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Developmental & Stem Cell Biology

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mdtaylor@sickkids.ca

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This DAC controls 4 datasets

Dataset ID	Description	Technology	Samples
EGAD00001004318	We used single-cell transcriptomics to study >60,000 cells from the developing murine cerebellum, and show that different molecular subgroups of childhood cerebellar tumors mirror the transcription of cells from distinct, temporally restricted cerebellar lineages.	Illumina HiSeq 2000 Illumina HiSeq 2500 Illumina HiSeq 4000	47
EGAD00001004347	We analyzed alternative splicing with Shh medulloblastoma. This dataset contains bam files of whole genome sequencing from 4 cases. Genomic DNA was isolated from both tumor and matched control specimens. We performed whole genome sequence on Illumina Hiseq.	Illumina HiSeq 2000	8
EGAD00001006305	To further understand the biology of Sonic hedgehog medulloblastoma and its molecular subtypes, we studied 250 human Shh-MB using strand-specific RNA sequencing. We identified novel alterations within the cAMP dependent pathway and found that 18% of tumors have genetic events that directly target the abundance and/or stability of MYCN. We also discovered an extensive network of fusions in focally amplified regions, and several loss-of-function fusions in tumor suppressor genes PTCH, SUFU and NCOR1. Molecular convergence on a core of specific genes by nucleotide variants, copy number aberrations, and gene fusions highlights key roles of specific pathways in the pathogenesis of Sonic hedgehog medulloblastoma.	Illumina HiSeq 2000 Illumina HiSeq 2500	82
EGAD00001008458	We used single-cell transcriptomics to study cells from the developing human cerebellum, and show that different molecular subgroups of medulloblastoma resemble distinct glutamatergic progenitors.	Illumina HiSeq 2000 Illumina HiSeq 2500	391