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Human Pilocytic Astrocytoma Single Cell RNA Sequencing
dbGaP
Data Resource:  dbGaP
Point of Contact:  
Pratiti Bandopadhayay, MBBS, PhD,  
Project

About This Dataset
Pilocytic astrocytoma (PA), the most common childhood brain tumor, is a low-grade glioma with a single driver BRAF rearrangement. Here, we perform scRNAseq in six PAs using methods that enabled detection of the rearrangement. When compared to higher-grade gliomas, a strikingly higher proportion of the PA cancer cells exhibit a differentiated, astrocyte-like phenotype. A smaller proportion of cells exhibit a progenitor-like phenotype with evidence of proliferation. These express a mitogen-activated protein kinase (MAPK) program that was absent from higher-grade gliomas. Immune cells, especially microglia, comprise 40% of all cells in the PAs and account for differences in bulk expression profiles between tumor locations and subtypes. These data indicate that MAPK signaling is restricted to relatively undifferentiated cancer cells in PA, with implications for investigational therapies directed at this pathway.
Core Data Elements
Number of Cases
6
Case Sex
Female (3); Male (3)
Case Age At Diagnosis
0 to 4 years (2); 5 to 9 years (2); 10 to 14 years (2)
Case Race
Not Reported (6)
Case Ethnicity
Not Reported (6)
Case Disease Diagnosis
Pilocytic Astrocytoma (6)
Number of Samples
1,234
Sample Assay Method
RNA Sequencing (1,234)
Sample Anatomic Site
Posterior Fossa (951); Thalamus (283)
Additional Data Elements
DBGAP STUDY IDENTIFIER
Grant Information
R01CA215489
MYB family alterations in pediatric gliomas
Published In
https://doi.org/10.1038/s41467-019-11493-2
Charts
Female (3); Male (3)
3Female