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deStruct: Accurate Rearrangement Detection using Breakpoint Specific Realignment

https://doi.org/10.1101/117523
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/978-3-319-16706-0_25openalex-snapshot
Joint Inference of Genome Structure and Content in Heterogeneous Tumor Samples
inferredcites →https://doi.org/10.1007/978-3-642-02008-7_16openalex-snapshot
Combinatorial Algorithms for Structural Variation Detection in High Throughput Sequenced Genomes
inferredcites →https://doi.org/10.1038/nmeth.1363openalex-snapshot
BreakDancer: an algorithm for high-resolution mapping of genomic structural variation
inferredcites →https://doi.org/10.1038/nmeth.3407openalex-snapshot
Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection
inferredcites →https://doi.org/10.1080/10618600.2000.10474879openalex-snapshot
Markov Chain Sampling Methods for Dirichlet Process Mixture Models
inferredcites →https://doi.org/10.1093/bioinformatics/btp324openalex-snapshot
Fast and accurate short read alignment with Burrows–Wheeler transform
inferredcites →https://doi.org/10.1093/bioinformatics/btp698openalex-snapshot
Fast and accurate long-read alignment with Burrows–Wheeler transform
inferredcites →https://doi.org/10.1093/bioinformatics/bts378openalex-snapshot
DELLY: structural variant discovery by integrated paired-end and split-read analysis
inferredcites →https://doi.org/10.1093/bioinformatics/btt073openalex-snapshot
An approximate Bayesian approach for mapping paired-end DNA reads to a reference genome
inferredcites →https://doi.org/10.1186/gb-2009-10-3-r25openalex-snapshot
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
inferredcites →https://doi.org/10.1186/gb-2014-15-6-r84openalex-snapshot
LUMPY: a probabilistic framework for structural variant discovery
inferredcites →https://doi.org/10.1371/journal.pcbi.1004274openalex-snapshot
Genome Modeling System: A Knowledge Management Platform for Genomics
inferredcites →https://doi.org/10.48550/arxiv.1504.03080openalex-snapshot
Joint Inference of Genome Structure and Content in Heterogeneous Tumour Samples

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1016/j.cell.2018.03.073openalex-snapshot
Interfaces of Malignant and Immunologic Clonal Dynamics in Ovarian Cancer
inferred← citeshttps://doi.org/10.1016/j.cell.2019.10.026openalex-snapshot
Clonal Decomposition and DNA Replication States Defined by Scaled Single-Cell Genome Sequencing
inferred← citeshttps://doi.org/10.1016/j.ygyno.2017.09.032openalex-snapshot
LINE-1 retrotransposon-mediated DNA transductions in endometriosis associated ovarian cancers
inferred← citeshttps://doi.org/10.1038/s41467-022-31830-2openalex-snapshot
Accurate determination of CRISPR-mediated gene fitness in transplantable tumours
inferred← citeshttps://doi.org/10.1038/s41467-024-47619-4openalex-snapshot
Disentangling oncogenic amplicons in esophageal adenocarcinoma
inferred← citeshttps://doi.org/10.1038/s41586-022-05249-0openalex-snapshot
Single-cell genomic variation induced by mutational processes in cancer
inferred← citeshttps://doi.org/10.1038/s41586-022-05496-1openalex-snapshot
Ovarian cancer mutational processes drive site-specific immune evasion
inferred← citeshttps://doi.org/10.1038/s41586-025-09240-3openalex-snapshot
Ongoing genome doubling shapes evolvability and immunity in ovarian cancer
inferred← citeshttps://doi.org/10.1038/s41586-025-09580-0openalex-snapshot
Tracking clonal evolution during treatment in ovarian cancer using cell-free DNA
inferred← citeshttps://doi.org/10.1038/s41586-026-10806-yopenalex-snapshot
A compendium of next-generation patient-derived models for diverse cancers
inferred← citeshttps://doi.org/10.1038/s41586-026-11048-8openalex-snapshot
MMEJ repair of breaks at TA repeats maintains ecDNA and cancer fitness
inferred← citeshttps://doi.org/10.1093/bioinformatics/btz737openalex-snapshot
Meltos: multi-sample tumor phylogeny reconstruction for structural variants
inferred← citeshttps://doi.org/10.1101/2021.06.04.447031openalex-snapshot
Evolutionary tracking of cancer haplotypes at single-cell resolution
inferred← citeshttps://doi.org/10.1101/2024.07.11.602772openalex-snapshot
Ongoing genome doubling promotes evolvability and immune dysregulation in ovarian cancer
inferred← citeshttps://doi.org/10.1101/2024.08.21.609031openalex-snapshot
Tracking clonal evolution of drug resistance in ovarian cancer patients by exploiting structural variants in cfDNA
inferred← citeshttps://doi.org/10.1101/411058openalex-snapshot
Resource: Scalable whole genome sequencing of 40,000 single cells identifies stochastic aneuploidies, genome replication states and clonal repertoires
inferred← citeshttps://doi.org/10.1186/s13059-017-1267-2openalex-snapshot
ReMixT: clone-specific genomic structure estimation in cancer
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