ArticleSource code for biology and medicine2019
eUTOPIA: solUTion for Omics data PreprocessIng and Analysis.
Article in Source code for biology and medicine, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers, 2 of them syntheses that pooled it.
What it found
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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.
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.
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Who cites it
34 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Computational paradigms for antimicrobial resistance prediction: integrating multi-omics, structural modeling, and foundation artificial intelligence systems.Briefings in bioinformatics · 2026Pooled it
- An ancestral molecular response to nanomaterial particulates.Nature nanotechnology · 2023Pooled it
- Integrative Transcriptomics Reveals Activation of Innate Immune Responses and Inhibition of Inflammation During Oral Immunotherapy for Egg Allergy in Children.Frontiers in immunology · 2021Trial
- AOP-Based Analysis of Curated Transcriptomic Data Reveals a Context-Dependent Core Mechanism of PFAS-Induced Liver Steatosis.Environmental science & technology · 2026Article
- MUUMI: an R package for statistical and network-based meta-analysis for multi-omics data integration.BMC bioinformatics · 2026Article
- Integrated Approaches in Drug Repositioning Highlight Ouabain and Helenalin as Potential Drug Candidates for Pulmonary Fibrosis.Computational and structural biotechnology journal · 2026Article
- Curated and harmonised transcriptomics datasets of interstitial lung diseases.Data in brief · 2025Article
- Comparison of Lung Inflammatory and Transcriptional Responses in Mice and Rats Following Pulmonary Exposure to a Fiber Paradigm-Compatible and Non-Compatible MWCNT.Nanomaterials (Basel, Switzerland) · 2025Article
- A Network Toxicology Approach for Mechanistic Modelling of Nanomaterial Hazard and Adverse Outcomes.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Holomics - a user-friendly R shiny application for multi-omics data integration and analysis.BMC bioinformatics · 2024Article
- Polyphenol- and Glucuronoxylan-Rich Fiber Extract from Birch (Journal of agricultural and food chemistry · 2024Article
- Integrative network analysis suggests prioritised drugs for atopic dermatitis.Journal of translational medicine · 2024Article
- Identification of a Gene Signature Predicting (Nano)Particle-Induced Adverse Lung Outcome in Rats.International journal of molecular sciences · 2023Article
- Age-mediated gut microbiota dysbiosis promotes the loss of dendritic cells tolerance.Aging cell · 2023Article
- The integration of large-scale public data and network analysis uncovers molecular characteristics of psoriasis.Human genomics · 2022Article
- Bet v 1 triggers antiviral-type immune signalling in birch-pollen-allergic individuals.Clinical and experimental allergy : journal of the British Society for Allergy and Clinical Immunology · 2022Article
- Characterization of ENM Dynamic Dose-Dependent MOA in Lung with Respect to Immune Cells Infiltration.Nanomaterials (Basel, Switzerland) · 2022Article
- Epigenetic Differences in Long Non-coding RNA Expression in Finnish and Russian Karelia Teenagers With Contrasting Risk of Allergy and Asthma.Frontiers in allergy · 2022Article
- Microarray Data Preprocessing: From Experimental Design to Differential Analysis.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Nextcast: A software suite to analyse and model toxicogenomics data.Computational and structural biotechnology journal · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundApplication of microarrays in omics technologies enables quantification of many biomolecules simultaneously. It is widely applied to observe the positive or negative effect on biomolecule activity in perturbed versus the steady state by quantitative comparison. Community resources, such as Bioconductor and CRAN, host tools based on R language that have become standard for high-throughput analytics. However, application of these tools is technically challenging for generic users and require specific computational skills. There is a need for intuitive and easy-to-use platform to process omics data, visualize, and interpret results.
resultsWe propose an integrated software solution, eUTOPIA, that implements a set of essential processing steps as a guided workflow presented to the user as an R Shiny application.
conclusionseUTOPIA allows researchers to perform preprocessing and analysis of microarray data via a simple and intuitive graphical interface while using state of the art methods.
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Registered trials
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.