PMID- 31848941
OWN - NLM
STAT- MEDLINE
DCOM- 20210406
LR  - 20211204
IS  - 1532-2807 (Electronic)
IS  - 1219-4956 (Linking)
VI  - 26
IP  - 3
DP  - 2020 Jul
TI  - Identification of Key Genes and Signaling Pathways Associated with the 
      Progression of Gastric Cancer.
PG  - 1903-1919
LID - 10.1007/s12253-019-00781-3 [doi]
AB  - Genomic features have been gradually regarded as part of the fundamentals to the 
      clinical diagnosis and treatment for gastric cancer. However, the molecular 
      alterations taking place during the progression of gastric cancer remain unclear. 
      Therefore, identification of potential key genes and pathways in the gastric 
      cancer progression is crucial to clinical practices. The gene expression profile, 
      GSE103236, was retrieved for the identification of the differentially expressed 
      genes (DEGs), followed by gene ontology (GO), Kyoto Encyclopedia of Genes and 
      Genomes (KEGG) enrichments, gene set enrichment analysis (GSEA) and the 
      protein-protein interaction (PPI) networks. Multiple bioinformatics platforms 
      were employed for expression and prognostic analysis. Fresh frozen gastric cancer 
      tissues were used for external validation. A total of 161 DEGs were identified 
      from GSE103236. The PPI network-derived hub genes included collagen type I alpha 
      1 chain (COL1A1), tissue inhibitor of the metalloproteinases (TIMP1), Secreted 
      Phosphoprotein 1 (SPP1), somatostatin (SST), neuropeptide Y (NPY), biglycan 
      (BGN), matrix metallopeptidase 3 (MMP3), apolipoprotein E (APOE), ATPase H+/K+ 
      transporting alpha subunit (ATP4A), lysyl oxidase (LOX). SPP1 (log rank 
      p = 0.0048, HR = 1.39 [1.1-1.75]) and MMP3 (log rank p < 0.0001, HR = 1.77 
      [1.44-2.19]) were significantly associated with poor overall survival. 
      Stage-specifically, both COL1A1 and BGN were correlated with significant in stage 
      III and IV gastric cancer cases. LOX showed significant correlation with 
      prognosis in stage I and stage II gastric cancer cases. Furthermore, cg00583003 
      of SPP1 and cg16466334 of MMP3 exhibited highly methylation level and significant 
      prognostic values (SPP1: HR = 1.625, p = 0.013; MMP3: HR = 0.647, p = 0.011). Hub 
      genes signature displayed a favorable prognostic value (p value = 5.227e-05). 
      APOE demonstrated the highest correlation with CD8(+) T cells, neutrophils, and 
      dendritic cells whereas BGN had the highest correlation with macrophages. This 
      study systematically explored the key genes and pathways involved in PGC and AGC, 
      providing insights into therapeutic individualized management.
FAU - Yu, Chaoran
AU  - Yu C
AD  - Department of Gastrointestinal Surgery, Ruijin Hospital, Shanghai Jiao Tong 
      University School of Medicine, Shanghai, 200025, People's Republic of China. 
      chaoran_yu@sjtu.edu.cn.
FAU - Chen, Jie
AU  - Chen J
AD  - Department of Gastrointestinal Surgery, Ruijin Hospital, Shanghai Jiao Tong 
      University School of Medicine, Shanghai, 200025, People's Republic of China.
AD  - Department of Nursing, Ruijin Hospital, School of Medicine, Shanghai Jiao Tong 
      University, Shanghai, 200025, People's Republic of China.
FAU - Ma, Junjun
AU  - Ma J
AD  - Department of Gastrointestinal Surgery, Ruijin Hospital, Shanghai Jiao Tong 
      University School of Medicine, Shanghai, 200025, People's Republic of China.
FAU - Zang, Lu
AU  - Zang L
AD  - Department of Gastrointestinal Surgery, Ruijin Hospital, Shanghai Jiao Tong 
      University School of Medicine, Shanghai, 200025, People's Republic of China.
FAU - Dong, Feng
AU  - Dong F
AD  - Department of Gastrointestinal Surgery, Ruijin Hospital, Shanghai Jiao Tong 
      University School of Medicine, Shanghai, 200025, People's Republic of China.
FAU - Sun, Jing
AU  - Sun J
AD  - Department of Gastrointestinal Surgery, Ruijin Hospital, Shanghai Jiao Tong 
      University School of Medicine, Shanghai, 200025, People's Republic of China.
FAU - Zheng, Minhua
AU  - Zheng M
AD  - Department of Gastrointestinal Surgery, Ruijin Hospital, Shanghai Jiao Tong 
      University School of Medicine, Shanghai, 200025, People's Republic of China.
LA  - eng
GR  - 81402423/National Natural Science Foundation of China/
GR  - 81572818/National Natural Science Foundation of China/
GR  - 81871984/National Natural Science Foundation of China/
GR  - 2017YQ062/Shanghai Municipal Population and Family Planning Commission (CN)/
GR  - 18695841400/Shanghai Science and Technology Committee/
PT  - Journal Article
DEP - 20191217
PL  - Switzerland
TA  - Pathol Oncol Res
JT  - Pathology oncology research : POR
JID - 9706087
RN  - 0 (Biomarkers, Tumor)
RN  - 0 (COL1A1 protein, human)
RN  - 0 (Collagen Type I, alpha 1 Chain)
SB  - IM
MH  - Biomarkers, Tumor/*genetics/*metabolism
MH  - Collagen Type I, alpha 1 Chain
MH  - Disease Progression
MH  - Humans
MH  - Prognosis
MH  - Signal Transduction/physiology
MH  - Stomach Neoplasms/*genetics/*pathology
MH  - Transcriptome
OTO - NOTNLM
OT  - Differentially expressed genes
OT  - Gastric cancer
OT  - Gene ontology
OT  - Gene set enrichment analysis
OT  - KEGG pathway
OT  - Protein-protein interaction network
EDAT- 2019/12/19 06:00
MHDA- 2021/04/07 06:00
CRDT- 2019/12/19 06:00
PHST- 2019/08/03 00:00 [received]
PHST- 2019/11/19 00:00 [accepted]
PHST- 2019/12/19 06:00 [pubmed]
PHST- 2021/04/07 06:00 [medline]
PHST- 2019/12/19 06:00 [entrez]
AID - 10.1007/s12253-019-00781-3 [pii]
AID - 10.1007/s12253-019-00781-3 [doi]
PST - ppublish
SO  - Pathol Oncol Res. 2020 Jul;26(3):1903-1919. doi: 10.1007/s12253-019-00781-3. Epub 
      2019 Dec 17.