ArticlePLoS computational biology2011
BeadArray expression analysis using bioconductor.
Article in PLoS computational biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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.
- Transcriptome Profiling of Adipose Tissue Reveals Depot-Specific Metabolic Alterations Among Patients with Colorectal Cancer.The Journal of clinical endocrinology and metabolism · 2019Trial
- Gene Expression Profiles for the Identification of Prevalent Atrial Fibrillation.Journal of the American Heart Association · 2017Trial
- Article
- GPX4 is a key ferroptosis biomarker and correlated with immune cell populations and immune checkpoints in childhood sepsis.Scientific reports · 2023Article
- RhoA-ROCK competes with YAP to regulate amoeboid breast cancer cell migration in response to lymphatic-like flow.FASEB bioAdvances · 2022Article
- Circulating NAD+ Metabolism-Derived Genes Unveils Prognostic and Peripheral Immune Infiltration in Amyotrophic Lateral Sclerosis.Frontiers in cell and developmental biology · 2022Article
- Article
- Distinct abdominal and gluteal adipose tissue transcriptome signatures are altered by exercise training in African women with obesity.Scientific reports · 2020Article
- Virus Genotype-Dependent Transcriptional Alterations in Lipid Metabolism and Inflammation Pathways in the Hepatitis C Virus-infected Liver.Scientific reports · 2019Article
- Identification and validation of single-sample breast cancer radiosensitivity gene expression predictors.Breast cancer research : BCR · 2018Article
- An integrative bioinformatics approach reveals coding and non-coding gene variants associated with gene expression profiles and outcome in breast cancer molecular subtypes.British journal of cancer · 2018Article
- Attenuated Notch signaling in schizophrenia and bipolar disorder.Scientific reports · 2018Article
- Microbiome-host systems interactions: protective effects of propionate upon the blood-brain barrier.Microbiome · 2018Article
- Exploring the Wnt signaling pathway in schizophrenia and bipolar disorder.Translational psychiatry · 2018Article
- Transcriptional variations in the wider peritumoral tissue environment of pancreatic cancer.International journal of cancer · 2018Article
- Article
- Specific role of RhoC in tumor invasion and metastasis.Oncotarget · 2017Article
- Influence of Genetic Variations in Selenoprotein Genes on the Pattern of Gene Expression after Supplementation with Brazil Nuts.Nutrients · 2017Article
- Biglycan expression in the melanoma microenvironment promotes invasiveness via increased tissue stiffness inducing integrin-β1 expression.Oncotarget · 2017Article
- Melanoma miRNA trafficking controls tumour primary niche formation.Nature cell biology · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
Illumina whole-genome expression BeadArrays are a popular choice in gene profiling studies. Aside from the vendor-provided software tools for analyzing BeadArray expression data (GenomeStudio/BeadStudio), there exists a comprehensive set of open-source analysis tools in the Bioconductor project, many of which have been tailored to exploit the unique properties of this platform. In this article, we explore a number of these software packages and demonstrate how to perform a complete analysis of BeadArray data in various formats. The key steps of importing data, performing quality assessments, preprocessing, and annotation in the common setting of assessing differential expression in designed experiments will be covered.
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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.