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Is evolutionary conservation a useful predictor for cancer long noncoding RNAs? Insights from the Cancer lncRNA Census 3

View ORCID ProfileAdrienne Vancura, Alejandro H. Gutierrez, Thorben Hennig, Carlos Pulido-Quetglas, Frank Slack, View ORCID ProfileRory Johnson, Simon Häfliger
doi: https://doi.org/10.1101/2022.09.01.506261
Adrienne Vancura
1Department of Medical Oncology, Inselspital, Bern University Hospital, University of Bern, Bern, Switzerland
2Graduate School of Cellular and Biomedical Sciences, University of Bern, Bern, Switzerland
3Department for BioMedical Research, University of Bern, Bern, Switzerland
4HMS Initiative for RNA Medicine, Department of Pathology, Beth Israel Deaconess Medical Center Cancer Center, Harvard Medical School, Boston, Massachusetts 02215, USA
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Alejandro H. Gutierrez
1Department of Medical Oncology, Inselspital, Bern University Hospital, University of Bern, Bern, Switzerland
3Department for BioMedical Research, University of Bern, Bern, Switzerland
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Thorben Hennig
4HMS Initiative for RNA Medicine, Department of Pathology, Beth Israel Deaconess Medical Center Cancer Center, Harvard Medical School, Boston, Massachusetts 02215, USA
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Carlos Pulido-Quetglas
1Department of Medical Oncology, Inselspital, Bern University Hospital, University of Bern, Bern, Switzerland
2Graduate School of Cellular and Biomedical Sciences, University of Bern, Bern, Switzerland
3Department for BioMedical Research, University of Bern, Bern, Switzerland
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Frank Slack
4HMS Initiative for RNA Medicine, Department of Pathology, Beth Israel Deaconess Medical Center Cancer Center, Harvard Medical School, Boston, Massachusetts 02215, USA
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Rory Johnson
1Department of Medical Oncology, Inselspital, Bern University Hospital, University of Bern, Bern, Switzerland
3Department for BioMedical Research, University of Bern, Bern, Switzerland
5School of Biology and Environmental Science, University College Dublin, Dublin D04 V1W8, Ireland
6Conway Institute of Biomedical and Biomolecular Research, University College Dublin, Dublin D04 V1W8, Ireland
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  • For correspondence: rory.johnson@ucd.ie simon.haefliger@insel.ch
Simon Häfliger
1Department of Medical Oncology, Inselspital, Bern University Hospital, University of Bern, Bern, Switzerland
3Department for BioMedical Research, University of Bern, Bern, Switzerland
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  • For correspondence: rory.johnson@ucd.ie simon.haefliger@insel.ch
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Abstract

Evolutionary conservation is a measure of gene functionality that is widely used to prioritise long noncoding RNAs (lncRNA) in cancer research. Intriguingly, while updating our Cancer LncRNA Census, we observed an inverse relationship between year of discovery and evolutionary conservation. This observation is specific to cancer over other diseases, implying a sampling bias in selection of lncRNA candidates and casting doubt on the value of evolutionary metrics for prioritisation of cancer-related lncRNAs.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • https://docs.google.com/spreadsheets/d/1nT-YP8O4gkoRb9RwYAKtwpSt5C5liFLbxb0cc8mqht4/edit#gid=0

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted September 04, 2022.
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Is evolutionary conservation a useful predictor for cancer long noncoding RNAs? Insights from the Cancer lncRNA Census 3
Adrienne Vancura, Alejandro H. Gutierrez, Thorben Hennig, Carlos Pulido-Quetglas, Frank Slack, Rory Johnson, Simon Häfliger
bioRxiv 2022.09.01.506261; doi: https://doi.org/10.1101/2022.09.01.506261
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Is evolutionary conservation a useful predictor for cancer long noncoding RNAs? Insights from the Cancer lncRNA Census 3
Adrienne Vancura, Alejandro H. Gutierrez, Thorben Hennig, Carlos Pulido-Quetglas, Frank Slack, Rory Johnson, Simon Häfliger
bioRxiv 2022.09.01.506261; doi: https://doi.org/10.1101/2022.09.01.506261

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