Subclonal reconstruction from bulk tumor DNA sequencing has become a pillar of cancer
evolution studies, providing insight into the clonality and relative ordering of mutations and …

Structural variations (SVs) affect more of the cancer genome than any other type of somatic
genetic alteration but difficulties in detecting and interpreting them have limited our …

High-grade serous ovarian cancer (HGSOC) is an archetypal cancer of genomic instability,,–
patterned by distinct mutational processes,, tumour heterogeneity,–and intraperitoneal …

Short-read sequencing is the workhorse of cancer genomics yet is thought to miss many
structural variants (SVs), particularly large chromosomal alterations. To characterize missing …

Cancer genomes often harbor hundreds of somatic DNA rearrangement junctions, many of
which cannot be easily classified into simple (eg, deletion) or complex (eg, chromothripsis) …

High-grade serous ovarian cancer (HGSC) exhibits extensive malignant clonal diversity with
widespread but non-random patterns of disease dissemination. We investigated whether …

Accurate measurement of clonal genotypes, mutational processes, and replication states
from individual tumor-cell genomes will facilitate improved understanding of tumor evolution …

Single-cell barcoding technologies enable genome sequencing of thousands of individual
cells in parallel, but with extremely low sequencing coverage (< 0.05×) per cell. While the …

Focal oncogene amplification and rearrangements drive tumor growth and evolution in
multiple cancer types. We present AmpliconArchitect (AA), a tool to reconstruct the fine …

Chromosomal instability is a major challenge to patient stratification and targeted drug
development for high-grade serous ovarian carcinoma (HGSOC). Here we show that …