Methoden vergleichen

	Analyse von Kopienzahlvariationen (CNV) – Erkennung und Interpretation von CNVs	RNA-seq Differential Expression
Fachgebiet	Bioinformatik	Bioinformatik
Familie	Process / pipeline	Process / pipeline
Entstehungsjahr	1998–2006	2008–2010 (RNA-seq DE methodology established)
Urheber	Pinkel et al. (array CGH); Redon et al. (genome-wide CNV map)	Multiple groups; foundational methods from Anders & Huber (DESeq, 2010), Robinson, McCarthy & Smyth (edgeR, 2010)
Typ	Genomic structural variant detection pipeline	Quantitative genomics pipeline
Wegweisende Quelle	Redon, R., Ishikawa, S., Fitch, K. R., et al. (2006). Global variation in copy number in the human genome. Nature, 444(7118), 444–454.	Love, M. I., Huber, W., & Anders, S. (2014). Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biology, 15(12), 550.
Aliasnamen	CNV analysis, copy number variant detection, CNV calling, somatic copy number alteration analysis	RNA-seq DE analysis, transcriptomic differential expression, bulk RNA-seq DE, DEA
Verwandt	6	6
Zusammenfassung	Copy number variation (CNV) analysis is a genomic pipeline for detecting regions where individuals carry fewer or more copies of a DNA segment than the reference genome. CNVs span kilobases to megabases and are a major class of structural variation implicated in cancer, neurodevelopmental disorders, and population diversity. The pipeline typically processes SNP array intensities or read-depth signals from whole-genome sequencing, applies segmentation algorithms, calls gain and loss events, and annotates them against gene and clinical databases.	RNA-seq differential expression (DE) analysis identifies genes whose transcript abundance differs significantly between two or more biological conditions — for example, treated versus control, or diseased versus healthy tissue. Starting from raw sequencing reads, the pipeline moves through alignment, count-based normalization, statistical modeling of count dispersion, hypothesis testing, and multiple-testing correction to produce a ranked list of differentially expressed genes accompanied by fold-change estimates and adjusted p-values.