Function-based identification of mammalian enhancers using site-specific integration View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2014-05

AUTHORS

Diane E Dickel, Yiwen Zhu, Alex S Nord, John N Wylie, Jennifer A Akiyama, Veena Afzal, Ingrid Plajzer-Frick, Aileen Kirkpatrick, Berthold Göttgens, Benoit G Bruneau, Axel Visel, Len A Pennacchio

ABSTRACT

The accurate and comprehensive identification of functional regulatory sequences in mammalian genomes remains a major challenge. Here we describe site-specific integration fluorescence-activated cell sorting followed by sequencing (SIF-seq), an unbiased, medium-throughput functional assay for the discovery of distant-acting enhancers. Targeted single-copy genomic integration into pluripotent cells, reporter assays and flow cytometry are coupled with high-throughput DNA sequencing to enable parallel screening of large numbers of DNA sequences. By functionally interrogating >500 kilobases (kb) of mouse and human sequence in mouse embryonic stem cells for enhancer activity we identified enhancers at pluripotency loci including NANOG. In in vitro-differentiated cardiomyocytes and neural progenitor cells, we identified cardiac enhancers and neuronal enhancers, respectively. SIF-seq is a powerful and flexible method for de novo functional identification of mammalian enhancers in a potentially wide variety of cell types. More... »

PAGES

566-571

References to SciGraph publications

  • 2002-01. A variant of yellow fluorescent protein with fast and efficient maturation for cell-biological applications in NATURE BIOTECHNOLOGY
  • 2012-09. An integrated encyclopedia of DNA elements in the human genome in NATURE
  • 2008-09-18. An intrinsic mechanism of corticogenesis from embryonic stem cells in NATURE
  • 2012-06. Cis-regulatory control of corticospinal system development and evolution in NATURE
  • 2010-10-28. A map of human genome variation from population-scale sequencing in NATURE
  • 2006-11. In vivo enhancer analysis of human conserved non-coding sequences in NATURE
  • 2011-05-05. Mapping and analysis of chromatin state dynamics in nine human cell types in NATURE
  • 2009-05. Histone modifications at human enhancers reflect global cell-type-specific gene expression in NATURE
  • 2012-06. Inferring gene regulatory logic from high-throughput measurements of thousands of systematically designed promoters in NATURE BIOTECHNOLOGY
  • 2009-09-10. Genomic views of distant-acting enhancers in NATURE
  • 2012-03. Massively parallel functional dissection of mammalian enhancers in vivo in NATURE BIOTECHNOLOGY
  • 2012-03. Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay in NATURE BIOTECHNOLOGY
  • 2009-02. ChIP-seq accurately predicts tissue-specific activity of enhancers in NATURE
  • 2009-10. Generation of cortical neurons from mouse embryonic stem cells in NATURE PROTOCOLS
  • 2013-08. Highly parallel assays of tissue-specific enhancers in whole Drosophila embryos in NATURE METHODS
  • 2013-12. Chromatin connectivity maps reveal dynamic promoter–enhancer long-range associations in NATURE
  • 2008-02. Ultraconservation identifies a small subset of extremely constrained developmental enhancers in NATURE GENETICS
  • 2012-08. A map of the cis-regulatory sequences in the mouse genome in NATURE
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nmeth.2886

    DOI

    http://dx.doi.org/10.1038/nmeth.2886

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1022223379

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/24658141


    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/2008/0604", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Genetics", 
            "type": "DefinedTerm"
          }, 
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Biological Sciences", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Animals", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Cell Differentiation", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Cell Separation", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Chromosomes, Artificial, Bacterial", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Embryonic Stem Cells", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Enhancer Elements, Genetic", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Flow Cytometry", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Gene Expression Regulation", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Gene Library", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Genes, Reporter", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Genetic Vectors", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Genomics", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "High-Throughput Nucleotide Sequencing", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Humans", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Mice", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Mice, Transgenic", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Myocytes, Cardiac", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Neural Stem Cells", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Plasmids", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Sequence Analysis, DNA", 
            "type": "DefinedTerm"
          }
        ], 
        "author": [
          {
            "affiliation": {
              "alternateName": "Lawrence Berkeley National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.184769.5", 
              "name": [
                "Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Dickel", 
            "givenName": "Diane E", 
            "id": "sg:person.0752347052.41", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0752347052.41"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Lawrence Berkeley National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.184769.5", 
              "name": [
                "Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Zhu", 
            "givenName": "Yiwen", 
            "id": "sg:person.0643065303.51", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0643065303.51"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Lawrence Berkeley National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.184769.5", 
              "name": [
                "Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Nord", 
            "givenName": "Alex S", 
            "id": "sg:person.012327136527.06", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012327136527.06"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Gladstone Institutes", 
              "id": "https://www.grid.ac/institutes/grid.249878.8", 
              "name": [
                "Gladstone Institute of Cardiovascular Disease, San Francisco, California, USA.", 
                "Roddenberry Center for Stem Cell Biology and Medicine at Gladstone Institutes, San Francisco, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Wylie", 
            "givenName": "John N", 
            "id": "sg:person.01021661025.47", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01021661025.47"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Lawrence Berkeley National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.184769.5", 
              "name": [
                "Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Akiyama", 
            "givenName": "Jennifer A", 
            "id": "sg:person.01201061146.89", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01201061146.89"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Lawrence Berkeley National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.184769.5", 
              "name": [
                "Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Afzal", 
            "givenName": "Veena", 
            "id": "sg:person.0640526032.75", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0640526032.75"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Lawrence Berkeley National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.184769.5", 
              "name": [
                "Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Plajzer-Frick", 
            "givenName": "Ingrid", 
            "id": "sg:person.0660264030.04", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0660264030.04"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Wellcome / MRC Cambridge Stem Cell Institute", 
              "id": "https://www.grid.ac/institutes/grid.449973.4", 
              "name": [
                "Cambridge Institute for Medical Research, University of Cambridge, Cambridge, UK.", 
                "Wellcome Trust-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Kirkpatrick", 
            "givenName": "Aileen", 
            "id": "sg:person.01233503252.17", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01233503252.17"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Wellcome / MRC Cambridge Stem Cell Institute", 
              "id": "https://www.grid.ac/institutes/grid.449973.4", 
              "name": [
                "Cambridge Institute for Medical Research, University of Cambridge, Cambridge, UK.", 
                "Wellcome Trust-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK."
              ], 
              "type": "Organization"
            }, 
            "familyName": "G\u00f6ttgens", 
            "givenName": "Berthold", 
            "id": "sg:person.07575367437.14", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07575367437.14"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "University of California, San Francisco", 
              "id": "https://www.grid.ac/institutes/grid.266102.1", 
              "name": [
                "Gladstone Institute of Cardiovascular Disease, San Francisco, California, USA.", 
                "Roddenberry Center for Stem Cell Biology and Medicine at Gladstone Institutes, San Francisco, California, USA.", 
                "Department of Pediatrics, University of California, San Francisco, San Francisco, California, USA.", 
                "Cardiovascular Research Institute, University of California, San Francisco, San Francisco, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Bruneau", 
            "givenName": "Benoit G", 
            "id": "sg:person.01145361510.23", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01145361510.23"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "University of California, Merced", 
              "id": "https://www.grid.ac/institutes/grid.266096.d", 
              "name": [
                "Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA.", 
                "US Department of Energy Joint Genome Institute, Walnut Creek, California, USA.", 
                "School of Natural Sciences, University of California, Merced, Merced, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Visel", 
            "givenName": "Axel", 
            "id": "sg:person.0714547316.57", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0714547316.57"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Joint Genome Institute", 
              "id": "https://www.grid.ac/institutes/grid.451309.a", 
              "name": [
                "Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA.", 
                "US Department of Energy Joint Genome Institute, Walnut Creek, California, USA."
              ], 
              "type": "Organization"
            }, 
            "familyName": "Pennacchio", 
            "givenName": "Len A", 
            "id": "sg:person.01022360446.35", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01022360446.35"
            ], 
            "type": "Person"
          }
        ], 
        "citation": [
          {
            "id": "https://doi.org/10.1073/pnas.1000147107", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1000427941"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1242/dev.00337", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1001899155"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nbt.2137", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1004566758", 
              "https://doi.org/10.1038/nbt.2137"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature12716", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1005115127", 
              "https://doi.org/10.1038/nature12716"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nbt0102-87", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1007758048", 
              "https://doi.org/10.1038/nbt0102-87"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nbt0102-87", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1007758048", 
              "https://doi.org/10.1038/nbt0102-87"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature05295", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1009061596", 
              "https://doi.org/10.1038/nature05295"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature05295", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1009061596", 
              "https://doi.org/10.1038/nature05295"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature05295", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1009061596", 
              "https://doi.org/10.1038/nature05295"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature07287", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1009117288", 
              "https://doi.org/10.1038/nature07287"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1126/science.1241006", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1009620538"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature09534", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1010608717", 
              "https://doi.org/10.1038/nature09534"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature09534", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1010608717", 
              "https://doi.org/10.1038/nature09534"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/0092-8674(81)90413-x", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1015663155"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1126/science.1232542", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1016321428"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1126/science.1231143", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1019873131"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1073/pnas.86.8.2554", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1020208577"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature07730", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1021031479", 
              "https://doi.org/10.1038/nature07730"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1126/science.1232033", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1022072971"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1242/dev.01613", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1022916959"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/j.cell.2012.07.035", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1022921017"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.7554/elife.00471", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1023633935"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/j.molcel.2012.11.013", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1023753839"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature07829", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1023938796", 
              "https://doi.org/10.1038/nature07829"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature07829", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1023938796", 
              "https://doi.org/10.1038/nature07829"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1101/gr.129817.111", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1024155749"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nprot.2009.157", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1024337861", 
              "https://doi.org/10.1038/nprot.2009.157"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nprot.2009.157", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1024337861", 
              "https://doi.org/10.1038/nprot.2009.157"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1073/pnas.1932072100", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1024489496"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/20.21.5771", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1025815079"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nmeth.2558", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1026703802", 
              "https://doi.org/10.1038/nmeth.2558"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1006/meth.2001.1262", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1027621591"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1006/meth.2001.1262", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1027621591"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1006/dbio.1997.8762", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1027893281"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature11247", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1029065430", 
              "https://doi.org/10.1038/nature11247"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1073/pnas.0506945103", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1029160754"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nbt.2205", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1033405287", 
              "https://doi.org/10.1038/nbt.2205"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature08451", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1037591051", 
              "https://doi.org/10.1038/nature08451"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature08451", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1037591051", 
              "https://doi.org/10.1038/nature08451"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1073/pnas.93.17.9067", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1039062641"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/j.stem.2010.12.008", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1040721668"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature09906", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1043304663", 
              "https://doi.org/10.1038/nature09906"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1073/pnas.1210678109", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1044380489"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nbt.2136", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1044559969", 
              "https://doi.org/10.1038/nbt.2136"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/s0076-6879(00)28420-6", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1046591909"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature11094", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1048780945", 
              "https://doi.org/10.1038/nature11094"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/18.12.3503", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1049600131"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1182/blood-2010-06-287987", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1049656763"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/s0065-2660(07)00013-2", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1050065837"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1101/gr.135665.111", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1050340897"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature11243", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1053162355", 
              "https://doi.org/10.1038/nature11243"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/ng.2007.55", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1053463486", 
              "https://doi.org/10.1038/ng.2007.55"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://app.dimensions.ai/details/publication/pub.1079027816", 
            "type": "CreativeWork"
          }
        ], 
        "datePublished": "2014-05", 
        "datePublishedReg": "2014-05-01", 
        "description": "The accurate and comprehensive identification of functional regulatory sequences in mammalian genomes remains a major challenge. Here we describe site-specific integration fluorescence-activated cell sorting followed by sequencing (SIF-seq), an unbiased, medium-throughput functional assay for the discovery of distant-acting enhancers. Targeted single-copy genomic integration into pluripotent cells, reporter assays and flow cytometry are coupled with high-throughput DNA sequencing to enable parallel screening of large numbers of DNA sequences. By functionally interrogating >500 kilobases (kb) of mouse and human sequence in mouse embryonic stem cells for enhancer activity we identified enhancers at pluripotency loci including NANOG. In in vitro-differentiated cardiomyocytes and neural progenitor cells, we identified cardiac enhancers and neuronal enhancers, respectively. SIF-seq is a powerful and flexible method for de novo functional identification of mammalian enhancers in a potentially wide variety of cell types. ", 
        "genre": "research_article", 
        "id": "sg:pub.10.1038/nmeth.2886", 
        "inLanguage": [
          "en"
        ], 
        "isAccessibleForFree": true, 
        "isFundedItemOf": [
          {
            "id": "sg:grant.2691974", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.2689720", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.2699369", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.2691972", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.2751786", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.2383488", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.4057706", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.3498582", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.2684998", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.5142341", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.3537126", 
            "type": "MonetaryGrant"
          }, 
          {
            "id": "sg:grant.2529271", 
            "type": "MonetaryGrant"
          }
        ], 
        "isPartOf": [
          {
            "id": "sg:journal.1033763", 
            "issn": [
              "1548-7091", 
              "1548-7105"
            ], 
            "name": "Nature Methods", 
            "type": "Periodical"
          }, 
          {
            "issueNumber": "5", 
            "type": "PublicationIssue"
          }, 
          {
            "type": "PublicationVolume", 
            "volumeNumber": "11"
          }
        ], 
        "name": "Function-based identification of mammalian enhancers using site-specific integration", 
        "pagination": "566-571", 
        "productId": [
          {
            "name": "readcube_id", 
            "type": "PropertyValue", 
            "value": [
              "69e077179ca4bb270e77da3ca8d401f7631f42445516c099e4dacb40faeca572"
            ]
          }, 
          {
            "name": "pubmed_id", 
            "type": "PropertyValue", 
            "value": [
              "24658141"
            ]
          }, 
          {
            "name": "nlm_unique_id", 
            "type": "PropertyValue", 
            "value": [
              "101215604"
            ]
          }, 
          {
            "name": "doi", 
            "type": "PropertyValue", 
            "value": [
              "10.1038/nmeth.2886"
            ]
          }, 
          {
            "name": "dimensions_id", 
            "type": "PropertyValue", 
            "value": [
              "pub.1022223379"
            ]
          }
        ], 
        "sameAs": [
          "https://doi.org/10.1038/nmeth.2886", 
          "https://app.dimensions.ai/details/publication/pub.1022223379"
        ], 
        "sdDataset": "articles", 
        "sdDatePublished": "2019-04-10T18:56", 
        "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
        "sdPublisher": {
          "name": "Springer Nature - SN SciGraph project", 
          "type": "Organization"
        }, 
        "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000001_0000000264/records_8678_00000424.jsonl", 
        "type": "ScholarlyArticle", 
        "url": "http://www.nature.com/articles/nmeth.2886"
      }
    ]
     

    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/nmeth.2886'

    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/nmeth.2886'

    Turtle is a human-readable linked data format.

    curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/nmeth.2886'

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

    curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/nmeth.2886'


     

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

    425 TRIPLES      21 PREDICATES      94 URIs      41 LITERALS      29 BLANK NODES

    Subject Predicate Object
    1 sg:pub.10.1038/nmeth.2886 schema:about N1c98418f074b4b10af36b4621b10673c
    2 N44897c50fe234df888d32c1b8a26c277
    3 N62241b407a664910b9cd60d0dc2eb203
    4 N6b37229751a94db492acf05016bbca00
    5 N6e78e498a2164b4c84d600bd7f320d00
    6 N822a3b6873eb44b0b246c8896185540f
    7 N9631c5dc09cc4cc7ad613f580e1e49ba
    8 N9a570ee675644a2aa975b47e0bb64d3d
    9 N9ee7116d6d4e40b2ac3a8938ed4e1ce3
    10 Na5990c87f19a4497a08c8699812f49a8
    11 Na77421b207844938a060ba5844e2fccd
    12 Nabff7c3044de486a90e65eb855d933c8
    13 Nc0ac72c411954646b73ccac86d91d490
    14 Nc287ec6cfa954ca19f210d6462d565b9
    15 Nda41c9c24a5b47d6a183977e2de976fe
    16 Ndd02fa41734e4a0fb5a0d8608f4aacc1
    17 Ne63b1a6a83af4316ad9da9c064277330
    18 Ne9b72b6f23254f1688258f1a1d883632
    19 Nee7284c531c3417a90748f94f6c817c9
    20 Nf4707b34452649f78f03a12e9d4e76b3
    21 anzsrc-for:06
    22 anzsrc-for:0604
    23 schema:author N25e73af9787a4ed68979ef4ff0127e1f
    24 schema:citation sg:pub.10.1038/nature05295
    25 sg:pub.10.1038/nature07287
    26 sg:pub.10.1038/nature07730
    27 sg:pub.10.1038/nature07829
    28 sg:pub.10.1038/nature08451
    29 sg:pub.10.1038/nature09534
    30 sg:pub.10.1038/nature09906
    31 sg:pub.10.1038/nature11094
    32 sg:pub.10.1038/nature11243
    33 sg:pub.10.1038/nature11247
    34 sg:pub.10.1038/nature12716
    35 sg:pub.10.1038/nbt.2136
    36 sg:pub.10.1038/nbt.2137
    37 sg:pub.10.1038/nbt.2205
    38 sg:pub.10.1038/nbt0102-87
    39 sg:pub.10.1038/ng.2007.55
    40 sg:pub.10.1038/nmeth.2558
    41 sg:pub.10.1038/nprot.2009.157
    42 https://app.dimensions.ai/details/publication/pub.1079027816
    43 https://doi.org/10.1006/dbio.1997.8762
    44 https://doi.org/10.1006/meth.2001.1262
    45 https://doi.org/10.1016/0092-8674(81)90413-x
    46 https://doi.org/10.1016/j.cell.2012.07.035
    47 https://doi.org/10.1016/j.molcel.2012.11.013
    48 https://doi.org/10.1016/j.stem.2010.12.008
    49 https://doi.org/10.1016/s0065-2660(07)00013-2
    50 https://doi.org/10.1016/s0076-6879(00)28420-6
    51 https://doi.org/10.1073/pnas.0506945103
    52 https://doi.org/10.1073/pnas.1000147107
    53 https://doi.org/10.1073/pnas.1210678109
    54 https://doi.org/10.1073/pnas.1932072100
    55 https://doi.org/10.1073/pnas.86.8.2554
    56 https://doi.org/10.1073/pnas.93.17.9067
    57 https://doi.org/10.1093/nar/18.12.3503
    58 https://doi.org/10.1093/nar/20.21.5771
    59 https://doi.org/10.1101/gr.129817.111
    60 https://doi.org/10.1101/gr.135665.111
    61 https://doi.org/10.1126/science.1231143
    62 https://doi.org/10.1126/science.1232033
    63 https://doi.org/10.1126/science.1232542
    64 https://doi.org/10.1126/science.1241006
    65 https://doi.org/10.1182/blood-2010-06-287987
    66 https://doi.org/10.1242/dev.00337
    67 https://doi.org/10.1242/dev.01613
    68 https://doi.org/10.7554/elife.00471
    69 schema:datePublished 2014-05
    70 schema:datePublishedReg 2014-05-01
    71 schema:description The accurate and comprehensive identification of functional regulatory sequences in mammalian genomes remains a major challenge. Here we describe site-specific integration fluorescence-activated cell sorting followed by sequencing (SIF-seq), an unbiased, medium-throughput functional assay for the discovery of distant-acting enhancers. Targeted single-copy genomic integration into pluripotent cells, reporter assays and flow cytometry are coupled with high-throughput DNA sequencing to enable parallel screening of large numbers of DNA sequences. By functionally interrogating >500 kilobases (kb) of mouse and human sequence in mouse embryonic stem cells for enhancer activity we identified enhancers at pluripotency loci including NANOG. In in vitro-differentiated cardiomyocytes and neural progenitor cells, we identified cardiac enhancers and neuronal enhancers, respectively. SIF-seq is a powerful and flexible method for de novo functional identification of mammalian enhancers in a potentially wide variety of cell types.
    72 schema:genre research_article
    73 schema:inLanguage en
    74 schema:isAccessibleForFree true
    75 schema:isPartOf N6959fe3b108f4a94a4db65187f16b720
    76 N6a9b8fb281fa4e128e08b92b593e604e
    77 sg:journal.1033763
    78 schema:name Function-based identification of mammalian enhancers using site-specific integration
    79 schema:pagination 566-571
    80 schema:productId N0502556b198e4b99b0fa734584446388
    81 N652ee9153edb4ca0947f89027026cbd3
    82 N931990d1d21c41ab96d0c1df5f56eb9e
    83 Ne2e9689e2dd54358aa2d7e30e2a73a3b
    84 Nf6e4a630ff6943e9934768de0693d76d
    85 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022223379
    86 https://doi.org/10.1038/nmeth.2886
    87 schema:sdDatePublished 2019-04-10T18:56
    88 schema:sdLicense https://scigraph.springernature.com/explorer/license/
    89 schema:sdPublisher N3cfe8eca30f44b14aeec0fbb9b069059
    90 schema:url http://www.nature.com/articles/nmeth.2886
    91 sgo:license sg:explorer/license/
    92 sgo:sdDataset articles
    93 rdf:type schema:ScholarlyArticle
    94 N001200a344c749e18ea4d50f28627826 rdf:first sg:person.0714547316.57
    95 rdf:rest N910d592e679d43659a660a0cc78c9d3b
    96 N0502556b198e4b99b0fa734584446388 schema:name nlm_unique_id
    97 schema:value 101215604
    98 rdf:type schema:PropertyValue
    99 N1be870f02af94296958b6dded45e5efc rdf:first sg:person.0643065303.51
    100 rdf:rest N235b6ef40d174662bc2639e565e99ff5
    101 N1c98418f074b4b10af36b4621b10673c schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    102 schema:name Cell Differentiation
    103 rdf:type schema:DefinedTerm
    104 N235b6ef40d174662bc2639e565e99ff5 rdf:first sg:person.012327136527.06
    105 rdf:rest Ncc5f08eaa3a04d2ab8c8785f9887ecf6
    106 N25e73af9787a4ed68979ef4ff0127e1f rdf:first sg:person.0752347052.41
    107 rdf:rest N1be870f02af94296958b6dded45e5efc
    108 N3cfe8eca30f44b14aeec0fbb9b069059 schema:name Springer Nature - SN SciGraph project
    109 rdf:type schema:Organization
    110 N44897c50fe234df888d32c1b8a26c277 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    111 schema:name Gene Expression Regulation
    112 rdf:type schema:DefinedTerm
    113 N62241b407a664910b9cd60d0dc2eb203 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    114 schema:name Humans
    115 rdf:type schema:DefinedTerm
    116 N652ee9153edb4ca0947f89027026cbd3 schema:name doi
    117 schema:value 10.1038/nmeth.2886
    118 rdf:type schema:PropertyValue
    119 N6959fe3b108f4a94a4db65187f16b720 schema:issueNumber 5
    120 rdf:type schema:PublicationIssue
    121 N6a9b8fb281fa4e128e08b92b593e604e schema:volumeNumber 11
    122 rdf:type schema:PublicationVolume
    123 N6b37229751a94db492acf05016bbca00 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    124 schema:name Mice
    125 rdf:type schema:DefinedTerm
    126 N6e78e498a2164b4c84d600bd7f320d00 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    127 schema:name Flow Cytometry
    128 rdf:type schema:DefinedTerm
    129 N7a26fd1731794eb3a07b09b3847c847d rdf:first sg:person.01145361510.23
    130 rdf:rest N001200a344c749e18ea4d50f28627826
    131 N822a3b6873eb44b0b246c8896185540f schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    132 schema:name Gene Library
    133 rdf:type schema:DefinedTerm
    134 N88733a4b851f4ab2aa6813f1f0f47bea rdf:first sg:person.01201061146.89
    135 rdf:rest Ncb4822c28a1f41b8a190cd53db928544
    136 N910d592e679d43659a660a0cc78c9d3b rdf:first sg:person.01022360446.35
    137 rdf:rest rdf:nil
    138 N931990d1d21c41ab96d0c1df5f56eb9e schema:name pubmed_id
    139 schema:value 24658141
    140 rdf:type schema:PropertyValue
    141 N9631c5dc09cc4cc7ad613f580e1e49ba schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    142 schema:name Genetic Vectors
    143 rdf:type schema:DefinedTerm
    144 N9a570ee675644a2aa975b47e0bb64d3d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    145 schema:name Animals
    146 rdf:type schema:DefinedTerm
    147 N9ee7116d6d4e40b2ac3a8938ed4e1ce3 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    148 schema:name Cell Separation
    149 rdf:type schema:DefinedTerm
    150 Na5990c87f19a4497a08c8699812f49a8 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    151 schema:name Genes, Reporter
    152 rdf:type schema:DefinedTerm
    153 Na77421b207844938a060ba5844e2fccd schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    154 schema:name Neural Stem Cells
    155 rdf:type schema:DefinedTerm
    156 Nabff7c3044de486a90e65eb855d933c8 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    157 schema:name Chromosomes, Artificial, Bacterial
    158 rdf:type schema:DefinedTerm
    159 Nc0ac72c411954646b73ccac86d91d490 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    160 schema:name Mice, Transgenic
    161 rdf:type schema:DefinedTerm
    162 Nc287ec6cfa954ca19f210d6462d565b9 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    163 schema:name Embryonic Stem Cells
    164 rdf:type schema:DefinedTerm
    165 Ncb4822c28a1f41b8a190cd53db928544 rdf:first sg:person.0640526032.75
    166 rdf:rest Nd6f0b028d4864c2e8e184f8e8f3b94aa
    167 Ncc5f08eaa3a04d2ab8c8785f9887ecf6 rdf:first sg:person.01021661025.47
    168 rdf:rest N88733a4b851f4ab2aa6813f1f0f47bea
    169 Nd6f0b028d4864c2e8e184f8e8f3b94aa rdf:first sg:person.0660264030.04
    170 rdf:rest Nec6c7b9b6b2e4fa59bab03e00cb44f98
    171 Nda41c9c24a5b47d6a183977e2de976fe schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    172 schema:name High-Throughput Nucleotide Sequencing
    173 rdf:type schema:DefinedTerm
    174 Ndd02fa41734e4a0fb5a0d8608f4aacc1 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    175 schema:name Sequence Analysis, DNA
    176 rdf:type schema:DefinedTerm
    177 Ne2e9689e2dd54358aa2d7e30e2a73a3b schema:name dimensions_id
    178 schema:value pub.1022223379
    179 rdf:type schema:PropertyValue
    180 Ne2fe4d55fae44f6598a0191b9dce1ba7 rdf:first sg:person.07575367437.14
    181 rdf:rest N7a26fd1731794eb3a07b09b3847c847d
    182 Ne63b1a6a83af4316ad9da9c064277330 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    183 schema:name Enhancer Elements, Genetic
    184 rdf:type schema:DefinedTerm
    185 Ne9b72b6f23254f1688258f1a1d883632 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    186 schema:name Genomics
    187 rdf:type schema:DefinedTerm
    188 Nec6c7b9b6b2e4fa59bab03e00cb44f98 rdf:first sg:person.01233503252.17
    189 rdf:rest Ne2fe4d55fae44f6598a0191b9dce1ba7
    190 Nee7284c531c3417a90748f94f6c817c9 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    191 schema:name Plasmids
    192 rdf:type schema:DefinedTerm
    193 Nf4707b34452649f78f03a12e9d4e76b3 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    194 schema:name Myocytes, Cardiac
    195 rdf:type schema:DefinedTerm
    196 Nf6e4a630ff6943e9934768de0693d76d schema:name readcube_id
    197 schema:value 69e077179ca4bb270e77da3ca8d401f7631f42445516c099e4dacb40faeca572
    198 rdf:type schema:PropertyValue
    199 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
    200 schema:name Biological Sciences
    201 rdf:type schema:DefinedTerm
    202 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
    203 schema:name Genetics
    204 rdf:type schema:DefinedTerm
    205 sg:grant.2383488 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    206 rdf:type schema:MonetaryGrant
    207 sg:grant.2529271 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    208 rdf:type schema:MonetaryGrant
    209 sg:grant.2684998 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    210 rdf:type schema:MonetaryGrant
    211 sg:grant.2689720 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    212 rdf:type schema:MonetaryGrant
    213 sg:grant.2691972 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    214 rdf:type schema:MonetaryGrant
    215 sg:grant.2691974 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    216 rdf:type schema:MonetaryGrant
    217 sg:grant.2699369 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    218 rdf:type schema:MonetaryGrant
    219 sg:grant.2751786 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    220 rdf:type schema:MonetaryGrant
    221 sg:grant.3498582 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    222 rdf:type schema:MonetaryGrant
    223 sg:grant.3537126 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    224 rdf:type schema:MonetaryGrant
    225 sg:grant.4057706 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    226 rdf:type schema:MonetaryGrant
    227 sg:grant.5142341 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.2886
    228 rdf:type schema:MonetaryGrant
    229 sg:journal.1033763 schema:issn 1548-7091
    230 1548-7105
    231 schema:name Nature Methods
    232 rdf:type schema:Periodical
    233 sg:person.01021661025.47 schema:affiliation https://www.grid.ac/institutes/grid.249878.8
    234 schema:familyName Wylie
    235 schema:givenName John N
    236 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01021661025.47
    237 rdf:type schema:Person
    238 sg:person.01022360446.35 schema:affiliation https://www.grid.ac/institutes/grid.451309.a
    239 schema:familyName Pennacchio
    240 schema:givenName Len A
    241 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01022360446.35
    242 rdf:type schema:Person
    243 sg:person.01145361510.23 schema:affiliation https://www.grid.ac/institutes/grid.266102.1
    244 schema:familyName Bruneau
    245 schema:givenName Benoit G
    246 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01145361510.23
    247 rdf:type schema:Person
    248 sg:person.01201061146.89 schema:affiliation https://www.grid.ac/institutes/grid.184769.5
    249 schema:familyName Akiyama
    250 schema:givenName Jennifer A
    251 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01201061146.89
    252 rdf:type schema:Person
    253 sg:person.012327136527.06 schema:affiliation https://www.grid.ac/institutes/grid.184769.5
    254 schema:familyName Nord
    255 schema:givenName Alex S
    256 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012327136527.06
    257 rdf:type schema:Person
    258 sg:person.01233503252.17 schema:affiliation https://www.grid.ac/institutes/grid.449973.4
    259 schema:familyName Kirkpatrick
    260 schema:givenName Aileen
    261 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01233503252.17
    262 rdf:type schema:Person
    263 sg:person.0640526032.75 schema:affiliation https://www.grid.ac/institutes/grid.184769.5
    264 schema:familyName Afzal
    265 schema:givenName Veena
    266 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0640526032.75
    267 rdf:type schema:Person
    268 sg:person.0643065303.51 schema:affiliation https://www.grid.ac/institutes/grid.184769.5
    269 schema:familyName Zhu
    270 schema:givenName Yiwen
    271 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0643065303.51
    272 rdf:type schema:Person
    273 sg:person.0660264030.04 schema:affiliation https://www.grid.ac/institutes/grid.184769.5
    274 schema:familyName Plajzer-Frick
    275 schema:givenName Ingrid
    276 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0660264030.04
    277 rdf:type schema:Person
    278 sg:person.0714547316.57 schema:affiliation https://www.grid.ac/institutes/grid.266096.d
    279 schema:familyName Visel
    280 schema:givenName Axel
    281 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0714547316.57
    282 rdf:type schema:Person
    283 sg:person.0752347052.41 schema:affiliation https://www.grid.ac/institutes/grid.184769.5
    284 schema:familyName Dickel
    285 schema:givenName Diane E
    286 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0752347052.41
    287 rdf:type schema:Person
    288 sg:person.07575367437.14 schema:affiliation https://www.grid.ac/institutes/grid.449973.4
    289 schema:familyName Göttgens
    290 schema:givenName Berthold
    291 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07575367437.14
    292 rdf:type schema:Person
    293 sg:pub.10.1038/nature05295 schema:sameAs https://app.dimensions.ai/details/publication/pub.1009061596
    294 https://doi.org/10.1038/nature05295
    295 rdf:type schema:CreativeWork
    296 sg:pub.10.1038/nature07287 schema:sameAs https://app.dimensions.ai/details/publication/pub.1009117288
    297 https://doi.org/10.1038/nature07287
    298 rdf:type schema:CreativeWork
    299 sg:pub.10.1038/nature07730 schema:sameAs https://app.dimensions.ai/details/publication/pub.1021031479
    300 https://doi.org/10.1038/nature07730
    301 rdf:type schema:CreativeWork
    302 sg:pub.10.1038/nature07829 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023938796
    303 https://doi.org/10.1038/nature07829
    304 rdf:type schema:CreativeWork
    305 sg:pub.10.1038/nature08451 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037591051
    306 https://doi.org/10.1038/nature08451
    307 rdf:type schema:CreativeWork
    308 sg:pub.10.1038/nature09534 schema:sameAs https://app.dimensions.ai/details/publication/pub.1010608717
    309 https://doi.org/10.1038/nature09534
    310 rdf:type schema:CreativeWork
    311 sg:pub.10.1038/nature09906 schema:sameAs https://app.dimensions.ai/details/publication/pub.1043304663
    312 https://doi.org/10.1038/nature09906
    313 rdf:type schema:CreativeWork
    314 sg:pub.10.1038/nature11094 schema:sameAs https://app.dimensions.ai/details/publication/pub.1048780945
    315 https://doi.org/10.1038/nature11094
    316 rdf:type schema:CreativeWork
    317 sg:pub.10.1038/nature11243 schema:sameAs https://app.dimensions.ai/details/publication/pub.1053162355
    318 https://doi.org/10.1038/nature11243
    319 rdf:type schema:CreativeWork
    320 sg:pub.10.1038/nature11247 schema:sameAs https://app.dimensions.ai/details/publication/pub.1029065430
    321 https://doi.org/10.1038/nature11247
    322 rdf:type schema:CreativeWork
    323 sg:pub.10.1038/nature12716 schema:sameAs https://app.dimensions.ai/details/publication/pub.1005115127
    324 https://doi.org/10.1038/nature12716
    325 rdf:type schema:CreativeWork
    326 sg:pub.10.1038/nbt.2136 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044559969
    327 https://doi.org/10.1038/nbt.2136
    328 rdf:type schema:CreativeWork
    329 sg:pub.10.1038/nbt.2137 schema:sameAs https://app.dimensions.ai/details/publication/pub.1004566758
    330 https://doi.org/10.1038/nbt.2137
    331 rdf:type schema:CreativeWork
    332 sg:pub.10.1038/nbt.2205 schema:sameAs https://app.dimensions.ai/details/publication/pub.1033405287
    333 https://doi.org/10.1038/nbt.2205
    334 rdf:type schema:CreativeWork
    335 sg:pub.10.1038/nbt0102-87 schema:sameAs https://app.dimensions.ai/details/publication/pub.1007758048
    336 https://doi.org/10.1038/nbt0102-87
    337 rdf:type schema:CreativeWork
    338 sg:pub.10.1038/ng.2007.55 schema:sameAs https://app.dimensions.ai/details/publication/pub.1053463486
    339 https://doi.org/10.1038/ng.2007.55
    340 rdf:type schema:CreativeWork
    341 sg:pub.10.1038/nmeth.2558 schema:sameAs https://app.dimensions.ai/details/publication/pub.1026703802
    342 https://doi.org/10.1038/nmeth.2558
    343 rdf:type schema:CreativeWork
    344 sg:pub.10.1038/nprot.2009.157 schema:sameAs https://app.dimensions.ai/details/publication/pub.1024337861
    345 https://doi.org/10.1038/nprot.2009.157
    346 rdf:type schema:CreativeWork
    347 https://app.dimensions.ai/details/publication/pub.1079027816 schema:CreativeWork
    348 https://doi.org/10.1006/dbio.1997.8762 schema:sameAs https://app.dimensions.ai/details/publication/pub.1027893281
    349 rdf:type schema:CreativeWork
    350 https://doi.org/10.1006/meth.2001.1262 schema:sameAs https://app.dimensions.ai/details/publication/pub.1027621591
    351 rdf:type schema:CreativeWork
    352 https://doi.org/10.1016/0092-8674(81)90413-x schema:sameAs https://app.dimensions.ai/details/publication/pub.1015663155
    353 rdf:type schema:CreativeWork
    354 https://doi.org/10.1016/j.cell.2012.07.035 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022921017
    355 rdf:type schema:CreativeWork
    356 https://doi.org/10.1016/j.molcel.2012.11.013 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023753839
    357 rdf:type schema:CreativeWork
    358 https://doi.org/10.1016/j.stem.2010.12.008 schema:sameAs https://app.dimensions.ai/details/publication/pub.1040721668
    359 rdf:type schema:CreativeWork
    360 https://doi.org/10.1016/s0065-2660(07)00013-2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050065837
    361 rdf:type schema:CreativeWork
    362 https://doi.org/10.1016/s0076-6879(00)28420-6 schema:sameAs https://app.dimensions.ai/details/publication/pub.1046591909
    363 rdf:type schema:CreativeWork
    364 https://doi.org/10.1073/pnas.0506945103 schema:sameAs https://app.dimensions.ai/details/publication/pub.1029160754
    365 rdf:type schema:CreativeWork
    366 https://doi.org/10.1073/pnas.1000147107 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000427941
    367 rdf:type schema:CreativeWork
    368 https://doi.org/10.1073/pnas.1210678109 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044380489
    369 rdf:type schema:CreativeWork
    370 https://doi.org/10.1073/pnas.1932072100 schema:sameAs https://app.dimensions.ai/details/publication/pub.1024489496
    371 rdf:type schema:CreativeWork
    372 https://doi.org/10.1073/pnas.86.8.2554 schema:sameAs https://app.dimensions.ai/details/publication/pub.1020208577
    373 rdf:type schema:CreativeWork
    374 https://doi.org/10.1073/pnas.93.17.9067 schema:sameAs https://app.dimensions.ai/details/publication/pub.1039062641
    375 rdf:type schema:CreativeWork
    376 https://doi.org/10.1093/nar/18.12.3503 schema:sameAs https://app.dimensions.ai/details/publication/pub.1049600131
    377 rdf:type schema:CreativeWork
    378 https://doi.org/10.1093/nar/20.21.5771 schema:sameAs https://app.dimensions.ai/details/publication/pub.1025815079
    379 rdf:type schema:CreativeWork
    380 https://doi.org/10.1101/gr.129817.111 schema:sameAs https://app.dimensions.ai/details/publication/pub.1024155749
    381 rdf:type schema:CreativeWork
    382 https://doi.org/10.1101/gr.135665.111 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050340897
    383 rdf:type schema:CreativeWork
    384 https://doi.org/10.1126/science.1231143 schema:sameAs https://app.dimensions.ai/details/publication/pub.1019873131
    385 rdf:type schema:CreativeWork
    386 https://doi.org/10.1126/science.1232033 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022072971
    387 rdf:type schema:CreativeWork
    388 https://doi.org/10.1126/science.1232542 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016321428
    389 rdf:type schema:CreativeWork
    390 https://doi.org/10.1126/science.1241006 schema:sameAs https://app.dimensions.ai/details/publication/pub.1009620538
    391 rdf:type schema:CreativeWork
    392 https://doi.org/10.1182/blood-2010-06-287987 schema:sameAs https://app.dimensions.ai/details/publication/pub.1049656763
    393 rdf:type schema:CreativeWork
    394 https://doi.org/10.1242/dev.00337 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001899155
    395 rdf:type schema:CreativeWork
    396 https://doi.org/10.1242/dev.01613 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022916959
    397 rdf:type schema:CreativeWork
    398 https://doi.org/10.7554/elife.00471 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023633935
    399 rdf:type schema:CreativeWork
    400 https://www.grid.ac/institutes/grid.184769.5 schema:alternateName Lawrence Berkeley National Laboratory
    401 schema:name Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA.
    402 rdf:type schema:Organization
    403 https://www.grid.ac/institutes/grid.249878.8 schema:alternateName Gladstone Institutes
    404 schema:name Gladstone Institute of Cardiovascular Disease, San Francisco, California, USA.
    405 Roddenberry Center for Stem Cell Biology and Medicine at Gladstone Institutes, San Francisco, California, USA.
    406 rdf:type schema:Organization
    407 https://www.grid.ac/institutes/grid.266096.d schema:alternateName University of California, Merced
    408 schema:name Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA.
    409 School of Natural Sciences, University of California, Merced, Merced, California, USA.
    410 US Department of Energy Joint Genome Institute, Walnut Creek, California, USA.
    411 rdf:type schema:Organization
    412 https://www.grid.ac/institutes/grid.266102.1 schema:alternateName University of California, San Francisco
    413 schema:name Cardiovascular Research Institute, University of California, San Francisco, San Francisco, California, USA.
    414 Department of Pediatrics, University of California, San Francisco, San Francisco, California, USA.
    415 Gladstone Institute of Cardiovascular Disease, San Francisco, California, USA.
    416 Roddenberry Center for Stem Cell Biology and Medicine at Gladstone Institutes, San Francisco, California, USA.
    417 rdf:type schema:Organization
    418 https://www.grid.ac/institutes/grid.449973.4 schema:alternateName Wellcome / MRC Cambridge Stem Cell Institute
    419 schema:name Cambridge Institute for Medical Research, University of Cambridge, Cambridge, UK.
    420 Wellcome Trust-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.
    421 rdf:type schema:Organization
    422 https://www.grid.ac/institutes/grid.451309.a schema:alternateName Joint Genome Institute
    423 schema:name Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA.
    424 US Department of Energy Joint Genome Institute, Walnut Creek, California, USA.
    425 rdf:type schema:Organization
     




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


    ...