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Background: A growing evidence suggests that long non-coding RNAs (lncRNAs) can function as a microRNA (miRNA) sponge in various diseases including oral cancer. However, the pathophysiological function of lncRNAs remains unclear.
Methods: Based on the competitive endogenous RNA (ceRNA) theory, we constructed a lncRNA-miRNA-mRNA network in oral cancer with the human expression profiles GSE74530 from the Gene Expression Omnibus (GEO) database. We used topological analysis to determine the hub lncRNAs in the regulatory ceRNA network. Then, function enrichment analysis was performed using the clusterProfiler R package. Clinical information was downloaded from The Cancer Genome Atlas (TCGA) database and survival analysis was performed with Kaplan-Meier analysis.
Results: A total of 238 potential co-dysregulated competing triples were obtained in the lncRNA-associated ceRNA network in oral cancer, which consisted of 10 lncRNA nodes, 41 miRNA nodes and 122 mRNA nodes. Additionally, we found lncRNA HCG22 exhibiting superior potential as a diagnostic and prognostic marker of oral cancer.
Conclusions: Our findings provide novel insights to understand the ceRNA regulation in oral cancer and identify a novel lncRNA as a potential molecular biomarker.
Keywords
competitive endogenous RNA, oral cancer, long non-coding RNA, HCG22
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CURRENT STATUS: Published
View the published article at BMC Medical Genomics.
Version 2
Posted 29 May, 2020
No community comments so far
Reviewer #2 agreed
On 04 Jun, 2020
Review #2 received
Received 04 Jun, 2020
Review #1 received
Received 27 May, 2020
Reviewers invited
Invitations sent on 20 May, 2020
Reviewer #1 agreed
On 20 May, 2020
Editor assigned
On 19 May, 2020
Submission checks complete
On 18 May, 2020
Editor invited
On 18 May, 2020
No comments provided
Editorial decision: Major revision
On 20 Apr, 2020
Reviewer #3 agreed
On 02 Apr, 2020
Review #2 received
Received 02 Apr, 2020
Review #1 received
Received 02 Apr, 2020
Editor assigned
On 30 Mar, 2020
Reviewers invited
Invitations sent on 30 Mar, 2020
Reviewer #1 agreed
On 30 Mar, 2020
Reviewer #2 agreed
On 30 Mar, 2020
Submission checks complete
On 20 Mar, 2020
Editor invited
On 20 Mar, 2020
First submitted
On 29 Feb, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Epigenetics & Genomics
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A new preprint design is coming!
We have improved readability, clarity, accessibility, and opportunities for engagement.
See the published version of this preprint at BMC Medical Genomics.
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.
Learn more about In Review
Research article
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
Peer Review Timeline
CURRENT STATUS: Published
View the published article at BMC Medical Genomics.
Version 2
Posted 29 May, 2020
No community comments so far
Reviewer #2 agreed
On 04 Jun, 2020
Review #2 received
Received 04 Jun, 2020
Review #1 received
Received 27 May, 2020
Reviewers invited
Invitations sent on 20 May, 2020
Reviewer #1 agreed
On 20 May, 2020
Editor assigned
On 19 May, 2020
Submission checks complete
On 18 May, 2020
Editor invited
On 18 May, 2020
No comments provided
Editorial decision: Major revision
On 20 Apr, 2020
Reviewer #3 agreed
On 02 Apr, 2020
Review #2 received
Received 02 Apr, 2020
Review #1 received
Received 02 Apr, 2020
Editor assigned
On 30 Mar, 2020
Reviewers invited
Invitations sent on 30 Mar, 2020
Reviewer #1 agreed
On 30 Mar, 2020
Reviewer #2 agreed
On 30 Mar, 2020
Submission checks complete
On 20 Mar, 2020
Editor invited
On 20 Mar, 2020
First submitted
On 29 Feb, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Epigenetics & Genomics
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published article at BMC Medical Genomics.
Background: A growing evidence suggests that long non-coding RNAs (lncRNAs) can function as a microRNA (miRNA) sponge in various diseases including oral cancer. However, the pathophysiological function of lncRNAs remains unclear.
Methods: Based on the competitive endogenous RNA (ceRNA) theory, we constructed a lncRNA-miRNA-mRNA network in oral cancer with the human expression profiles GSE74530 from the Gene Expression Omnibus (GEO) database. We used topological analysis to determine the hub lncRNAs in the regulatory ceRNA network. Then, function enrichment analysis was performed using the clusterProfiler R package. Clinical information was downloaded from The Cancer Genome Atlas (TCGA) database and survival analysis was performed with Kaplan-Meier analysis.
Results: A total of 238 potential co-dysregulated competing triples were obtained in the lncRNA-associated ceRNA network in oral cancer, which consisted of 10 lncRNA nodes, 41 miRNA nodes and 122 mRNA nodes. Additionally, we found lncRNA HCG22 exhibiting superior potential as a diagnostic and prognostic marker of oral cancer.
Conclusions: Our findings provide novel insights to understand the ceRNA regulation in oral cancer and identify a novel lncRNA as a potential molecular biomarker.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
Figure 8
Figure 9
This is a list of supplementary files associated with this preprint. Click to download.
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