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Yabin Guo
Sun Yat-Sen Memorial Hospital
Corresponding Author
ORCiD: https://orcid.org/0000-0001-8316-8527
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background：LINE-1 (L1) and Alu were reported to regulate tumor development and progression by constituting chimeric transcripts with diverse sequences. The landscape of L1 or Alu chimeric transcripts in breast tumor has not been reported yet, so breast tumor L1 and Alu chimeric transcripts were investigated in this study by analyzing more than 50 billion RNA sequences of breast tumor tissues and adjacent normal tissues from TCGA database.
Results：The expression of L1 and Alu in breast tumor tissues were significantly higher than that in the non-tumor tissues. High expression of L1 and Alu in breast tumor predicted poor prognosis. Further exploration demonstrated that L1 and Alu were extensively chimerically expressed with adjacent transcripts. 651 L1-mRNA chimeric transcripts and 1525 Alu-mRNA chimeric transcripts showed significantly different frequencies between non-tumor and tumor tissues. 1009 L1-lncRNA chimeric transcripts and 2575 Alu-lncRNA chimeric transcripts had significantly different frequencies between non-tumor and tumor tissues. Function cluster analysis demonstrated that these differently chimerically expressed genes were involved in multi facets of tumorigenesis, including metabolism, signal transduction, immune reaction, cell cycle and apoptosis, etc.
Conclusions：Chimeric expression with different sequences might be an important mechanism for L1 and Alu to promote breast tumor progression.
Keywords
Alu, breast tumor, lncRNA, LINE-1, retrotransposon
Figure 1
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Figure 3
Figure 4
Figure 5
Figure 6
This is a list of supplementary files associated with this preprint. Click to download.
- FigureS1.pdf
Figure S1. Cluster analysis of relatively high correlated transcripts with L1 & Alu total expression. Transcripts that correlated to L1 & Alu total expression in breast tumor with absolute value correlation coefficient more than 0.45 were cluster analyzed with RStudio.
- SupTable1TCGAID.xls
Table S1. TCGA ID of RNA sequencing data.
- SupTable2L1gene.xls
Table S2. List of L1-gene chimeric transcripts.
- SupTable3Alugene.xls
Table S3. List of Alu-gene chimeric transcripts.
- SupTable4L1lncRNA.xls
Table S4. List of L1-lncRNA chimeric transcripts.
- SupTable5AlulncRNA.xls
Table S5. List of Alu-lncRNA chimeric transcripts.
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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
Yabin Guo
Sun Yat-Sen Memorial Hospital
Corresponding Author
ORCiD: https://orcid.org/0000-0001-8316-8527
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 24 Mar, 2021
No community comments so far
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Electronic Materials and Devices
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background：LINE-1 (L1) and Alu were reported to regulate tumor development and progression by constituting chimeric transcripts with diverse sequences. The landscape of L1 or Alu chimeric transcripts in breast tumor has not been reported yet, so breast tumor L1 and Alu chimeric transcripts were investigated in this study by analyzing more than 50 billion RNA sequences of breast tumor tissues and adjacent normal tissues from TCGA database.
Results：The expression of L1 and Alu in breast tumor tissues were significantly higher than that in the non-tumor tissues. High expression of L1 and Alu in breast tumor predicted poor prognosis. Further exploration demonstrated that L1 and Alu were extensively chimerically expressed with adjacent transcripts. 651 L1-mRNA chimeric transcripts and 1525 Alu-mRNA chimeric transcripts showed significantly different frequencies between non-tumor and tumor tissues. 1009 L1-lncRNA chimeric transcripts and 2575 Alu-lncRNA chimeric transcripts had significantly different frequencies between non-tumor and tumor tissues. Function cluster analysis demonstrated that these differently chimerically expressed genes were involved in multi facets of tumorigenesis, including metabolism, signal transduction, immune reaction, cell cycle and apoptosis, etc.
Conclusions：Chimeric expression with different sequences might be an important mechanism for L1 and Alu to promote breast tumor progression.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
This is a list of supplementary files associated with this preprint. Click to download.
- FigureS1.pdf
Figure S1. Cluster analysis of relatively high correlated transcripts with L1 & Alu total expression. Transcripts that correlated to L1 & Alu total expression in breast tumor with absolute value correlation coefficient more than 0.45 were cluster analyzed with RStudio.
- SupTable1TCGAID.xls
Table S1. TCGA ID of RNA sequencing data.
- SupTable2L1gene.xls
Table S2. List of L1-gene chimeric transcripts.
- SupTable3Alugene.xls
Table S3. List of Alu-gene chimeric transcripts.
- SupTable4L1lncRNA.xls
Table S4. List of L1-lncRNA chimeric transcripts.
- SupTable5AlulncRNA.xls
Table S5. List of Alu-lncRNA chimeric transcripts.
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