Genomic Grade Index predicts postoperative clinical outcome of GIST View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2012-08-28

AUTHORS

F Bertucci, P Finetti, J Ostrowski, W K Kim, H Kim, M A Pantaleo, A Astolfi, M Polkowski, D Birnbaum

ABSTRACT

BACKGROUND: Prognosis of localised gastrointestinal stromal tumour (GIST) is heterogeneous, notably for patients with AFIP intermediate or high risk of relapse, who are candidates to adjuvant imatinib. We hypothesised that gene expression profiles might improve the prognostication and help to refine the indications for imatinib. METHODS: We collected gene expression and histoclinical data of 146 pre-treatment localised GIST samples treated with surgery alone. We searched for a gene expression signature (GES) predictive for relapse-free survival (RFS) and compared its performances to that of three published prognostic proliferation-based GES (Genomic Grade Index (GGI), 16-Kinase, and CINSARC) and AFIP classification. We also analysed a data set from 28 patients with advanced GIST treated with neo-adjuvant imatinib. RESULTS: We identified a 275-gene GES (gene expression signature) predictive of RFS in a learning set and validated its robustness in an independent set. However, the GGI outperformed its prognostic performances, and those of the two other signatures and the AFIP intermediate-risk classification in two independent tests sets in uni- and multivariate analyses. Importantly, GGI could split the AFIP intermediate/high-risk samples into two groups with different RFS. Genomic Grade Index 'high-risk' tumours were more proliferative and genetically unstable than 'low-risk' tumours, and more sensitive to imatinib. CONCLUSION: GGI refines the prediction of RFS in localised GIST and might help tailor adjuvant imatinib. More... »

PAGES

1433-1441

References to SciGraph publications

  • 2010-07-02. Cyclin H expression is increased in GIST with very-high risk of malignancy in BMC CANCER
  • 2009-11-27. Functional features of gene expression profiles differentiating gastrointestinal stromal tumours according to KIT mutations and expression in BMC CANCER
  • 2011-01-07. Navigating Risk Stratification Systems for the Management of Patients With GIST in ANNALS OF SURGICAL ONCOLOGY
  • 2004-08-23. Gastrointestinal stromal tumors (GISTs) with KIT and PDGFRA mutations have distinct gene expression profiles in ONCOGENE
  • 2006-08-20. A signature of chromosomal instability inferred from gene expression profiles predicts clinical outcome in multiple human cancers in NATURE GENETICS
  • 2011-12-22. Expression level of the mitotic checkpoint protein and G2–M cell cycle regulators and prognosis in gastrointestinal stromal tumors in the stomach in VIRCHOWS ARCHIV
  • 2011-11-17. Gastrointestinal stromal tumours: origin and molecular oncology in NATURE REVIEWS CANCER
  • 2010-06-27. Validated prediction of clinical outcome in sarcomas and multiple types of cancer on the basis of a gene expression signature related to genome complexity in NATURE MEDICINE
  • 2004-12-27. Correlation of KIT and platelet-derived growth factor receptor α mutations with gene activation and expression profiles in gastrointestinal stromal tumors in ONCOGENE
  • 2010-10-03. ETV1 is a lineage-specific survival factor in GIST and cooperates with KIT in oncogenesis in NATURE
  • 2007-03-02. Prognostic significance of angiogenesis in gastrointestinal stromal tumor in MODERN PATHOLOGY
  • 2010-06-14. A molecular portrait of gastrointestinal stromal tumors: an integrative analysis of gene expression profiling and high-resolution genomic copy number in LABORATORY INVESTIGATION
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/bjc.2012.390

    DOI

    http://dx.doi.org/10.1038/bjc.2012.390

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1026371552

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/22929880


    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/2008/11", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Medical and Health Sciences", 
            "type": "DefinedTerm"
          }, 
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/1112", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Oncology and Carcinogenesis", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Antineoplastic Agents", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Benzamides", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Female", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Gastrointestinal Stromal Tumors", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Gene Expression Profiling", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Humans", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Imatinib Mesylate", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Male", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Middle Aged", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Oligonucleotide Array Sequence Analysis", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Piperazines", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Prognosis", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Pyrimidines", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Treatment Outcome", 
            "type": "DefinedTerm"
          }
        ], 
        "author": [
          {
            "affiliation": {
              "alternateName": "Aix-Marseille University, Marseille, France", 
              "id": "http://www.grid.ac/institutes/grid.5399.6", 
              "name": [
                "Department of Molecular Oncology, Centre de Recherche en Canc\u00e9rologie de Marseille; UMR1068 Inserm; Institut Paoli-Calmettes, 232 Boulevard Sainte Marguerite, 13273 Marseille Cedex 09, France", 
                "Department of Medical Oncology, Institut Paoli-Calmettes, Centre de Recherche en Canc\u00e9rologie de Marseille, UMR1068 Inserm, Marseille, France", 
                "Aix-Marseille University, Marseille, France"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Bertucci", 
            "givenName": "F", 
            "id": "sg:person.01272664766.28", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01272664766.28"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Department of Molecular Oncology, Centre de Recherche en Canc\u00e9rologie de Marseille; UMR1068 Inserm; Institut Paoli-Calmettes, 232 Boulevard Sainte Marguerite, 13273 Marseille Cedex 09, France", 
              "id": "http://www.grid.ac/institutes/grid.463833.9", 
              "name": [
                "Department of Molecular Oncology, Centre de Recherche en Canc\u00e9rologie de Marseille; UMR1068 Inserm; Institut Paoli-Calmettes, 232 Boulevard Sainte Marguerite, 13273 Marseille Cedex 09, France"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Finetti", 
            "givenName": "P", 
            "id": "sg:person.01357247355.37", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01357247355.37"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Department of Oncological Genetics, M Sklodowska-Curie Memorial Cancer Center and Institute of Oncology, Warsaw, Poland", 
              "id": "http://www.grid.ac/institutes/grid.418165.f", 
              "name": [
                "Department of Oncological Genetics, M Sklodowska-Curie Memorial Cancer Center and Institute of Oncology, Warsaw, Poland"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Ostrowski", 
            "givenName": "J", 
            "id": "sg:person.01120523416.17", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01120523416.17"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Department of Pathology, Yonsei University College of Medicine, Seoul, Korea", 
              "id": "http://www.grid.ac/institutes/grid.15444.30", 
              "name": [
                "Department of Pathology, Yonsei University College of Medicine, Seoul, Korea"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Kim", 
            "givenName": "W K", 
            "id": "sg:person.01334532177.81", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01334532177.81"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Department of Pathology, Yonsei University College of Medicine, Seoul, Korea", 
              "id": "http://www.grid.ac/institutes/grid.15444.30", 
              "name": [
                "Department of Pathology, Yonsei University College of Medicine, Seoul, Korea"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Kim", 
            "givenName": "H", 
            "id": "sg:person.01061166771.52", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01061166771.52"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Department of Hematology and Oncological Sciences, L.A. Seragnoli, S. Orsola-Malpighi Hospital, University of Bologna, Bologna, Italy", 
              "id": "http://www.grid.ac/institutes/grid.412311.4", 
              "name": [
                "Department of Hematology and Oncological Sciences, L.A. Seragnoli, S. Orsola-Malpighi Hospital, University of Bologna, Bologna, Italy"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Pantaleo", 
            "givenName": "M A", 
            "id": "sg:person.0751443270.07", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0751443270.07"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Interdepartmental Centre for Cancer Research G. Prodi, University of Bologna, Bologna, Italy", 
              "id": "http://www.grid.ac/institutes/grid.6292.f", 
              "name": [
                "Interdepartmental Centre for Cancer Research G. Prodi, University of Bologna, Bologna, Italy"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Astolfi", 
            "givenName": "A", 
            "id": "sg:person.01267317466.38", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01267317466.38"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Department of Gastroenterology, Medical Center of Postgraduate Education, Warsaw, Poland", 
              "id": "http://www.grid.ac/institutes/grid.414852.e", 
              "name": [
                "Department of Gastroenterology, Medical Center of Postgraduate Education, Warsaw, Poland"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Polkowski", 
            "givenName": "M", 
            "id": "sg:person.0763336315.33", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0763336315.33"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Department of Molecular Oncology, Centre de Recherche en Canc\u00e9rologie de Marseille; UMR1068 Inserm; Institut Paoli-Calmettes, 232 Boulevard Sainte Marguerite, 13273 Marseille Cedex 09, France", 
              "id": "http://www.grid.ac/institutes/grid.463833.9", 
              "name": [
                "Department of Molecular Oncology, Centre de Recherche en Canc\u00e9rologie de Marseille; UMR1068 Inserm; Institut Paoli-Calmettes, 232 Boulevard Sainte Marguerite, 13273 Marseille Cedex 09, France"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Birnbaum", 
            "givenName": "D", 
            "id": "sg:person.0765700532.63", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0765700532.63"
            ], 
            "type": "Person"
          }
        ], 
        "citation": [
          {
            "id": "sg:pub.10.1245/s10434-010-1496-z", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1028394070", 
              "https://doi.org/10.1245/s10434-010-1496-z"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/labinvest.2010.110", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1040342796", 
              "https://doi.org/10.1038/labinvest.2010.110"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature09409", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1004547160", 
              "https://doi.org/10.1038/nature09409"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2407-10-350", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1051500259", 
              "https://doi.org/10.1186/1471-2407-10-350"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/sj.onc.1208056", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1042100427", 
              "https://doi.org/10.1038/sj.onc.1208056"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/modpathol.3800767", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1044495580", 
              "https://doi.org/10.1038/modpathol.3800767"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nrc3143", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1020858724", 
              "https://doi.org/10.1038/nrc3143"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nm.2174", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1033770657", 
              "https://doi.org/10.1038/nm.2174"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/ng1861", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1016534738", 
              "https://doi.org/10.1038/ng1861"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/sj.onc.1208358", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1011632668", 
              "https://doi.org/10.1038/sj.onc.1208358"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2407-9-413", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1011190244", 
              "https://doi.org/10.1186/1471-2407-9-413"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1007/s00428-011-1181-z", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1005828168", 
              "https://doi.org/10.1007/s00428-011-1181-z"
            ], 
            "type": "CreativeWork"
          }
        ], 
        "datePublished": "2012-08-28", 
        "datePublishedReg": "2012-08-28", 
        "description": "BACKGROUND: Prognosis of localised gastrointestinal stromal tumour (GIST) is heterogeneous, notably for patients with AFIP intermediate or high risk of relapse, who are candidates to adjuvant imatinib. We hypothesised that gene expression profiles might improve the prognostication and help to refine the indications for imatinib.\nMETHODS: We collected gene expression and histoclinical data of 146 pre-treatment localised GIST samples treated with surgery alone. We searched for a gene expression signature (GES) predictive for relapse-free survival (RFS) and compared its performances to that of three published prognostic proliferation-based GES (Genomic Grade Index (GGI), 16-Kinase, and CINSARC) and AFIP classification. We also analysed a data set from 28 patients with advanced GIST treated with neo-adjuvant imatinib.\nRESULTS: We identified a 275-gene GES (gene expression signature) predictive of RFS in a learning set and validated its robustness in an independent set. However, the GGI outperformed its prognostic performances, and those of the two other signatures and the AFIP intermediate-risk classification in two independent tests sets in uni- and multivariate analyses. Importantly, GGI could split the AFIP intermediate/high-risk samples into two groups with different RFS. Genomic Grade Index 'high-risk' tumours were more proliferative and genetically unstable than 'low-risk' tumours, and more sensitive to imatinib.\nCONCLUSION: GGI refines the prediction of RFS in localised GIST and might help tailor adjuvant imatinib.", 
        "genre": "article", 
        "id": "sg:pub.10.1038/bjc.2012.390", 
        "inLanguage": "en", 
        "isAccessibleForFree": true, 
        "isPartOf": [
          {
            "id": "sg:journal.1017082", 
            "issn": [
              "0007-0920", 
              "1532-1827"
            ], 
            "name": "British Journal of Cancer", 
            "publisher": "Springer Nature", 
            "type": "Periodical"
          }, 
          {
            "issueNumber": "8", 
            "type": "PublicationIssue"
          }, 
          {
            "type": "PublicationVolume", 
            "volumeNumber": "107"
          }
        ], 
        "keywords": [
          "relapse-free survival", 
          "gastrointestinal stromal tumors", 
          "genomic grade index", 
          "gene expression signatures", 
          "adjuvant imatinib", 
          "prediction of RFS", 
          "advanced gastrointestinal stromal tumors", 
          "postoperative clinical outcomes", 
          "different relapse-free survival", 
          "intermediate risk classification", 
          "AFIP classification", 
          "stromal tumors", 
          "clinical outcomes", 
          "high-risk sample", 
          "histoclinical data", 
          "prognostic performance", 
          "high risk", 
          "imatinib", 
          "GIST samples", 
          "tumors", 
          "expression signatures", 
          "patients", 
          "gene expression profiles", 
          "AFIP", 
          "expression profiles", 
          "grade index", 
          "gene expression", 
          "relapse", 
          "prognosis", 
          "surgery", 
          "prognostication", 
          "index", 
          "survival", 
          "outcomes", 
          "risk", 
          "indications", 
          "group", 
          "expression", 
          "independent test set", 
          "samples", 
          "data", 
          "classification", 
          "GGI", 
          "profile", 
          "candidates", 
          "analysis", 
          "signatures", 
          "independent set", 
          "test set", 
          "performance", 
          "prediction", 
          "learning", 
          "set", 
          "robustness", 
          "prognostic proliferation-based GES", 
          "proliferation-based GES", 
          "neo-adjuvant imatinib", 
          "AFIP intermediate-risk classification"
        ], 
        "name": "Genomic Grade Index predicts postoperative clinical outcome of GIST", 
        "pagination": "1433-1441", 
        "productId": [
          {
            "name": "dimensions_id", 
            "type": "PropertyValue", 
            "value": [
              "pub.1026371552"
            ]
          }, 
          {
            "name": "doi", 
            "type": "PropertyValue", 
            "value": [
              "10.1038/bjc.2012.390"
            ]
          }, 
          {
            "name": "pubmed_id", 
            "type": "PropertyValue", 
            "value": [
              "22929880"
            ]
          }
        ], 
        "sameAs": [
          "https://doi.org/10.1038/bjc.2012.390", 
          "https://app.dimensions.ai/details/publication/pub.1026371552"
        ], 
        "sdDataset": "articles", 
        "sdDatePublished": "2022-01-01T18:29", 
        "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
        "sdPublisher": {
          "name": "Springer Nature - SN SciGraph project", 
          "type": "Organization"
        }, 
        "sdSource": "s3://com-springernature-scigraph/baseset/20220101/entities/gbq_results/article/article_582.jsonl", 
        "type": "ScholarlyArticle", 
        "url": "https://doi.org/10.1038/bjc.2012.390"
      }
    ]
     

    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/bjc.2012.390'

    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/bjc.2012.390'

    Turtle is a human-readable linked data format.

    curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/bjc.2012.390'

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

    curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/bjc.2012.390'


     

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

    300 TRIPLES      22 PREDICATES      110 URIs      90 LITERALS      21 BLANK NODES

    Subject Predicate Object
    1 sg:pub.10.1038/bjc.2012.390 schema:about N01afa861774e4e059d964b3332669793
    2 N2435475a508c4a11b04f729cdd06e5c1
    3 N4550877a713a489888c54fca0f9e530a
    4 N4d083ace2dc941888c28399009d77066
    5 N6e0eb9840db4456c9dff128a7ad81ecd
    6 N7c62a796e5974d3e97c41ede8b341695
    7 N80d2d9d371e64e6b860b030b67b7d07b
    8 N9e07d0c9078f4902916fe77788352d20
    9 N9e3718bc6c35485c86b6c39c0840dc19
    10 Na424b6a24472456a870b9ece116c968a
    11 Nb35e8dc079084e8ab57bb7e804e19473
    12 Ncbf9fffec53c4eddadfbb355444b8ba0
    13 Neef56a19e9674056ab0e9f8f56fcf1dd
    14 Nef71afb1d63a4bc293e64f57acb83079
    15 anzsrc-for:11
    16 anzsrc-for:1112
    17 schema:author N856c00769eb04695ba86f26689fe370b
    18 schema:citation sg:pub.10.1007/s00428-011-1181-z
    19 sg:pub.10.1038/labinvest.2010.110
    20 sg:pub.10.1038/modpathol.3800767
    21 sg:pub.10.1038/nature09409
    22 sg:pub.10.1038/ng1861
    23 sg:pub.10.1038/nm.2174
    24 sg:pub.10.1038/nrc3143
    25 sg:pub.10.1038/sj.onc.1208056
    26 sg:pub.10.1038/sj.onc.1208358
    27 sg:pub.10.1186/1471-2407-10-350
    28 sg:pub.10.1186/1471-2407-9-413
    29 sg:pub.10.1245/s10434-010-1496-z
    30 schema:datePublished 2012-08-28
    31 schema:datePublishedReg 2012-08-28
    32 schema:description BACKGROUND: Prognosis of localised gastrointestinal stromal tumour (GIST) is heterogeneous, notably for patients with AFIP intermediate or high risk of relapse, who are candidates to adjuvant imatinib. We hypothesised that gene expression profiles might improve the prognostication and help to refine the indications for imatinib. METHODS: We collected gene expression and histoclinical data of 146 pre-treatment localised GIST samples treated with surgery alone. We searched for a gene expression signature (GES) predictive for relapse-free survival (RFS) and compared its performances to that of three published prognostic proliferation-based GES (Genomic Grade Index (GGI), 16-Kinase, and CINSARC) and AFIP classification. We also analysed a data set from 28 patients with advanced GIST treated with neo-adjuvant imatinib. RESULTS: We identified a 275-gene GES (gene expression signature) predictive of RFS in a learning set and validated its robustness in an independent set. However, the GGI outperformed its prognostic performances, and those of the two other signatures and the AFIP intermediate-risk classification in two independent tests sets in uni- and multivariate analyses. Importantly, GGI could split the AFIP intermediate/high-risk samples into two groups with different RFS. Genomic Grade Index 'high-risk' tumours were more proliferative and genetically unstable than 'low-risk' tumours, and more sensitive to imatinib. CONCLUSION: GGI refines the prediction of RFS in localised GIST and might help tailor adjuvant imatinib.
    33 schema:genre article
    34 schema:inLanguage en
    35 schema:isAccessibleForFree true
    36 schema:isPartOf N2ea53a677b404942842ad2c154273eac
    37 N904d71a781dc4a47a62405f6fc2da3d5
    38 sg:journal.1017082
    39 schema:keywords AFIP
    40 AFIP classification
    41 AFIP intermediate-risk classification
    42 GGI
    43 GIST samples
    44 adjuvant imatinib
    45 advanced gastrointestinal stromal tumors
    46 analysis
    47 candidates
    48 classification
    49 clinical outcomes
    50 data
    51 different relapse-free survival
    52 expression
    53 expression profiles
    54 expression signatures
    55 gastrointestinal stromal tumors
    56 gene expression
    57 gene expression profiles
    58 gene expression signatures
    59 genomic grade index
    60 grade index
    61 group
    62 high risk
    63 high-risk sample
    64 histoclinical data
    65 imatinib
    66 independent set
    67 independent test set
    68 index
    69 indications
    70 intermediate risk classification
    71 learning
    72 neo-adjuvant imatinib
    73 outcomes
    74 patients
    75 performance
    76 postoperative clinical outcomes
    77 prediction
    78 prediction of RFS
    79 profile
    80 prognosis
    81 prognostic performance
    82 prognostic proliferation-based GES
    83 prognostication
    84 proliferation-based GES
    85 relapse
    86 relapse-free survival
    87 risk
    88 robustness
    89 samples
    90 set
    91 signatures
    92 stromal tumors
    93 surgery
    94 survival
    95 test set
    96 tumors
    97 schema:name Genomic Grade Index predicts postoperative clinical outcome of GIST
    98 schema:pagination 1433-1441
    99 schema:productId N2179ad65dcdf40adb808fe7a2c39c6e1
    100 N5168816087414c8f87e50c0975ae5052
    101 N833c88fbb99e4d51957a9e593bd60aaf
    102 schema:sameAs https://app.dimensions.ai/details/publication/pub.1026371552
    103 https://doi.org/10.1038/bjc.2012.390
    104 schema:sdDatePublished 2022-01-01T18:29
    105 schema:sdLicense https://scigraph.springernature.com/explorer/license/
    106 schema:sdPublisher N558233a825304adea4e03c5d129972d7
    107 schema:url https://doi.org/10.1038/bjc.2012.390
    108 sgo:license sg:explorer/license/
    109 sgo:sdDataset articles
    110 rdf:type schema:ScholarlyArticle
    111 N01afa861774e4e059d964b3332669793 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    112 schema:name Gene Expression Profiling
    113 rdf:type schema:DefinedTerm
    114 N070476bc339142ea87f84d464e59484f rdf:first sg:person.0765700532.63
    115 rdf:rest rdf:nil
    116 N2179ad65dcdf40adb808fe7a2c39c6e1 schema:name dimensions_id
    117 schema:value pub.1026371552
    118 rdf:type schema:PropertyValue
    119 N2435475a508c4a11b04f729cdd06e5c1 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    120 schema:name Oligonucleotide Array Sequence Analysis
    121 rdf:type schema:DefinedTerm
    122 N27ed980cdec0493dbe2e7c7fc18c3419 rdf:first sg:person.01061166771.52
    123 rdf:rest Na8724e0b31554d3ba39d1392eca1ca63
    124 N2ea53a677b404942842ad2c154273eac schema:issueNumber 8
    125 rdf:type schema:PublicationIssue
    126 N3699ea5f8c5b405d8d9514bfb35f24ad rdf:first sg:person.01334532177.81
    127 rdf:rest N27ed980cdec0493dbe2e7c7fc18c3419
    128 N443cc952be734cf69af341c963a12efc rdf:first sg:person.01120523416.17
    129 rdf:rest N3699ea5f8c5b405d8d9514bfb35f24ad
    130 N4550877a713a489888c54fca0f9e530a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    131 schema:name Prognosis
    132 rdf:type schema:DefinedTerm
    133 N4d083ace2dc941888c28399009d77066 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    134 schema:name Benzamides
    135 rdf:type schema:DefinedTerm
    136 N5168816087414c8f87e50c0975ae5052 schema:name doi
    137 schema:value 10.1038/bjc.2012.390
    138 rdf:type schema:PropertyValue
    139 N558233a825304adea4e03c5d129972d7 schema:name Springer Nature - SN SciGraph project
    140 rdf:type schema:Organization
    141 N661a653056ff407c9f198e4b39472ec0 rdf:first sg:person.01357247355.37
    142 rdf:rest N443cc952be734cf69af341c963a12efc
    143 N6bcb40182ca3445c97ade2a387ea2ec9 rdf:first sg:person.0763336315.33
    144 rdf:rest N070476bc339142ea87f84d464e59484f
    145 N6e0eb9840db4456c9dff128a7ad81ecd schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    146 schema:name Middle Aged
    147 rdf:type schema:DefinedTerm
    148 N7c62a796e5974d3e97c41ede8b341695 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    149 schema:name Pyrimidines
    150 rdf:type schema:DefinedTerm
    151 N7f38c6cb6a9640e3ac87995d1737fc25 rdf:first sg:person.01267317466.38
    152 rdf:rest N6bcb40182ca3445c97ade2a387ea2ec9
    153 N80d2d9d371e64e6b860b030b67b7d07b schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    154 schema:name Imatinib Mesylate
    155 rdf:type schema:DefinedTerm
    156 N833c88fbb99e4d51957a9e593bd60aaf schema:name pubmed_id
    157 schema:value 22929880
    158 rdf:type schema:PropertyValue
    159 N856c00769eb04695ba86f26689fe370b rdf:first sg:person.01272664766.28
    160 rdf:rest N661a653056ff407c9f198e4b39472ec0
    161 N904d71a781dc4a47a62405f6fc2da3d5 schema:volumeNumber 107
    162 rdf:type schema:PublicationVolume
    163 N9e07d0c9078f4902916fe77788352d20 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    164 schema:name Humans
    165 rdf:type schema:DefinedTerm
    166 N9e3718bc6c35485c86b6c39c0840dc19 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    167 schema:name Female
    168 rdf:type schema:DefinedTerm
    169 Na424b6a24472456a870b9ece116c968a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    170 schema:name Treatment Outcome
    171 rdf:type schema:DefinedTerm
    172 Na8724e0b31554d3ba39d1392eca1ca63 rdf:first sg:person.0751443270.07
    173 rdf:rest N7f38c6cb6a9640e3ac87995d1737fc25
    174 Nb35e8dc079084e8ab57bb7e804e19473 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    175 schema:name Piperazines
    176 rdf:type schema:DefinedTerm
    177 Ncbf9fffec53c4eddadfbb355444b8ba0 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    178 schema:name Antineoplastic Agents
    179 rdf:type schema:DefinedTerm
    180 Neef56a19e9674056ab0e9f8f56fcf1dd schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    181 schema:name Male
    182 rdf:type schema:DefinedTerm
    183 Nef71afb1d63a4bc293e64f57acb83079 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    184 schema:name Gastrointestinal Stromal Tumors
    185 rdf:type schema:DefinedTerm
    186 anzsrc-for:11 schema:inDefinedTermSet anzsrc-for:
    187 schema:name Medical and Health Sciences
    188 rdf:type schema:DefinedTerm
    189 anzsrc-for:1112 schema:inDefinedTermSet anzsrc-for:
    190 schema:name Oncology and Carcinogenesis
    191 rdf:type schema:DefinedTerm
    192 sg:journal.1017082 schema:issn 0007-0920
    193 1532-1827
    194 schema:name British Journal of Cancer
    195 schema:publisher Springer Nature
    196 rdf:type schema:Periodical
    197 sg:person.01061166771.52 schema:affiliation grid-institutes:grid.15444.30
    198 schema:familyName Kim
    199 schema:givenName H
    200 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01061166771.52
    201 rdf:type schema:Person
    202 sg:person.01120523416.17 schema:affiliation grid-institutes:grid.418165.f
    203 schema:familyName Ostrowski
    204 schema:givenName J
    205 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01120523416.17
    206 rdf:type schema:Person
    207 sg:person.01267317466.38 schema:affiliation grid-institutes:grid.6292.f
    208 schema:familyName Astolfi
    209 schema:givenName A
    210 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01267317466.38
    211 rdf:type schema:Person
    212 sg:person.01272664766.28 schema:affiliation grid-institutes:grid.5399.6
    213 schema:familyName Bertucci
    214 schema:givenName F
    215 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01272664766.28
    216 rdf:type schema:Person
    217 sg:person.01334532177.81 schema:affiliation grid-institutes:grid.15444.30
    218 schema:familyName Kim
    219 schema:givenName W K
    220 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01334532177.81
    221 rdf:type schema:Person
    222 sg:person.01357247355.37 schema:affiliation grid-institutes:grid.463833.9
    223 schema:familyName Finetti
    224 schema:givenName P
    225 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01357247355.37
    226 rdf:type schema:Person
    227 sg:person.0751443270.07 schema:affiliation grid-institutes:grid.412311.4
    228 schema:familyName Pantaleo
    229 schema:givenName M A
    230 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0751443270.07
    231 rdf:type schema:Person
    232 sg:person.0763336315.33 schema:affiliation grid-institutes:grid.414852.e
    233 schema:familyName Polkowski
    234 schema:givenName M
    235 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0763336315.33
    236 rdf:type schema:Person
    237 sg:person.0765700532.63 schema:affiliation grid-institutes:grid.463833.9
    238 schema:familyName Birnbaum
    239 schema:givenName D
    240 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0765700532.63
    241 rdf:type schema:Person
    242 sg:pub.10.1007/s00428-011-1181-z schema:sameAs https://app.dimensions.ai/details/publication/pub.1005828168
    243 https://doi.org/10.1007/s00428-011-1181-z
    244 rdf:type schema:CreativeWork
    245 sg:pub.10.1038/labinvest.2010.110 schema:sameAs https://app.dimensions.ai/details/publication/pub.1040342796
    246 https://doi.org/10.1038/labinvest.2010.110
    247 rdf:type schema:CreativeWork
    248 sg:pub.10.1038/modpathol.3800767 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044495580
    249 https://doi.org/10.1038/modpathol.3800767
    250 rdf:type schema:CreativeWork
    251 sg:pub.10.1038/nature09409 schema:sameAs https://app.dimensions.ai/details/publication/pub.1004547160
    252 https://doi.org/10.1038/nature09409
    253 rdf:type schema:CreativeWork
    254 sg:pub.10.1038/ng1861 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016534738
    255 https://doi.org/10.1038/ng1861
    256 rdf:type schema:CreativeWork
    257 sg:pub.10.1038/nm.2174 schema:sameAs https://app.dimensions.ai/details/publication/pub.1033770657
    258 https://doi.org/10.1038/nm.2174
    259 rdf:type schema:CreativeWork
    260 sg:pub.10.1038/nrc3143 schema:sameAs https://app.dimensions.ai/details/publication/pub.1020858724
    261 https://doi.org/10.1038/nrc3143
    262 rdf:type schema:CreativeWork
    263 sg:pub.10.1038/sj.onc.1208056 schema:sameAs https://app.dimensions.ai/details/publication/pub.1042100427
    264 https://doi.org/10.1038/sj.onc.1208056
    265 rdf:type schema:CreativeWork
    266 sg:pub.10.1038/sj.onc.1208358 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011632668
    267 https://doi.org/10.1038/sj.onc.1208358
    268 rdf:type schema:CreativeWork
    269 sg:pub.10.1186/1471-2407-10-350 schema:sameAs https://app.dimensions.ai/details/publication/pub.1051500259
    270 https://doi.org/10.1186/1471-2407-10-350
    271 rdf:type schema:CreativeWork
    272 sg:pub.10.1186/1471-2407-9-413 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011190244
    273 https://doi.org/10.1186/1471-2407-9-413
    274 rdf:type schema:CreativeWork
    275 sg:pub.10.1245/s10434-010-1496-z schema:sameAs https://app.dimensions.ai/details/publication/pub.1028394070
    276 https://doi.org/10.1245/s10434-010-1496-z
    277 rdf:type schema:CreativeWork
    278 grid-institutes:grid.15444.30 schema:alternateName Department of Pathology, Yonsei University College of Medicine, Seoul, Korea
    279 schema:name Department of Pathology, Yonsei University College of Medicine, Seoul, Korea
    280 rdf:type schema:Organization
    281 grid-institutes:grid.412311.4 schema:alternateName Department of Hematology and Oncological Sciences, L.A. Seragnoli, S. Orsola-Malpighi Hospital, University of Bologna, Bologna, Italy
    282 schema:name Department of Hematology and Oncological Sciences, L.A. Seragnoli, S. Orsola-Malpighi Hospital, University of Bologna, Bologna, Italy
    283 rdf:type schema:Organization
    284 grid-institutes:grid.414852.e schema:alternateName Department of Gastroenterology, Medical Center of Postgraduate Education, Warsaw, Poland
    285 schema:name Department of Gastroenterology, Medical Center of Postgraduate Education, Warsaw, Poland
    286 rdf:type schema:Organization
    287 grid-institutes:grid.418165.f schema:alternateName Department of Oncological Genetics, M Sklodowska-Curie Memorial Cancer Center and Institute of Oncology, Warsaw, Poland
    288 schema:name Department of Oncological Genetics, M Sklodowska-Curie Memorial Cancer Center and Institute of Oncology, Warsaw, Poland
    289 rdf:type schema:Organization
    290 grid-institutes:grid.463833.9 schema:alternateName Department of Molecular Oncology, Centre de Recherche en Cancérologie de Marseille; UMR1068 Inserm; Institut Paoli-Calmettes, 232 Boulevard Sainte Marguerite, 13273 Marseille Cedex 09, France
    291 schema:name Department of Molecular Oncology, Centre de Recherche en Cancérologie de Marseille; UMR1068 Inserm; Institut Paoli-Calmettes, 232 Boulevard Sainte Marguerite, 13273 Marseille Cedex 09, France
    292 rdf:type schema:Organization
    293 grid-institutes:grid.5399.6 schema:alternateName Aix-Marseille University, Marseille, France
    294 schema:name Aix-Marseille University, Marseille, France
    295 Department of Medical Oncology, Institut Paoli-Calmettes, Centre de Recherche en Cancérologie de Marseille, UMR1068 Inserm, Marseille, France
    296 Department of Molecular Oncology, Centre de Recherche en Cancérologie de Marseille; UMR1068 Inserm; Institut Paoli-Calmettes, 232 Boulevard Sainte Marguerite, 13273 Marseille Cedex 09, France
    297 rdf:type schema:Organization
    298 grid-institutes:grid.6292.f schema:alternateName Interdepartmental Centre for Cancer Research G. Prodi, University of Bologna, Bologna, Italy
    299 schema:name Interdepartmental Centre for Cancer Research G. Prodi, University of Bologna, Bologna, Italy
    300 rdf:type schema:Organization
     




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


    ...