Evidence map›Paper›PMID 31684860›Full record

ArticleBMC bioinformatics2019

MIENTURNET: an interactive web tool for microRNA-target enrichment and network-based analysis.

Valerio Licursi, Federica Conte, Giulia Fiscon, Paola Paci

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC bioinformatics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 225 papers, 6 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
225citing papers in PubMed, 6 pooled it
–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

225 citing papers in PubMed, 6 syntheses or guidelines pooled it.

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165 more citing papers are in PubMed but not listed here.

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.

Valerio LicursiInstitute for Systems Analysis and Computer Science "Antonio Ruberti", National Research Council, Via dei Taurini 19, Rome, 00185, Italy.ORCID http://orcid.org/0000-0002-8172-1437
Federica ConteInstitute for Systems Analysis and Computer Science "Antonio Ruberti", National Research Council, Via dei Taurini 19, Rome, 00185, Italy.ORCID http://orcid.org/0000-0003-0427-1476
Giulia FisconInstitute for Systems Analysis and Computer Science "Antonio Ruberti", National Research Council, Via dei Taurini 19, Rome, 00185, Italy.ORCID http://orcid.org/0000-0002-3354-8203
Paola PaciInstitute for Systems Analysis and Computer Science "Antonio Ruberti", National Research Council, Via dei Taurini 19, Rome, 00185, Italy. paola.paci@iasi.cnr.it.ORCID http://orcid.org/0000-0002-9393-2047

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundmiRNAs regulate the expression of several genes with one miRNA able to target multiple genes and with one gene able to be simultaneously targeted by more than one miRNA. Therefore, it has become indispensable to shorten the long list of miRNA-target interactions to put in the spotlight in order to gain insight into understanding the regulatory mechanism orchestrated by miRNAs in various cellular processes. A reasonable solution is certainly to prioritize miRNA-target interactions to maximize the effectiveness of the downstream analysis.

resultsWe propose a new and easy-to-use web tool MIENTURNET (MicroRNA ENrichment TURned NETwork) that receives in input a list of miRNAs or mRNAs and tackles the problem of prioritizing miRNA-target interactions by performing a statistical analysis followed by a fully featured network-based visualization and analysis. The statistics is used to assess the significance of an over-representation of miRNA-target interactions and then MIENTURNET filters based on the statistical significance associated with each miRNA-target interaction. In addition, the holistic approach of the network theory is used to infer possible evidences of miRNA regulation by capturing emergent properties of the miRNA-target regulatory network that would be not evident through a pairwise analysis of the individual components.

conclusionMIENTURNET offers the possibility to consistently perform both statistical and network-based analyses by using only a single tool leading to a more effective prioritization of the miRNA-target interactions. This has the potential to avoid researchers without computational and informatics skills to navigate multiple websites and thus to independently investigate miRNA activity in every cellular process of interest in an easy and at the same time exhaustive way thanks to the intuitive web interface. The web application along with a well-documented and comprehensive user guide are freely available at http://userver.bio.uniroma1.it/apps/mienturnet/ without any login requirement.

Indexed as

Computational BiologyGene Regulatory NetworksInternetMicroRNAsRNA, MessengerMicroRNAsRNA, MessengerBioinformatics toolmiRNA regulatory networkNetwork analysis

Identifiers

PMID31684860
PMCPMC6829817

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.