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

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-qPC...

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Autores principales: Mestdagh, Pieter, Lefever, Steve, Volders, Pieter-Jan, Derveaux, Stefaan, Hellemans, Jan, Vandesompele, Jo
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2016
Materias:
Data Descriptor
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4932877/
https://www.ncbi.nlm.nih.gov/pubmed/27377824
http://dx.doi.org/10.1038/sdata.2016.52
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author Mestdagh, Pieter
Lefever, Steve
Volders, Pieter-Jan
Derveaux, Stefaan
Hellemans, Jan
Vandesompele, Jo
author_facet Mestdagh, Pieter
Lefever, Steve
Volders, Pieter-Jan
Derveaux, Stefaan
Hellemans, Jan
Vandesompele, Jo
author_sort Mestdagh, Pieter
collection PubMed
description 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
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spelling pubmed-49328772016-07-08 Long non-coding RNA expression profiling in the NCI60 cancer cell line panel using high-throughput RT-qPCR Mestdagh, Pieter Lefever, Steve Volders, Pieter-Jan Derveaux, Stefaan Hellemans, Jan Vandesompele, Jo Sci Data Data Descriptor 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 Nature Publishing Group 2016-07-05 /pmc/articles/PMC4932877/ /pubmed/27377824 http://dx.doi.org/10.1038/sdata.2016.52 Text en Copyright © 2016, Macmillan Publishers Limited http://creativecommons.org/licenses/by/4.0 This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0 Metadata associated with this Data Descriptor is available at http://www.nature.com/sdata/ and is released under the CC0 waiver to maximize reuse.
spellingShingle Data Descriptor
Mestdagh, Pieter
Lefever, Steve
Volders, Pieter-Jan
Derveaux, Stefaan
Hellemans, Jan
Vandesompele, Jo
Long non-coding RNA expression profiling in the NCI60 cancer cell line panel using high-throughput RT-qPCR
title Long non-coding RNA expression profiling in the NCI60 cancer cell line panel using high-throughput RT-qPCR
title_full Long non-coding RNA expression profiling in the NCI60 cancer cell line panel using high-throughput RT-qPCR
title_fullStr Long non-coding RNA expression profiling in the NCI60 cancer cell line panel using high-throughput RT-qPCR
title_full_unstemmed Long non-coding RNA expression profiling in the NCI60 cancer cell line panel using high-throughput RT-qPCR
title_short Long non-coding RNA expression profiling in the NCI60 cancer cell line panel using high-throughput RT-qPCR
title_sort long non-coding rna expression profiling in the nci60 cancer cell line panel using high-throughput rt-qpcr
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4932877/
https://www.ncbi.nlm.nih.gov/pubmed/27377824
http://dx.doi.org/10.1038/sdata.2016.52
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