Loading publication...

Noodle always counts identifier-free feature events for service operation. With your permission, Google Analytics can also estimate audience and engagement. Search text, publication identifiers, cookies, IP addresses and browser fingerprints are never included in Noodle's first-party event counters.

Privacy details

Article

CONIPHER: a computational framework for scalable phylogenetic reconstruction with error correction.

Nature protocols - 1 Jan 2024

Grigoriadis Kristiana, Huebner Ariana, Bunkum Abigail, Colliver Emma, Frankell Alexander M, Hill Mark S, Thol Kerstin, Birkbak Nicolai J, Swanton Charles, Zaccaria Simone, McGranahan Nicholas

Abstract excerpt

Intratumor heterogeneity provides the fuel for the evolution and selection of subclonal tumor cell populations. However, accurate inference of tumor subclonal architecture and reconstruction of tumor evolutionary histories from bulk DNA sequencing data remains challenging. Frequently, sequencing and alignment artifacts are not fully filtered out from cancer somatic mutations, and errors in the identification of...

Read the complete abstract on PubMed

Topics

Share this publication in a Topic to start or enrich a Post.

Share to Algorithms
Share to Computational Biology

Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

Share to Mutation

Share to Neoplasms

Share to Phylogeny

Share to Sequence Analysis, DNA

Source

Identifiers

PMID: 38017136
DOI: 10.1038/s41596-023-00913-9

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 2 Sept 2026.

Related research

Semantic proximity does not establish scientific evidence.

Research trail→

Click a neighbor to travelStep 1 · 12 closest

CONIPHER: a computational framework for scalable phylogenetic reconstruction with error correction.PMID 38017136Read ↗

CONIPHER: a computational framework for scalable phylogenetic reconstruction with error correctionSemantic proximity Read ↗

A community effort to create standards for evaluating tumor subclonal reconstruction.Semantic proximity Read ↗

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

Reconstructing tumor clonal heterogeneity and evolutionary relationships based on tumor DNA sequencing data.Semantic proximity Read ↗

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

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

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

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

Single-cell mutation identification via phylogenetic inferenceSemantic proximity Read ↗

A practical guide to cancer subclonal reconstruction from DNA sequencing.Semantic proximity Read ↗

Model-based tumor subclonal reconstructionSemantic proximity Read ↗

⌁Select a neighboring publication to make it the new centre.