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Sci Data. 2016 Jul 5;3:160052. doi: 10.1038/sdata.2016.52.

Long non-coding RNA expression profiling in the NCI60 cancer cell line panel using high-throughput RT-qPCR.

Author information

1
Center for Medical Genetics, Ghent University, 9000 Ghent, Belgium.
2
Cancer Research Institute Ghent (CRIG), 9000 Ghent, Belgium.
3
Biogazelle, 9052 Zwijnaarde, Belgium.

Abstract

Long non-coding RNAs (lncRNAs) form a new class of RNA molecules implicated in various aspects of protein coding gene expression regulation. To study lncRNAs in cancer, we generated expression profiles for 1707 human lncRNAs in the NCI60 cancer cell line panel using a high-throughput nanowell RT-qPCR platform. We describe how qPCR assays were designed and validated and provide processed and normalized expression data for further analysis. Data quality is demonstrated by matching the lncRNA expression profiles with phenotypic and genomic characteristics of the cancer cell lines. This data set can be integrated with publicly available omics and pharmacological data sets to uncover novel associations between lncRNA expression and mRNA expression, miRNA expression, DNA copy number, protein coding gene mutation status or drug response.

PMID:
27377824
PMCID:
PMC4932877
DOI:
10.1038/sdata.2016.52
[Indexed for MEDLINE]
Free PMC Article

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