UMass Chan Medical School Faculty Publications

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Program in Molecular Medicine; Graduate School of Biomedical Sciences

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Bioinformatics | Genetics and Genomics | Molecular Biology


Here we describe a rRNA depletion protocol based on RNase H digestion using antisense oligonucleotides (ASOs) specifically designed for C. elegans cytoplasmic rRNA (Fig. 1A). We suggest that this rRNA depletion protocol is applicable to RNA-seq applications where the yield of mRNA enrichment should be independent of poly(A) status, or any application which benefits from the removal of rRNA sequences, such ribosome profiling, or sequencing of non-coding RNAs other than rRNA.


ribosomal RNA, rRNA depletion, mRNA, RNA-seq

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Copyright: © 2020 by the authors. This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International (CC BY 4.0) License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

DOI of Published Version



Duan Y, Sun Y, Ambros V. RNA-seq with RNase H-based ribosomal RNA depletion specifically designed for C. elegans. MicroPubl Biol. 2020 Sep 22;2020:10.17912/micropub.biology.000312. doi: 10.17912/micropub.biology.000312. PMID: 33005886; PMCID: PMC7520128. Link to article on publisher's site

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Link to Article in PubMed

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microPublication biology

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Creative Commons License

Creative Commons Attribution 4.0 License
This work is licensed under a Creative Commons Attribution 4.0 License.