute of MIT and Harvard, Cambridge, MA, USA
  • Immunology Department, Weizmann Institute of Science, Rehovot, Israel
  • Department of Clinical and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway
  • Institute for Neuroscience, Medical University of Innsbruck, Innsbruck, Austria
  • MRC Center for Neurodevelopmental Disorders, King’s College London, London, UK
  • Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Bioinformatics and Omics Data Science Platform, Berlin, Germany
  • Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK
  • Institute of Clinical Sciences, Imperial College London, London, UK
  • Ming Wai Lau Centre for Reparative Medicine, Stockholm node, Karolinska Institutet, Stockholm, Sweden
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/s41586-021-04081-2

    DOI

    http://dx.doi.org/10.1038/s41586-021-04081-2

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1142627398

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/34789882


    Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
    Incoming Citations Browse incoming citations for this publication using opencitations.net

    JSON-LD is the canonical representation for SciGraph data.

    TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

    [
      {
        "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
        "about": [
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Biological Sciences", 
            "type": "DefinedTerm"
          }, 
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/11", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Medical and Health Sciences", 
            "type": "DefinedTerm"
          }, 
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0604", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Genetics", 
            "type": "DefinedTerm"
          }, 
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/1109", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Neurosciences", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Animals", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Binding Sites", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Brain", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Cells", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Chromatin", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Chromatin Assembly and Disassembly", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Gene Expression Regulation", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Genes", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Male", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Mice", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Molecular Conformation", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Multigene Family", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Neurons", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Nucleic Acid Denaturation", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Transcription Factors", 
            "type": "DefinedTerm"
          }
        ], 
        "author": [
          {
            "affiliation": {
              "alternateName": "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.419491.0", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Winick-Ng", 
            "givenName": "Warren", 
            "id": "sg:person.01253125704.36", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01253125704.36"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.419491.0", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Kukalev", 
            "givenName": "Alexander", 
            "id": "sg:person.0653125067.25", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0653125067.25"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Institute of Biology, Humboldt-Universit\u00e4t zu Berlin, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.7468.d", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
                "Institute of Biology, Humboldt-Universit\u00e4t zu Berlin, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Harabula", 
            "givenName": "Izabela", 
            "id": "sg:person.01366507622.18", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01366507622.18"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Institute of Biology, Humboldt-Universit\u00e4t zu Berlin, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.7468.d", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
                "Institute of Biology, Humboldt-Universit\u00e4t zu Berlin, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Zea-Redondo", 
            "givenName": "Luna", 
            "id": "sg:person.01103013715.33", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01103013715.33"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Institute of Biology, Humboldt-Universit\u00e4t zu Berlin, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.7468.d", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
                "Institute of Biology, Humboldt-Universit\u00e4t zu Berlin, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Szab\u00f3", 
            "givenName": "Dominik", 
            "id": "sg:person.013225033245.12", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013225033245.12"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Laboratory of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden", 
              "id": "http://www.grid.ac/institutes/grid.4714.6", 
              "name": [
                "Laboratory of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Meijer", 
            "givenName": "Mandy", 
            "id": "sg:person.014066036763.49", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014066036763.49"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria", 
              "id": "http://www.grid.ac/institutes/grid.14826.39", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
                "Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Serebreni", 
            "givenName": "Leonid", 
            "id": "sg:person.01336602676.30", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01336602676.30"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "School of Electrical Engineering and Computer Science, Ohio University, Athens, OH, USA", 
              "id": "http://www.grid.ac/institutes/grid.20627.31", 
              "name": [
                "School of Electrical Engineering and Computer Science, Ohio University, Athens, OH, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Zhang", 
            "givenName": "Yingnan", 
            "id": "sg:person.015560370513.12", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.015560370513.12"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Dipartimentio di Fisica, Universit\u00e0 di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant\u2019Angelo, Naples, Italy", 
              "id": "http://www.grid.ac/institutes/grid.4691.a", 
              "name": [
                "Dipartimentio di Fisica, Universit\u00e0 di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant\u2019Angelo, Naples, Italy"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Bianco", 
            "givenName": "Simona", 
            "id": "sg:person.011213327541.41", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011213327541.41"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Dipartimentio di Fisica, Universit\u00e0 di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant\u2019Angelo, Naples, Italy", 
              "id": "http://www.grid.ac/institutes/grid.4691.a", 
              "name": [
                "Dipartimentio di Fisica, Universit\u00e0 di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant\u2019Angelo, Naples, Italy"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Chiariello", 
            "givenName": "Andrea M.", 
            "id": "sg:person.0631341604.65", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0631341604.65"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.419491.0", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Irastorza-Azcarate", 
            "givenName": "Ibai", 
            "id": "sg:person.01322335547.46", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01322335547.46"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.419491.0", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Thieme", 
            "givenName": "Christoph J.", 
            "id": "sg:person.01136642054.03", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01136642054.03"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.419491.0", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Sparks", 
            "givenName": "Thomas M.", 
            "id": "sg:person.013370725151.03", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013370725151.03"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Graduate Program in Areas of Basic and Applied Biology, Universidade do Porto, Porto, Portugal", 
              "id": "http://www.grid.ac/institutes/grid.5808.5", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
                "UCIBIO, Department of Life Sciences, NOVA School of Science and Technology, Universidade NOVA de Lisboa, Caparica, Portugal", 
                "Instituto de Ci\u00eancias Biom\u00e9dicas Abel Salazar, Universidade do Porto, Porto, Portugal", 
                "Graduate Program in Areas of Basic and Applied Biology, Universidade do Porto, Porto, Portugal"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Carvalho", 
            "givenName": "S\u00edlvia", 
            "id": "sg:person.016531741535.44", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016531741535.44"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Dipartimentio di Fisica, Universit\u00e0 di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant\u2019Angelo, Naples, Italy", 
              "id": "http://www.grid.ac/institutes/grid.4691.a", 
              "name": [
                "Dipartimentio di Fisica, Universit\u00e0 di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant\u2019Angelo, Naples, Italy"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Fiorillo", 
            "givenName": "Luca", 
            "id": "sg:person.015535144661.07", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.015535144661.07"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Dipartimentio di Fisica, Universit\u00e0 di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant\u2019Angelo, Naples, Italy", 
              "id": "http://www.grid.ac/institutes/grid.4691.a", 
              "name": [
                "Dipartimentio di Fisica, Universit\u00e0 di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant\u2019Angelo, Naples, Italy"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Musella", 
            "givenName": "Francesco", 
            "id": "sg:person.07604440023.48", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07604440023.48"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Berlin Institute of Health, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.484013.a", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
                "Berlin Institute of Health, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Irani", 
            "givenName": "Ehsan", 
            "id": "sg:person.014260211763.21", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014260211763.21"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Broad Institute of MIT and Harvard, Cambridge, MA, USA", 
              "id": "http://www.grid.ac/institutes/grid.66859.34", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
                "Broad Institute of MIT and Harvard, Cambridge, MA, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Torlai Triglia", 
            "givenName": "Elena", 
            "id": "sg:person.01023411043.16", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01023411043.16"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Immunology Department, Weizmann Institute of Science, Rehovot, Israel", 
              "id": "http://www.grid.ac/institutes/grid.13992.30", 
              "name": [
                "Cavendish Laboratory, University of Cambridge, Cambridge, UK", 
                "Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK", 
                "Immunology Department, Weizmann Institute of Science, Rehovot, Israel"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Kolodziejczyk", 
            "givenName": "Aleksandra A.", 
            "id": "sg:person.0661467055.53", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0661467055.53"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Department of Clinical and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway", 
              "id": "http://www.grid.ac/institutes/grid.5947.f", 
              "name": [
                "Institute for Neuroscience, Medical University of Innsbruck, Innsbruck, Austria", 
                "Department of Clinical and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Abentung", 
            "givenName": "Andreas", 
            "id": "sg:person.010077024721.77", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010077024721.77"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Institute for Neuroscience, Medical University of Innsbruck, Innsbruck, Austria", 
              "id": "http://www.grid.ac/institutes/grid.5361.1", 
              "name": [
                "Institute for Neuroscience, Medical University of Innsbruck, Innsbruck, Austria"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Apostolova", 
            "givenName": "Galina", 
            "id": "sg:person.0713227711.39", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0713227711.39"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "MRC Center for Neurodevelopmental Disorders, King\u2019s College London, London, UK", 
              "id": "http://www.grid.ac/institutes/grid.13097.3c", 
              "name": [
                "Institute of Clinical Sciences, Imperial College London, London, UK", 
                "Center for Developmental Neurobiology, Institute of Psychiatry, Psychology and Neuroscience, King\u2019s College London, London, UK", 
                "MRC Center for Neurodevelopmental Disorders, King\u2019s College London, London, UK"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Paul", 
            "givenName": "Eleanor J.", 
            "id": "sg:person.013310406073.04", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013310406073.04"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Bioinformatics and Omics Data Science Platform, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.419491.0", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Bioinformatics and Omics Data Science Platform, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Franke", 
            "givenName": "Vedran", 
            "id": "sg:person.0715411213.24", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0715411213.24"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Institute of Biology, Humboldt-Universit\u00e4t zu Berlin, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.7468.d", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
                "Institute of Biology, Humboldt-Universit\u00e4t zu Berlin, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Kempfer", 
            "givenName": "Rieke", 
            "id": "sg:person.011620512441.53", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011620512441.53"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Bioinformatics and Omics Data Science Platform, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.419491.0", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Bioinformatics and Omics Data Science Platform, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Akalin", 
            "givenName": "Altuna", 
            "id": "sg:person.01031750213.55", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01031750213.55"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK", 
              "id": "http://www.grid.ac/institutes/grid.10306.34", 
              "name": [
                "Cavendish Laboratory, University of Cambridge, Cambridge, UK", 
                "Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Teichmann", 
            "givenName": "Sarah A.", 
            "id": "sg:person.01122476621.52", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01122476621.52"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Institute for Neuroscience, Medical University of Innsbruck, Innsbruck, Austria", 
              "id": "http://www.grid.ac/institutes/grid.5361.1", 
              "name": [
                "Institute for Neuroscience, Medical University of Innsbruck, Innsbruck, Austria"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Dechant", 
            "givenName": "Georg", 
            "id": "sg:person.01233556123.44", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01233556123.44"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Institute of Clinical Sciences, Imperial College London, London, UK", 
              "id": "http://www.grid.ac/institutes/grid.7445.2", 
              "name": [
                "Institute of Clinical Sciences, Imperial College London, London, UK"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Ungless", 
            "givenName": "Mark A.", 
            "id": "sg:person.01276166012.19", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01276166012.19"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Berlin Institute of Health, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.484013.a", 
              "name": [
                "Dipartimentio di Fisica, Universit\u00e0 di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant\u2019Angelo, Naples, Italy", 
                "Berlin Institute of Health, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Nicodemi", 
            "givenName": "Mario", 
            "id": "sg:person.0714371637.39", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0714371637.39"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "School of Electrical Engineering and Computer Science, Ohio University, Athens, OH, USA", 
              "id": "http://www.grid.ac/institutes/grid.20627.31", 
              "name": [
                "School of Electrical Engineering and Computer Science, Ohio University, Athens, OH, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Welch", 
            "givenName": "Lonnie", 
            "id": "sg:person.01326027527.74", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01326027527.74"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Ming Wai Lau Centre for Reparative Medicine, Stockholm node, Karolinska Institutet, Stockholm, Sweden", 
              "id": "http://www.grid.ac/institutes/grid.4714.6", 
              "name": [
                "Laboratory of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden", 
                "Ming Wai Lau Centre for Reparative Medicine, Stockholm node, Karolinska Institutet, Stockholm, Sweden"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Castelo-Branco", 
            "givenName": "Gon\u00e7alo", 
            "id": "sg:person.014435070377.77", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014435070377.77"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Berlin Institute of Health, Berlin, Germany", 
              "id": "http://www.grid.ac/institutes/grid.484013.a", 
              "name": [
                "Max-Delbr\u00fcck Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany", 
                "Institute of Biology, Humboldt-Universit\u00e4t zu Berlin, Berlin, Germany", 
                "Berlin Institute of Health, Berlin, Germany"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Pombo", 
            "givenName": "Ana", 
            "id": "sg:person.0776734405.58", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0776734405.58"
            ], 
            "type": "Person"
          }
        ], 
        "citation": [
          {
            "id": "sg:pub.10.1038/s41588-021-00790-6", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1135709184", 
              "https://doi.org/10.1038/s41588-021-00790-6"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41467-017-00052-2", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1086163901", 
              "https://doi.org/10.1038/s41467-017-00052-2"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature12504", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1045191511", 
              "https://doi.org/10.1038/nature12504"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature03837", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1008711161", 
              "https://doi.org/10.1038/nature03837"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41588-019-0494-8", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1120926154", 
              "https://doi.org/10.1038/s41588-019-0494-8"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41593-018-0121-5", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1101560857", 
              "https://doi.org/10.1038/s41593-018-0121-5"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/ncomms10682", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1050849387", 
              "https://doi.org/10.1038/ncomms10682"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41591-018-0236-y", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1107954798", 
              "https://doi.org/10.1038/s41591-018-0236-y"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41467-020-17009-7", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1128945474", 
              "https://doi.org/10.1038/s41467-020-17009-7"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41467-019-11905-3", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1120697063", 
              "https://doi.org/10.1038/s41467-019-11905-3"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nmeth.4396", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1091372842", 
              "https://doi.org/10.1038/nmeth.4396"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature14222", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1046074449", 
              "https://doi.org/10.1038/nature14222"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2202-8-s3-s2", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1037895438", 
              "https://doi.org/10.1186/1471-2202-8-s3-s2"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1007/bf01796124", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1013034581", 
              "https://doi.org/10.1007/bf01796124"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41592-021-01135-1", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1137806101", 
              "https://doi.org/10.1038/s41592-021-01135-1"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41588-018-0098-8", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1103265664", 
              "https://doi.org/10.1038/s41588-018-0098-8"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature14450", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1051036477", 
              "https://doi.org/10.1038/nature14450"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nbt780", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1011057005", 
              "https://doi.org/10.1038/nbt780"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature14319", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1015767010", 
              "https://doi.org/10.1038/nature14319"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/s13059-015-0593-5", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1015210604", 
              "https://doi.org/10.1186/s13059-015-0593-5"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41593-020-0634-6", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1127869982", 
              "https://doi.org/10.1038/s41593-020-0634-6"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nmeth.1923", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1006541515", 
              "https://doi.org/10.1038/nmeth.1923"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41598-019-41695-z", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1112982066", 
              "https://doi.org/10.1038/s41598-019-41695-z"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature21411", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1084128543", 
              "https://doi.org/10.1038/nature21411"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41586-018-0845-0", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1111267695", 
              "https://doi.org/10.1038/s41586-018-0845-0"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1007/s00412-020-00734-9", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1125921218", 
              "https://doi.org/10.1007/s00412-020-00734-9"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/srep29775", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1028981829", 
              "https://doi.org/10.1038/srep29775"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2105-12-323", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1021902674", 
              "https://doi.org/10.1186/1471-2105-12-323"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nmeth.2019", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1026706357", 
              "https://doi.org/10.1038/nmeth.2019"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/s13059-014-0550-8", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1015222646", 
              "https://doi.org/10.1186/s13059-014-0550-8"
            ], 
            "type": "CreativeWork"
          }
        ], 
        "datePublished": "2021-11-17", 
        "datePublishedReg": "2021-11-17", 
        "description": "The three-dimensional (3D) structure of chromatin is intrinsically associated with gene regulation and cell function1\u20133. Methods based on chromatin conformation capture have mapped chromatin structures in neuronal systems such as in vitro differentiated neurons, neurons isolated through fluorescence-activated cell sorting from cortical tissues pooled from different animals and from dissociated whole hippocampi4\u20136. However, changes in chromatin organization captured by imaging, such as the relocation of Bdnf away from the nuclear periphery after activation7, are invisible with such approaches8. Here we developed immunoGAM, an extension of genome architecture mapping (GAM)2,9, to map 3D chromatin topology genome-wide in specific brain cell types, without tissue disruption, from single animals. GAM is a ligation-free technology that maps genome topology by sequencing the DNA content from thin (about 220\u2009nm) nuclear cryosections. Chromatin interactions are identified from the increased probability of co-segregation of contacting loci across a collection of nuclear slices. ImmunoGAM expands the scope of GAM to enable the selection of specific cell types using low cell numbers (approximately 1,000\u2009cells) within a complex tissue and avoids tissue dissociation2,10. We report cell-type specialized 3D chromatin structures at multiple genomic scales that relate to patterns of gene expression. We discover extensive \u2018melting\u2019 of long genes when they are highly expressed and/or have high chromatin accessibility. The contacts most specific of neuron subtypes contain genes associated with specialized processes, such as addiction and synaptic plasticity, which harbour putative binding sites for neuronal transcription factors within accessible chromatin regions. Moreover, sensory receptor genes are preferentially found in heterochromatic compartments in brain cells, which establish strong contacts across tens of megabases. Our results demonstrate that highly specific chromatin conformations in brain cells are tightly related to gene regulation mechanisms and specialized functions.", 
        "genre": "article", 
        "id": "sg:pub.10.1038/s41586-021-04081-2", 
        "inLanguage": "en", 
        "isAccessibleForFree": true, 
        "isFundedItemOf": [
          {
            "id": "sg:grant.8834310", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.7124951", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.9413788", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.7580378", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.4455054", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.8454830", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.2752227", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.6384432", 
            "type": "MonetaryGrant"
          }
        ], 
        "isPartOf": [
          {
            "id": "sg:journal.1018957", 
            "issn": [
              "0028-0836", 
              "1476-4687"
            ], 
            "name": "Nature", 
            "publisher": "Springer Nature", 
            "type": "Periodical"
          }, 
          {
            "issueNumber": "7886", 
            "type": "PublicationIssue"
          }, 
          {
            "type": "PublicationVolume", 
            "volumeNumber": "599"
          }
        ], 
        "keywords": [
          "chromatin structure", 
          "Genome Architecture Mapping", 
          "multiple genomic scales", 
          "high chromatin accessibility", 
          "sensory receptor genes", 
          "specific chromatin conformation", 
          "cell-type specialization", 
          "specific brain cell types", 
          "chromatin conformation capture", 
          "cell types", 
          "accessible chromatin regions", 
          "gene regulation mechanisms", 
          "tens of megabases", 
          "specific cell types", 
          "brain cell types", 
          "neuronal transcription factors", 
          "heterochromatic compartment", 
          "genome topology", 
          "conformation capture", 
          "chromatin organization", 
          "chromatin interactions", 
          "chromatin accessibility", 
          "chromatin topology", 
          "chromatin conformation", 
          "nuclear periphery", 
          "genomic scale", 
          "chromatin regions", 
          "gene regulation", 
          "long genes", 
          "three-dimensional structure", 
          "transcription factors", 
          "gene expression", 
          "fluorescence-activated cell", 
          "specialized functions", 
          "regulation mechanism", 
          "differentiated neurons", 
          "low cell numbers", 
          "complex tissues", 
          "brain cells", 
          "genes", 
          "neuron subtypes", 
          "receptor gene", 
          "DNA content", 
          "specialized processes", 
          "different animals", 
          "synaptic plasticity", 
          "cell number", 
          "single animal", 
          "cells", 
          "architecture mapping", 
          "chromatin", 
          "genome", 
          "megabases", 
          "tissue", 
          "loci", 
          "tissue disruption", 
          "animals", 
          "regulation", 
          "GAM", 
          "strong contact", 
          "plasticity", 
          "expression", 
          "compartments", 
          "neurons", 
          "conformation", 
          "specialization", 
          "disruption", 
          "neuronal systems", 
          "cortical tissue", 
          "cryosections", 
          "sites", 
          "structure", 
          "mechanism", 
          "selection", 
          "interaction", 
          "region", 
          "function", 
          "mapping", 
          "patterns", 
          "periphery", 
          "types", 
          "relocation", 
          "accessibility", 
          "subtypes", 
          "capture", 
          "contact", 
          "changes", 
          "factors", 
          "content", 
          "topology", 
          "collection", 
          "number", 
          "organization", 
          "process", 
          "BDNF", 
          "results", 
          "tens", 
          "system", 
          "scale", 
          "extension", 
          "addiction", 
          "technology", 
          "probability", 
          "slices", 
          "method", 
          "scope", 
          "melting"
        ], 
        "name": "Cell-type specialization is encoded by specific chromatin topologies", 
        "pagination": "684-691", 
        "productId": [
          {
            "name": "dimensions_id", 
            "type": "PropertyValue", 
            "value": [
              "pub.1142627398"
            ]
          }, 
          {
            "name": "doi", 
            "type": "PropertyValue", 
            "value": [
              "10.1038/s41586-021-04081-2"
            ]
          }, 
          {
            "name": "pubmed_id", 
            "type": "PropertyValue", 
            "value": [
              "34789882"
            ]
          }
        ], 
        "sameAs": [
          "https://doi.org/10.1038/s41586-021-04081-2", 
          "https://app.dimensions.ai/details/publication/pub.1142627398"
        ], 
        "sdDataset": "articles", 
        "sdDatePublished": "2022-05-20T07:39", 
        "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
        "sdPublisher": {
          "name": "Springer Nature - SN SciGraph project", 
          "type": "Organization"
        }, 
        "sdSource": "s3://com-springernature-scigraph/baseset/20220519/entities/gbq_results/article/article_897.jsonl", 
        "type": "ScholarlyArticle", 
        "url": "https://doi.org/10.1038/s41586-021-04081-2"
      }
    ]
     

    Download the RDF metadata as:  json-ld nt turtle xml License info

    HOW TO GET THIS DATA PROGRAMMATICALLY:

    JSON-LD is a popular format for linked data which is fully compatible with JSON.

    curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1038/s41586-021-04081-2'

    N-Triples is a line-based linked data format ideal for batch operations.

    curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/s41586-021-04081-2'

    Turtle is a human-readable linked data format.

    curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/s41586-021-04081-2'

    RDF/XML is a standard XML format for linked data.

    curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/s41586-021-04081-2'


     

    This table displays all metadata directly associated to this object as RDF triples.

    651 TRIPLES      22 PREDICATES      180 URIs      140 LITERALS      22 BLANK NODES

    Subject Predicate Object
    1 sg:pub.10.1038/s41586-021-04081-2 schema:about N19564ca807bd4625b29056d48dc7bdf4
    2 N1be3e786952c4e9da1b4bbb882a670b3
    3 N3745d8a5ab8046cd8f9fe470ad6aead3
    4 N4698394d437e47fab7ff08e3c321ddd4
    5 N4d493c734bd14aea8a03adeb4c557c8e
    6 N558399f39c354416af9d7731c41b06b4
    7 N71e29a2ca4e046b8a66adecd9acc7837
    8 N728897d70fcf49b58103e0f7bd539c21
    9 N7ffd8a313e21435fa1879a4113525e8b
    10 Nbcc901eecc2c47efac284abccd2d2dcd
    11 Nd74d0e4df61e47e0a24dc8f86d1e632f
    12 Ne0a4f318f0f2413793e61e702db32626
    13 Neafdaaeae2344beb90b55a07f60e08a3
    14 Nedfc0d9557024259b2ab928f88114cb4
    15 Nee76cee6e9e14464bd45ad4be5f98892
    16 anzsrc-for:06
    17 anzsrc-for:0604
    18 anzsrc-for:11
    19 anzsrc-for:1109
    20 schema:author Ncfe7e10b4c674f678535bcc909d95b68
    21 schema:citation sg:pub.10.1007/bf01796124
    22 sg:pub.10.1007/s00412-020-00734-9
    23 sg:pub.10.1038/nature03837
    24 sg:pub.10.1038/nature12504
    25 sg:pub.10.1038/nature14222
    26 sg:pub.10.1038/nature14319
    27 sg:pub.10.1038/nature14450
    28 sg:pub.10.1038/nature21411
    29 sg:pub.10.1038/nbt780
    30 sg:pub.10.1038/ncomms10682
    31 sg:pub.10.1038/nmeth.1923
    32 sg:pub.10.1038/nmeth.2019
    33 sg:pub.10.1038/nmeth.4396
    34 sg:pub.10.1038/s41467-017-00052-2
    35 sg:pub.10.1038/s41467-019-11905-3
    36 sg:pub.10.1038/s41467-020-17009-7
    37 sg:pub.10.1038/s41586-018-0845-0
    38 sg:pub.10.1038/s41588-018-0098-8
    39 sg:pub.10.1038/s41588-019-0494-8
    40 sg:pub.10.1038/s41588-021-00790-6
    41 sg:pub.10.1038/s41591-018-0236-y
    42 sg:pub.10.1038/s41592-021-01135-1
    43 sg:pub.10.1038/s41593-018-0121-5
    44 sg:pub.10.1038/s41593-020-0634-6
    45 sg:pub.10.1038/s41598-019-41695-z
    46 sg:pub.10.1038/srep29775
    47 sg:pub.10.1186/1471-2105-12-323
    48 sg:pub.10.1186/1471-2202-8-s3-s2
    49 sg:pub.10.1186/s13059-014-0550-8
    50 sg:pub.10.1186/s13059-015-0593-5
    51 schema:datePublished 2021-11-17
    52 schema:datePublishedReg 2021-11-17
    53 schema:description The three-dimensional (3D) structure of chromatin is intrinsically associated with gene regulation and cell function1–3. Methods based on chromatin conformation capture have mapped chromatin structures in neuronal systems such as in vitro differentiated neurons, neurons isolated through fluorescence-activated cell sorting from cortical tissues pooled from different animals and from dissociated whole hippocampi4–6. However, changes in chromatin organization captured by imaging, such as the relocation of Bdnf away from the nuclear periphery after activation7, are invisible with such approaches8. Here we developed immunoGAM, an extension of genome architecture mapping (GAM)2,9, to map 3D chromatin topology genome-wide in specific brain cell types, without tissue disruption, from single animals. GAM is a ligation-free technology that maps genome topology by sequencing the DNA content from thin (about 220 nm) nuclear cryosections. Chromatin interactions are identified from the increased probability of co-segregation of contacting loci across a collection of nuclear slices. ImmunoGAM expands the scope of GAM to enable the selection of specific cell types using low cell numbers (approximately 1,000 cells) within a complex tissue and avoids tissue dissociation2,10. We report cell-type specialized 3D chromatin structures at multiple genomic scales that relate to patterns of gene expression. We discover extensive ‘melting’ of long genes when they are highly expressed and/or have high chromatin accessibility. The contacts most specific of neuron subtypes contain genes associated with specialized processes, such as addiction and synaptic plasticity, which harbour putative binding sites for neuronal transcription factors within accessible chromatin regions. Moreover, sensory receptor genes are preferentially found in heterochromatic compartments in brain cells, which establish strong contacts across tens of megabases. Our results demonstrate that highly specific chromatin conformations in brain cells are tightly related to gene regulation mechanisms and specialized functions.
    54 schema:genre article
    55 schema:inLanguage en
    56 schema:isAccessibleForFree true
    57 schema:isPartOf N7938895cc0534f1aa41e1563ee8dbbb1
    58 Nad903c45634c459e80d0d50a256fac5a
    59 sg:journal.1018957
    60 schema:keywords BDNF
    61 DNA content
    62 GAM
    63 Genome Architecture Mapping
    64 accessibility
    65 accessible chromatin regions
    66 addiction
    67 animals
    68 architecture mapping
    69 brain cell types
    70 brain cells
    71 capture
    72 cell number
    73 cell types
    74 cell-type specialization
    75 cells
    76 changes
    77 chromatin
    78 chromatin accessibility
    79 chromatin conformation
    80 chromatin conformation capture
    81 chromatin interactions
    82 chromatin organization
    83 chromatin regions
    84 chromatin structure
    85 chromatin topology
    86 collection
    87 compartments
    88 complex tissues
    89 conformation
    90 conformation capture
    91 contact
    92 content
    93 cortical tissue
    94 cryosections
    95 different animals
    96 differentiated neurons
    97 disruption
    98 expression
    99 extension
    100 factors
    101 fluorescence-activated cell
    102 function
    103 gene expression
    104 gene regulation
    105 gene regulation mechanisms
    106 genes
    107 genome
    108 genome topology
    109 genomic scale
    110 heterochromatic compartment
    111 high chromatin accessibility
    112 interaction
    113 loci
    114 long genes
    115 low cell numbers
    116 mapping
    117 mechanism
    118 megabases
    119 melting
    120 method
    121 multiple genomic scales
    122 neuron subtypes
    123 neuronal systems
    124 neuronal transcription factors
    125 neurons
    126 nuclear periphery
    127 number
    128 organization
    129 patterns
    130 periphery
    131 plasticity
    132 probability
    133 process
    134 receptor gene
    135 region
    136 regulation
    137 regulation mechanism
    138 relocation
    139 results
    140 scale
    141 scope
    142 selection
    143 sensory receptor genes
    144 single animal
    145 sites
    146 slices
    147 specialization
    148 specialized functions
    149 specialized processes
    150 specific brain cell types
    151 specific cell types
    152 specific chromatin conformation
    153 strong contact
    154 structure
    155 subtypes
    156 synaptic plasticity
    157 system
    158 technology
    159 tens
    160 tens of megabases
    161 three-dimensional structure
    162 tissue
    163 tissue disruption
    164 topology
    165 transcription factors
    166 types
    167 schema:name Cell-type specialization is encoded by specific chromatin topologies
    168 schema:pagination 684-691
    169 schema:productId N1adf86aee9a84f61b6231794ac44061b
    170 N5f26257d4bfd46a68c4c220317880412
    171 N98d668a03ee2479b90498849f6d115df
    172 schema:sameAs https://app.dimensions.ai/details/publication/pub.1142627398
    173 https://doi.org/10.1038/s41586-021-04081-2
    174 schema:sdDatePublished 2022-05-20T07:39
    175 schema:sdLicense https://scigraph.springernature.com/explorer/license/
    176 schema:sdPublisher N34c553051bd6429797c156d0fb32c4bf
    177 schema:url https://doi.org/10.1038/s41586-021-04081-2
    178 sgo:license sg:explorer/license/
    179 sgo:sdDataset articles
    180 rdf:type schema:ScholarlyArticle
    181 N00b5a1dcbc334c908e9a232fb9849c2a rdf:first sg:person.01233556123.44
    182 rdf:rest Nbc0d6a3c001146bca71e977148b2475b
    183 N02e3480c19174e56a7335bf37d2b3a62 rdf:first sg:person.0715411213.24
    184 rdf:rest N76d57e2964b14aebb95b949db8d7c98d
    185 N0cf4c441e65940999b60372dc46e366c rdf:first sg:person.01103013715.33
    186 rdf:rest N2942ad02dde04ab294040a1230140ebe
    187 N114523c93a244cb0bfeca7cd76a6fcb5 rdf:first sg:person.01122476621.52
    188 rdf:rest N00b5a1dcbc334c908e9a232fb9849c2a
    189 N19564ca807bd4625b29056d48dc7bdf4 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    190 schema:name Mice
    191 rdf:type schema:DefinedTerm
    192 N1adf86aee9a84f61b6231794ac44061b schema:name pubmed_id
    193 schema:value 34789882
    194 rdf:type schema:PropertyValue
    195 N1be3e786952c4e9da1b4bbb882a670b3 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    196 schema:name Molecular Conformation
    197 rdf:type schema:DefinedTerm
    198 N21ef0cd9d92d45bc9d1bde9234eebfed rdf:first sg:person.014435070377.77
    199 rdf:rest Nb27f961010564bcf90d191aaac39a123
    200 N25c9e1c1091e4e338704b24e9345dbf2 rdf:first sg:person.016531741535.44
    201 rdf:rest N7a248320258f4883a0a5ef8688d82286
    202 N2942ad02dde04ab294040a1230140ebe rdf:first sg:person.013225033245.12
    203 rdf:rest Naea51bdaf32d494a965bd62971c1b772
    204 N34c553051bd6429797c156d0fb32c4bf schema:name Springer Nature - SN SciGraph project
    205 rdf:type schema:Organization
    206 N3745d8a5ab8046cd8f9fe470ad6aead3 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    207 schema:name Neurons
    208 rdf:type schema:DefinedTerm
    209 N423442b3315d42aba4798166886b0f72 rdf:first sg:person.01326027527.74
    210 rdf:rest N21ef0cd9d92d45bc9d1bde9234eebfed
    211 N4698394d437e47fab7ff08e3c321ddd4 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    212 schema:name Gene Expression Regulation
    213 rdf:type schema:DefinedTerm
    214 N46d384c026c044a182e9180f51fefdbd rdf:first sg:person.01023411043.16
    215 rdf:rest Nd24567247e95408c80a600a1cec37a3b
    216 N4b908e871a13411aa33616524272db5f rdf:first sg:person.0714371637.39
    217 rdf:rest N423442b3315d42aba4798166886b0f72
    218 N4d493c734bd14aea8a03adeb4c557c8e schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    219 schema:name Cells
    220 rdf:type schema:DefinedTerm
    221 N558399f39c354416af9d7731c41b06b4 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    222 schema:name Chromatin
    223 rdf:type schema:DefinedTerm
    224 N5c9ab3765f8146329844fb2661735e78 rdf:first sg:person.014260211763.21
    225 rdf:rest N46d384c026c044a182e9180f51fefdbd
    226 N5f26257d4bfd46a68c4c220317880412 schema:name doi
    227 schema:value 10.1038/s41586-021-04081-2
    228 rdf:type schema:PropertyValue
    229 N6513259347de44449803d549b1b88c1d rdf:first sg:person.01136642054.03
    230 rdf:rest Ne246a5586a1d4daf803a9afb84e118e5
    231 N6cfb0a2edb2143deb62290be3c35b445 rdf:first sg:person.015560370513.12
    232 rdf:rest Ndac0451a8ef0400c9af1d1c0ffb83f38
    233 N71e29a2ca4e046b8a66adecd9acc7837 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    234 schema:name Chromatin Assembly and Disassembly
    235 rdf:type schema:DefinedTerm
    236 N728897d70fcf49b58103e0f7bd539c21 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    237 schema:name Brain
    238 rdf:type schema:DefinedTerm
    239 N76d57e2964b14aebb95b949db8d7c98d rdf:first sg:person.011620512441.53
    240 rdf:rest N7e3a4e4ef75e41beacb896df547741c0
    241 N7938895cc0534f1aa41e1563ee8dbbb1 schema:issueNumber 7886
    242 rdf:type schema:PublicationIssue
    243 N7a248320258f4883a0a5ef8688d82286 rdf:first sg:person.015535144661.07
    244 rdf:rest Ne3f1410652744f729ddbefe9689c1a2d
    245 N7e3a4e4ef75e41beacb896df547741c0 rdf:first sg:person.01031750213.55
    246 rdf:rest N114523c93a244cb0bfeca7cd76a6fcb5
    247 N7ffd8a313e21435fa1879a4113525e8b schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    248 schema:name Genes
    249 rdf:type schema:DefinedTerm
    250 N98d668a03ee2479b90498849f6d115df schema:name dimensions_id
    251 schema:value pub.1142627398
    252 rdf:type schema:PropertyValue
    253 Nad903c45634c459e80d0d50a256fac5a schema:volumeNumber 599
    254 rdf:type schema:PublicationVolume
    255 Naea51bdaf32d494a965bd62971c1b772 rdf:first sg:person.014066036763.49
    256 rdf:rest Nea136cdbeed7407aaeb583739631ecc8
    257 Nb27f961010564bcf90d191aaac39a123 rdf:first sg:person.0776734405.58
    258 rdf:rest rdf:nil
    259 Nb4c860398a394d7b9a9d94fd33c30d01 rdf:first sg:person.013310406073.04
    260 rdf:rest N02e3480c19174e56a7335bf37d2b3a62
    261 Nb92f2af3359f497786adaaa5833b4acb rdf:first sg:person.0631341604.65
    262 rdf:rest Ne792c4f88ba549bcb34980322920e155
    263 Nbadd672ab23147b69f4f15c3f6611285 rdf:first sg:person.0713227711.39
    264 rdf:rest Nb4c860398a394d7b9a9d94fd33c30d01
    265 Nbc0d6a3c001146bca71e977148b2475b rdf:first sg:person.01276166012.19
    266 rdf:rest N4b908e871a13411aa33616524272db5f
    267 Nbcc901eecc2c47efac284abccd2d2dcd schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    268 schema:name Multigene Family
    269 rdf:type schema:DefinedTerm
    270 Nc1f0e797652548ea8d155ced104c9c19 rdf:first sg:person.0653125067.25
    271 rdf:rest Ne217764dda644c6f9bc345557730b141
    272 Ncfe7e10b4c674f678535bcc909d95b68 rdf:first sg:person.01253125704.36
    273 rdf:rest Nc1f0e797652548ea8d155ced104c9c19
    274 Nd24567247e95408c80a600a1cec37a3b rdf:first sg:person.0661467055.53
    275 rdf:rest Nd3abee037b9b4a7db2f6c94fdcc3a0bf
    276 Nd3abee037b9b4a7db2f6c94fdcc3a0bf rdf:first sg:person.010077024721.77
    277 rdf:rest Nbadd672ab23147b69f4f15c3f6611285
    278 Nd74d0e4df61e47e0a24dc8f86d1e632f schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    279 schema:name Nucleic Acid Denaturation
    280 rdf:type schema:DefinedTerm
    281 Ndac0451a8ef0400c9af1d1c0ffb83f38 rdf:first sg:person.011213327541.41
    282 rdf:rest Nb92f2af3359f497786adaaa5833b4acb
    283 Ne0a4f318f0f2413793e61e702db32626 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    284 schema:name Animals
    285 rdf:type schema:DefinedTerm
    286 Ne217764dda644c6f9bc345557730b141 rdf:first sg:person.01366507622.18
    287 rdf:rest N0cf4c441e65940999b60372dc46e366c
    288 Ne246a5586a1d4daf803a9afb84e118e5 rdf:first sg:person.013370725151.03
    289 rdf:rest N25c9e1c1091e4e338704b24e9345dbf2
    290 Ne3f1410652744f729ddbefe9689c1a2d rdf:first sg:person.07604440023.48
    291 rdf:rest N5c9ab3765f8146329844fb2661735e78
    292 Ne792c4f88ba549bcb34980322920e155 rdf:first sg:person.01322335547.46
    293 rdf:rest N6513259347de44449803d549b1b88c1d
    294 Nea136cdbeed7407aaeb583739631ecc8 rdf:first sg:person.01336602676.30
    295 rdf:rest N6cfb0a2edb2143deb62290be3c35b445
    296 Neafdaaeae2344beb90b55a07f60e08a3 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    297 schema:name Male
    298 rdf:type schema:DefinedTerm
    299 Nedfc0d9557024259b2ab928f88114cb4 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    300 schema:name Transcription Factors
    301 rdf:type schema:DefinedTerm
    302 Nee76cee6e9e14464bd45ad4be5f98892 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    303 schema:name Binding Sites
    304 rdf:type schema:DefinedTerm
    305 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
    306 schema:name Biological Sciences
    307 rdf:type schema:DefinedTerm
    308 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
    309 schema:name Genetics
    310 rdf:type schema:DefinedTerm
    311 anzsrc-for:11 schema:inDefinedTermSet anzsrc-for:
    312 schema:name Medical and Health Sciences
    313 rdf:type schema:DefinedTerm
    314 anzsrc-for:1109 schema:inDefinedTermSet anzsrc-for:
    315 schema:name Neurosciences
    316 rdf:type schema:DefinedTerm
    317 sg:grant.2752227 http://pending.schema.org/fundedItem sg:pub.10.1038/s41586-021-04081-2
    318 rdf:type schema:MonetaryGrant
    319 sg:grant.4455054 http://pending.schema.org/fundedItem sg:pub.10.1038/s41586-021-04081-2
    320 rdf:type schema:MonetaryGrant
    321 sg:grant.6384432 http://pending.schema.org/fundedItem sg:pub.10.1038/s41586-021-04081-2
    322 rdf:type schema:MonetaryGrant
    323 sg:grant.7124951 http://pending.schema.org/fundedItem sg:pub.10.1038/s41586-021-04081-2
    324 rdf:type schema:MonetaryGrant
    325 sg:grant.7580378 http://pending.schema.org/fundedItem sg:pub.10.1038/s41586-021-04081-2
    326 rdf:type schema:MonetaryGrant
    327 sg:grant.8454830 http://pending.schema.org/fundedItem sg:pub.10.1038/s41586-021-04081-2
    328 rdf:type schema:MonetaryGrant
    329 sg:grant.8834310 http://pending.schema.org/fundedItem sg:pub.10.1038/s41586-021-04081-2
    330 rdf:type schema:MonetaryGrant
    331 sg:grant.9413788 http://pending.schema.org/fundedItem sg:pub.10.1038/s41586-021-04081-2
    332 rdf:type schema:MonetaryGrant
    333 sg:journal.1018957 schema:issn 0028-0836
    334 1476-4687
    335 schema:name Nature
    336 schema:publisher Springer Nature
    337 rdf:type schema:Periodical
    338 sg:person.010077024721.77 schema:affiliation grid-institutes:grid.5947.f
    339 schema:familyName Abentung
    340 schema:givenName Andreas
    341 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010077024721.77
    342 rdf:type schema:Person
    343 sg:person.01023411043.16 schema:affiliation grid-institutes:grid.66859.34
    344 schema:familyName Torlai Triglia
    345 schema:givenName Elena
    346 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01023411043.16
    347 rdf:type schema:Person
    348 sg:person.01031750213.55 schema:affiliation grid-institutes:grid.419491.0
    349 schema:familyName Akalin
    350 schema:givenName Altuna
    351 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01031750213.55
    352 rdf:type schema:Person
    353 sg:person.01103013715.33 schema:affiliation grid-institutes:grid.7468.d
    354 schema:familyName Zea-Redondo
    355 schema:givenName Luna
    356 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01103013715.33
    357 rdf:type schema:Person
    358 sg:person.011213327541.41 schema:affiliation grid-institutes:grid.4691.a
    359 schema:familyName Bianco
    360 schema:givenName Simona
    361 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011213327541.41
    362 rdf:type schema:Person
    363 sg:person.01122476621.52 schema:affiliation grid-institutes:grid.10306.34
    364 schema:familyName Teichmann
    365 schema:givenName Sarah A.
    366 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01122476621.52
    367 rdf:type schema:Person
    368 sg:person.01136642054.03 schema:affiliation grid-institutes:grid.419491.0
    369 schema:familyName Thieme
    370 schema:givenName Christoph J.
    371 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01136642054.03
    372 rdf:type schema:Person
    373 sg:person.011620512441.53 schema:affiliation grid-institutes:grid.7468.d
    374 schema:familyName Kempfer
    375 schema:givenName Rieke
    376 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011620512441.53
    377 rdf:type schema:Person
    378 sg:person.01233556123.44 schema:affiliation grid-institutes:grid.5361.1
    379 schema:familyName Dechant
    380 schema:givenName Georg
    381 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01233556123.44
    382 rdf:type schema:Person
    383 sg:person.01253125704.36 schema:affiliation grid-institutes:grid.419491.0
    384 schema:familyName Winick-Ng
    385 schema:givenName Warren
    386 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01253125704.36
    387 rdf:type schema:Person
    388 sg:person.01276166012.19 schema:affiliation grid-institutes:grid.7445.2
    389 schema:familyName Ungless
    390 schema:givenName Mark A.
    391 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01276166012.19
    392 rdf:type schema:Person
    393 sg:person.01322335547.46 schema:affiliation grid-institutes:grid.419491.0
    394 schema:familyName Irastorza-Azcarate
    395 schema:givenName Ibai
    396 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01322335547.46
    397 rdf:type schema:Person
    398 sg:person.013225033245.12 schema:affiliation grid-institutes:grid.7468.d
    399 schema:familyName Szabó
    400 schema:givenName Dominik
    401 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013225033245.12
    402 rdf:type schema:Person
    403 sg:person.01326027527.74 schema:affiliation grid-institutes:grid.20627.31
    404 schema:familyName Welch
    405 schema:givenName Lonnie
    406 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01326027527.74
    407 rdf:type schema:Person
    408 sg:person.013310406073.04 schema:affiliation grid-institutes:grid.13097.3c
    409 schema:familyName Paul
    410 schema:givenName Eleanor J.
    411 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013310406073.04
    412 rdf:type schema:Person
    413 sg:person.01336602676.30 schema:affiliation grid-institutes:grid.14826.39
    414 schema:familyName Serebreni
    415 schema:givenName Leonid
    416 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01336602676.30
    417 rdf:type schema:Person
    418 sg:person.013370725151.03 schema:affiliation grid-institutes:grid.419491.0
    419 schema:familyName Sparks
    420 schema:givenName Thomas M.
    421 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013370725151.03
    422 rdf:type schema:Person
    423 sg:person.01366507622.18 schema:affiliation grid-institutes:grid.7468.d
    424 schema:familyName Harabula
    425 schema:givenName Izabela
    426 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01366507622.18
    427 rdf:type schema:Person
    428 sg:person.014066036763.49 schema:affiliation grid-institutes:grid.4714.6
    429 schema:familyName Meijer
    430 schema:givenName Mandy
    431 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014066036763.49
    432 rdf:type schema:Person
    433 sg:person.014260211763.21 schema:affiliation grid-institutes:grid.484013.a
    434 schema:familyName Irani
    435 schema:givenName Ehsan
    436 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014260211763.21
    437 rdf:type schema:Person
    438 sg:person.014435070377.77 schema:affiliation grid-institutes:grid.4714.6
    439 schema:familyName Castelo-Branco
    440 schema:givenName Gonçalo
    441 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014435070377.77
    442 rdf:type schema:Person
    443 sg:person.015535144661.07 schema:affiliation grid-institutes:grid.4691.a
    444 schema:familyName Fiorillo
    445 schema:givenName Luca
    446 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.015535144661.07
    447 rdf:type schema:Person
    448 sg:person.015560370513.12 schema:affiliation grid-institutes:grid.20627.31
    449 schema:familyName Zhang
    450 schema:givenName Yingnan
    451 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.015560370513.12
    452 rdf:type schema:Person
    453 sg:person.016531741535.44 schema:affiliation grid-institutes:grid.5808.5
    454 schema:familyName Carvalho
    455 schema:givenName Sílvia
    456 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016531741535.44
    457 rdf:type schema:Person
    458 sg:person.0631341604.65 schema:affiliation grid-institutes:grid.4691.a
    459 schema:familyName Chiariello
    460 schema:givenName Andrea M.
    461 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0631341604.65
    462 rdf:type schema:Person
    463 sg:person.0653125067.25 schema:affiliation grid-institutes:grid.419491.0
    464 schema:familyName Kukalev
    465 schema:givenName Alexander
    466 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0653125067.25
    467 rdf:type schema:Person
    468 sg:person.0661467055.53 schema:affiliation grid-institutes:grid.13992.30
    469 schema:familyName Kolodziejczyk
    470 schema:givenName Aleksandra A.
    471 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0661467055.53
    472 rdf:type schema:Person
    473 sg:person.0713227711.39 schema:affiliation grid-institutes:grid.5361.1
    474 schema:familyName Apostolova
    475 schema:givenName Galina
    476 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0713227711.39
    477 rdf:type schema:Person
    478 sg:person.0714371637.39 schema:affiliation grid-institutes:grid.484013.a
    479 schema:familyName Nicodemi
    480 schema:givenName Mario
    481 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0714371637.39
    482 rdf:type schema:Person
    483 sg:person.0715411213.24 schema:affiliation grid-institutes:grid.419491.0
    484 schema:familyName Franke
    485 schema:givenName Vedran
    486 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0715411213.24
    487 rdf:type schema:Person
    488 sg:person.07604440023.48 schema:affiliation grid-institutes:grid.4691.a
    489 schema:familyName Musella
    490 schema:givenName Francesco
    491 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07604440023.48
    492 rdf:type schema:Person
    493 sg:person.0776734405.58 schema:affiliation grid-institutes:grid.484013.a
    494 schema:familyName Pombo
    495 schema:givenName Ana
    496 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0776734405.58
    497 rdf:type schema:Person
    498 sg:pub.10.1007/bf01796124 schema:sameAs https://app.dimensions.ai/details/publication/pub.1013034581
    499 https://doi.org/10.1007/bf01796124
    500 rdf:type schema:CreativeWork
    501 sg:pub.10.1007/s00412-020-00734-9 schema:sameAs https://app.dimensions.ai/details/publication/pub.1125921218
    502 https://doi.org/10.1007/s00412-020-00734-9
    503 rdf:type schema:CreativeWork
    504 sg:pub.10.1038/nature03837 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008711161
    505 https://doi.org/10.1038/nature03837
    506 rdf:type schema:CreativeWork
    507 sg:pub.10.1038/nature12504 schema:sameAs https://app.dimensions.ai/details/publication/pub.1045191511
    508 https://doi.org/10.1038/nature12504
    509 rdf:type schema:CreativeWork
    510 sg:pub.10.1038/nature14222 schema:sameAs https://app.dimensions.ai/details/publication/pub.1046074449
    511 https://doi.org/10.1038/nature14222
    512 rdf:type schema:CreativeWork
    513 sg:pub.10.1038/nature14319 schema:sameAs https://app.dimensions.ai/details/publication/pub.1015767010
    514 https://doi.org/10.1038/nature14319
    515 rdf:type schema:CreativeWork
    516 sg:pub.10.1038/nature14450 schema:sameAs https://app.dimensions.ai/details/publication/pub.1051036477
    517 https://doi.org/10.1038/nature14450
    518 rdf:type schema:CreativeWork
    519 sg:pub.10.1038/nature21411 schema:sameAs https://app.dimensions.ai/details/publication/pub.1084128543
    520 https://doi.org/10.1038/nature21411
    521 rdf:type schema:CreativeWork
    522 sg:pub.10.1038/nbt780 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011057005
    523 https://doi.org/10.1038/nbt780
    524 rdf:type schema:CreativeWork
    525 sg:pub.10.1038/ncomms10682 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050849387
    526 https://doi.org/10.1038/ncomms10682
    527 rdf:type schema:CreativeWork
    528 sg:pub.10.1038/nmeth.1923 schema:sameAs https://app.dimensions.ai/details/publication/pub.1006541515
    529 https://doi.org/10.1038/nmeth.1923
    530 rdf:type schema:CreativeWork
    531 sg:pub.10.1038/nmeth.2019 schema:sameAs https://app.dimensions.ai/details/publication/pub.1026706357
    532 https://doi.org/10.1038/nmeth.2019
    533 rdf:type schema:CreativeWork
    534 sg:pub.10.1038/nmeth.4396 schema:sameAs https://app.dimensions.ai/details/publication/pub.1091372842
    535 https://doi.org/10.1038/nmeth.4396
    536 rdf:type schema:CreativeWork
    537 sg:pub.10.1038/s41467-017-00052-2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1086163901
    538 https://doi.org/10.1038/s41467-017-00052-2
    539 rdf:type schema:CreativeWork
    540 sg:pub.10.1038/s41467-019-11905-3 schema:sameAs https://app.dimensions.ai/details/publication/pub.1120697063
    541 https://doi.org/10.1038/s41467-019-11905-3
    542 rdf:type schema:CreativeWork
    543 sg:pub.10.1038/s41467-020-17009-7 schema:sameAs https://app.dimensions.ai/details/publication/pub.1128945474
    544 https://doi.org/10.1038/s41467-020-17009-7
    545 rdf:type schema:CreativeWork
    546 sg:pub.10.1038/s41586-018-0845-0 schema:sameAs https://app.dimensions.ai/details/publication/pub.1111267695
    547 https://doi.org/10.1038/s41586-018-0845-0
    548 rdf:type schema:CreativeWork
    549 sg:pub.10.1038/s41588-018-0098-8 schema:sameAs https://app.dimensions.ai/details/publication/pub.1103265664
    550 https://doi.org/10.1038/s41588-018-0098-8
    551 rdf:type schema:CreativeWork
    552 sg:pub.10.1038/s41588-019-0494-8 schema:sameAs https://app.dimensions.ai/details/publication/pub.1120926154
    553 https://doi.org/10.1038/s41588-019-0494-8
    554 rdf:type schema:CreativeWork
    555 sg:pub.10.1038/s41588-021-00790-6 schema:sameAs https://app.dimensions.ai/details/publication/pub.1135709184
    556 https://doi.org/10.1038/s41588-021-00790-6
    557 rdf:type schema:CreativeWork
    558 sg:pub.10.1038/s41591-018-0236-y schema:sameAs https://app.dimensions.ai/details/publication/pub.1107954798
    559 https://doi.org/10.1038/s41591-018-0236-y
    560 rdf:type schema:CreativeWork
    561 sg:pub.10.1038/s41592-021-01135-1 schema:sameAs https://app.dimensions.ai/details/publication/pub.1137806101
    562 https://doi.org/10.1038/s41592-021-01135-1
    563 rdf:type schema:CreativeWork
    564 sg:pub.10.1038/s41593-018-0121-5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1101560857
    565 https://doi.org/10.1038/s41593-018-0121-5
    566 rdf:type schema:CreativeWork
    567 sg:pub.10.1038/s41593-020-0634-6 schema:sameAs https://app.dimensions.ai/details/publication/pub.1127869982
    568 https://doi.org/10.1038/s41593-020-0634-6
    569 rdf:type schema:CreativeWork
    570 sg:pub.10.1038/s41598-019-41695-z schema:sameAs https://app.dimensions.ai/details/publication/pub.1112982066
    571 https://doi.org/10.1038/s41598-019-41695-z
    572 rdf:type schema:CreativeWork
    573 sg:pub.10.1038/srep29775 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028981829
    574 https://doi.org/10.1038/srep29775
    575 rdf:type schema:CreativeWork
    576 sg:pub.10.1186/1471-2105-12-323 schema:sameAs https://app.dimensions.ai/details/publication/pub.1021902674
    577 https://doi.org/10.1186/1471-2105-12-323
    578 rdf:type schema:CreativeWork
    579 sg:pub.10.1186/1471-2202-8-s3-s2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037895438
    580 https://doi.org/10.1186/1471-2202-8-s3-s2
    581 rdf:type schema:CreativeWork
    582 sg:pub.10.1186/s13059-014-0550-8 schema:sameAs https://app.dimensions.ai/details/publication/pub.1015222646
    583 https://doi.org/10.1186/s13059-014-0550-8
    584 rdf:type schema:CreativeWork
    585 sg:pub.10.1186/s13059-015-0593-5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1015210604
    586 https://doi.org/10.1186/s13059-015-0593-5
    587 rdf:type schema:CreativeWork
    588 grid-institutes:grid.10306.34 schema:alternateName Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK
    589 schema:name Cavendish Laboratory, University of Cambridge, Cambridge, UK
    590 Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK
    591 rdf:type schema:Organization
    592 grid-institutes:grid.13097.3c schema:alternateName MRC Center for Neurodevelopmental Disorders, King’s College London, London, UK
    593 schema:name Center for Developmental Neurobiology, Institute of Psychiatry, Psychology and Neuroscience, King’s College London, London, UK
    594 Institute of Clinical Sciences, Imperial College London, London, UK
    595 MRC Center for Neurodevelopmental Disorders, King’s College London, London, UK
    596 rdf:type schema:Organization
    597 grid-institutes:grid.13992.30 schema:alternateName Immunology Department, Weizmann Institute of Science, Rehovot, Israel
    598 schema:name Cavendish Laboratory, University of Cambridge, Cambridge, UK
    599 Immunology Department, Weizmann Institute of Science, Rehovot, Israel
    600 Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK
    601 rdf:type schema:Organization
    602 grid-institutes:grid.14826.39 schema:alternateName Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria
    603 schema:name Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany
    604 Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria
    605 rdf:type schema:Organization
    606 grid-institutes:grid.20627.31 schema:alternateName School of Electrical Engineering and Computer Science, Ohio University, Athens, OH, USA
    607 schema:name School of Electrical Engineering and Computer Science, Ohio University, Athens, OH, USA
    608 rdf:type schema:Organization
    609 grid-institutes:grid.419491.0 schema:alternateName Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Bioinformatics and Omics Data Science Platform, Berlin, Germany
    610 Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany
    611 schema:name Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Bioinformatics and Omics Data Science Platform, Berlin, Germany
    612 Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany
    613 rdf:type schema:Organization
    614 grid-institutes:grid.4691.a schema:alternateName Dipartimentio di Fisica, Università di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant’Angelo, Naples, Italy
    615 schema:name Dipartimentio di Fisica, Università di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant’Angelo, Naples, Italy
    616 rdf:type schema:Organization
    617 grid-institutes:grid.4714.6 schema:alternateName Laboratory of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden
    618 Ming Wai Lau Centre for Reparative Medicine, Stockholm node, Karolinska Institutet, Stockholm, Sweden
    619 schema:name Laboratory of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden
    620 Ming Wai Lau Centre for Reparative Medicine, Stockholm node, Karolinska Institutet, Stockholm, Sweden
    621 rdf:type schema:Organization
    622 grid-institutes:grid.484013.a schema:alternateName Berlin Institute of Health, Berlin, Germany
    623 schema:name Berlin Institute of Health, Berlin, Germany
    624 Dipartimentio di Fisica, Università di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant’Angelo, Naples, Italy
    625 Institute of Biology, Humboldt-Universität zu Berlin, Berlin, Germany
    626 Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany
    627 rdf:type schema:Organization
    628 grid-institutes:grid.5361.1 schema:alternateName Institute for Neuroscience, Medical University of Innsbruck, Innsbruck, Austria
    629 schema:name Institute for Neuroscience, Medical University of Innsbruck, Innsbruck, Austria
    630 rdf:type schema:Organization
    631 grid-institutes:grid.5808.5 schema:alternateName Graduate Program in Areas of Basic and Applied Biology, Universidade do Porto, Porto, Portugal
    632 schema:name Graduate Program in Areas of Basic and Applied Biology, Universidade do Porto, Porto, Portugal
    633 Instituto de Ciências Biomédicas Abel Salazar, Universidade do Porto, Porto, Portugal
    634 Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany
    635 UCIBIO, Department of Life Sciences, NOVA School of Science and Technology, Universidade NOVA de Lisboa, Caparica, Portugal
    636 rdf:type schema:Organization
    637 grid-institutes:grid.5947.f schema:alternateName Department of Clinical and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway
    638 schema:name Department of Clinical and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway
    639 Institute for Neuroscience, Medical University of Innsbruck, Innsbruck, Austria
    640 rdf:type schema:Organization
    641 grid-institutes:grid.66859.34 schema:alternateName Broad Institute of MIT and Harvard, Cambridge, MA, USA
    642 schema:name Broad Institute of MIT and Harvard, Cambridge, MA, USA
    643 Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany
    644 rdf:type schema:Organization
    645 grid-institutes:grid.7445.2 schema:alternateName Institute of Clinical Sciences, Imperial College London, London, UK
    646 schema:name Institute of Clinical Sciences, Imperial College London, London, UK
    647 rdf:type schema:Organization
    648 grid-institutes:grid.7468.d schema:alternateName Institute of Biology, Humboldt-Universität zu Berlin, Berlin, Germany
    649 schema:name Institute of Biology, Humboldt-Universität zu Berlin, Berlin, Germany
    650 Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany
    651 rdf:type schema:Organization
     




    Preview window. Press ESC to close (or click here)


    ...