Transcriptomic profiling of 39 commonly-used neuroblastoma cell lines.

Abstract:

:Neuroblastoma cell lines are an important and cost-effective model used to study oncogenic drivers of the disease. While many of these cell lines have been previously characterized with SNP, methylation, and/or mRNA expression microarrays, there has not been an effort to comprehensively sequence these cell lines. Here, we present raw whole transcriptome data generated by RNA sequencing of 39 commonly-used neuroblastoma cell lines. These data can be used to perform differential expression analysis based on a genetic aberration or phenotype in neuroblastoma (e.g., MYCN amplification status, ALK mutation status, chromosome arm 1p, 11q and/or 17q status, sensitivity to pharmacologic perturbation). Additionally, we designed this experiment to enable structural variant and/or long-noncoding RNA analysis across these cell lines. Finally, as more DNase/ATAC and histone/transcription factor ChIP sequencing is performed in these cell lines, our RNA-Seq data will be an important complement to inform transcriptional targets as well as regulatory (enhancer or repressor) elements in neuroblastoma.

journal_name

Sci Data

journal_title

Scientific data

authors

Harenza JL,Diamond MA,Adams RN,Song MM,Davidson HL,Hart LS,Dent MH,Fortina P,Reynolds CP,Maris JM

doi

10.1038/sdata.2017.33

subject

Has Abstract

pub_date

2017-03-28 00:00:00

pages

170033

issn

2052-4463

pii

sdata201733

journal_volume

4

pub_type

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