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0bc97771-05ad-4c3b-81aa-fc2c85d00cbf - samples

ABSTRACT: We profiled 1 patient neuroblastoma-FOXR2 tumor sample by single-cell multiome RNA + ATAC. The raw fastqs are provided.

PROVIDER: EGAD00001010902 | EGA |

REPOSITORIES: EGA

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b7b1610c-b44a-4b05-b124-796bd3b66d5e - samples

Project description:We profiled 7 patient neuroblastoma-FOXR2 tumor samples by bulk RNA-seq. The raw fastqs are provided.

| EGAD00001010901 | EGA

91467613-e4b1-498b-aeb5-bcce21f50ebe - samples

Project description:We profiled 4 patient neuroblastoma-FORX2 tumor samples by single-nuclei RNA-seq using 10X Chromium 3'. The raw fastqs are provided.

| EGAD00001010903 | EGA

Transcriptomic analysis of cell-of-origin CNS neuroblastoma, FOXR2 activated [Multiome]

Project description:The transcription factor FOXR2 is the universal driver of childhood central nervous system neuroblastoma, FOXR2 activated (NB-FOXR2). NB-FOXR2 tumors arise exclusively in the brain hemispheres, and despite morphological similarities to other pediatric brain tumors, they are a molecularly distinct entity based on DNA methylation profiling. The cell-of-origin is unknown. Here, we profiled a cohort of rare NB-FOXR2 tumors by bulk and single-cell transcriptomics. Through systematic comparative analyses, we delineate tumor transcriptional states and candidate cell-of-origin. More broadly, we demonstrate systematic molecular profiling of childhood cancers to orient oncogenic targeting for in vivo modeling, a critical resource for the study of rare tumors and development of therapeutics.

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Transcriptomic analysis of cell-of-origin CNS neuroblastoma, FOXR2 activated [RNA-seq]

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Transcriptomic analysis of cell-of-origin CNS neuroblastoma, FOXR2 activated [CUT&RUN]

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FOXR2 stabilizes MYCN protein and identifies non-MYCN-amplified neuroblastoma patients with unfavorable outcome

Project description:The stabilization of MYCN by FOXR2 represents an alternative mechanism to MYCN amplification to increase MYCN protein levels. As such, FOXR2 expression identifies another subset of neuroblastoma patients with unfavorable clinical outcome. Background: Clinical outcomes of neuroblastoma patients range from spontaneous tumor regression to fatality. Hence, understanding the mechanisms that cause tumor progression are crucial for the treatment of patients. In this study, we show that FOXR2 activation identifies a subset of neuroblastoma tumors with unfavorable outcome and we investigate the mechanism how FOXR2 relates to poor outcome in patients.

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48282533-e7b1-432d-ab49-5079e2e30d8e - samples

Project description:We profiled 16 patient tumor samples by single-cell or single-nuclei RNA-seq using 10X Chromium 3'. It includes 4 low-grade gliomas and 12 ependymomas. The raw fastqs are provided.

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Project description:We profiled 18 high-grade gliomas patient tumor samples by bulk RNA-seq. The raw fastqs are provided.

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4023bc01-54d5-43f2-ae34-d889be85101c - samples

Project description:We profiled 9 high-grade gliomas patient tumor samples by bulk RNA-seq. The raw fastqs are provided.

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Project description:Spatial gene expression profiling of mouse thoracic spine tissue using the 10x Genomics Visium platform (FFPE, probe-based chemistry). Library IVD2 was profiled on Visium slide V11A19-364 capture area D1. This capture area contains both mutant and control tissue regions. Raw FASTQs comprise two sequencing lanes (L001 and L002) of the same IVD2 library (8 files total).

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