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High throughput expression profiling and in situ screening of circular RNAs in tissues

View ORCID ProfileAmmar Zaghlool, View ORCID ProfileAdam Ameur, View ORCID ProfileChenglin Wu, View ORCID ProfileJakub Orzechowski Westholm, View ORCID ProfileAdnan Niazi, Manimozhi Manivannan, Kelli Bramlett, Mats Nilsson, View ORCID ProfileLars Feuk
doi: https://doi.org/10.1101/183020
Ammar Zaghlool
1Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden
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Adam Ameur
1Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden
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Chenglin Wu
2Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
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  • ORCID record for Chenglin Wu
Jakub Orzechowski Westholm
2Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
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Adnan Niazi
1Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden
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Manimozhi Manivannan
3Clinical Sequencing Division, Life Science Solutions Group, Thermo Fisher Scientific, San Francisco, CA, USA
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Kelli Bramlett
3Clinical Sequencing Division, Life Science Solutions Group, Thermo Fisher Scientific, San Francisco, CA, USA
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Mats Nilsson
1Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden
2Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
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Lars Feuk
1Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden
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  • ORCID record for Lars Feuk
  • For correspondence: lars.feuk@igp.uu.se
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Abstract

Circular RNAs (circRNAs) were recently discovered as a class of widely expressed noncoding RNA and have been implicated in regulation of gene expression. However, the function of the majority of circRNAs remains unknown. Studies of circRNAs have been hampered by a lack of essential approaches for detection, quantification and visualization. We therefore developed a target-enrichment sequencing method suitable for high-throughput screening of circRNAs and their linear counterparts. We also applied padlock probes and in situ sequencing to visualize and determine circRNAs localization in human brain tissue at subcellular levels. We measured circRNA abundance across different human samples and tissues. Our results demonstrate the potential of this RNA class to act as a specific diagnostic marker in blood and serum, by detection of circRNAs from genes exclusively expressed in the brain. The powerful and scalable tools we present will enable studies of circRNA function and facilitate screening of circRNA as diagnostic biomarkers.

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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 August 31, 2017.
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High throughput expression profiling and in situ screening of circular RNAs in tissues
Ammar Zaghlool, Adam Ameur, Chenglin Wu, Jakub Orzechowski Westholm, Adnan Niazi, Manimozhi Manivannan, Kelli Bramlett, Mats Nilsson, Lars Feuk
bioRxiv 183020; doi: https://doi.org/10.1101/183020
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High throughput expression profiling and in situ screening of circular RNAs in tissues
Ammar Zaghlool, Adam Ameur, Chenglin Wu, Jakub Orzechowski Westholm, Adnan Niazi, Manimozhi Manivannan, Kelli Bramlett, Mats Nilsson, Lars Feuk
bioRxiv 183020; doi: https://doi.org/10.1101/183020

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