PMID- 27123111
OWN - NLM
STAT- PubMed-not-MEDLINE
LR  - 20201001
IS  - 1792-1074 (Print)
IS  - 1792-1082 (Electronic)
IS  - 1792-1074 (Linking)
VI  - 11
IP  - 5
DP  - 2016 May
TI  - Identification of key genes for laryngeal squamous cell carcinoma using weighted 
      co-expression network analysis.
PG  - 3327-3331
AB  - Laryngeal squamous cell carcinoma (LSCC) is the most common malignant tumor in 
      the head and neck, and can seriously affect the daily life of patients. To study 
      the mechanisms of LSCC, the microarray of GSE51958 was analyzed in the present 
      study. GSE51958 was downloaded from Gene Expression Omnibus, and included a 
      collection of LSCC tissue samples and matched adjacent non-cancerous tissue 
      samples from 10 patients. Differentially-expressed genes (DEGs) were identified 
      using limma package. Next, a weighted co-expression network was constructed for 
      the DEGs by WGCNA package in R. Modules of the weighted co-expression network 
      were obtained through constructing a hierarchical clustering tree using the 
      hybrid dynamic shear tree method. Using the clusterProfiler package, the 
      potential functions of DEGs in the modules correlated with LSCC were predicted by 
      pathway enrichment analysis. In total, 959 DEGs were screened from the LSCC 
      samples compared with the adjacent non-cancerous samples, including 553 
      upregulated and 406 downregulated genes. The appointed black, brown, gray, pink 
      and yellow modules were screened for the DEGs in the weighted co-expression 
      network. For the DEGs in the brown and yellow modules, the enriched pathways were 
      cytokine-cytokine receptor interaction and metabolic pathways, respectively. The 
      DEGs in the pink module were involved in the majority of pathways. With high 
      connectivity degrees in the pink module, TPX2, microtubule-associated (TPX2; 
      degree, 25), minichromosome maintenance complex component 2 (MCM2; degree, 25), 
      ubiquitin-like with PHD and ring finger domains 1 (UHRF1; degree, 22), 
      cyclin-dependent kinase 2 (CDK2; degree, 20) and protein regulator of cytokinesis 
      1 (PRC1; degree, 20) may be involved in LSCC. Overall, In conclusion, from the 
      integrated bioinformatics analysis of genes that may be associated with LSCC, 959 
      DEGs were obtained from LSCC samples compared with adjacent non-cancerous 
      samples, and TPX2, MCM2, UHRF1, CDK2 and PRC1 were found to hold a possible 
      association with the disease.
FAU - Li, Xiao-Tian
AU  - Li XT
AD  - Department of Otolaryngology-Head and Neck Surgery, The First Hospital of China 
      Medical University, Shenyang, Liaoning 110001, P.R. China.
LA  - eng
PT  - Journal Article
DEP - 20160324
PL  - Greece
TA  - Oncol Lett
JT  - Oncology letters
JID - 101531236
PMC - PMC4840875
OTO - NOTNLM
OT  - differentially-expressed genes
OT  - laryngeal squamous cell carcinoma
OT  - module analysis
OT  - pathway enrichment analysis
OT  - weighted co-expression network
EDAT- 2016/04/29 06:00
MHDA- 2016/04/29 06:01
PMCR- 2016/03/24
CRDT- 2016/04/29 06:00
PHST- 2015/02/10 00:00 [received]
PHST- 2016/02/19 00:00 [accepted]
PHST- 2016/04/29 06:00 [entrez]
PHST- 2016/04/29 06:00 [pubmed]
PHST- 2016/04/29 06:01 [medline]
PHST- 2016/03/24 00:00 [pmc-release]
AID - OL-0-0-4378 [pii]
AID - 10.3892/ol.2016.4378 [doi]
PST - ppublish
SO  - Oncol Lett. 2016 May;11(5):3327-3331. doi: 10.3892/ol.2016.4378. Epub 2016 Mar 
      24.