DNA methylation profiling of medulloblastoma allows robust subclassification and improved outcome prediction using formalin-fixed biopsies View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2013-03

AUTHORS

Edward C. Schwalbe, Daniel Williamson, Janet C. Lindsey, Dolores Hamilton, Sarra L. Ryan, Hisham Megahed, Miklós Garami, Peter Hauser, Bożena Dembowska-Baginska, Danuta Perek, Paul A. Northcott, Michael D. Taylor, Roger E. Taylor, David W. Ellison, Simon Bailey, Steven C. Clifford

ABSTRACT

Molecular subclassification is rapidly informing the clinical management of medulloblastoma. However, the disease remains associated with poor outcomes and therapy-associated late effects, and the majority of patients are not characterized by a validated prognostic biomarker. Here, we investigated the potential of epigenetic DNA methylation for disease subclassification, particularly in formalin-fixed biopsies, and to identify biomarkers for improved therapeutic individualization. Tumor DNA methylation profiles were assessed, alongside molecular and clinical disease features, in 230 patients primarily from the SIOP-UKCCSG PNET3 clinical trial. We demonstrate by cross-validation in frozen training and formalin-fixed test sets that medulloblastoma comprises four robust DNA methylation subgroups (termed WNT, SHH, G3 and G4), highly related to their transcriptomic counterparts, and which display distinct molecular, clinical and pathological disease characteristics. WNT patients displayed an expected favorable prognosis, while outcomes for SHH, G3 and G4 were equivalent in our cohort. MXI1 and IL8 methylation were identified as novel independent high-risk biomarkers in cross-validated survival models of non-WNT patients, and were validated using non-array methods. Incorporation of MXI1 and IL8 into current survival models significantly improved the assignment of disease risk; 46 % of patients could be classified as 'favorable risk' (>90 % survival) compared to 13 % using current models, while the high-risk group was reduced from 30 to 16 %. DNA methylation profiling enables the robust subclassification of four disease subgroups in frozen and routinely collected/archival formalin-fixed biopsy material, and the incorporation of DNA methylation biomarkers can significantly improve disease-risk stratification. These findings have important implications for future risk-adapted clinical disease management. More... »

PAGES

359-371

Identifiers

URI

http://scigraph.springernature.com/pub.10.1007/s00401-012-1077-2

DOI

http://dx.doi.org/10.1007/s00401-012-1077-2

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1024229379

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/23291781


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/2008/1112", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Oncology and Carcinogenesis", 
        "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"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Adolescent", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Adult", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Basic Helix-Loop-Helix Transcription Factors", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Biomarkers, Tumor", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Biopsy", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Cerebellar Neoplasms", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Child", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Child, Preschool", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Chromosomes, Human, Pair 17", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Cohort Studies", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Computational Biology", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "DNA Fingerprinting", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "DNA Methylation", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Female", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Formaldehyde", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Frozen Sections", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Gene Expression Regulation, Neoplastic", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Hedgehog Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Humans", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Infant", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Interleukin-8", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Male", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Medulloblastoma", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Predictive Value of Tests", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Proto-Oncogene Proteins c-myc", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Reproducibility of Results", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Tumor Suppressor Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Young Adult", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "name": [
            "Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Schwalbe", 
        "givenName": "Edward C.", 
        "id": "sg:person.0715313042.78", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0715313042.78"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "name": [
            "Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Williamson", 
        "givenName": "Daniel", 
        "id": "sg:person.01166155447.74", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01166155447.74"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "name": [
            "Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Lindsey", 
        "givenName": "Janet C.", 
        "id": "sg:person.01275011217.25", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01275011217.25"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "name": [
            "Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Hamilton", 
        "givenName": "Dolores", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "name": [
            "Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Ryan", 
        "givenName": "Sarra L.", 
        "id": "sg:person.0777752547.21", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0777752547.21"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "name": [
            "Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Megahed", 
        "givenName": "Hisham", 
        "id": "sg:person.0733746717.14", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0733746717.14"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Semmelweis University", 
          "id": "https://www.grid.ac/institutes/grid.11804.3c", 
          "name": [
            "Department of Paediatrics, Semmelweis University, Budapest, Hungary"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Garami", 
        "givenName": "Mikl\u00f3s", 
        "id": "sg:person.01022024330.02", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01022024330.02"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Semmelweis University", 
          "id": "https://www.grid.ac/institutes/grid.11804.3c", 
          "name": [
            "Department of Paediatrics, Semmelweis University, Budapest, Hungary"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Hauser", 
        "givenName": "Peter", 
        "id": "sg:person.01054467240.04", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01054467240.04"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Children's Memorial Health Institute", 
          "id": "https://www.grid.ac/institutes/grid.413923.e", 
          "name": [
            "Department of Pediatric Oncology, The Children\u2019s Memorial Health Institute, Warsaw, Poland"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Dembowska-Baginska", 
        "givenName": "Bo\u017cena", 
        "id": "sg:person.01142014606.50", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01142014606.50"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Children's Memorial Health Institute", 
          "id": "https://www.grid.ac/institutes/grid.413923.e", 
          "name": [
            "Department of Pediatric Oncology, The Children\u2019s Memorial Health Institute, Warsaw, Poland"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Perek", 
        "givenName": "Danuta", 
        "id": "sg:person.01265061723.80", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01265061723.80"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Hospital for Sick Children", 
          "id": "https://www.grid.ac/institutes/grid.42327.30", 
          "name": [
            "Division of Neurosurgery and The Labatt Brain Tumour Research Centre, Hospital for Sick Children, Toronto, Canada"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Northcott", 
        "givenName": "Paul A.", 
        "id": "sg:person.010563327577.08", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010563327577.08"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Hospital for Sick Children", 
          "id": "https://www.grid.ac/institutes/grid.42327.30", 
          "name": [
            "Division of Neurosurgery and The Labatt Brain Tumour Research Centre, Hospital for Sick Children, Toronto, Canada"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Taylor", 
        "givenName": "Michael D.", 
        "id": "sg:person.012731463207.92", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012731463207.92"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Singleton Hospital", 
          "id": "https://www.grid.ac/institutes/grid.415947.a", 
          "name": [
            "South Wales Cancer Centre, Singleton Hospital, Swansea, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Taylor", 
        "givenName": "Roger E.", 
        "id": "sg:person.01036770224.00", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01036770224.00"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "St. Jude Children's Research Hospital", 
          "id": "https://www.grid.ac/institutes/grid.240871.8", 
          "name": [
            "Department of Pathology, St. Jude Children\u2019s Research Hospital, Memphis, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Ellison", 
        "givenName": "David W.", 
        "id": "sg:person.0711352500.88", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0711352500.88"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "name": [
            "Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Bailey", 
        "givenName": "Simon", 
        "id": "sg:person.01216526625.20", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01216526625.20"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "name": [
            "Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Clifford", 
        "givenName": "Steven C.", 
        "id": "sg:person.01346765517.08", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01346765517.08"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "https://doi.org/10.1073/pnas.0308531101", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001366510"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00401-007-0243-4", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001430701", 
          "https://doi.org/10.1007/s00401-007-0243-4"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00401-007-0243-4", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001430701", 
          "https://doi.org/10.1007/s00401-007-0243-4"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1200/jco.2005.01.5479", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1001500983"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00401-011-0899-7", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1003857592", 
          "https://doi.org/10.1007/s00401-011-0899-7"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1200/jco.2008.17.9432", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1005423358"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s1470-2045(06)70867-1", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1006867503"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00401-012-0958-8", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1007662906", 
          "https://doi.org/10.1007/s00401-012-0958-8"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1002/ijc.25562", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1009834454"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1200/jco.2005.04.4974", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1011169284"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/bioinformatics/btn557", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1012300204"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00401-011-0922-z", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1012707701", 
          "https://doi.org/10.1007/s00401-011-0922-z"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1002/gcc.20262", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1021622039"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1002/gcc.20262", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1021622039"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00401-011-0923-y", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1021993381", 
          "https://doi.org/10.1007/s00401-011-0923-y"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/onc.2010.32", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1023727013", 
          "https://doi.org/10.1038/onc.2010.32"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0092-8674(93)90662-a", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1025312921"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1200/jco.2009.27.4324", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1026297279"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1200/jco.2011.38.5591", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028769760"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1056/nejmoa043331", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1029207836"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1126/science.1198056", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1030704690"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1101/gr.4410706", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1033075033"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.0907606106", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1035011228"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/carcin/bgh055", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1035413434"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1158/0008-5472.can-11-3891", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1036527942"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nature11329", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1036872856", 
          "https://doi.org/10.1038/nature11329"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1158/1078-0432.ccr-10-2210", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037754285"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1158/1078-0432.ccr-03-0721", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037968545"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/bib/bbr001", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1038952556"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nature11284", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1039302414", 
          "https://doi.org/10.1038/nature11284"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nature11213", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1040240428", 
          "https://doi.org/10.1038/nature11213"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.ccr.2010.03.017", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1040778422"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/0377-0427(87)90125-7", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1041584630"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1200/jco.2010.30.2810", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1041847755"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1002/pbc.21832", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1042056289"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/bioinformatics/btm311", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1042939614"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.0006-341x.2000.00337.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1043727671"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1158/1078-0432.ccr-06-1779", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1044240691"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.ejca.2004.12.017", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1044354967"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00401-011-0800-8", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1044440927", 
          "https://doi.org/10.1007/s00401-011-0800-8"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1080/02688690903121807", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1044635291"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1200/jco.2004.01.0454", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1047041320"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1200/jco.2004.01.0454", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1047041320"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.0701068104", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1047694379"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1215/15228517-2008-048", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1048919367"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1200/jco.2010.28.5148", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1049260900"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1371/journal.pone.0003088", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1049915735"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/sj.bjc.6603852", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1053708989", 
          "https://doi.org/10.1038/sj.bjc.6603852"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1109/tnb.2005.853657", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1061713682"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1200/jco.2003.05.116", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1064203613"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3171/foc.2005.19.5.11", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1071085887"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3171/foc.2005.19.5.11", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1071085887"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3171/foc.2005.19.5.11", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1071085887"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3171/foc.2005.19.5.11", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1071085887"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3171/foc.2005.19.5.11", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1071085887"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3171/foc.2005.19.5.11", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1071085887"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4161/cc.5.20.3360", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1072298666"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4161/cc.5.22.3446", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1072298705"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4137/cin.s2846", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1077950823"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1148/93.6.1351", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1080730833"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2013-03", 
    "datePublishedReg": "2013-03-01", 
    "description": "Molecular subclassification is rapidly informing the clinical management of medulloblastoma. However, the disease remains associated with poor outcomes and therapy-associated late effects, and the majority of patients are not characterized by a validated prognostic biomarker. Here, we investigated the potential of epigenetic DNA methylation for disease subclassification, particularly in formalin-fixed biopsies, and to identify biomarkers for improved therapeutic individualization. Tumor DNA methylation profiles were assessed, alongside molecular and clinical disease features, in 230 patients primarily from the SIOP-UKCCSG PNET3 clinical trial. We demonstrate by cross-validation in frozen training and formalin-fixed test sets that medulloblastoma comprises four robust DNA methylation subgroups (termed WNT, SHH, G3 and G4), highly related to their transcriptomic counterparts, and which display distinct molecular, clinical and pathological disease characteristics. WNT patients displayed an expected favorable prognosis, while outcomes for SHH, G3 and G4 were equivalent in our cohort. MXI1 and IL8 methylation were identified as novel independent high-risk biomarkers in cross-validated survival models of non-WNT patients, and were validated using non-array methods. Incorporation of MXI1 and IL8 into current survival models significantly improved the assignment of disease risk; 46 % of patients could be classified as 'favorable risk' (>90 % survival) compared to 13 % using current models, while the high-risk group was reduced from 30 to 16 %. DNA methylation profiling enables the robust subclassification of four disease subgroups in frozen and routinely collected/archival formalin-fixed biopsy material, and the incorporation of DNA methylation biomarkers can significantly improve disease-risk stratification. These findings have important implications for future risk-adapted clinical disease management.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1007/s00401-012-1077-2", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": true, 
    "isFundedItemOf": [
      {
        "id": "sg:grant.5134444", 
        "type": "MonetaryGrant"
      }
    ], 
    "isPartOf": [
      {
        "id": "sg:journal.1019073", 
        "issn": [
          "0001-6322", 
          "1432-0533"
        ], 
        "name": "Acta Neuropathologica", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "3", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "125"
      }
    ], 
    "name": "DNA methylation profiling of medulloblastoma allows robust subclassification and improved outcome prediction using formalin-fixed biopsies", 
    "pagination": "359-371", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "736e7acbf6339c839e5a136545c69e559ffac58a4610db676d4ab18e6c2184e3"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "23291781"
        ]
      }, 
      {
        "name": "nlm_unique_id", 
        "type": "PropertyValue", 
        "value": [
          "0412041"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1007/s00401-012-1077-2"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1024229379"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1007/s00401-012-1077-2", 
      "https://app.dimensions.ai/details/publication/pub.1024229379"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-10T14:03", 
    "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_8660_00000488.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "http://link.springer.com/10.1007/s00401-012-1077-2"
  }
]
 

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.10.1007/s00401-012-1077-2'

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

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1007/s00401-012-1077-2'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1007/s00401-012-1077-2'

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

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1007/s00401-012-1077-2'


 

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

482 TRIPLES      21 PREDICATES      109 URIs      49 LITERALS      37 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1007/s00401-012-1077-2 schema:about N0be53dc1ffe345b68fbce41f669bdfb5
2 N28ca8b60afc44770b95285d5e6fb939c
3 N300eac98e3ac47e9944829c524e89fe7
4 N3c7bb0e2e5be408abf8643d4861be13d
5 N3d88b382c57e42dbaf2e6900f9823987
6 N44648664133f4cca9dccc876d1f19a56
7 N4d007cb2efd54bba9b39d23de2a4276d
8 N5f87f435d4f24d678f59e14aacda8a40
9 N611423ac48de4c089dfcfccdf6484c30
10 N62cdd66619564cecb951ab0147abe424
11 N63b75dfa7b7d4d43ba7a98c7c03a8489
12 N710a4d9b3e8a4744b95804aaf0e7d992
13 N75fef69e6960497b81629769b2854aa5
14 N7c10cda555e34af2965602d032883fb7
15 N7cdc201b8feb4e95a63564fc263087f1
16 N954724e5aa0a46039081278546b265b9
17 N97acb02ea8794850979df3e80d4193fa
18 Na9853d22b64b4c4a9b2f6dddebd004ea
19 Nb3c2cb95fbc44e52b4ce606d9f581469
20 Nc937a0b8a3054e2793fef00af004cf6c
21 Ncf705ab86ac54b839e463da8b523e020
22 Nd1de22ce8a644840ba3b355dc664b87f
23 Nd46c86acd57b4ef39e7fa49cb9962fca
24 Nd7f3d14b6c8b4219a5d901b44ff45a06
25 Nda7ef62a642d4bf89ba68d531ca78b88
26 Ndbd486af748248549a35ae2e7cbb6025
27 Ndec97e348d2d4cf394976d050102b29c
28 Nf8f11d958f3d4d7db68b79738dca4444
29 anzsrc-for:11
30 anzsrc-for:1112
31 schema:author Ndb1c96596b1e438c81df13488df63cb1
32 schema:citation sg:pub.10.1007/s00401-007-0243-4
33 sg:pub.10.1007/s00401-011-0800-8
34 sg:pub.10.1007/s00401-011-0899-7
35 sg:pub.10.1007/s00401-011-0922-z
36 sg:pub.10.1007/s00401-011-0923-y
37 sg:pub.10.1007/s00401-012-0958-8
38 sg:pub.10.1038/nature11213
39 sg:pub.10.1038/nature11284
40 sg:pub.10.1038/nature11329
41 sg:pub.10.1038/onc.2010.32
42 sg:pub.10.1038/sj.bjc.6603852
43 https://doi.org/10.1002/gcc.20262
44 https://doi.org/10.1002/ijc.25562
45 https://doi.org/10.1002/pbc.21832
46 https://doi.org/10.1016/0092-8674(93)90662-a
47 https://doi.org/10.1016/0377-0427(87)90125-7
48 https://doi.org/10.1016/j.ccr.2010.03.017
49 https://doi.org/10.1016/j.ejca.2004.12.017
50 https://doi.org/10.1016/s1470-2045(06)70867-1
51 https://doi.org/10.1056/nejmoa043331
52 https://doi.org/10.1073/pnas.0308531101
53 https://doi.org/10.1073/pnas.0701068104
54 https://doi.org/10.1073/pnas.0907606106
55 https://doi.org/10.1080/02688690903121807
56 https://doi.org/10.1093/bib/bbr001
57 https://doi.org/10.1093/bioinformatics/btm311
58 https://doi.org/10.1093/bioinformatics/btn557
59 https://doi.org/10.1093/carcin/bgh055
60 https://doi.org/10.1101/gr.4410706
61 https://doi.org/10.1109/tnb.2005.853657
62 https://doi.org/10.1111/j.0006-341x.2000.00337.x
63 https://doi.org/10.1126/science.1198056
64 https://doi.org/10.1148/93.6.1351
65 https://doi.org/10.1158/0008-5472.can-11-3891
66 https://doi.org/10.1158/1078-0432.ccr-03-0721
67 https://doi.org/10.1158/1078-0432.ccr-06-1779
68 https://doi.org/10.1158/1078-0432.ccr-10-2210
69 https://doi.org/10.1200/jco.2003.05.116
70 https://doi.org/10.1200/jco.2004.01.0454
71 https://doi.org/10.1200/jco.2005.01.5479
72 https://doi.org/10.1200/jco.2005.04.4974
73 https://doi.org/10.1200/jco.2008.17.9432
74 https://doi.org/10.1200/jco.2009.27.4324
75 https://doi.org/10.1200/jco.2010.28.5148
76 https://doi.org/10.1200/jco.2010.30.2810
77 https://doi.org/10.1200/jco.2011.38.5591
78 https://doi.org/10.1215/15228517-2008-048
79 https://doi.org/10.1371/journal.pone.0003088
80 https://doi.org/10.3171/foc.2005.19.5.11
81 https://doi.org/10.4137/cin.s2846
82 https://doi.org/10.4161/cc.5.20.3360
83 https://doi.org/10.4161/cc.5.22.3446
84 schema:datePublished 2013-03
85 schema:datePublishedReg 2013-03-01
86 schema:description Molecular subclassification is rapidly informing the clinical management of medulloblastoma. However, the disease remains associated with poor outcomes and therapy-associated late effects, and the majority of patients are not characterized by a validated prognostic biomarker. Here, we investigated the potential of epigenetic DNA methylation for disease subclassification, particularly in formalin-fixed biopsies, and to identify biomarkers for improved therapeutic individualization. Tumor DNA methylation profiles were assessed, alongside molecular and clinical disease features, in 230 patients primarily from the SIOP-UKCCSG PNET3 clinical trial. We demonstrate by cross-validation in frozen training and formalin-fixed test sets that medulloblastoma comprises four robust DNA methylation subgroups (termed WNT, SHH, G3 and G4), highly related to their transcriptomic counterparts, and which display distinct molecular, clinical and pathological disease characteristics. WNT patients displayed an expected favorable prognosis, while outcomes for SHH, G3 and G4 were equivalent in our cohort. MXI1 and IL8 methylation were identified as novel independent high-risk biomarkers in cross-validated survival models of non-WNT patients, and were validated using non-array methods. Incorporation of MXI1 and IL8 into current survival models significantly improved the assignment of disease risk; 46 % of patients could be classified as 'favorable risk' (>90 % survival) compared to 13 % using current models, while the high-risk group was reduced from 30 to 16 %. DNA methylation profiling enables the robust subclassification of four disease subgroups in frozen and routinely collected/archival formalin-fixed biopsy material, and the incorporation of DNA methylation biomarkers can significantly improve disease-risk stratification. These findings have important implications for future risk-adapted clinical disease management.
87 schema:genre research_article
88 schema:inLanguage en
89 schema:isAccessibleForFree true
90 schema:isPartOf N285da2391ae94e258a902383db3cb01e
91 N91d60f8bd8f440fda60a54dc8c751f26
92 sg:journal.1019073
93 schema:name DNA methylation profiling of medulloblastoma allows robust subclassification and improved outcome prediction using formalin-fixed biopsies
94 schema:pagination 359-371
95 schema:productId N0dccd851346a4c99be486ef6672f8a5c
96 N17f1b9cc67414d659e31842796260dff
97 N71d178f2863a4c2eac6dead0da246a37
98 N7d97033fd736414591f3f6697bc4c83b
99 Ned8b72b1b4c54389a1631e1df3850bc0
100 schema:sameAs https://app.dimensions.ai/details/publication/pub.1024229379
101 https://doi.org/10.1007/s00401-012-1077-2
102 schema:sdDatePublished 2019-04-10T14:03
103 schema:sdLicense https://scigraph.springernature.com/explorer/license/
104 schema:sdPublisher Ne81cbd1c52484322853339cf39ad1571
105 schema:url http://link.springer.com/10.1007/s00401-012-1077-2
106 sgo:license sg:explorer/license/
107 sgo:sdDataset articles
108 rdf:type schema:ScholarlyArticle
109 N0653e73c9d744bfe974264fba55f560d rdf:first sg:person.01022024330.02
110 rdf:rest N705e02451efd4cefb920b4095a1b8546
111 N0be53dc1ffe345b68fbce41f669bdfb5 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
112 schema:name Proto-Oncogene Proteins c-myc
113 rdf:type schema:DefinedTerm
114 N0c82e11aaeed4561a3225d17f328f1aa rdf:first sg:person.01036770224.00
115 rdf:rest Nedb4e69526724237a00877904bde0087
116 N0dccd851346a4c99be486ef6672f8a5c schema:name dimensions_id
117 schema:value pub.1024229379
118 rdf:type schema:PropertyValue
119 N148322efcc4f4bf2bcf10c3f9de775cd rdf:first sg:person.01275011217.25
120 rdf:rest N301cd84ad4814ba78fbd158d6e5d41da
121 N14fe37aa76ad484d9f04e8b7d683bc62 schema:name Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK
122 rdf:type schema:Organization
123 N17f1b9cc67414d659e31842796260dff schema:name nlm_unique_id
124 schema:value 0412041
125 rdf:type schema:PropertyValue
126 N285da2391ae94e258a902383db3cb01e schema:volumeNumber 125
127 rdf:type schema:PublicationVolume
128 N28ca8b60afc44770b95285d5e6fb939c schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
129 schema:name Cerebellar Neoplasms
130 rdf:type schema:DefinedTerm
131 N2a53a5ce528349a480ba6dbfaa3c1d7c schema:name Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK
132 rdf:type schema:Organization
133 N2e539a4a078e401f98c38956d4f0c3fa schema:name Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK
134 rdf:type schema:Organization
135 N300eac98e3ac47e9944829c524e89fe7 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
136 schema:name Medulloblastoma
137 rdf:type schema:DefinedTerm
138 N301cd84ad4814ba78fbd158d6e5d41da rdf:first Na4b29bfeac484d399847fd83e0556789
139 rdf:rest N9764cea6e8d646f2aaf37ae3891cb4d4
140 N316c4262b98746d4bf0578ab966816e2 rdf:first sg:person.012731463207.92
141 rdf:rest N0c82e11aaeed4561a3225d17f328f1aa
142 N3c7bb0e2e5be408abf8643d4861be13d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
143 schema:name Child
144 rdf:type schema:DefinedTerm
145 N3d88b382c57e42dbaf2e6900f9823987 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
146 schema:name Biomarkers, Tumor
147 rdf:type schema:DefinedTerm
148 N44648664133f4cca9dccc876d1f19a56 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
149 schema:name DNA Methylation
150 rdf:type schema:DefinedTerm
151 N4d007cb2efd54bba9b39d23de2a4276d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
152 schema:name Humans
153 rdf:type schema:DefinedTerm
154 N5ce0362afaa3490e84ef84af5c960081 schema:name Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK
155 rdf:type schema:Organization
156 N5f87f435d4f24d678f59e14aacda8a40 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
157 schema:name DNA Fingerprinting
158 rdf:type schema:DefinedTerm
159 N611423ac48de4c089dfcfccdf6484c30 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
160 schema:name Basic Helix-Loop-Helix Transcription Factors
161 rdf:type schema:DefinedTerm
162 N62cdd66619564cecb951ab0147abe424 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
163 schema:name Child, Preschool
164 rdf:type schema:DefinedTerm
165 N633bdc7c31a54853bab74171dcb8ff3a schema:name Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK
166 rdf:type schema:Organization
167 N63b75dfa7b7d4d43ba7a98c7c03a8489 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
168 schema:name Male
169 rdf:type schema:DefinedTerm
170 N705e02451efd4cefb920b4095a1b8546 rdf:first sg:person.01054467240.04
171 rdf:rest Nac6de278a5c241589e0bef53cc2fa077
172 N710a4d9b3e8a4744b95804aaf0e7d992 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
173 schema:name Computational Biology
174 rdf:type schema:DefinedTerm
175 N71d178f2863a4c2eac6dead0da246a37 schema:name pubmed_id
176 schema:value 23291781
177 rdf:type schema:PropertyValue
178 N75fef69e6960497b81629769b2854aa5 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
179 schema:name Frozen Sections
180 rdf:type schema:DefinedTerm
181 N7c10cda555e34af2965602d032883fb7 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
182 schema:name Adult
183 rdf:type schema:DefinedTerm
184 N7cdc201b8feb4e95a63564fc263087f1 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
185 schema:name Formaldehyde
186 rdf:type schema:DefinedTerm
187 N7d97033fd736414591f3f6697bc4c83b schema:name doi
188 schema:value 10.1007/s00401-012-1077-2
189 rdf:type schema:PropertyValue
190 N86f5b3dc34084105b29e5d6f415accfd rdf:first sg:person.01216526625.20
191 rdf:rest Nf21c63ec1aa34968b2daf2f7d06ba2db
192 N8c38b39681f34ad1a926a079a8b80d98 schema:name Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK
193 rdf:type schema:Organization
194 N91d60f8bd8f440fda60a54dc8c751f26 schema:issueNumber 3
195 rdf:type schema:PublicationIssue
196 N954724e5aa0a46039081278546b265b9 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
197 schema:name Chromosomes, Human, Pair 17
198 rdf:type schema:DefinedTerm
199 N9764cea6e8d646f2aaf37ae3891cb4d4 rdf:first sg:person.0777752547.21
200 rdf:rest Nca1dc7258672482da10a24b870285a5a
201 N97acb02ea8794850979df3e80d4193fa schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
202 schema:name Reproducibility of Results
203 rdf:type schema:DefinedTerm
204 Na4b29bfeac484d399847fd83e0556789 schema:affiliation N8c38b39681f34ad1a926a079a8b80d98
205 schema:familyName Hamilton
206 schema:givenName Dolores
207 rdf:type schema:Person
208 Na9853d22b64b4c4a9b2f6dddebd004ea schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
209 schema:name Interleukin-8
210 rdf:type schema:DefinedTerm
211 Nac6de278a5c241589e0bef53cc2fa077 rdf:first sg:person.01142014606.50
212 rdf:rest Necd3ce758d384c47b9a101ad04434ca4
213 Nb3c2cb95fbc44e52b4ce606d9f581469 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
214 schema:name Tumor Suppressor Proteins
215 rdf:type schema:DefinedTerm
216 Nc51b89ff7ae24fe6ac66c61521682278 rdf:first sg:person.010563327577.08
217 rdf:rest N316c4262b98746d4bf0578ab966816e2
218 Nc55f18cf9aad4ecc95fc1b08d074fa2e schema:name Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK
219 rdf:type schema:Organization
220 Nc937a0b8a3054e2793fef00af004cf6c schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
221 schema:name Young Adult
222 rdf:type schema:DefinedTerm
223 Nca1dc7258672482da10a24b870285a5a rdf:first sg:person.0733746717.14
224 rdf:rest N0653e73c9d744bfe974264fba55f560d
225 Ncf705ab86ac54b839e463da8b523e020 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
226 schema:name Hedgehog Proteins
227 rdf:type schema:DefinedTerm
228 Nd1de22ce8a644840ba3b355dc664b87f schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
229 schema:name Predictive Value of Tests
230 rdf:type schema:DefinedTerm
231 Nd46c86acd57b4ef39e7fa49cb9962fca schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
232 schema:name Gene Expression Regulation, Neoplastic
233 rdf:type schema:DefinedTerm
234 Nd7f3d14b6c8b4219a5d901b44ff45a06 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
235 schema:name Cohort Studies
236 rdf:type schema:DefinedTerm
237 Nda7ef62a642d4bf89ba68d531ca78b88 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
238 schema:name Biopsy
239 rdf:type schema:DefinedTerm
240 Ndb1c96596b1e438c81df13488df63cb1 rdf:first sg:person.0715313042.78
241 rdf:rest Ne9665b45882746209e4c66a82c3e0f43
242 Ndbd486af748248549a35ae2e7cbb6025 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
243 schema:name Adolescent
244 rdf:type schema:DefinedTerm
245 Ndec97e348d2d4cf394976d050102b29c schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
246 schema:name Female
247 rdf:type schema:DefinedTerm
248 Ne7371f0c068f4dc1877aaaf32a789d6c schema:name Northern Institute for Cancer Research, Newcastle University, Sir James Spence Institute Level 5, Royal Victoria Infirmary, NE1 4LP, Newcastle upon Tyne, UK
249 rdf:type schema:Organization
250 Ne81cbd1c52484322853339cf39ad1571 schema:name Springer Nature - SN SciGraph project
251 rdf:type schema:Organization
252 Ne9665b45882746209e4c66a82c3e0f43 rdf:first sg:person.01166155447.74
253 rdf:rest N148322efcc4f4bf2bcf10c3f9de775cd
254 Necd3ce758d384c47b9a101ad04434ca4 rdf:first sg:person.01265061723.80
255 rdf:rest Nc51b89ff7ae24fe6ac66c61521682278
256 Ned8b72b1b4c54389a1631e1df3850bc0 schema:name readcube_id
257 schema:value 736e7acbf6339c839e5a136545c69e559ffac58a4610db676d4ab18e6c2184e3
258 rdf:type schema:PropertyValue
259 Nedb4e69526724237a00877904bde0087 rdf:first sg:person.0711352500.88
260 rdf:rest N86f5b3dc34084105b29e5d6f415accfd
261 Nf21c63ec1aa34968b2daf2f7d06ba2db rdf:first sg:person.01346765517.08
262 rdf:rest rdf:nil
263 Nf8f11d958f3d4d7db68b79738dca4444 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
264 schema:name Infant
265 rdf:type schema:DefinedTerm
266 anzsrc-for:11 schema:inDefinedTermSet anzsrc-for:
267 schema:name Medical and Health Sciences
268 rdf:type schema:DefinedTerm
269 anzsrc-for:1112 schema:inDefinedTermSet anzsrc-for:
270 schema:name Oncology and Carcinogenesis
271 rdf:type schema:DefinedTerm
272 sg:grant.5134444 http://pending.schema.org/fundedItem sg:pub.10.1007/s00401-012-1077-2
273 rdf:type schema:MonetaryGrant
274 sg:journal.1019073 schema:issn 0001-6322
275 1432-0533
276 schema:name Acta Neuropathologica
277 rdf:type schema:Periodical
278 sg:person.01022024330.02 schema:affiliation https://www.grid.ac/institutes/grid.11804.3c
279 schema:familyName Garami
280 schema:givenName Miklós
281 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01022024330.02
282 rdf:type schema:Person
283 sg:person.01036770224.00 schema:affiliation https://www.grid.ac/institutes/grid.415947.a
284 schema:familyName Taylor
285 schema:givenName Roger E.
286 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01036770224.00
287 rdf:type schema:Person
288 sg:person.01054467240.04 schema:affiliation https://www.grid.ac/institutes/grid.11804.3c
289 schema:familyName Hauser
290 schema:givenName Peter
291 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01054467240.04
292 rdf:type schema:Person
293 sg:person.010563327577.08 schema:affiliation https://www.grid.ac/institutes/grid.42327.30
294 schema:familyName Northcott
295 schema:givenName Paul A.
296 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010563327577.08
297 rdf:type schema:Person
298 sg:person.01142014606.50 schema:affiliation https://www.grid.ac/institutes/grid.413923.e
299 schema:familyName Dembowska-Baginska
300 schema:givenName Bożena
301 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01142014606.50
302 rdf:type schema:Person
303 sg:person.01166155447.74 schema:affiliation N633bdc7c31a54853bab74171dcb8ff3a
304 schema:familyName Williamson
305 schema:givenName Daniel
306 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01166155447.74
307 rdf:type schema:Person
308 sg:person.01216526625.20 schema:affiliation Nc55f18cf9aad4ecc95fc1b08d074fa2e
309 schema:familyName Bailey
310 schema:givenName Simon
311 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01216526625.20
312 rdf:type schema:Person
313 sg:person.01265061723.80 schema:affiliation https://www.grid.ac/institutes/grid.413923.e
314 schema:familyName Perek
315 schema:givenName Danuta
316 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01265061723.80
317 rdf:type schema:Person
318 sg:person.012731463207.92 schema:affiliation https://www.grid.ac/institutes/grid.42327.30
319 schema:familyName Taylor
320 schema:givenName Michael D.
321 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012731463207.92
322 rdf:type schema:Person
323 sg:person.01275011217.25 schema:affiliation N5ce0362afaa3490e84ef84af5c960081
324 schema:familyName Lindsey
325 schema:givenName Janet C.
326 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01275011217.25
327 rdf:type schema:Person
328 sg:person.01346765517.08 schema:affiliation N2e539a4a078e401f98c38956d4f0c3fa
329 schema:familyName Clifford
330 schema:givenName Steven C.
331 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01346765517.08
332 rdf:type schema:Person
333 sg:person.0711352500.88 schema:affiliation https://www.grid.ac/institutes/grid.240871.8
334 schema:familyName Ellison
335 schema:givenName David W.
336 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0711352500.88
337 rdf:type schema:Person
338 sg:person.0715313042.78 schema:affiliation N14fe37aa76ad484d9f04e8b7d683bc62
339 schema:familyName Schwalbe
340 schema:givenName Edward C.
341 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0715313042.78
342 rdf:type schema:Person
343 sg:person.0733746717.14 schema:affiliation N2a53a5ce528349a480ba6dbfaa3c1d7c
344 schema:familyName Megahed
345 schema:givenName Hisham
346 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0733746717.14
347 rdf:type schema:Person
348 sg:person.0777752547.21 schema:affiliation Ne7371f0c068f4dc1877aaaf32a789d6c
349 schema:familyName Ryan
350 schema:givenName Sarra L.
351 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0777752547.21
352 rdf:type schema:Person
353 sg:pub.10.1007/s00401-007-0243-4 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001430701
354 https://doi.org/10.1007/s00401-007-0243-4
355 rdf:type schema:CreativeWork
356 sg:pub.10.1007/s00401-011-0800-8 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044440927
357 https://doi.org/10.1007/s00401-011-0800-8
358 rdf:type schema:CreativeWork
359 sg:pub.10.1007/s00401-011-0899-7 schema:sameAs https://app.dimensions.ai/details/publication/pub.1003857592
360 https://doi.org/10.1007/s00401-011-0899-7
361 rdf:type schema:CreativeWork
362 sg:pub.10.1007/s00401-011-0922-z schema:sameAs https://app.dimensions.ai/details/publication/pub.1012707701
363 https://doi.org/10.1007/s00401-011-0922-z
364 rdf:type schema:CreativeWork
365 sg:pub.10.1007/s00401-011-0923-y schema:sameAs https://app.dimensions.ai/details/publication/pub.1021993381
366 https://doi.org/10.1007/s00401-011-0923-y
367 rdf:type schema:CreativeWork
368 sg:pub.10.1007/s00401-012-0958-8 schema:sameAs https://app.dimensions.ai/details/publication/pub.1007662906
369 https://doi.org/10.1007/s00401-012-0958-8
370 rdf:type schema:CreativeWork
371 sg:pub.10.1038/nature11213 schema:sameAs https://app.dimensions.ai/details/publication/pub.1040240428
372 https://doi.org/10.1038/nature11213
373 rdf:type schema:CreativeWork
374 sg:pub.10.1038/nature11284 schema:sameAs https://app.dimensions.ai/details/publication/pub.1039302414
375 https://doi.org/10.1038/nature11284
376 rdf:type schema:CreativeWork
377 sg:pub.10.1038/nature11329 schema:sameAs https://app.dimensions.ai/details/publication/pub.1036872856
378 https://doi.org/10.1038/nature11329
379 rdf:type schema:CreativeWork
380 sg:pub.10.1038/onc.2010.32 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023727013
381 https://doi.org/10.1038/onc.2010.32
382 rdf:type schema:CreativeWork
383 sg:pub.10.1038/sj.bjc.6603852 schema:sameAs https://app.dimensions.ai/details/publication/pub.1053708989
384 https://doi.org/10.1038/sj.bjc.6603852
385 rdf:type schema:CreativeWork
386 https://doi.org/10.1002/gcc.20262 schema:sameAs https://app.dimensions.ai/details/publication/pub.1021622039
387 rdf:type schema:CreativeWork
388 https://doi.org/10.1002/ijc.25562 schema:sameAs https://app.dimensions.ai/details/publication/pub.1009834454
389 rdf:type schema:CreativeWork
390 https://doi.org/10.1002/pbc.21832 schema:sameAs https://app.dimensions.ai/details/publication/pub.1042056289
391 rdf:type schema:CreativeWork
392 https://doi.org/10.1016/0092-8674(93)90662-a schema:sameAs https://app.dimensions.ai/details/publication/pub.1025312921
393 rdf:type schema:CreativeWork
394 https://doi.org/10.1016/0377-0427(87)90125-7 schema:sameAs https://app.dimensions.ai/details/publication/pub.1041584630
395 rdf:type schema:CreativeWork
396 https://doi.org/10.1016/j.ccr.2010.03.017 schema:sameAs https://app.dimensions.ai/details/publication/pub.1040778422
397 rdf:type schema:CreativeWork
398 https://doi.org/10.1016/j.ejca.2004.12.017 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044354967
399 rdf:type schema:CreativeWork
400 https://doi.org/10.1016/s1470-2045(06)70867-1 schema:sameAs https://app.dimensions.ai/details/publication/pub.1006867503
401 rdf:type schema:CreativeWork
402 https://doi.org/10.1056/nejmoa043331 schema:sameAs https://app.dimensions.ai/details/publication/pub.1029207836
403 rdf:type schema:CreativeWork
404 https://doi.org/10.1073/pnas.0308531101 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001366510
405 rdf:type schema:CreativeWork
406 https://doi.org/10.1073/pnas.0701068104 schema:sameAs https://app.dimensions.ai/details/publication/pub.1047694379
407 rdf:type schema:CreativeWork
408 https://doi.org/10.1073/pnas.0907606106 schema:sameAs https://app.dimensions.ai/details/publication/pub.1035011228
409 rdf:type schema:CreativeWork
410 https://doi.org/10.1080/02688690903121807 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044635291
411 rdf:type schema:CreativeWork
412 https://doi.org/10.1093/bib/bbr001 schema:sameAs https://app.dimensions.ai/details/publication/pub.1038952556
413 rdf:type schema:CreativeWork
414 https://doi.org/10.1093/bioinformatics/btm311 schema:sameAs https://app.dimensions.ai/details/publication/pub.1042939614
415 rdf:type schema:CreativeWork
416 https://doi.org/10.1093/bioinformatics/btn557 schema:sameAs https://app.dimensions.ai/details/publication/pub.1012300204
417 rdf:type schema:CreativeWork
418 https://doi.org/10.1093/carcin/bgh055 schema:sameAs https://app.dimensions.ai/details/publication/pub.1035413434
419 rdf:type schema:CreativeWork
420 https://doi.org/10.1101/gr.4410706 schema:sameAs https://app.dimensions.ai/details/publication/pub.1033075033
421 rdf:type schema:CreativeWork
422 https://doi.org/10.1109/tnb.2005.853657 schema:sameAs https://app.dimensions.ai/details/publication/pub.1061713682
423 rdf:type schema:CreativeWork
424 https://doi.org/10.1111/j.0006-341x.2000.00337.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1043727671
425 rdf:type schema:CreativeWork
426 https://doi.org/10.1126/science.1198056 schema:sameAs https://app.dimensions.ai/details/publication/pub.1030704690
427 rdf:type schema:CreativeWork
428 https://doi.org/10.1148/93.6.1351 schema:sameAs https://app.dimensions.ai/details/publication/pub.1080730833
429 rdf:type schema:CreativeWork
430 https://doi.org/10.1158/0008-5472.can-11-3891 schema:sameAs https://app.dimensions.ai/details/publication/pub.1036527942
431 rdf:type schema:CreativeWork
432 https://doi.org/10.1158/1078-0432.ccr-03-0721 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037968545
433 rdf:type schema:CreativeWork
434 https://doi.org/10.1158/1078-0432.ccr-06-1779 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044240691
435 rdf:type schema:CreativeWork
436 https://doi.org/10.1158/1078-0432.ccr-10-2210 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037754285
437 rdf:type schema:CreativeWork
438 https://doi.org/10.1200/jco.2003.05.116 schema:sameAs https://app.dimensions.ai/details/publication/pub.1064203613
439 rdf:type schema:CreativeWork
440 https://doi.org/10.1200/jco.2004.01.0454 schema:sameAs https://app.dimensions.ai/details/publication/pub.1047041320
441 rdf:type schema:CreativeWork
442 https://doi.org/10.1200/jco.2005.01.5479 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001500983
443 rdf:type schema:CreativeWork
444 https://doi.org/10.1200/jco.2005.04.4974 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011169284
445 rdf:type schema:CreativeWork
446 https://doi.org/10.1200/jco.2008.17.9432 schema:sameAs https://app.dimensions.ai/details/publication/pub.1005423358
447 rdf:type schema:CreativeWork
448 https://doi.org/10.1200/jco.2009.27.4324 schema:sameAs https://app.dimensions.ai/details/publication/pub.1026297279
449 rdf:type schema:CreativeWork
450 https://doi.org/10.1200/jco.2010.28.5148 schema:sameAs https://app.dimensions.ai/details/publication/pub.1049260900
451 rdf:type schema:CreativeWork
452 https://doi.org/10.1200/jco.2010.30.2810 schema:sameAs https://app.dimensions.ai/details/publication/pub.1041847755
453 rdf:type schema:CreativeWork
454 https://doi.org/10.1200/jco.2011.38.5591 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028769760
455 rdf:type schema:CreativeWork
456 https://doi.org/10.1215/15228517-2008-048 schema:sameAs https://app.dimensions.ai/details/publication/pub.1048919367
457 rdf:type schema:CreativeWork
458 https://doi.org/10.1371/journal.pone.0003088 schema:sameAs https://app.dimensions.ai/details/publication/pub.1049915735
459 rdf:type schema:CreativeWork
460 https://doi.org/10.3171/foc.2005.19.5.11 schema:sameAs https://app.dimensions.ai/details/publication/pub.1071085887
461 rdf:type schema:CreativeWork
462 https://doi.org/10.4137/cin.s2846 schema:sameAs https://app.dimensions.ai/details/publication/pub.1077950823
463 rdf:type schema:CreativeWork
464 https://doi.org/10.4161/cc.5.20.3360 schema:sameAs https://app.dimensions.ai/details/publication/pub.1072298666
465 rdf:type schema:CreativeWork
466 https://doi.org/10.4161/cc.5.22.3446 schema:sameAs https://app.dimensions.ai/details/publication/pub.1072298705
467 rdf:type schema:CreativeWork
468 https://www.grid.ac/institutes/grid.11804.3c schema:alternateName Semmelweis University
469 schema:name Department of Paediatrics, Semmelweis University, Budapest, Hungary
470 rdf:type schema:Organization
471 https://www.grid.ac/institutes/grid.240871.8 schema:alternateName St. Jude Children's Research Hospital
472 schema:name Department of Pathology, St. Jude Children’s Research Hospital, Memphis, USA
473 rdf:type schema:Organization
474 https://www.grid.ac/institutes/grid.413923.e schema:alternateName Children's Memorial Health Institute
475 schema:name Department of Pediatric Oncology, The Children’s Memorial Health Institute, Warsaw, Poland
476 rdf:type schema:Organization
477 https://www.grid.ac/institutes/grid.415947.a schema:alternateName Singleton Hospital
478 schema:name South Wales Cancer Centre, Singleton Hospital, Swansea, UK
479 rdf:type schema:Organization
480 https://www.grid.ac/institutes/grid.42327.30 schema:alternateName Hospital for Sick Children
481 schema:name Division of Neurosurgery and The Labatt Brain Tumour Research Centre, Hospital for Sick Children, Toronto, Canada
482 rdf:type schema:Organization
 




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


...