Cargando…

CloneCNA: detecting subclonal somatic copy number alterations in heterogeneous tumor samples from whole-exome sequencing data

BACKGROUND: Copy number alteration is a main genetic structural variation that plays an important role in tumor initialization and progression. Accurate detection of copy number alterations is necessary for discovering cancer-causing genes. Whole-exome sequencing has become a widely used technology...

Descripción completa

Detalles Bibliográficos
Autores principales:	Yu, Zhenhua, Li, Ao, Wang, Minghui
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2016
Materias:	Methodology Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4990858/ https://www.ncbi.nlm.nih.gov/pubmed/27538789 http://dx.doi.org/10.1186/s12859-016-1174-7

Ejemplares similares

LiquidCNA: Tracking subclonal evolution from longitudinal liquid biopsies using somatic copy number alterations
por: Lakatos, Eszter, et al.
Publicado: (2021)

CLImAT-HET: detecting subclonal copy number alterations and loss of heterozygosity in heterogeneous tumor samples from whole-genome sequencing data
por: Yu, Zhenhua, et al.
Publicado: (2017)

VEGAWES: variational segmentation on whole exome sequencing for copy number detection
por: Anjum, Samreen, et al.
Publicado: (2015)

Subclonal somatic copy number alterations emerge and dominate in recurrent osteosarcoma
por: Kinnaman, Michael D., et al.
Publicado: (2023)

Subclonal Somatic Copy-Number Alterations Emerge and Dominate in Recurrent Osteosarcoma
por: Kinnaman, Michael D., et al.
Publicado: (2023)

CAISC: A software to integrate copy number variations and single nucleotide mutations for genetic heterogeneity profiling and subclone detection by single-cell RNA sequencing
por: Kannan, Jeerthi, et al.
Publicado: (2022)

RefCNV: Identification of Gene-Based Copy Number Variants Using Whole Exome Sequencing
por: Chang, Lun-Ching, et al.
Publicado: (2016)

Inferring copy number and genotype in tumour exome data
por: Amarasinghe, Kaushalya C, et al.
Publicado: (2014)

Detecting copy number status and uncovering subclonal markers in heterogeneous tumor biopsies
por: Parisi, Fabio, et al.
Publicado: (2011)

Identification of Medium-Sized Copy Number Alterations in Whole-Genome Sequencing
por: Ozer, Hatice Gulcin, et al.
Publicado: (2015)

Pan-cancer driver copy number alterations identified by joint expression/CNA data analysis
por: Wang, Gaojianyong, et al.
Publicado: (2020)

Four-copy number alteration (CNA)-related lncRNA prognostic signature for liver cancer
por: Cheng, Zhenyun, et al.
Publicado: (2022)

A Pipeline for Reconstructing Somatic Copy Number Alternation’s Subclonal Population-Based Next-Generation Sequencing Data
por: Chu, Yanshuo, et al.
Publicado: (2020)

CNV Radar: an improved method for somatic copy number alteration characterization in oncology
por: Soong, David, et al.
Publicado: (2020)

seqCNA: an R package for DNA copy number analysis in cancer using high-throughput sequencing
por: Mosen-Ansorena, David, et al.
Publicado: (2014)

DeAnnCNV: a tool for online detection and annotation of copy number variations from whole-exome sequencing data
por: Zhang, Yuanwei, et al.
Publicado: (2015)

CLImAT: accurate detection of copy number alteration and loss of heterozygosity in impure and aneuploid tumor samples using whole-genome sequencing data
por: Yu, Zhenhua, et al.
Publicado: (2014)

Anaconda: AN automated pipeline for somatic COpy Number variation Detection and Annotation from tumor exome sequencing data
por: Gao, Jianing, et al.
Publicado: (2017)

AB201. Whole-exome sequencing characterizes the landscape of somatic mutations and copy number variations in testicular germ cell tumor
por: Wu, Song, et al.
Publicado: (2015)

AB165. Whole-exome sequencing characterizes the landscape of somatic mutations and copy number variations in testicular germ cell tumor
por: Wu, Song, et al.
Publicado: (2016)

VCF2CNA: A tool for efficiently detecting copy-number alterations in VCF genotype data and tumor purity
por: Putnam, Daniel K., et al.
Publicado: (2019)

Allele-specific copy-number discovery from whole-genome and whole-exome sequencing
por: Wang, WeiBo, et al.
Publicado: (2015)

Copy number alterations detected by whole-exome and whole-genome sequencing of esophageal adenocarcinoma
por: Wang, Xiaoyu, et al.
Publicado: (2015)

Detection of recurrent copy number alterations in the genome: taking among-subject heterogeneity seriously
por: Rueda, Oscar M, et al.
Publicado: (2009)

Accurate detection of subclonal single nucleotide variants in whole genome amplified and pooled cancer samples using HaloPlex target enrichment
por: Berglund, Eva C, et al.
Publicado: (2013)

Accelerated somatic mutation calling for whole-genome and whole-exome sequencing data from heterogenous tumor samples
por: Ji, Shuangxi, et al.
Publicado: (2023)

Decomposing the subclonal structure of tumors with two-way mixture models on copy number aberrations
por: Tai, An-Shun, et al.
Publicado: (2018)

Whole exome sequencing in the rat
por: Foley, Julie F., et al.
Publicado: (2018)

Stratification of clear cell renal cell carcinoma (ccRCC) genomes by gene-directed copy number alteration (CNA) analysis
por: Thiesen, H.-J., et al.
Publicado: (2017)

Development of copy number assays for detection and surveillance of piperaquine resistance associated plasmepsin 2/3 copy number variation in Plasmodium falciparum
por: Ansbro, Megan R., et al.
Publicado: (2020)

CopyDetective: Detection threshold–aware copy number variant calling in whole-exome sequencing data
por: Sandmann, Sarah, et al.
Publicado: (2020)

EXCAVATOR: detecting copy number variants from whole-exome sequencing data
por: Magi, Alberto, et al.
Publicado: (2013)

Platform comparison of detecting copy number variants with microarrays and whole-exome sequencing
por: de Ligt, Joep, et al.
Publicado: (2014)

Whole-Exome Sequencing and Targeted Copy Number Analysis in Primary Ciliary Dyskinesia
por: Marshall, Christian R., et al.
Publicado: (2015)

Sacral agenesis: a pilot whole exome sequencing and copy number study
por: Porsch, Robert M., et al.
Publicado: (2016)

Integrated Analysis of Whole Exome Sequencing and Copy Number Evaluation in Parkinson’s Disease
por: Yemni, Eman Al, et al.
Publicado: (2019)

Copy number variation analysis based on AluScan sequences
por: Yang, Jian-Feng, et al.
Publicado: (2014)

Impact of CNA on AML prognosis
por: Gonzales, Fanny, et al.
Publicado: (2017)

CANOES: detecting rare copy number variants from whole exome sequencing data
por: Backenroth, Daniel, et al.
Publicado: (2014)

CODEX: a normalization and copy number variation detection method for whole exome sequencing
por: Jiang, Yuchao, et al.
Publicado: (2015)

Cannot write session to /tmp/vufind_sessions/sess_bnvijkdncck41l3jlgdmjnjecv