Evidence map›Paper›PMID 38869788›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2024

Determination of Differential Alternative Splicing Under Stress Conditions.

Paola Punzo, Riccardo Suede Cigliano, Riccardo Aversano, Stefania Grillo, Giorgia Batelli

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Article in Methods in molecular biology (Clifton, N.J.), 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
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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

5 authors.

Paola PunzoCNR Institute of Biosciences and Bioresources, Research Division Portici, Portici, Italy.
Riccardo Suede CiglianoSequentia Biotech SL, Barcelona, Spain.
Riccardo AversanoDepartment of Agricultural Sciences, University of Naples "Federico II", Portici, Italy.
Stefania GrilloCNR Institute of Biosciences and Bioresources, Research Division Portici, Portici, Italy.
Giorgia BatelliCNR Institute of Biosciences and Bioresources, Research Division Portici, Portici, Italy. giorgia.batelli@ibbr.cnr.it.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Alternative splicing (AS) is an important mechanism contributing to stress-induced regulation of gene expression and proteome diversity. Massive sequencing technologies allow the identification of transcripts generated via stress-responsive AS, potentially important for adaptation to stress conditions. Several bioinformatics tools have been developed to identify differentially expressed alternative splicing events/transcripts from RNA-sequencing results. This chapter describes a detailed protocol for differential alternative splicing analysis using the rMATS tool. In addition, we provide guidelines for validation of the detected splice variants by qRT-PCR based on the obtained output files.

Indexed as

Alternative SplicingComputational BiologyStress, PhysiologicalGene Expression ProfilingHigh-Throughput Nucleotide SequencingHumansSequence Analysis, RNASoftwareBioinformaticsOligonucleotide designPre-mRNA splicingqRT-PCR validationrMATSRNA-sequencing

Identifiers

PMID38869788

What OpenQuestion holds

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Registered trials

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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.