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Results Found: 11
  • TMB and Immunotherapy (MSKCC, Nat Genet 2019): Genomic and survival data from 1661 tumor-normal pairs from 1661 patients with various cancer types sequenced with the MSK-IMPACT assay.

    Description

    This dataset contains summary data visualizations and clinical data from a broad sampling of 1,661 samples of across multiple cancer types showing tumor mutational load and survival following immunotherapy from 1,661 patients. The data was gathered utilizing the MSK-IMPACT targeted sequencing test. The clinical data includes tumor type (based on the opensource OncoTree ontology developed at MSK),...

    Subject
    DNA Mutational Analysis
    Immunotherapy
    Mutation
    Tumor Burden
    Access Rights
    Free to All
  • Tumors with TRK fusions (MSK, 2019): Tumors with TRK fusions based on MSK-IMPACT targeted sequencing.

    Description

    This dataset contains summary data visualizations and clinical data from a broad sampling of tropomyosin receptor kinase (TRK) fusion tumors. The data was gathered utilizing the MSK-IMPACT targeted sequencing test. The clinical data includes tumor type (based on the opensource OncoTree ontology developed at MSK), information about mutated genes, patient demographics, and modality. The data set also...

    Subject
    DNA Mutational Analysis
    Oncogene Proteins, Fusion
    Receptor Protein-Tyrosine Kinases
    Receptor, trkA
    Receptor, trkB
    Receptor, trkC
    Access Rights
    Free to All
  • Characterization of tumor initiating cells from human glioblastoma multiforms by scRNA seq

    Authors
    Wang, Rong
    Sharma, Roshan
    Laughney, Ashley Marie
    Masilionis, Ignas
    2 more author(s)...
    Description

    Summary from the GEO: Radial Glia (RG) cells are the first neural stem cells to appear during embryonic development. Human embryonic RG cells demonstrates a specific set of gene expression compared to other type of progenitor cells. The goal of this study is to characterize the potential origine of tumor initiating cells of human glioblastoma multiforms by single cell RNASeq analyses of freshly sorted...

    Subject
    Brain Neoplasms
    Ependymoglial Cells
    Glioblastoma
    Access Rights
    Free to All
  • Glioma (MSK, Nature 2019): Targeted Sequencing of CSF samples (91 samples with 86 matched normals) from 42 glioma patients

    Description

    This dataset contains the summary data visualizations and clinical data from the targed sequencing of 91 CSF samples from 42 glioma patients. Clinical data includes: Cancer Type, Number of Samples Per Patient, Mutation Count, Fraction Genome Altered Sample Type, Sex, Oncotree Code, Sample Collection Method, Somatic Status, Specimen Preservation Type. The plaintext components of the dataset can be...

    Subject
    Astrocytoma
    Glioblastoma
    Glioma
    Gliosarcoma
    Oligodendroglioma
    Access Rights
    Free to All
  • Targeting Treg cells with GITR activation alleviates resistance to immunotherapy in murine glioblastomas

    Authors
    Amoozgar, Zohreh
    Kloepper, Jonas
    Ren, Jun
    Tay, Rong E.
    18 more author(s)...
    Description

    Summary from the GEO: "Immune checkpoint blockers (ICBs) have failed in all phase III glioblastoma (GBM) trials. Here, we show that regulatory T (Treg) cells play a key role in GBM resistance to ICBs in experimental gliomas. Targeting glucocorticoid-induced TNFR-related receptor (GITR) in Treg cells using an agonistic antibody (αGITR) promotes CD4 Treg cell differentiation into CD4 effector T cells,...

    Subject
    Glioblastoma
    Immune Checkpoint Inhibitors
    T-Lymphocytes, Regulatory
    Access Rights
    Free to All
  • Glioma International Case Control Study (GICC)

    Authors
    Bondy, Melissa L.
    Description

    Study Description from dbGaP: "The main goals of the GICC Study were: 1) to identify novel genetic risk variants for glioma, as well as validate variants implicated by previous genome-wide association studies of glioma; and 2) to explore biologically relevant gene-gene and gene-environment interactions in glioma susceptibility." Study Inclusion Criteria: "Diagnosis of histologically confirmed, supratentorial,...

    Subject
    Astrocytoma
    Brain Neoplasms
    Glioblastoma
    Glioma
    Oligodendroglioma
    Access Rights
    Application Required
  • RNA-seq on parental and acquired resistant cells (AqR)

    Description

    Summary from the GEO: "Parental and AqR cells were obtained at diferent time-points (Day1 and Day 18). Total RNA was extracted and submitted for RNA-seq. Differential expression was observed between parental and AqR cells. AqR cells were derived from parental cells by adding inhibitor (CAY10566) every 3 days until cells became resistant (at about 3 weeks)." Overall Design from the GEO: "2 parental...

    Subject
    Brain Neoplasms
    Glioblastoma
    Stearoyl-CoA Desaturase
    Access Rights
    Free to All
  • ATAC-seq on parental and acquired resistant cells (AqR)

    Authors
    Weirauch, Matthew T.
    Parameswaran, Sreeja
    Description

    Summary from GEO: "Parental and AqR cells were obtained. DNA was purified and submited for sequencing. Differential chromatin accessiblity was observed. AqR cells were derived from parental cells by adding inhibitor (CAY10566) every 3 days until cells became resistant (at about 3 weeks)." Overall design: from GEO: "1 parental cell in duplicate and 1 AqR cell in duplicate was submitted and analyzed."...

    Subject
    Brain Neoplasms
    Glioblastoma
    Stearoyl-CoA Desaturase
    Access Rights
    Free to All
  • Quiescent human glioblastoma cancer stem cells mediate tumor initiation, expansion, and recurrence following chemotherapy

    Authors
    Xie, Xuanhua P.
    Laks, Dan R.
    Ganbold, Mungunsarnai
    Parada, Luis F.
    Description

    Summary from GEO: "We performed single cell RNA sequencing with eight patient derived xenograft samples to identify quiescent cancer stem cells in glioblastoma. Additionally two samples treated with temozolomide was sequenced to examine the evolution of the cancer stem cells upon chemotherapeutics." Overall design from GEO: "Whole transcriptome single cell RNA sequencing with 10X method."

    Subject
    Glioblastoma
    Glioblastoma/drug therapy
    Heterografts
    Neoplastic Stem Cells
    Single-Cell Gene Expression Analysis
    Transcriptome
    Access Rights
    Free to All
  • Tumor progression is independent of tumor associated macrophages in two lineage-based mouse models of GBM [SortedTAM RNAseq]

    Authors
    Chipman, Mollie E.
    Parada, Luis F.
    Description

    Summary from GEO: "We investigate whether TAM gene expression is similar between spontaneous and transplanted mouse models of GBM. We sort Microglia and monocyte derived macrophages (MDM) from subventricular zone (type 1) and oligodendrocyte progenitor derived (type 2) spontaneous and transplanted mouse GBM tumors and perform bulk RNAseq." Overall design from GEO: "3 Spontaneous GBM MDM, 6 spontaneous...

    Subject
    Brain Neoplasms
    Gene Expression
    RNA-Seq
    Tumor-Associated Macrophages
    Access Rights
    Free to All