ArticleGenome biology2014
Using high-density DNA methylation arrays to profile copy number alterations.
Article in Genome biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 94 papers.
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.
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.
Who cites it
94 citing papers in PubMed.
- Integrated high-resolution copy number and histomolecular analysis of diffuse hemispheric glioma, H3 G34-mutant reveals universal TP53 abnormalities.Brain pathology (Zurich, Switzerland) · 2026Article
- Detection of structural DNA variants in medulloblastomas using optical genome mapping.Acta neuropathologica communications · 2026Article
- Pan-cancer multi-dimensional characterization and biological significance of cholesterol 25-hydroxylase (CH25H).Discover oncology · 2026Article
- Altered genome induced immune response of iPSCs.Frontiers in immunology · 2026Article
- Extensive epigenomic dysregulation is a hallmark of homologous recombination deficiency in triple-negative breast cancer.International journal of cancer · 2025Article
- Evolutionary dynamics of recurrent hepatocellular carcinoma under divergent immune selection pressures.Frontiers in oncology · 2025Article
- Navigating Illumina DNA methylation data: biology versus technical artefacts.NAR genomics and bioinformatics · 2024Article
- Epigenetic reprogramming in mouse and human primordial germ cells.Experimental & molecular medicine · 2024Review
- Deconstructing Intratumoral Heterogeneity through Multiomic and Multiscale Analysis of Serial Sections.Cancers · 2024Article
- DNA Methylation Profiles Are Stable in H3 K27M-Mutant Diffuse Midline Glioma Neurosphere Cell Lines.Children (Basel, Switzerland) · 2024Article
- Epigenomic insights into common human disease pathology.Cellular and molecular life sciences : CMLS · 2024Review
- Metabologenomic characterization uncovers a clinically aggressive IDH mutant glioma subtype.Acta neuropathologica · 2024Article
- Deconstructing intratumoral heterogeneity through multiomic and multiscale analysis of serial sections.bioRxiv : the preprint server for biology · 2024Article
- Conumee 2.0: enhanced copy-number variation analysis from DNA methylation arrays for humans and mice.Bioinformatics (Oxford, England) · 2024Article
- Detecting aberrant DNA methylation in Illumina DNA methylation arrays: a toolbox and recommendations for its use.Epigenetics · 2023Article
- Silencing of genes by promoter hypermethylation shapes tumor microenvironment and resistance to immunotherapy in clear-cell renal cell carcinomas.Cell reports. Medicine · 2023Article
- D-2-hydroxyglutarate regulates human brain vascular endothelial cell proliferation and barrier function.Journal of neuropathology and experimental neurology · 2023Article
- Complete loss ofHGG advances · 2023Article
- Extensive intratumor regional epigenetic heterogeneity in clear cell renal cell carcinoma targets kidney enhancers and is associated with poor outcome.Clinical epigenetics · 2023Article
- Extrachromosomal DNA Amplification Contributes to Small Cell Lung Cancer Heterogeneity and Is Associated with Worse Outcomes.Cancer discovery · 2023Article
34 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors.
Funding
Abstract
The integration of genomic and epigenomic data is an increasingly popular approach for studying the complex mechanisms driving cancer development. We have developed a method for evaluating both methylation and copy number from high-density DNA methylation arrays. Comparing copy number data from Infinium HumanMethylation450 BeadChips and SNP arrays, we demonstrate that Infinium arrays detect copy number alterations with the sensitivity of SNP platforms. These results show that high-density methylation arrays provide a robust and economic platform for detecting copy number and methylation changes in a single experiment. Our method is available in the ChAMP Bioconductor package: http://www.bioconductor.org/packages/2.13/bioc/html/ChAMP.html.
Indexed as
Identifiers
What OpenQuestion holds
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.