Cargando…

Different Strategies for Counting the Depth of Coverage in Copy Number Variation Calling Tools

There are many copy number variation (CNV) detection tools based on the depth of coverage. A characteristic feature of all tools based on the depth of coverage is the first stage of data processing—counting the depth of coverage in the investigated sequencing regions. However, each tool implements t...

Descripción completa

Detalles Bibliográficos
Autor principal:	Kuśmirek, Wiktor
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	SAGE Publications 2022
Materias:	Original Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9354125/ https://www.ncbi.nlm.nih.gov/pubmed/35935530 http://dx.doi.org/10.1177/11779322221115534

Ejemplares similares

CNVind: an open source cloud-based pipeline for rare CNVs detection in whole exome sequencing data based on the depth of coverage
por: Kuśmirek, Wiktor, et al.
Publicado: (2022)

SeQuiLa-cov: A fast and scalable library for depth of coverage calculations
por: Wiewiórka, Marek, et al.
Publicado: (2019)

Performances of NIPT for copy number variations at different sequencing depths using the semiconductor sequencing platform
por: Yang, Jiexia, et al.
Publicado: (2021)

Estimated Nucleotide Reconstruction Quality Symbols of Basecalling Tools for Oxford Nanopore Sequencing
por: Kuśmirek, Wiktor
Publicado: (2023)

Copy number variation detection using next generation sequencing read counts
por: Wang, Heng, et al.
Publicado: (2014)

A robust model for read count data in exome sequencing experiments and implications for copy number variant calling
por: Plagnol, Vincent, et al.
Publicado: (2012)

Evaluation of tools for identifying large copy number variations from ultra-low-coverage whole-genome sequencing data
por: Smolander, Johannes, et al.
Publicado: (2021)

CONGA: Copy number variation genotyping in ancient genomes and low-coverage sequencing data
por: Söylev, Arda, et al.
Publicado: (2022)

Improving detection of copy-number variation by simultaneous bias correction and read-depth segmentation
por: Szatkiewicz, Jin P., et al.
Publicado: (2013)

CNVrd, a Read-Depth Algorithm for Assigning Copy-Number at the FCGR Locus: Population-Specific Tagging of Copy Number Variation at FCGR3B
por: Nguyen, Hoang tan, et al.
Publicado: (2013)

Population‐wide copy number variation calling using variant call format files from 6,898 individuals
por: Png, Grace, et al.
Publicado: (2019)

CNVpytor: a tool for copy number variation detection and analysis from read depth and allele imbalance in whole-genome sequencing
por: Suvakov, Milovan, et al.
Publicado: (2021)

Copy number variation as a tool for implementing pregnancy as an aging model
por: Andrawus, Mariana, et al.
Publicado: (2023)

CONY: A Bayesian procedure for detecting copy number variations from sequencing read depths
por: Wei, Yu-Chung, et al.
Publicado: (2020)

Copy-number-variation and copy-number-alteration region detection by cumulative plots
por: Li, Wentian, et al.
Publicado: (2009)

Copy number variation in bipolar disorder
por: Green, E K, et al.
Publicado: (2016)

Comprehensive characterization of copy number variation (CNV) called from array, long- and short-read data
por: Lavrichenko, Ksenia, et al.
Publicado: (2021)

Determining multiallelic complex copy number and sequence variation from high coverage exome sequencing data
por: Forni, Diego, et al.
Publicado: (2015)

A Poisson hierarchical modelling approach to detecting copy number variation in sequence coverage data
por: Sepúlveda, Nuno, et al.
Publicado: (2013)

Copy Number Variations and Schizophrenia
por: Szecówka, Kamila, et al.
Publicado: (2022)

Copy number variations and cancer
por: Shlien, Adam, et al.
Publicado: (2009)

Copy number variations and stroke
por: Colaianni, Valeria, et al.
Publicado: (2016)

Copy Number Variation and Osteoporosis
por: Lovšin, Nika
Publicado: (2023)

VCS: Tool for Visualizing Copy Number Variation and Single Nucleotide Polymorphism
por: Kim, HyoYoung, et al.
Publicado: (2014)

Plasmodium copy number variation scan: gene copy numbers evaluation in haploid genomes
por: Beghain, Johann, et al.
Publicado: (2016)

New Copy Number Variations in Schizophrenia
por: Magri, Chiara, et al.
Publicado: (2010)

Copy number variation in African Americans
por: McElroy, Joseph P, et al.
Publicado: (2009)

Copy number variation in the bovine genome
por: Fadista, João, et al.
Publicado: (2010)

Copy Number Variation in Thai Population
por: Suktitipat, Bhoom, et al.
Publicado: (2014)

Copy Number Variation in the Horse Genome
por: Ghosh, Sharmila, et al.
Publicado: (2014)

Copy number variations among silkworms
por: Zhao, Qian, et al.
Publicado: (2014)

Copy Number Variations in Female Infertility in China
por: Huang, W, et al.
Publicado: (2019)

PSCC: Sensitive and Reliable Population-Scale Copy Number Variation Detection Method Based on Low Coverage Sequencing
por: Li, Xuchao, et al.
Publicado: (2014)

Induction and recovery of copy number variation in banana through gamma irradiation and low‐coverage whole‐genome sequencing
por: Datta, Sneha, et al.
Publicado: (2018)

Analysis of copy number variations and possible candidate genes in spontaneous abortion by copy number variation sequencing
por: Bai, Wei, et al.
Publicado: (2023)

Possible association of 16p11.2 copy number variation with altered lymphocyte and neutrophil counts
por: Giannuzzi, Giuliana, et al.
Publicado: (2022)

A method for calling copy number polymorphism using haplotypes
por: Ho Jang, Gun, et al.
Publicado: (2013)

cnvCurator: an interactive visualization and editing tool for somatic copy number variations
por: Ma, Lingnan, et al.
Publicado: (2015)

Comparative study of whole exome sequencing-based copy number variation detection tools
por: Zhao, Lanling, et al.
Publicado: (2020)

Copy number variation goes clinical
por: Le Caignec, Cédric, et al.
Publicado: (2009)

Cannot write session to /tmp/vufind_sessions/sess_n3esuqkvv47tvvk04lul4koh67