PMID- 31169310
OWN - NLM
STAT- MEDLINE
DCOM- 20200611
LR  - 20200611
IS  - 1097-4652 (Electronic)
IS  - 0021-9541 (Linking)
VI  - 234
IP  - 12
DP  - 2019 Dec
TI  - Gene regulation and prognostic indicators of lung squamous cell carcinoma: 
      TCGA-derived miRNA/mRNA sequencing and DNA methylation data.
PG  - 22896-22910
LID - 10.1002/jcp.28852 [doi]
AB  - Lung squamous cell carcinoma (LSCC) is a common cancer worldwide, and this study 
      aimed to investigate the key regulatory networks and prognostic indicators of 
      LSCC. MicroRNA (miRNA)/messenger RNA (mRNA) sequencing and DNA methylation data 
      were obtained from the Cancer Genome Atlas. Differentially expressed miRNAs 
      (DEmiRNAs) and genes (DEGs) were identified by the limma package. Then, the 
      transcription factors (TFs) of DEmiRNAs/DEGs, as well as the targets of miRNAs, 
      were predicted by the TFmiR online tool. Using the t test, aberrant methylation 
      was detected in TF binding sites (TFBSs) in promoters. Finally, integrated 
      network and survival analyses were conducted using SPSS software. We obtained 104 
      DEmiRNAs and 4,491 DEGs, and validated 2,113 DEGs (VDEGs). Then, 103 TFs, 295 
      TFs, and 14 DEmiRNAs were predicted to target 95 DEmiRNAs, 821 DEGs and 283 DEGs, 
      respectively. After TF-DEmiRNA/DEG and TF-DEmiRNA-DEG networks were constructed 
      (e.g., E2F1-CDC25A, miR29a-RAN, miR326-TBL1XR1), five feedforward loops between 
      ZEB1 and miR-141/200a/200b/200c/429 were found. Furthermore, VDEGs CDC25A, RAN, 
      TBL1XR1 as well as miR-130b and miR-590 were negatively correlated with survival 
      rates. E2F1-CDC25A, miR29a-RAN, miR326-TBL1XR1, and the feedforward loops between 
      ZEB1/ZEB2 and miR-141/200a/200b/200c/429 might participate in LSCC development. 
      Compared with BEAS-2B cells, the SK-MES-1 cells presented a higher expression 
      level of miR-141, miR-200a, miR-200b, miR-200c but a lower expression level of 
      ZEB1. Overexpressed miR-200c significantly attenuated the expression of ZEB1 and 
      ZEB2 and inhibited the proliferation and migration of SK-MES-1 cells (all 
      p < 0.05). In addition, CDC25A, miR-200a, miR-200b, miR-200c, miR-130b, and 
      miR-590 are potential prognostic indicators of LSCC.
CI  - (c) 2019 Wiley Periodicals, Inc.
FAU - Shen, Yuzhou
AU  - Shen Y
AD  - Department of Thoracic Surgery, Shanghai Chest Hospital, Shanghai Jiaotong 
      University, Shanghai, China.
FAU - Pan, Xufeng
AU  - Pan X
AD  - Department of Thoracic Surgery, Shanghai Chest Hospital, Shanghai Jiaotong 
      University, Shanghai, China.
FAU - Yang, Jun
AU  - Yang J
AUID- ORCID: 0000-0003-2488-5408
AD  - Department of Thoracic Surgery, Shanghai Chest Hospital, Shanghai Jiaotong 
      University, Shanghai, China.
LA  - eng
PT  - Journal Article
DEP - 20190606
PL  - United States
TA  - J Cell Physiol
JT  - Journal of cellular physiology
JID - 0050222
RN  - 0 (Biomarkers, Tumor)
RN  - 0 (MicroRNAs)
RN  - 0 (Neoplasm Proteins)
RN  - 0 (RNA, Messenger)
SB  - IM
MH  - Biomarkers, Tumor/genetics
MH  - Carcinoma, Non-Small-Cell Lung/*genetics/pathology
MH  - Carcinoma, Squamous Cell/*genetics/pathology
MH  - Cell Line, Tumor
MH  - DNA Methylation/*genetics
MH  - Disease-Free Survival
MH  - Female
MH  - Gene Expression Regulation, Neoplastic/genetics
MH  - Gene Regulatory Networks/genetics
MH  - High-Throughput Nucleotide Sequencing
MH  - Humans
MH  - Male
MH  - MicroRNAs/*genetics
MH  - Neoplasm Proteins/genetics
MH  - Prognosis
MH  - RNA, Messenger/genetics
OTO - NOTNLM
OT  - DNA methylation
OT  - lung squamous cell carcinoma
OT  - microRNA
OT  - the Cancer Genome Atlas
OT  - transcription factor
EDAT- 2019/06/07 06:00
MHDA- 2020/06/12 06:00
CRDT- 2019/06/07 06:00
PHST- 2018/12/07 00:00 [received]
PHST- 2019/03/15 00:00 [revised]
PHST- 2019/05/01 00:00 [accepted]
PHST- 2019/06/07 06:00 [pubmed]
PHST- 2020/06/12 06:00 [medline]
PHST- 2019/06/07 06:00 [entrez]
AID - 10.1002/jcp.28852 [doi]
PST - ppublish
SO  - J Cell Physiol. 2019 Dec;234(12):22896-22910. doi: 10.1002/jcp.28852. Epub 2019 
      Jun 6.