Genomics

Dataset Information

176

Genome-wide binding of MYCN protein in MYCN-amplified neuroblastoma cell lines


ABSTRACT: The MYCN locus is amplified in about half of high-risk neuroblastoma tumors. To identify genomic loci occupied by MYCN protein in the MYCN-amplified neuroblastoma cell lines NGP, Kelly and NB-1643, we performed chromatin immunoprecipitation coupled with Next-Generation Sequencing (ChIP-seq) using an anti-MYCN antibody. Overall design: Identification of MYCN occupancy throughout the genome of MYCN-amplified neuroblastoma cells.

INSTRUMENT(S): Illumina HiSeq 2000 (Homo sapiens)

SUBMITTER: John M Maris  

PROVIDER: GSE94782 | GEO | 2017-08-02

SECONDARY ACCESSION(S): PRJNA374035

REPOSITORIES: GEO

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Publications


We developed an RNA-sequencing-based pipeline to discover differentially expressed cell-surface molecules in neuroblastoma that meet criteria for optimal immunotherapeutic target safety and efficacy. Here, we show that GPC2 is a strong candidate immunotherapeutic target in this childhood cancer. We demonstrate high GPC2 expression in neuroblastoma due to MYCN transcriptional activation and/or somatic gain of the GPC2 locus. We confirm GPC2 to be highly expressed on most neuroblastomas, but not d  ...[more]

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