ArticleRNA (New York, N.Y.)2020
Ribo-Pop: simple, cost-effective, and widely applicable ribosomal RNA depletion.
Article in RNA (New York, N.Y.), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
What it found
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Who cites it
12 citing papers in PubMed, 21 citations in OpenAlex.
- DepStep: An Efficient One-Step rRNA Depletion Workflow for RNA Sequencing in Non-model Organisms.Bio-protocol · 2026Article
- Decoding the molecular logic of rapidly evolving ZAD zinc finger proteins inScience advances · 2026Article
- Article
- EFFICIENT RIBOSOMAL RNA DEPLETION FROMWellcome open research · 2025Article
- Ribosomal RNA Depletion for Poly(A)-Tail-Independent Quantification of Genome Activation.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Principles, challenges, and advances in ribosome profiling: from bulk to low-input and single-cell analysis.Advanced biotechnology · 2023Review
- Ceg1 depletion reveals mechanisms governing degradation of non-capped RNAs in Saccharomyces cerevisiae.Communications biology · 2023Article
- Dynamically regulated transcription factors are encoded by highly unstable mRNAs in theRNA (New York, N.Y.) · 2023Article
- NanoViromics: long-read sequencing of dsRNA for plant virus and viroid rapid detection.Frontiers in microbiology · 2023Article
- Microtubule integrity regulates budding yeast RAM pathway gene expression.Frontiers in cell and developmental biology · 2022Article
- Article
- Optimized design of antisense oligomers for targeted rRNA depletion.Nucleic acids research · 2021Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
The measurement of RNA abundance derived from massively parallel sequencing experiments is an essential technique. Methods that reduce ribosomal RNA levels are usually required prior to sequencing library construction because ribosomal RNA typically comprises the vast majority of a total RNA sample. For some experiments, ribosomal RNA depletion is favored over poly(A) selection because it offers a more inclusive representation of the transcriptome. However, methods to deplete ribosomal RNA are generally proprietary, complex, inefficient, applicable to only specific species, or compatible with only a narrow range of RNA input levels. Here, we describe Ribo-Pop (ribosomal RNA depletion for popular use), a simple workflow and antisense oligo design strategy that we demonstrate works over a wide input range and can be easily adapted to any organism with a sequenced genome. We provide a computational pipeline for probe selection, a streamlined 20-min protocol, and ready-to-use oligo sequences for several organisms. We anticipate that our simple and generalizable "open source" design strategy would enable virtually any laboratory to pursue full transcriptome sequencing in their organism of interest with minimal time and resource investment.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.