PMID- 31372268
OWN - NLM
STAT- PubMed-not-MEDLINE
LR  - 20220409
IS  - 2072-1439 (Print)
IS  - 2077-6624 (Electronic)
IS  - 2072-1439 (Linking)
VI  - 11
IP  - 6
DP  - 2019 Jun
TI  - The Cancer Genome Atlas dataset-based analysis of aberrantly expressed genes by 
      GeneAnalytics in thymoma associated myasthenia gravis: focusing on T cells.
PG  - 2315-2323
LID - 10.21037/jtd.2019.06.01 [doi]
AB  - BACKGROUND: Myasthenia gravis (MG) is a group of autoimmune disease which could 
      be accompanied by thymoma. Many differences have been observed between 
      thymoma-associated MG (TAMG) and non-MG thymoma (NMG). However, the molecular 
      difference between them remained unknown. This study aimed to explore the 
      differentially expressed genes (DEGs) between the two categories and to elucidate 
      the possible pathogenesis of TAMG further. METHODS: DEGs were calculated using 
      the RNA-Sequencing data from 11 TAMG and 10 NMG in The Cancer Genome Atlas (TCGA) 
      database. GeneAnalytics was performed to characterize the associations between 
      DEGs and tissues and cells, diseases, gene ontology (GO) terms, pathways, 
      phenotypes, and drug/compounds, respectively. Genes related to T cells were 
      sorted out using LifeMapDiscovery Cells and Tissues Database. Genes directly 
      related to the phenotype of autoimmune diseases that were identified by VarElect 
      were validated by reverse transcription-quantitative polymerase chain reaction 
      (RT-qPCR). RESULTS: The expression level of 169 genes showed a significant 
      difference between the two groups, with 94 up-regulated and 75 down-regulated. 
      Overexpression of six genes (ATM, SFTPB, ANKRD55, BTLA, CCR7, TNFRSF25), which 
      are expressed in T cells and directly related to autoimmune disease through 
      VarElect, was identified. The overexpression of soluble BTLA (sBTLA) (P=0.027), 
      CCR7 (P=0.0018), TNFRSF25 (P=0.0013) and ANKRD55 (P=0.0026) was validated by 
      RT-qPCR in thymoma tissues from our center. CONCLUSIONS: Overexpression of sBTLA, 
      CCR7, TNFRSF25 and ANKRD55 was identified and validated by RT-qPCR, which could 
      partly explain the underlying pathogenesis in TAMG.
FAU - Xi, Jianying
AU  - Xi J
AD  - Department of Neurology, Huashan Hospital, Fudan University, Shanghai 200040, 
      China.
FAU - Wang, Liang
AU  - Wang L
AD  - Department of Neurology, Huashan Hospital, Fudan University, Shanghai 200040, 
      China.
FAU - Yan, Chong
AU  - Yan C
AD  - Department of Neurology, Huashan Hospital, Fudan University, Shanghai 200040, 
      China.
FAU - Song, Jie
AU  - Song J
AD  - Department of Neurology, Huashan Hospital, Fudan University, Shanghai 200040, 
      China.
FAU - Song, Yang
AU  - Song Y
AD  - Department of Thoracic Surgery, Huashan Hospital, Fudan University, Shanghai 
      200040, China.
FAU - Chen, Ji
AU  - Chen J
AD  - Department of Thoracic Surgery, Huashan Hospital, Fudan University, Shanghai 
      200040, China.
FAU - Zhu, Yongjun
AU  - Zhu Y
AD  - Department of Thoracic Surgery, Huashan Hospital, Fudan University, Shanghai 
      200040, China.
FAU - Chen, Zhiming
AU  - Chen Z
AD  - Department of Thoracic Surgery, Huashan Hospital, Fudan University, Shanghai 
      200040, China.
FAU - Jin, Chun
AU  - Jin C
AD  - Department of Thoracic Surgery, Zhongshan Hospital, Fudan University, Shanghai 
      200030, China.
FAU - Ding, Jianyong
AU  - Ding J
AD  - Department of Thoracic Surgery, Zhongshan Hospital, Fudan University, Shanghai 
      200030, China.
FAU - Zhao, Chongbo
AU  - Zhao C
AD  - Department of Neurology, Huashan Hospital, Fudan University, Shanghai 200040, 
      China.
AD  - Department of Neurology, Jing'an District Centre Hospital of Shanghai, Fudan 
      University, Shanghai 200040, China.
LA  - eng
PT  - Journal Article
PL  - China
TA  - J Thorac Dis
JT  - Journal of thoracic disease
JID - 101533916
PMC - PMC6626793
OTO - NOTNLM
OT  - ANKRD55
OT  - CCR7
OT  - TNFRSF25
OT  - Thymoma
OT  - differentially expressed genes (DEGs)
OT  - myasthenia gravis (MG)
OT  - soluble BTLA
COIS- Conflicts of Interest: The authors have no conflicts of interest to declare.
EDAT- 2019/08/03 06:00
MHDA- 2019/08/03 06:01
PMCR- 2019/06/01
CRDT- 2019/08/03 06:00
PHST- 2019/08/03 06:00 [entrez]
PHST- 2019/08/03 06:00 [pubmed]
PHST- 2019/08/03 06:01 [medline]
PHST- 2019/06/01 00:00 [pmc-release]
AID - jtd-11-06-2315 [pii]
AID - 10.21037/jtd.2019.06.01 [doi]
PST - ppublish
SO  - J Thorac Dis. 2019 Jun;11(6):2315-2323. doi: 10.21037/jtd.2019.06.01.