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

Guan Wang; Traci Kitaoka; Ali Crawford; Qian Mao; Andrew Hesketh; Fergus M. Guppy; Garrett I. Ash; Jason Liu; Mark B. Gerstein; Yannis P. Pitsiladis

doi:10.1038/s41598-021-00608-9

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

Guan Wang^*, Traci Kitaoka, Ali Crawford, Qian Mao, Andrew Hesketh, Fergus M. Guppy, Garrett I. Ash, Jason Liu, Mark B. Gerstein, Yannis P. Pitsiladis

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

7 Citations (Scopus)

Abstract

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.

Original language	English
Article number	21705
Journal	Scientific Reports
Volume	11
DOIs	https://doi.org/10.1038/s41598-021-00608-9
Publication status	Published - 4 Nov 2021

ASJC Scopus subject areas

General

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

Access to Document

10.1038/s41598-021-00608-9Licence: CC BY

Cite this

@article{6b1171cfaef64f38b6484b7998ffc788,

title = "Cross-platform transcriptomic profiling of the response to recombinant human erythropoietin",

abstract = "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.",

author = "Guan Wang and Traci Kitaoka and Ali Crawford and Qian Mao and Andrew Hesketh and Guppy, \{Fergus M.\} and Ash, \{Garrett I.\} and Jason Liu and Gerstein, \{Mark B.\} and Pitsiladis, \{Yannis P.\}",

note = "Funding Information: We thank BGI Hong Kong for conducting the DNB-seq. This work was funded by the World Anti-Doping Agency (WADA) grant no. 08C19YP and ISF15E10YP to YPP. GIA was supported by a fellowship from the Office of Academic Affiliations at the United States Veterans Health Administration. Publisher Copyright: {\textcopyright} 2021, The Author(s).",

year = "2021",

month = nov,

day = "4",

doi = "10.1038/s41598-021-00608-9",

language = "English",

volume = "11",

journal = "Scientific Reports",

issn = "2045-2322",

publisher = "Nature Research",

}

TY - JOUR

T1 - Cross-platform transcriptomic profiling of the response to recombinant human erythropoietin

AU - Wang, Guan

AU - Kitaoka, Traci

AU - Crawford, Ali

AU - Mao, Qian

AU - Hesketh, Andrew

AU - Guppy, Fergus M.

AU - Ash, Garrett I.

AU - Liu, Jason

AU - Gerstein, Mark B.

AU - Pitsiladis, Yannis P.

N1 - Funding Information: We thank BGI Hong Kong for conducting the DNB-seq. This work was funded by the World Anti-Doping Agency (WADA) grant no. 08C19YP and ISF15E10YP to YPP. GIA was supported by a fellowship from the Office of Academic Affiliations at the United States Veterans Health Administration. Publisher Copyright: © 2021, The Author(s).

PY - 2021/11/4

Y1 - 2021/11/4

N2 - 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.

AB - 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.

UR - https://www.scopus.com/pages/publications/85118650041

U2 - 10.1038/s41598-021-00608-9

DO - 10.1038/s41598-021-00608-9

M3 - Article

C2 - 34737331

AN - SCOPUS:85118650041

SN - 2045-2322

VL - 11

JO - Scientific Reports

JF - Scientific Reports

M1 - 21705

ER -

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

Abstract

ASJC Scopus subject areas

UN SDGs

Access to Document

Other files and links

Fingerprint

Cite this