ArticleBMC research notes2010
EMA - A R package for Easy Microarray data analysis.
Article in BMC research notes, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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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
28 citing papers in PubMed.
- Identification of reversible and druggable pathways to improve beta-cell function and survival in Type 2 diabetes.Islets · 2023Article
- Identify an innovative ferroptosis-related gene in hepatocellular carcinoma.Journal of clinical laboratory analysis · 2022Article
- A PARP1-related prognostic signature constructing and PARP-1 inhibitors screening for glioma.Frontiers in cell and developmental biology · 2022Article
- MSPJ: Discovering potential biomarkers in small gene expression datasetsComputational and structural biotechnology journal · 2022Article
- Integrative analysis of lung molecular signatures reveals key drivers of idiopathic pulmonary fibrosis.BMC pulmonary medicine · 2021Article
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- Novel genes exhibiting DNA methylation alterations in Korean patients with chronic lymphocytic leukaemia: a methyl-CpG-binding domain sequencing study.Scientific reports · 2020Article
- Genome-wide Kdm4 histone demethylase transcriptional regulation in Drosophila.Molecular genetics and genomics : MGG · 2019Article
- Triptolide as a novel agent in pancreatic cancer: the validation using patient derived pancreatic tumor cell line.BMC cancer · 2018Article
- Adjustment of dendritic cells to the breast-cancer microenvironment is subset specific.Nature immunology · 2018Article
- The P/N (Positive-to-Negative Links) Ratio in Complex Networks-A Promising In Silico Biomarker for Detecting Changes Occurring in the Human Microbiome.Microbial ecology · 2018Article
- Feature genes in metastatic breast cancer identified by MetaDE and SVM classifier methods.Molecular medicine reports · 2018Article
- Endogenous dendritic cells from the tumor microenvironment support T-ALL growth via IGF1R activation.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Expression of microRNAs in Horse Plasma and Their Characteristic Nucleotide Composition.PloS one · 2016Article
- Article
- Prediction of multiple infections after severe burn trauma: a prospective cohort study.Annals of surgery · 2015Article
- The histone chaperone HJURP is a new independent prognostic marker for luminal A breast carcinoma.Molecular oncology · 2015Article
- Increased expression of interferon signaling genes in the bone marrow microenvironment of myelodysplastic syndromes.PloS one · 2015Article
- Article
- Predictive gene signature of response to the anti-TweakR mAb PDL192 in patient-derived breast cancer xenografts.PloS one · 2014Article
Corrections and comments
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Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe increasing number of methodologies and tools currently available to analyse gene expression microarray data can be confusing for non specialist users.
findingsBased on the experience of biostatisticians of Institut Curie, we propose both a clear analysis strategy and a selection of tools to investigate microarray gene expression data. The most usual and relevant existing R functions were discussed, validated and gathered in an easy-to-use R package (EMA) devoted to gene expression microarray analysis. These functions were improved for ease of use, enhanced visualisation and better interpretation of results.
conclusionsStrategy and tools proposed in the EMA R package could provide a useful starting point for many microarrays users. EMA is part of Comprehensive R Archive Network and is freely available at http://bioinfo.curie.fr/projects/ema/.
Identifiers
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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.