schliessen

Filtern

 

Bibliotheken

Full high-throughput sequencing analysis of differences in expression profiles of long noncoding RNAs and their mechanisms of action in systemic lupus erythematosus.(Report)

Background The specific function of long noncoding RNAs (lncRNAs) in systemic lupus erythematosus (SLE) and the mechanism of their involvement in related pathological changes remain to be elucidated, so, in this study, we analyzed the differences in the expression profiles of lncRNAs and their mecha... Full description

Journal Title: Arthritis Research & Therapy March 5, 2019, Vol.21(1)
Main Author: Ye, Hui
Other Authors: Wang, Xue , Wang, Lei , Chu, Xiaoying , Hu, Xuanxuan , Sun, Li , Jiang, Minghua , Wang, Hong , Wang, Zihan , Zhao, Han , Yang, Xinyu , Wang, Jianguang
Format: Electronic Article Electronic Article
Language: English
Subjects:
ID: ISSN: 1478-6354 ; DOI: 10.1186/s13075-019-1853-7
Zum Text:
SendSend as email Add to Book BagAdd to Book Bag
Staff View
recordid: gale_ofa581442780
title: Full high-throughput sequencing analysis of differences in expression profiles of long noncoding RNAs and their mechanisms of action in systemic lupus erythematosus.(Report)
format: Article
creator:
  • Ye, Hui
  • Wang, Xue
  • Wang, Lei
  • Chu, Xiaoying
  • Hu, Xuanxuan
  • Sun, Li
  • Jiang, Minghua
  • Wang, Hong
  • Wang, Zihan
  • Zhao, Han
  • Yang, Xinyu
  • Wang, Jianguang
subjects:
  • Systemic Lupus Erythematosus – Diagnosis
  • Systemic Lupus Erythematosus – Development and Progression
  • Systemic Lupus Erythematosus – Genetic Aspects
  • RNA – Identification and Classification
  • RNA – Health Aspects
ispartof: Arthritis Research & Therapy, March 5, 2019, Vol.21(1)
description: Background The specific function of long noncoding RNAs (lncRNAs) in systemic lupus erythematosus (SLE) and the mechanism of their involvement in related pathological changes remain to be elucidated, so, in this study, we analyzed the differences in the expression profiles of lncRNAs and their mechanisms of action in SLE using full high-throughput sequencing, bioinformatics, etc. methods. Methods We used high-throughput sequencing to detect differences in the expression profiles of lncRNAs, miRNAs, and mRNAs in PBMCs from patients with SLE at the genome-wide level. Next, we predicted target genes of 30 lincRNAs (long intergenic noncoding RNAs) by constructing a coexpression network of differential lincRNAs and mRNAs and identified the role of lincRNAs. Then, we analyzed the coexpression network of 23 optimized lincRNAs and their corresponding 353 miRNAs, evaluated the cis- and trans-effects of these lincRNAs, and performed GO and KEGG analyses of target genes. We also selected 8 lincRNAs and 2 newly discovered lncRNAs for q-PCR validation and lncRNA-miRNA-mRNA analysis. Finally, we also analyzed respectively the relation between lncRNAs and gender bias in SLE patients using RT-qPCR, the relation between Systemic Lupus Erythematosus Disease Activity Index score and the "IFN signature" using ELISA, and the relation between the differential expression of lncRNAs and a change in the number of a cell type of PBMCs in SLE patients using RT-qPCR. Results The profiles of 1087 lncRNAs, 102 miRNAs, and 4101 mRNAs in PBMCs significantly differed between patients with SLE and healthy controls. The coexpression network analysis showed that the network contained 23 lincRNAs and 353 mRNAs. The evaluation of the cis- and trans-effects showed that the 23 lincRNAs acted on 704 target genes. GO and KEGG analyses of the target genes predicted the biological functions of the 23 lincRNAs. q-PCR validation showed 7 lincRNAs and 2 novel lncRNAs were identical to the sequencing results. The ceRNA network contained 7 validated lincRNAs, 15 miRNAs, and 155 mRNAs. In addition, the differential expression of lncRNAs may be gender dependent in SLE patients, SLE patients also exhibit a robust "IFN signature," and PBMCs exhibiting differential expression of lncRNAs may be due to a change in the number of a cell type. Conclusion This work determined specific lncRNAs that play important biological functions in the pathogenesis of lupus and provided a new direction for diagnosis and treatme
language: eng
source:
identifier: ISSN: 1478-6354 ; DOI: 10.1186/s13075-019-1853-7
fulltext: fulltext
issn:
  • 1478-6354
  • 14786354
url: Link


@attributes
ID988210733
RANK0.06999999
NO1
SEARCH_ENGINEprimo_central_multiple_fe
SEARCH_ENGINE_TYPEPrimo Central Search Engine
LOCALfalse
PrimoNMBib
record
control
sourcerecordid581442780
sourceidgale_ofa
recordidTN_gale_ofa581442780
sourceformatXML
sourcesystemOther
pqid2193506985
galeid581442780
display
typearticle
titleFull high-throughput sequencing analysis of differences in expression profiles of long noncoding RNAs and their mechanisms of action in systemic lupus erythematosus.(Report)
creatorYe, Hui ; Wang, Xue ; Wang, Lei ; Chu, Xiaoying ; Hu, Xuanxuan ; Sun, Li ; Jiang, Minghua ; Wang, Hong ; Wang, Zihan ; Zhao, Han ; Yang, Xinyu ; Wang, Jianguang
ispartofArthritis Research & Therapy, March 5, 2019, Vol.21(1)
identifierISSN: 1478-6354 ; DOI: 10.1186/s13075-019-1853-7
subjectSystemic Lupus Erythematosus – Diagnosis ; Systemic Lupus Erythematosus – Development and Progression ; Systemic Lupus Erythematosus – Genetic Aspects ; RNA – Identification and Classification ; RNA – Health Aspects
descriptionBackground The specific function of long noncoding RNAs (lncRNAs) in systemic lupus erythematosus (SLE) and the mechanism of their involvement in related pathological changes remain to be elucidated, so, in this study, we analyzed the differences in the expression profiles of lncRNAs and their mechanisms of action in SLE using full high-throughput sequencing, bioinformatics, etc. methods. Methods We used high-throughput sequencing to detect differences in the expression profiles of lncRNAs, miRNAs, and mRNAs in PBMCs from patients with SLE at the genome-wide level. Next, we predicted target genes of 30 lincRNAs (long intergenic noncoding RNAs) by constructing a coexpression network of differential lincRNAs and mRNAs and identified the role of lincRNAs. Then, we analyzed the coexpression network of 23 optimized lincRNAs and their corresponding 353 miRNAs, evaluated the cis- and trans-effects of these lincRNAs, and performed GO and KEGG analyses of target genes. We also selected 8 lincRNAs and 2 newly discovered lncRNAs for q-PCR validation and lncRNA-miRNA-mRNA analysis. Finally, we also analyzed respectively the relation between lncRNAs and gender bias in SLE patients using RT-qPCR, the relation between Systemic Lupus Erythematosus Disease Activity Index score and the "IFN signature" using ELISA, and the relation between the differential expression of lncRNAs and a change in the number of a cell type of PBMCs in SLE patients using RT-qPCR. Results The profiles of 1087 lncRNAs, 102 miRNAs, and 4101 mRNAs in PBMCs significantly differed between patients with SLE and healthy controls. The coexpression network analysis showed that the network contained 23 lincRNAs and 353 mRNAs. The evaluation of the cis- and trans-effects showed that the 23 lincRNAs acted on 704 target genes. GO and KEGG analyses of the target genes predicted the biological functions of the 23 lincRNAs. q-PCR validation showed 7 lincRNAs and 2 novel lncRNAs were identical to the sequencing results. The ceRNA network contained 7 validated lincRNAs, 15 miRNAs, and 155 mRNAs. In addition, the differential expression of lncRNAs may be gender dependent in SLE patients, SLE patients also exhibit a robust "IFN signature," and PBMCs exhibiting differential expression of lncRNAs may be due to a change in the number of a cell type. Conclusion This work determined specific lncRNAs that play important biological functions in the pathogenesis of lupus and provided a new direction for diagnosis and treatment of disease. Keywords: High-throughput sequencing analysis, Expression profiles, Long noncoding RNA, Mechanisms, Systemic lupus erythematosus
languageeng
source
version6
lds50peer_reviewed
links
openurl$$Topenurl_article
openurlfulltext$$Topenurlfull_article
search
scope
0gale_onefilea
1OneFile
creatorcontrib
0Ye, Hui
1Wang, Xue
2Wang, Lei
3Chu, Xiaoying
4Hu, Xuanxuan
5Sun, Li
6Jiang, Minghua
7Wang, Hong
8Wang, Zihan
9Zhao, Han
10Yang, Xinyu
11Wang, Jianguang
titleFull high-throughput sequencing analysis of differences in expression profiles of long noncoding RNAs and their mechanisms of action in systemic lupus erythematosus.(Report)
descriptionBackground The specific function of long noncoding RNAs (lncRNAs) in systemic lupus erythematosus (SLE) and the mechanism of their involvement in related pathological changes remain to be elucidated, so, in this study, we analyzed the differences in the expression profiles of lncRNAs and their mechanisms of action in SLE using full high-throughput sequencing, bioinformatics, etc. methods. Methods We used high-throughput sequencing to detect differences in the expression profiles of lncRNAs, miRNAs, and mRNAs in PBMCs from patients with SLE at the genome-wide level. Next, we predicted target genes of 30 lincRNAs (long intergenic noncoding RNAs) by constructing a coexpression network of differential lincRNAs and mRNAs and identified the role of lincRNAs. Then, we analyzed the coexpression network of 23 optimized lincRNAs and their corresponding 353 miRNAs, evaluated the cis- and trans-effects of these lincRNAs, and performed GO and KEGG analyses of target genes. We also selected 8 lincRNAs and 2 newly discovered lncRNAs for q-PCR validation and lncRNA-miRNA-mRNA analysis. Finally, we also analyzed respectively the relation between lncRNAs and gender bias in SLE patients using RT-qPCR, the relation between Systemic Lupus Erythematosus Disease Activity Index score and the "IFN signature" using ELISA, and the relation between the differential expression of lncRNAs and a change in the number of a cell type of PBMCs in SLE patients using RT-qPCR. Results The profiles of 1087 lncRNAs, 102 miRNAs, and 4101 mRNAs in PBMCs significantly differed between patients with SLE and healthy controls. The coexpression network analysis showed that the network contained 23 lincRNAs and 353 mRNAs. The evaluation of the cis- and trans-effects showed that the 23 lincRNAs acted on 704 target genes. GO and KEGG analyses of the target genes predicted the biological functions of the 23 lincRNAs. q-PCR validation showed 7 lincRNAs and 2 novel lncRNAs were identical to the sequencing results. The ceRNA network contained 7 validated lincRNAs, 15 miRNAs, and 155 mRNAs. In addition, the differential expression of lncRNAs may be gender dependent in SLE patients, SLE patients also exhibit a robust "IFN signature," and PBMCs exhibiting differential expression of lncRNAs may be due to a change in the number of a cell type. Conclusion This work determined specific lncRNAs that play important biological functions in the pathogenesis of lupus and provided a new direction for diagnosis and treatment of disease. Keywords: High-throughput sequencing analysis, Expression profiles, Long noncoding RNA, Mechanisms, Systemic lupus erythematosus
subject
0Systemic lupus erythematosus–Diagnosis
1Systemic lupus erythematosus–Development and progression
2Systemic lupus erythematosus–Genetic aspects
3RNA–Identification and classification
4RNA–Health aspects
5China
69CHIN
general
010.1186/s13075-019-1853-7
1English
2BioMed Central Ltd.
3Cengage Learning, Inc.
sourceidgale_ofa
recordidgale_ofa581442780
issn
01478-6354
114786354
rsrctypearticle
creationdate2019
startdate20190305
enddate20190305
recordtypearticle
addtitleArthritis Research & Therapy
searchscopeOneFile
citationvol 21 issue 1
lsr30VSR-Enriched:[pages, galeid, pqid, eissn]
sort
titleFull high-throughput sequencing analysis of differences in expression profiles of long noncoding RNAs and their mechanisms of action in systemic lupus erythematosus.(Report)
authorYe, Hui ; Wang, Xue ; Wang, Lei ; Chu, Xiaoying ; Hu, Xuanxuan ; Sun, Li ; Jiang, Minghua ; Wang, Hong ; Wang, Zihan ; Zhao, Han ; Yang, Xinyu ; Wang, Jianguang
creationdate20190305
lso0120190305
facets
frbrgroupid7455162318186641614
frbrtype5
newrecords20190416
languageeng
creationdate2019
topic
0Systemic Lupus Erythematosus–Diagnosis
1Systemic Lupus Erythematosus–Development and Progression
2Systemic Lupus Erythematosus–Genetic Aspects
3RNA–Identification and Classification
4RNA–Health Aspects
collectionOneFile (GALE)
prefilterarticles
rsrctypearticles
creatorcontrib
0Ye, Hui
1Wang, Xue
2Wang, Lei
3Chu, Xiaoying
4Hu, Xuanxuan
5Sun, Li
6Jiang, Minghua
7Wang, Hong
8Wang, Zihan
9Zhao, Han
10Yang, Xinyu
11Wang, Jianguang
jtitleArthritis Research & Therapy
toplevelpeer_reviewed
delivery
delcategoryRemote Search Resource
fulltextfulltext
addata
aulast
0Ye
1Wang
2Chu
3Hu
4Sun
5Jiang
6Zhao
7Yang
aufirst
0Hui
1Xue
2Lei
3Xiaoying
4Xuanxuan
5Li
6Minghua
7Hong
8Zihan
9Han
10Xinyu
11Jianguang
au
0Ye, Hui
1Wang, Xue
2Wang, Lei
3Chu, Xiaoying
4Hu, Xuanxuan
5Sun, Li
6Jiang, Minghua
7Wang, Hong
8Wang, Zihan
9Zhao, Han
10Yang, Xinyu
11Wang, Jianguang
atitleFull high-throughput sequencing analysis of differences in expression profiles of long noncoding RNAs and their mechanisms of action in systemic lupus erythematosus.
jtitleArthritis Research & Therapy
risdate20190305
volume21
issue1
issn1478-6354
formatjournal
genrearticle
ristypeJOUR
abstractBackground The specific function of long noncoding RNAs (lncRNAs) in systemic lupus erythematosus (SLE) and the mechanism of their involvement in related pathological changes remain to be elucidated, so, in this study, we analyzed the differences in the expression profiles of lncRNAs and their mechanisms of action in SLE using full high-throughput sequencing, bioinformatics, etc. methods. Methods We used high-throughput sequencing to detect differences in the expression profiles of lncRNAs, miRNAs, and mRNAs in PBMCs from patients with SLE at the genome-wide level. Next, we predicted target genes of 30 lincRNAs (long intergenic noncoding RNAs) by constructing a coexpression network of differential lincRNAs and mRNAs and identified the role of lincRNAs. Then, we analyzed the coexpression network of 23 optimized lincRNAs and their corresponding 353 miRNAs, evaluated the cis- and trans-effects of these lincRNAs, and performed GO and KEGG analyses of target genes. We also selected 8 lincRNAs and 2 newly discovered lncRNAs for q-PCR validation and lncRNA-miRNA-mRNA analysis. Finally, we also analyzed respectively the relation between lncRNAs and gender bias in SLE patients using RT-qPCR, the relation between Systemic Lupus Erythematosus Disease Activity Index score and the "IFN signature" using ELISA, and the relation between the differential expression of lncRNAs and a change in the number of a cell type of PBMCs in SLE patients using RT-qPCR. Results The profiles of 1087 lncRNAs, 102 miRNAs, and 4101 mRNAs in PBMCs significantly differed between patients with SLE and healthy controls. The coexpression network analysis showed that the network contained 23 lincRNAs and 353 mRNAs. The evaluation of the cis- and trans-effects showed that the 23 lincRNAs acted on 704 target genes. GO and KEGG analyses of the target genes predicted the biological functions of the 23 lincRNAs. q-PCR validation showed 7 lincRNAs and 2 novel lncRNAs were identical to the sequencing results. The ceRNA network contained 7 validated lincRNAs, 15 miRNAs, and 155 mRNAs. In addition, the differential expression of lncRNAs may be gender dependent in SLE patients, SLE patients also exhibit a robust "IFN signature," and PBMCs exhibiting differential expression of lncRNAs may be due to a change in the number of a cell type. Conclusion This work determined specific lncRNAs that play important biological functions in the pathogenesis of lupus and provided a new direction for diagnosis and treatment of disease. Keywords: High-throughput sequencing analysis, Expression profiles, Long noncoding RNA, Mechanisms, Systemic lupus erythematosus
pubBioMed Central Ltd.
doi10.1186/s13075-019-1853-7
lad01gale_ofa
pages1-17
eissn14786362
date2019-03-05