Cross-platform transcriptomic profiling of the response to recombinant human erythropoietin

RNA-seq has matured and become an important tool for studying RNA biology. Here we compared two RNA-seq (MGI DNBSEQ and Illumina NextSeq 500) and two microarray platforms (GeneChip Human Transcriptome Array 2.0 and Illumina Expression BeadChip) in healthy individuals administered recombinant human e...

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Autores principales: Wang, Guan, Kitaoka, Traci, Crawford, Ali, Mao, Qian, Hesketh, Andrew, Guppy, Fergus M., Ash, Garrett I., Liu, Jason, Gerstein, Mark B., Pitsiladis, Yannis P.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2021
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8568984/
https://www.ncbi.nlm.nih.gov/pubmed/34737331
http://dx.doi.org/10.1038/s41598-021-00608-9
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author Wang, Guan
Kitaoka, Traci
Crawford, Ali
Mao, Qian
Hesketh, Andrew
Guppy, Fergus M.
Ash, Garrett I.
Liu, Jason
Gerstein, Mark B.
Pitsiladis, Yannis P.
author_facet Wang, Guan
Kitaoka, Traci
Crawford, Ali
Mao, Qian
Hesketh, Andrew
Guppy, Fergus M.
Ash, Garrett I.
Liu, Jason
Gerstein, Mark B.
Pitsiladis, Yannis P.
author_sort Wang, Guan
collection PubMed
description RNA-seq has matured and become an important tool for studying RNA biology. Here we compared two RNA-seq (MGI DNBSEQ and Illumina NextSeq 500) and two microarray platforms (GeneChip Human Transcriptome Array 2.0 and Illumina Expression BeadChip) in healthy individuals administered recombinant human erythropoietin for transcriptome-wide quantification of differential gene expression. The results show that total RNA DNB-seq generated a multitude of target genes compared to other platforms. Pathway enrichment analyses revealed genes correlate to not only erythropoiesis and oxygen transport but also a wide range of other functions, such as tissue protection and immune regulation. This study provides a knowledge base of genes relevant to EPO biology through cross-platform comparisons and validation.
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spelling pubmed-85689842021-11-05 Cross-platform transcriptomic profiling of the response to recombinant human erythropoietin Wang, Guan Kitaoka, Traci Crawford, Ali Mao, Qian Hesketh, Andrew Guppy, Fergus M. Ash, Garrett I. Liu, Jason Gerstein, Mark B. Pitsiladis, Yannis P. Sci Rep Article RNA-seq has matured and become an important tool for studying RNA biology. Here we compared two RNA-seq (MGI DNBSEQ and Illumina NextSeq 500) and two microarray platforms (GeneChip Human Transcriptome Array 2.0 and Illumina Expression BeadChip) in healthy individuals administered recombinant human erythropoietin for transcriptome-wide quantification of differential gene expression. The results show that total RNA DNB-seq generated a multitude of target genes compared to other platforms. Pathway enrichment analyses revealed genes correlate to not only erythropoiesis and oxygen transport but also a wide range of other functions, such as tissue protection and immune regulation. This study provides a knowledge base of genes relevant to EPO biology through cross-platform comparisons and validation. Nature Publishing Group UK 2021-11-04 /pmc/articles/PMC8568984/ /pubmed/34737331 http://dx.doi.org/10.1038/s41598-021-00608-9 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Wang, Guan
Kitaoka, Traci
Crawford, Ali
Mao, Qian
Hesketh, Andrew
Guppy, Fergus M.
Ash, Garrett I.
Liu, Jason
Gerstein, Mark B.
Pitsiladis, Yannis P.
Cross-platform transcriptomic profiling of the response to recombinant human erythropoietin
title Cross-platform transcriptomic profiling of the response to recombinant human erythropoietin
title_full Cross-platform transcriptomic profiling of the response to recombinant human erythropoietin
title_fullStr Cross-platform transcriptomic profiling of the response to recombinant human erythropoietin
title_full_unstemmed Cross-platform transcriptomic profiling of the response to recombinant human erythropoietin
title_short Cross-platform transcriptomic profiling of the response to recombinant human erythropoietin
title_sort cross-platform transcriptomic profiling of the response to recombinant human erythropoietin
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8568984/
https://www.ncbi.nlm.nih.gov/pubmed/34737331
http://dx.doi.org/10.1038/s41598-021-00608-9
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