COMPASS: joint copy number and mutation phylogeny reconstruction from amplicon single-cell sequencing data

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love, Wolfgang Huber, Simon Anders · Genome biology · 2014 · 94.7K citations · Full text

CNVkit: Genome-Wide Copy Number Detection and Visualization from Targeted DNA Sequencing

Eric Talevich, A. Hunter Shain, Thomas Botton et al. · PLoS Computational Biology · 2016 · 2.2K citations · Full text

Engineering, Genetics, Molecular Biology +19

Allele-specific copy number analysis of tumors

Peter Van Loo, Ole Christian Lingjærde, Hege G. Russnes et al. · Proceedings of the National Academy of Sciences · 2010 · 1.3K citations · Full text

Implications of TP53 allelic state for genome stability, clinical presentation and outcomes in myelodysplastic syndromes

Elsa Bernard, Yasuhito Nannya, Robert P. Hasserjian et al. · Nature Medicine · 2020 · 606 citations · Full text

Hematological Malignancy, Chromatin, Genome Stability +11

Genome-wide copy number analysis of single cells

Timour Baslan, Jude Kendall, Linda Rodgers et al. · Nature Protocols · 2012 · 430 citations · Full text

Functional Genomics, Cell Division, Single Cell Sequencing +9