Evidence map›Paper›PMID 39210956›Full record

ArticleBio-protocol2024

Simple Analysis of Gel Images With IOCBIO Gel Software.

Lucia Jaska, Rikke Birkedal, Martin Laasmaa, Marko Vendelin

Abstract read
In one paragraph

Article in Bio-protocol, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

4 authors.

Lucia JaskaLaboratory of Systems Biology, Department of Cybernetics, Tallinn University of Technology, Tallinn, Estonia.
Rikke BirkedalLaboratory of Systems Biology, Department of Cybernetics, Tallinn University of Technology, Tallinn, Estonia.
Martin LaasmaaLaboratory of Systems Biology, Department of Cybernetics, Tallinn University of Technology, Tallinn, Estonia.
Marko VendelinLaboratory of Systems Biology, Department of Cybernetics, Tallinn University of Technology, Tallinn, Estonia.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Gel image analyses are often difficult to reproduce, as the most commonly used software, the ImageJ Gels plugin, does not automatically record any steps in the analysis process. This protocol provides detailed steps for image analysis using IOCBIO Gel software with western blot as an example; however, the protocol is applicable to all images obtained by electrophoresis, such as Southern blotting, northern blotting, and isoelectric focusing. IOCBIO Gel allows multiple sample analyses, linking the original image to all the operations performed on it, which can be stored in a central database or on a PC, ensuring ease of access and the possibility to perform corrections at each analysis stage. In addition, IOCBIO Gel is lightweight, with only minimal computer requirements. Key features • Free and open-source software for analyzing gel images. • Reproducibility. • Can be used with images obtained by electrophoresis, such as western blotting, Southern blotting, isoelectric focusing, and more.

Indexed as

Data analysisElectrophoresis gelFAIRIsoelectric focusingPythonReproducibilitySouthern blottingWestern blotting

Identifiers

PMID39210956
PMCPMC11349490

What OpenQuestion holds

Textmetadata
LicenceCC BY
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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.