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WGCNA: an R package for weighted correlation network analysis.
Langfelder P, Horvath S. Langfelder P, et al. BMC Bioinformatics. 2008 Dec 29;9:559. doi: 10.1186/1471-2105-9-559. BMC Bioinformatics. 2008. PMID: 19114008 Free PMC article.
While the methods development was motivated by gene expression data, the underlying data mining approach can be applied to a variety of different settings. CONCLUSION: The WGCNA package provides R functions for weighted correlation network analysis, e.g. co-expression netw …
While the methods development was motivated by gene expression data, the underlying data mining approach can be applied to a variety of diff …
Identification and validation of immune and oxidative stress-related diagnostic markers for diabetic nephropathy by WGCNA and machine learning.
Xu M, Zhou H, Hu P, Pan Y, Wang S, Liu L, Liu X. Xu M, et al. Front Immunol. 2023 Feb 22;14:1084531. doi: 10.3389/fimmu.2023.1084531. eCollection 2023. Front Immunol. 2023. PMID: 36911691 Free PMC article.
Then, immune and oxidative stress-related hub genes were screened by combined WGCNA, machine learning, and protein-protein interaction (PPI) networks and validated by external validation sets. ...CONCLUSION: By combining three machine learning algorithms with WGCNA …
Then, immune and oxidative stress-related hub genes were screened by combined WGCNA, machine learning, and protein-protein interactio …
Integrative Analysis From Multicenter Studies Identifies a WGCNA-Derived Cancer-Associated Fibroblast Signature for Ovarian Cancer.
Feng S, Xu Y, Dai Z, Yin H, Zhang K, Shen Y. Feng S, et al. Front Immunol. 2022 Jul 8;13:951582. doi: 10.3389/fimmu.2022.951582. eCollection 2022. Front Immunol. 2022. PMID: 35874760 Free PMC article.
We performed bioinformatics analysis in 16 multicenter studies (2,742 patients) and identified CAF-associated hub genes using the weighted gene co-expression network analysis (WGCNA). A machine learning methodology was used to identify COL16A1, COL5A2, GREM1, LUM, SRPX, an …
We performed bioinformatics analysis in 16 multicenter studies (2,742 patients) and identified CAF-associated hub genes using the weighted g …
Identification of Important Modules and Biomarkers in Breast Cancer Based on WGCNA.
Tian Z, He W, Tang J, Liao X, Yang Q, Wu Y, Wu G. Tian Z, et al. Onco Targets Ther. 2020 Jul 12;13:6805-6817. doi: 10.2147/OTT.S258439. eCollection 2020. Onco Targets Ther. 2020. PMID: 32764968 Free PMC article.
MATERIALS AND METHODS: In this study, core modules and central genes related to BRCA were identified through a weighted gene co-expression network analysis (WGCNA). Gene expression profiles and clinical data of GSE25066 were obtained from the Gene Expression Omnibus (GEO) …
MATERIALS AND METHODS: In this study, core modules and central genes related to BRCA were identified through a weighted gene co-expression n …
Functional investigation and two-sample Mendelian randomization study of neuropathic pain hub genes obtained by WGCNA analysis.
Zeng J, Lai C, Luo J, Li L. Zeng J, et al. Front Neurosci. 2023 Apr 14;17:1134330. doi: 10.3389/fnins.2023.1134330. eCollection 2023. Front Neurosci. 2023. PMID: 37123369 Free PMC article.
METHODS: Differentially expressed analysis and weighted gene co-expression network analysis (WGCNA) was used to explore new neuropathic pain susceptibility modules and hub genes. ...Finally, a Mendelian randomization study was conducted to determine the causal effect of IL …
METHODS: Differentially expressed analysis and weighted gene co-expression network analysis (WGCNA) was used to explore new neuropath …
Identification of important genes related to ferroptosis and hypoxia in acute myocardial infarction based on WGCNA.
Liu K, Chen S, Lu R. Liu K, et al. Bioengineered. 2021 Dec;12(1):7950-7963. doi: 10.1080/21655979.2021.1984004. Bioengineered. 2021. PMID: 34565282 Free PMC article.
Based on the expression of ferroptosis-related genes (FRGs) and hypoxia-related genes, the ferroptosis Z-score and the hypoxia Z-score calculated by ssGSEA were significantly higher in the infarcted area of AMI mice than in the control group, and there was a positive correlation …
Based on the expression of ferroptosis-related genes (FRGs) and hypoxia-related genes, the ferroptosis Z-score and the hypoxia Z-score calcu …
Identification of Key Biomarkers Associated with Immunogenic Cell Death and Their Regulatory Mechanisms in Severe Acute Pancreatitis Based on WGCNA and Machine Learning.
Wang Z, Liu J, Wang Y, Guo H, Li F, Cao Y, Zhao L, Chen H. Wang Z, et al. Int J Mol Sci. 2023 Feb 3;24(3):3033. doi: 10.3390/ijms24033033. Int J Mol Sci. 2023. PMID: 36769358 Free PMC article.
The use of differentially expressed gene (DEG) analysis; weighted gene co-expression network analysis (WGCNA) and least absolute shrinkage and selection operator (LASSO) regression analysis allowed us to identify a total of three ICD-related hub genes (LY96, BCL2, IFNGR1) …
The use of differentially expressed gene (DEG) analysis; weighted gene co-expression network analysis (WGCNA) and least absolute shri …
Role of Calcium Signaling Pathway-Related Gene Regulatory Networks in Ischemic Stroke Based on Multiple WGCNA and Single-Cell Analysis.
Lin W, Wang Y, Chen Y, Wang Q, Gu Z, Zhu Y. Lin W, et al. Oxid Med Cell Longev. 2021 Dec 26;2021:8060477. doi: 10.1155/2021/8060477. eCollection 2021. Oxid Med Cell Longev. 2021. PMID: 34987704 Free PMC article.
RESULTS: The scores of 186 KEGG pathways were obtained via GSVA using microarray expression profiles of 40 specimens. WGCNA of the KEGG pathways revealed the two following pathways: calcium signaling pathway and neuroactive ligand-receptor interaction pathways. Subsequentl …
RESULTS: The scores of 186 KEGG pathways were obtained via GSVA using microarray expression profiles of 40 specimens. WGCNA of the KE …
Analysis of mRNA-lncRNA and mRNA-lncRNA-pathway co-expression networks based on WGCNA in developing pediatric sepsis.
Zhang X, Cui Y, Ding X, Liu S, Han B, Duan X, Zhang H, Sun T. Zhang X, et al. Bioengineered. 2021 Dec;12(1):1457-1470. doi: 10.1080/21655979.2021.1908029. Bioengineered. 2021. PMID: 33949285 Free PMC article.
This study identified differentially expressed mRNAs and lncRNAs based on Gene Expression Omnibus (GEO) database. And the weighted gene co-expression network analysis (WGCNA) was performed to explore co-expression modules associated with pediatric sepsis. Then, Gene Ontolo …
This study identified differentially expressed mRNAs and lncRNAs based on Gene Expression Omnibus (GEO) database. And the weighted gene co-e …
Identification of Immune-Related Key Genes in Ovarian Cancer Based on WGCNA.
Quan Q, Xiong X, Wu S, Yu M. Quan Q, et al. Front Genet. 2021 Nov 15;12:760225. doi: 10.3389/fgene.2021.760225. eCollection 2021. Front Genet. 2021. PMID: 34868239 Free PMC article.
Methods: The RNA-seq data of GDC TCGA Ovarian Cancer cohort of 376 patients was retrieved from website. Weighted gene co-expression network analysis (WGCNA) and ESTIMATE algorithm were applied to identify the key genes associated with the immune scores. The correlation bet …
Methods: The RNA-seq data of GDC TCGA Ovarian Cancer cohort of 376 patients was retrieved from website. Weighted gene co-expression network …
6,364 results

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