ArticleGenome biology2017
ReMixT: clone-specific genomic structure estimation in cancer.
Article in Genome biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 26 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
26 citing papers in PubMed, 47 citations in OpenAlex.
- Trial
- Article
- Haplotype-aware segmentation with HapASeg increases accuracy of detecting homolog-specific somatic copy number alterations.Genome biology · 2026Article
- araCNA: somatic copy number profiling using long-range sequence models.NAR genomics and bioinformatics · 2025Article
- Article
- PhyClone: accurate Bayesian reconstruction of cancer phylogenies from bulk sequencing.Bioinformatics (Oxford, England) · 2025Article
- HATCHet2: clone- and haplotype-specific copy number inference from bulk tumor sequencing data.Genome biology · 2024Article
- Computational validation of clonal and subclonal copy number alterations from bulk tumor sequencing using CNAqc.Genome biology · 2024Article
- Most large structural variants in cancer genomes can be detected without long reads.Nature genetics · 2023Article
- Refphase: Multi-sample phasing reveals haplotype-specific copy number heterogeneity.PLoS computational biology · 2023Article
- HATCHet2: clone- and haplotype-specific copy number inference from bulk tumor sequencing data.bioRxiv : the preprint server for biology · 2023Article
- Clonal somatic copy number altered driver events inform drug sensitivity in high-grade serous ovarian cancer.Nature communications · 2022Article
- CONET: copy number event tree model of evolutionary tumor history for single-cell data.Genome biology · 2022Article
- Parsimonious Clone Tree Integration in cancer.Algorithms for molecular biology : AMB · 2022Article
- Circulating tumor DNA: a noninvasive biomarker for tracking ovarian cancer.Reproductive biology and endocrinology : RB&E · 2021Review
- Integrative reconstruction of cancer genome karyotypes using InfoGenomeR.Nature communications · 2021Article
- A practical guide to cancer subclonal reconstruction from DNA sequencing.Nature methods · 2021Review
- Characterizing allele- and haplotype-specific copy numbers in single cells with CHISEL.Nature biotechnology · 2021Article
- Distinct Classes of Complex Structural Variation Uncovered across Thousands of Cancer Genome Graphs.Cell · 2020Article
- Accurate quantification of copy-number aberrations and whole-genome duplications in multi-sample tumor sequencing data.Nature communications · 2020Article
Corrections and comments
- Erratum issued
Authors and funding
11 authors at 6 institutions in 3 countries.
Funding
Abstract
Somatic evolution of malignant cells produces tumors composed of multiple clonal populations, distinguished in part by rearrangements and copy number changes affecting chromosomal segments. Whole genome sequencing mixes the signals of sampled populations, diluting the signals of clone-specific aberrations, and complicating estimation of clone-specific genotypes. We introduce ReMixT, a method to unmix tumor and contaminating normal signals and jointly predict mixture proportions, clone-specific segment copy number, and clone specificity of breakpoints. ReMixT is free, open-source software and is available at http://bitbucket.org/dranew/remixt .
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.