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Unknown,Transcriptomics,Genomics,Proteomics

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Expression data (micro-array, frozen tumors) from various sarcomas

ABSTRACT: We validated the technological and material transfers of the CINSARC signature. We performed both microarray and RNA-seq analysis and compared prognostic values based on the CINSARC classification. We measure significant metastasis-free survivals with both approaches. Additionally, depending on RNA degradation, transcriptomic analysis from FFPE blocks show similar CINSARC classification.

ORGANISM(S): Homo sapiens

SUBMITTER: Tom Lesluyes

PROVIDER: E-GEOD-71118 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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RNA sequencing validation of the Complexity INdex in SARComas prognostic signature.

Lesluyes Tom T Pérot Gaëlle G Largeau Marine Roxane MR Brulard Céline C Lagarde Pauline P Dapremont Valérie V Lucchesi Carlo C Neuville Agnès A Terrier Philippe P Vince-Ranchère Dominique D Mendez-Lago Maria M Gut Marta M Gut Ivo I Coindre Jean-Michel JM Chibon Frédéric F

European journal of cancer (Oxford, England : 1990) 20160223

<h4>Background</h4>Prognosis of metastatic outcome in soft tissue sarcomas is an important clinical challenge since these tumours can be very aggressive (up to 50% of recurring events). A gene expression signature, Complexity INdex in SARComas (CINSARC), has been identified as a better prognostic factor compared to the current international grading system defined by the Fédération Nationale des Centres de Lutte Contre le Cancer. Since CINSARC has been established on frozen tumours analysed by mi ...[more]

PMID: 26916546

Similar Datasets

RNA-seq performed on sarcomas to identify various alterations

Project description:We validated the technological and material transfers of the CINSARC signature. We performed both microarray and RNA-seq analysis and compared prognostic values based on the CINSARC classification. We measure significant metastasis-free survivals with both approaches. Additionally, depending on RNA degradation, transcriptomic analysis from FFPE blocks show similar CINSARC classification.

2016-03-03 | E-GEOD-71119 | biostudies-arrayexpress

RNA-seq performed on FFPE sarcoma blocks

2016-03-03 | E-GEOD-71120 | biostudies-arrayexpress

Expression data (micro-array, frozen tumors) from various sarcomas

Project description:We validated the technological and material transfers of the CINSARC signature.

2016-03-03 | GSE71118 | GEO

RNA-seq performed on sarcomas to identify various alterations

Project description:We validated the technological and material transfers of the CINSARC signature.

2016-03-03 | GSE71119 | GEO

Expression data (micro-array and RNA-seq, frozen tumors and FFPE blocks) from various sarcomas

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2016-03-03 | E-GEOD-71121 | biostudies-arrayexpress

Expression data from 34 Synovial Sarcomas

Project description:Background: Synovial sarcoma (SS) occur in children as well as in adults, although metastatic events are much more common in the latter. Whereas the importance of the t(X;18) translocation in SS oncogenesis is well established, the genetic basis of SS metastasis is still poorly understood. We recently reported expression (CINSARC) and genomic (GI) prognostic signatures related to chromosome integrity in sarcomas and gastrointestinal stromal tumors (GISTs). Here we investigate whether these signatures can also predict outcomes in SS. Methods: One hundred primary untreated SS were selected for expression and genomic profiling in a training/validation approach. Results: CINSARC and GI have strong, independent and validated prognostic values (p<0.0001). Comparing expression profiles of tumors with or without metastasis, 14 genes common with the CINSARC signature were identified and the two top-ranked genes, KIF14 and CDCA2, were validated as prognostic markers in an independent cohort. Comparing genomic profiles of adult vs. pediatric SS, we show that metastasis is associated with genome complexity in both situations and that the adult genome is more frequently rearranged. Accordingly, pediatric patients with an even genomic profile do not develop metastasis. Conclusions: Metastasis development in SS is strongly associated with chromosome complexity, and CINSARC and GI are validated independent prognostic factors. The differences in metastasis frequency between adults and children are associated with genome instability, which is much more frequent in adults. GI is potentially the best overall biomarker, and clearly the most clinically relevant, considering that genome profiling from formalin fixed samples is already used in pathology. 34 Synovial Sarcomas hybridized to Agilent-026652 Whole Human Genome Microarray 4x44K

2014-08-09 | E-GEOD-40018 | biostudies-arrayexpress

Expression data from 58 Synovial Sarcomas

Project description:Background: Synovial sarcoma (SS) occur in children as well as in adults, although metastatic events are much more common in the latter. Whereas the importance of the t(X;18) translocation in SS oncogenesis is well established, the genetic basis of SS metastasis is still poorly understood. We recently reported expression (CINSARC) and genomic (GI) prognostic signatures related to chromosome integrity in sarcomas and gastrointestinal stromal tumors (GISTs). Here we investigate whether these signatures can also predict outcomes in SS. Methods: One hundred primary untreated SS were selected for expression and genomic profiling in a training/validation approach. Results: CINSARC and GI have strong, independent and validated prognostic values (p<0.0001). Comparing expression profiles of tumors with or without metastasis, 14 genes common with the CINSARC signature were identified and the two top-ranked genes, KIF14 and CDCA2, were validated as prognostic markers in an independent cohort. Comparing genomic profiles of adult vs. pediatric SS, we show that metastasis is associated with genome complexity in both situations and that the adult genome is more frequently rearranged. Accordingly, pediatric patients with an even genomic profile do not develop metastasis. Conclusions: Metastasis development in SS is strongly associated with chromosome complexity, and CINSARC and GI are validated independent prognostic factors. The differences in metastasis frequency between adults and children are associated with genome instability, which is much more frequent in adults. GI is potentially the best overall biomarker, and clearly the most clinically relevant, considering that genome profiling from formalin fixed samples is already used in pathology. 58 Synovial Sarcomas hybridized to Agilent-014850 Whole Human Genome Microarray 4x44K G4112F

2014-08-09 | E-GEOD-40021 | biostudies-arrayexpress

Transcription profiling of soft tissue sarcoma: Expression data from Complex genetics sarcomas (cohort 1 and 2)

Project description:For this study, we selected, from the French Sarcoma Group (FSG) database, soft tissue sarcomas with no recurrent chromosomal translocations and for which a frozen tissue of the untreated primary tumor was available. Three hundred and ten sarcomas have been studied. They are split in two cohorts. We used microarrays to detail the global programme of gene expression underlying the tumor biology Every cases has been histologically reviewed by the pathologist subgroup and classified according to the 2002 WHO classification using histology, immunohistochemistry and molecular genetic and cytogenetic when needed

2010-06-30 | E-GEOD-21050 | biostudies-arrayexpress

RNA-seq performed on FFPE sarcoma blocks

Project description:We validated the technological and material transfers of the CINSARC signature.

2016-03-03 | GSE71120 | GEO

Expression data from human soft tissue sarcomas with complex genomics

Project description:Differentially expressed genes between 167 human soft tissue sarcomas with complex genomics RNA extraction was performed on frozen samples of tumors and hybridized on U133 Plus 2.0 Affymetrix microarrays, for which we had performed Comparative Genomic Hybridization profiling. This submission represents the gene expression component of the study.

2010-09-09 | E-GEOD-23980 | biostudies-arrayexpress

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