Screening key lncRNAs for human lung adenocarcinoma based on machine learning and weighted gene co-expression network analysis.

@article{Lei2019ScreeningKL,
  title={Screening key lncRNAs for human lung adenocarcinoma based on machine learning and weighted gene co-expression network analysis.},
  author={Ting Lei and Yu Wang and Junfeng Fu and Ze Wang and Zhenyang Lv and Zhe Fan},
  journal={Cancer biomarkers : section A of Disease markers},
  year={2019}
}
  • T. Lei, Yu Wang, Z. Fan
  • Published 2019
  • Biology
  • Cancer biomarkers : section A of Disease markers
BACKGROUND Lung adenocarcinoma (LUAD) accounts for a significant proportion of lung cancer and there have been few diagnostic and therapeutic targets for LUAD due to the lack of specific biomarker. The aim of this study was to identify key long non-coding RNAs (lncRNAs) for LUAD. METHODS The lncRNA and mRNA expression profiles of a large group of patients with LUAD were obtained from The Cancer Genome Atlas (TCGA). The differentially expressed lncRNAs (DElncRNAs) and mRNAs (DEmRNAs) were… 
Identification and validation of key modules and hub genes associated with the pathological stage of oral squamous cell carcinoma by weighted gene co-expression network analysis
TLDR
WGCNA systematically discovered a co-expressed turquoise module and five hub genes associated with the pathologic T stage for the first time, which provided further insight that WGCNA may reveal the molecular regulatory mechanism involved in the carcinogenesis and progression of OSCC.
The prognostic value of an autophagy-related lncRNA signature in hepatocellular carcinoma
TLDR
Remarkably, the 7 autophagy-related lncRNAs may participate in Spliceosome, Cell cycle, RNA transport, DNA replication, and mRNA surveillance pathway and be related to the biological process of RNA splicing and mRNA splicing.
Association between lincRNA expression and overall survival for patients with triple-negative breast cancer
TLDR
Evidence from observational studies and in vitro experiments indicates that LINC00449 and LINC01270 may be prognostic biomarkers for TNBC, and two lincRNAs were significantly associated with both worse overall survival and DFS.
Long Non-Coding RNA BLACAT1 in Human Cancers
TLDR
The present understanding of the functions and underlying mechanisms of BLACAT1 in the occurrence and development of various human cancers are summarized and the roles of this lncRNA in cancers are discussed, including its promising application as a prognostic biomarker or a novel therapeutic target for malignancies.
ETV4 mediated lncRNA C2CD4D-AS1 overexpression contributes to the malignant phenotype of lung adenocarcinoma cells via miR-3681-3p/NEK2 axis
TLDR
C2CD4D-AS1 up-regulation induced by ETV4 enhanced NEK2 expression by sequestering miR-3681-3p to contribute to the malignant behaviors of LUAD cells.
Oncogenic roles of lncRNA BLACAT1 and its related mechanisms in human cancers.
  • Wei Han, F. Yu, Wei Guan
  • Biology, Medicine
    Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie
  • 2020
Classify multicategory outcome in patients with lung adenocarcinoma using clinical, transcriptomic and clinico-transcriptomic data: machine learning versus multinomial models.
TLDR
Notably, NDUFS5, P2RY2, PRPF18, CCL24, ZNF813, MYL6, FLJ41941, POU5F1B, and SUV420H1 were the top-ranked genes that were associated with alive without disease and inversely linked to other outcomes.
Construction of genetic classification model for coronary atherosclerosis heart disease using three machine learning methods
TLDR
Among the CAD classifiers constructed by three machine learning methods, the SVM model has the best performance, and is found involved in the pathogenic mechanism of CAD.

References

SHOWING 1-10 OF 26 REFERENCES
Identification of ceRNA network based on a RNA-seq shows prognostic lncRNA biomarkers in human lung adenocarcinoma
TLDR
Insight is provided into the lncRNA-related ceRNA network in LUAD and potential diagnostic and prognostic biomarkers are identified and the 32-gene signature was an independent prognostic indicator for LUAD.
Integrated TCGA analysis implicates lncRNA CTB-193M12.5 as a prognostic factor in lung adenocarcinoma
TLDR
This study mined existing TCGA datasets for novel factors associated with lung adenocarcinoma, and identified a largely unknown lncRNA as a potential prognostic factor.
Identification of dysregulated long non-coding RNAs/microRNAs/mRNAs in TNM I stage lung adenocarcinoma
TLDR
The aberrant expression profiling of long non-coding RNA (lncRNA) in TNM I stage (stage I) LUAD might lay the foundation for illumination of pathogenesis of LUAD and identification of potential therapeutic targets and novel diagnosis biomarkers for LUAD patients.
Differential expression analysis at the individual level reveals a lncRNA prognostic signature for lung adenocarcinoma
TLDR
LncRIndiv can successfully detect DE lncRNAs in individuals and be applied to identify prognostic signature for LUAD patients and showed good performance.
Identification of key long non-coding RNAs as competing endogenous RNAs for miRNA-mRNA in lung adenocarcinoma.
TLDR
MEG3, MIAT, LINC00115 may be underlying therapeutic targets for LUAD functioning as ceRNAs for regulation of miRNA-mRNA.
Evaluation on the diagnostic and prognostic values of long non-coding RNA BLACAT1 in common types of human cancer
TLDR
It is demonstrated that BLACAT1 could act as a non-specific diagnostic biomarkers for cancers and a potential biomarker for prognosis prediction of endometrial cancer.
Clinical roles of the aberrantly expressed lncRNAs in lung squamous cell carcinoma: a study based on RNA-sequencing and microarray data mining
TLDR
The prospective molecular assessment of key lncRNAs showed that a certain series of genes could be involved in the regulation network and provides a novel platform for searching for more capable diagnostic biomarkers for LUSC.
Prognostic value of long non-coding RNA BLACAT1 in patients with papillary thyroid carcinoma
TLDR
It is demonstrated that BLACAT1 could act as a possible suppressor gene in PTC and may serve as a potential biomarker for prognosis prediction of PTC.
BLACAT1 predicts poor prognosis and serves as oncogenic lncRNA in small‐cell lung cancer
TLDR
BLACat1 is associated with the malignant status and prognosis in patients with SCLC, and functions as an oncogenic lncRNA in regulating cell proliferation and motility, suggesting BLACAT1 may act as a potential target for SclC prevention and treatment.
Long Noncoding RNA Bladder Cancer Associated Transcript 1 Promotes the Proliferation, Migration, and Invasion of Nonsmall Cell Lung Cancer Through Sponging miR-144.
TLDR
Overall, this study reveals the overexpression of BLACAT1 in NSCLC tissue and cells, and discovers the oncogenic role of BLacat1 inNSCLC genesis through sponging miR-144, providing a potential biomarker for early detection and prognosis prediction of NSCLc.
...
1
2
3
...