Efficient reconstruction of cell lineage trees for cell ancestry and cancer

Life histories of myeloproliferative neoplasms inferred from phylogenies

(2022) Nicholas Williams et al.   NATURE

All2: A tool for selecting mosaic mutations from comprehensive multi-cell comparisons

(2022) Vivekananda Sarangi et al.   PLoS Computational Biology

Twelve years of SAMtools and BCFtools

(2021) Petr Danecek et al.   GigaScience

Somatic mutation landscapes at single-molecule resolution

(2021) Federico Abascal et al.   NATURE

Lineage tracing of human development through somatic mutations

(2021) Michael Spencer Chapman et al.   NATURE

Early developmental asymmetries in cell lineage trees in living individuals

(2021) Liana Fasching et al.   SCIENCE

Extensive phylogenies of human development inferred from somatic mutations

(2021) Tim H. H. Coorens et al.   NATURE

Clonal dynamics in early human embryogenesis inferred from somatic mutation

(2021) Seongyeol Park et al.   NATURE

Clonal hematopoiesis in human aging and disease

(2019) Siddhartha Jaiswal et al.   SCIENCE

Strelka2: fast and accurate calling of germline and somatic variants

(2018) Sangtae Kim et al.   NATURE METHODS

Population dynamics of normal human blood inferred from somatic mutations

(2018) Henry Lee-Six et al.   NATURE

One thousand somatic SNVs per skin fibroblast cell set baseline of mosaic mutational load with patterns that suggest proliferative origin

(2017) Alexej Abyzov et al.   GENOME RESEARCH

Different mutational rates and mechanisms in human cells at pregastrulation and neurogenesis

(2017) Taejeong Bae et al.   SCIENCE

Complex heatmaps reveal patterns and correlations in multidimensional genomic data

(2016) Zuguang Gu et al.   BIOINFORMATICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH