Evidence map›Paper›PMID 26564237›Full record

ArticleMethods (San Diego, Calif.)2016

Super-resolution measurement of distance between transcription sites using RNA FISH with intronic probes.

Joshua D Larkin, Peter R Cook

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Methods (San Diego, Calif.), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Article
  2. Review
  3. sRNA-FISH: versatile fluorescent in situ detection of small RNAs in plants.The Plant journal : for cell and molecular biology · 2019
    Article
  4. 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

2 authors.

Joshua D LarkinSir William Dunn School of Pathology, University of Oxford, South Parks Road, Oxford OX1 3RE, UK.
Peter R CookSir William Dunn School of Pathology, University of Oxford, South Parks Road, Oxford OX1 3RE, UK. Electronic address: peter.cook@path.ox.ac.uk.

Funding

Medical Research Council G0400628
6 · The paper itself

Abstract

Nascent transcripts being copied from specific human genes can be detected using RNA FISH (fluorescence in situ hybridization) with intronic probes, and the distance between two different nascent transcripts is often measured when studying structure-function relationships. Such distance measurements are limited by the resolution of the light microscope. Here we describe methods for measuring these distances in cultured cells with a precision of a few tens of nanometers, using equipment found in most laboratories (i.e., a wide-field fluorescence microscope equipped with a charged-coupled-device camera). Using images of pairs of transcripts that are often co-transcribed, we discuss how selection of cell type, design of FISH probes, image acquisition, and image processing affect the precision that can be achieved.

Indexed as

Transcription, GeneticFluorescent DyesHumansHuman Umbilical Vein Endothelial CellsImage Processing, Computer-AssistedIn Situ Hybridization, FluorescenceIntronsMicroscopy, FluorescenceMolecular ProbesRepressor ProteinsRNA, MessengerSingle Molecule ImagingSoftwareTissue FixationFluorescent DyesMolecular ProbesRepressor ProteinsRNA, MessengerSAMD4A protein, humanColocalizationDiffraction limitInner-nuclear distanceLong geneNascent intronic RNA FISHSuper-resolution localizationTranscription location

Identifiers

PMID26564237
PMCPMC4819770

What OpenQuestion holds

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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.