Article

Longitudinal Phylogenetic Inference of Copy Number Alterations and Single Nucleotide Variants from Single-Cell Sequencing

2025-09-17

Abstract excerpt

Longitudinal phylogenetic reconstruction reveals how cancers evolve over time and respond to treatments. Advances in targeted single-cell sequencing, combined with longitudinal sampling, now enable detailed longitudinal tracking of single nucleotide variants (SNVs) and copy number alterations (CNAs) at single-cell resolution. Here, we introduce LoPhy, the first method designed to reconstruct the evolution of SNVs...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: c726ee9b-3b69-513f-889c-cb381b4c012b
DOI: 10.1101/2025.09.16.676596

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Longitudinal Phylogenetic Inference of Copy Number Alterations and Single Nucleotide Variants from Single-Cell SequencingDOI 10.1101/2025.09.16.676596Read

Joint copy number and mutation phylogeny reconstruction from single-cell amplicon sequencing dataSemantic proximity Read

Phertilizer: Growing a clonal tree from ultra-low coverage single-cell DNA sequencing of tumorsSemantic proximity Read

Pharming: Joint Clonal Tree Reconstruction of Single-Nucleotide Variant and Copy Number Aberration Evolution from Single-Cell DNA Sequencing of Tumors.Semantic proximity Read

Inferring Phylogenetic Trees of Cancer Evolution from Longitudinal Single-Cell Copy Number ProfilesSemantic proximity Read

Single-cell mutation identification via phylogenetic inferenceSemantic proximity Read

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

PHALCON: phylogeny-aware variant calling from large-scale single-cell panel sequencing datasetsSemantic proximity Read

ConDoR: tumor phylogeny inference with a copy-number constrained mutation loss model.Semantic proximity Read

SCARLET: Single-cell tumor phylogeny inference with copy-number constrained mutation losses.Semantic proximity Read

Pharming: Joint Clonal Tree Reconstruction of SNV and CNA Evolution from Single-cell DNA Sequencing of TumorsSemantic proximity Read

Principles of Reconstructing the Subclonal Architecture of Cancers.Semantic proximity Read