Revisiting the Glass Treatment for Single-Molecule Analysis of ncRNA Function.

Shuting Shen, Masahiro Naganuma, Yukihide Tomari, Hisashi Tadakuma

Abstract read

In one paragraph

Article in Methods in molecular biology (Clifton, N.J.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it

0cells of the map it votes in

1citing papers in PubMed

1.0field-weighted citation impact, top 28% of its field

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

1 citing paper in PubMed, 2 citations in OpenAlex.

Advanced surface passivation for high-sensitivity studies of biomolecular condensates.Proceedings of the National Academy of Sciences of the United States of America · 2024
Article

4 · The record

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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

4 authors at 2 institutions in 2 countries.

Shuting Shen *School of Life Science and Technology & Gene Editing Center, ShanghaiTech University, Shanghai, China.

Masahiro Naganuma *Laboratory of RNA Function, Institute for Quantitative Biosciences, The University of Tokyo, Tokyo, Japan.

Yukihide TomariLaboratory of RNA Function, Institute for Quantitative Biosciences, The University of Tokyo, Tokyo, Japan.

Hisashi TadakumaSchool of Life Science and Technology & Gene Editing Center, ShanghaiTech University, Shanghai, China. tadakumahisashi@shanghaitech.edu.cn.

The University of Tokyo · JPShanghaiTech University · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Single-molecule imaging is a powerful method for unveiling precise molecular mechanisms. Particularly, single-molecule analysis with total internal reflection fluorescence (TIRF ) microscopy has been successfully applied to the characterization of molecular mechanisms in ncRNA studies. Tracing interactions at the single-molecule level have elucidated the intermediate states of the reaction, which are hidden by ensemble averaging in combinational biochemical approaches, and clarified the key steps of the interaction. However, applying a single-molecule technique to ncRNA analysis still remains a challenge, requiring laborious trial and error to identify a suitable glass surface passivation method. In this chapter, we revisit the major glass surface passivation methods using polyethylene glycol (PEG) treatment and summarize a detailed protocol for single-molecule analysis of the dicing process of Dcr-2, which may apply piRNA studies in the future.

Indexed as

GlassSingle Molecule ImagingMicroscopy, FluorescenceNanotechnologyPolyethylene GlycolsPolyethylene GlycolsAmino-silanizationDicer 2Halo ligandNon-coding RNA (ncRNA)Polyethylene glycol (PEG)Single-molecule imagingSNAP ligandSurface passivationTotal internal reflection fluorescence (TIRF) microscopy

Identifiers

PMID35796966

DOI10.1016/j.bpj.2009.09.031

OpenAlexW4285048368

What OpenQuestion holds

Textmetadata

Read underepoch 390

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.