Evidence map›Paper›PMID 35072148›Full record

ArticleCell reports methods2021

Sequence-selective purification of biological RNAs using DNA nanoswitches.

Lifeng Zhou, Andrew Hayden, Arun Richard Chandrasekaran, Javier Vilcapoma, Cassandra Cavaliere, Paromita Dey, Song Mao, Jia Sheng, Bijan K Dey, Prashanth Rangan and 1 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell reports methods, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

8 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Single species RNA purification using DNA nanoswitches.Trends in biochemical sciences · 2022
    Article
  8. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors.

Lifeng ZhouThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Andrew HaydenThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Arun Richard ChandrasekaranThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Javier VilcapomaThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Cassandra CavaliereThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Paromita DeyThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Song MaoThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Jia ShengThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Bijan K DeyThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Prashanth RanganThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Ken HalvorsenThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.

Funding

Manipulating nucleic acids: applications in RNA biosensing, single-molecule analysis, and DNA nanotechnologyR35GM124720 · NIGMS · STATE UNIVERSITY OF NEW YORK AT ALBANY · PI Ken A Halvorsen · 2017 to 2026
$4.6M
Regulation of stem cell differentiation during Drosophila oogenesisR01GM111779 · NIGMS · STATE UNIVERSITY OF NEW YORK AT ALBANY · PI RANGAN, PRASHANTH · 2014 to 2022
$2.7M
Role of RNA degradation in germline stem cell to oocyte transitionR01GM135628 · NIGMS · STATE UNIVERSITY OF NEW YORK AT ALBANY · PI RANGAN, PRASHANTH · 2020 to 2023
$1.3M
Dynamic m6A mRNA modification regulates skeletal muscle function in Duchenne Muscular DystrophyR15AR074728 · NIAMS · STATE UNIVERSITY OF NEW YORK AT ALBANY · PI DEY, BIJAN K · 2019 to 2019
$448k
Environmental Epitranscriptomic Studies and Tools Focused on the Wobble UridineR15GM124627 · NIGMS · STATE UNIVERSITY OF NEW YORK AT ALBANY · PI SHENG, JIA · 2017 to 2017
$443k
NIAMS NIH HHS R15 AR074728NIGMS NIH HHS R01 GM111779NIGMS NIH HHS R01 GM135628NIGMS NIH HHS R15 GM124627NIGMS NIH HHS R35 GM124720
6 · The paper itself

Abstract

Nucleic acid purification is a critical aspect of biomedical research and a multibillion-dollar industry. Here we establish sequence-selective RNA capture, release, and isolation using conformationally responsive DNA nanoswitches. We validate purification of specific RNAs ranging in size from 22 to 401 nt with up to 75% recovery and 99.98% purity in a benchtop process with minimal expense and equipment. Our method compared favorably with bead-based extraction of an endogenous microRNA from cellular total RNA, and can be programmed for multiplexed purification of multiple individual RNA targets from one sample. Coupling our approach with downstream LC/MS, we analyzed RNA modifications in 5.8S ribosomal RNA, and found 2'-O-methylguanosine, 2'-O-methyluridine, and pseudouridine in a ratio of ~1:7:22. The simplicity, low cost, and low sample requirements of our method make it suitable for easy adoption, and the versatility of the approach provides opportunities to expand the strategy to other biomolecules.

Indexed as

DNARNAPseudouridineDNAPseudouridineRNA

Identifiers

PMID35072148
PMCPMC8782281

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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Registered trials

None linked

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.