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Zhen-bo Feng
The First Affiliated Hospital of Guangxi Medical University
Corresponding Author
ORCiD: https://orcid.org/0000-0001-6361-4198
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background: The clinical significance and role of glycan synthase glucosamine (N-acetyl) transferase 3 (GCNT3) has not been investigated in lung squamous cell carcinoma (LUSC).
Materials & Methods: In the present study, multiple detection technologies including tissue microarrays, external microarrays and RNA-seq were adopted for evaluating the clinic-pathological significance of GCNT3 in 1632 LUSC samples and 1478 non-cancer samples. Standard mean difference and hazard ratio value were calculated from all included datasets for assessing differential expression and prognostic value of GCNT3 in LUSC. The molecular basis underlying GCNT3 in LUSC was also explored through methylation level, genetic mutation and functional enrichment analysis of GCNT3-correlated genes in LUSC.
Results: GCNT3 was obviously upregulated in LUSC samples. GCNT3 overexpression exerted unfavorable impact on the progression-free survival and overall survival of LUSC patients from GSE29013. The mRNA expression of GCNT3 was negatively correlated with methylation level of GCNT3 in LUSC and the predominant type of genetic alteration for GCNT3 in LUSC was mRNA high. Genes correlated with GCNT3 in LUSC mainly assembled in pathways such as adherens junction, p53 signaling pathway, protein digestion and absorption pathway.
Conclusions: In conclusion, overexpressed GCNT3 had clinical potential as therapeutic target for LUSC.
Keywords
GCNT3, LUSC, tissue microarray, IHC, RNA-seq
Figure 1
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This is a list of supplementary files associated with this preprint. Click to download.
- SupplementaryFigure1.tif
The discriminatory ability of GCNT3 expression in distinguishing lung squamous cell carcinoma from non-cancer tissues in each microarray and RNA-seq dataset. AUC: area under curve.
- SupplementaryFigure2.tif
Flow chart of choosing qualified microarrays or RNA-seq datasets.
- SupplementaryFigure3.tif
Distinguishing capacity of GCNT3 in lung squamous cell carcinoma for in-house tissue microarray, external microarrays and RNA-seq datasets. A. SROC curves; B. Forest plot of sensitivity; C. Forest plot of specificity; D. Forest plot of positive likelihood ratio; E. Forest plot of negative likelihood ratio.
- SupplementaryFigure4.tif
Pooled porgnostic forest plot of GCNT3 in lung squamous cell carcinoma for external microarrays and RNA-seq datasets. A: Forest plot for hazard ratio of overall survival; B. Forest plot for hazard ratio of recurrence-free survival; C. Forest plot for hazard ratio of relapse-free survival. HR: hazard ratio.
- SupplementaryFigure5.tif
Venn plots of genes positively or negatively correlated with GCNT3 in lung squamous cell carcinoma. A. The intersection of upregulated DEGs (blue) and genes showed positive correlation with GCNT3 in at least one dataset (red) of lung squamous cell carcinoma. B. The intersection of downregulated DEGs (blue) and genes concurrently showed negative correlation with GCNT3 in at least one datasets (red) of lung squamous cell carcinoma.
- SupplementaryTable1.docx
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A new preprint design is coming!
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This is a preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Research
Zhen-bo Feng
The First Affiliated Hospital of Guangxi Medical University
Corresponding Author
ORCiD: https://orcid.org/0000-0001-6361-4198
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
History
CURRENT STATUS: Posted
Version 1
Posted 13 Jan, 2021
No community comments so far
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Pathology
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background: The clinical significance and role of glycan synthase glucosamine (N-acetyl) transferase 3 (GCNT3) has not been investigated in lung squamous cell carcinoma (LUSC).
Materials & Methods: In the present study, multiple detection technologies including tissue microarrays, external microarrays and RNA-seq were adopted for evaluating the clinic-pathological significance of GCNT3 in 1632 LUSC samples and 1478 non-cancer samples. Standard mean difference and hazard ratio value were calculated from all included datasets for assessing differential expression and prognostic value of GCNT3 in LUSC. The molecular basis underlying GCNT3 in LUSC was also explored through methylation level, genetic mutation and functional enrichment analysis of GCNT3-correlated genes in LUSC.
Results: GCNT3 was obviously upregulated in LUSC samples. GCNT3 overexpression exerted unfavorable impact on the progression-free survival and overall survival of LUSC patients from GSE29013. The mRNA expression of GCNT3 was negatively correlated with methylation level of GCNT3 in LUSC and the predominant type of genetic alteration for GCNT3 in LUSC was mRNA high. Genes correlated with GCNT3 in LUSC mainly assembled in pathways such as adherens junction, p53 signaling pathway, protein digestion and absorption pathway.
Conclusions: In conclusion, overexpressed GCNT3 had clinical potential as therapeutic target for LUSC.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
Figure 8
This is a list of supplementary files associated with this preprint. Click to download.
- SupplementaryFigure1.tif
The discriminatory ability of GCNT3 expression in distinguishing lung squamous cell carcinoma from non-cancer tissues in each microarray and RNA-seq dataset. AUC: area under curve.
- SupplementaryFigure2.tif
Flow chart of choosing qualified microarrays or RNA-seq datasets.
- SupplementaryFigure3.tif
Distinguishing capacity of GCNT3 in lung squamous cell carcinoma for in-house tissue microarray, external microarrays and RNA-seq datasets. A. SROC curves; B. Forest plot of sensitivity; C. Forest plot of specificity; D. Forest plot of positive likelihood ratio; E. Forest plot of negative likelihood ratio.
- SupplementaryFigure4.tif
Pooled porgnostic forest plot of GCNT3 in lung squamous cell carcinoma for external microarrays and RNA-seq datasets. A: Forest plot for hazard ratio of overall survival; B. Forest plot for hazard ratio of recurrence-free survival; C. Forest plot for hazard ratio of relapse-free survival. HR: hazard ratio.
- SupplementaryFigure5.tif
Venn plots of genes positively or negatively correlated with GCNT3 in lung squamous cell carcinoma. A. The intersection of upregulated DEGs (blue) and genes showed positive correlation with GCNT3 in at least one dataset (red) of lung squamous cell carcinoma. B. The intersection of downregulated DEGs (blue) and genes concurrently showed negative correlation with GCNT3 in at least one datasets (red) of lung squamous cell carcinoma.
- SupplementaryTable1.docx
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