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Series GSE119926 Query DataSets for GSE119926
Status Public on Jul 30, 2019
Title Single cell RNA-seq analysis of medulloblastoma
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Medulloblastoma is a malignant childhood cerebellar tumour comprised of distinct molecular subgroups. Whereas genomic characteristics of these subgroups are well defined, the extent to which cellular diversity underlies their divergent biology and clinical behaviour remains largely unexplored. We used single-cell transcriptomics to investigate intra- and inter-tumoural heterogeneity in twenty-five medulloblastomas spanning all molecular subgroups. WNT, SHH, and Group 3 tumours comprised subgroup-specific undifferentiated and differentiated neuronal-like malignant populations, whereas Group 4 tumours were exclusively comprised of differentiated neuronal-like neoplastic cells. SHH tumours closely resembled granule neurons of varying differentiation states that correlated with patient age. Group 3 and Group 4 tumours exhibited a developmental trajectory from primitive progenitor-like to more mature neuronal-like cells, whose relative proportions distinguished these subgroups. Cross-species transcriptomics defined distinct glutamatergic populations as putative cells-of-origin for SHH and Group 4 subtypes. Collectively, these data provide novel insights into the cellular and developmental states underlying subtype-specific medulloblastoma biology.
Overall design We prospectively obtained fresh surgical resections from a series of twenty-five MB patients, including 23 diagnostic samples and two recurrences, and eleven patient-derived xenograft (PDX) models. Samples were obtained as fresh tumour biopsies from three different treating centers, including LeBonheur Children?s Hospital (n=12), Boston Children?s Hospital (n=4), and Vienna General Hospital (n=9). Patients were predominantly male (19 males vs. 6 females) and ages ranged from 3-17 years (median=9 years). Classic (n=16), large-cell/anaplastic (n=6), and desmoplastic/nodular (n=3) histologies were included in our series and there was an abundance of patients with metastatic disease (16/25, 64%).
Contributor(s) Hovestadt V, Smith KS, Bihannic L, Filbin MG, Bernstein BE, Suva ML, Northcott PA
Citation(s) 31341285
Submission date Sep 13, 2018
Last update date Jul 30, 2019
Contact name Volker Hovestadt
Organization name Dana-Farber Cancer Institute
Department Pediatric Oncology
Lab Hovestadt lab
Street address 360 Longwood Avenue
City Boston
State/province MA
ZIP/Postal code 02215
Country USA
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (36)
GSM3905406 BCH807
GSM3905407 BCH825
GSM3905408 BCH1031
BioProject PRJNA490728

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Supplementary file Size Download File type/resource
GSE119926_RAW.tar 120.5 Mb (http)(custom) TAR (of TXT)
Processed data provided as supplementary file
Raw data not provided for this record

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