Cargando…

Evaluation of Allele Frequency Estimation Using Pooled Sequencing Data Simulation

Next-generation sequencing (NGS) technology has provided researchers with opportunities to study the genome in unprecedented detail. In particular, NGS is applied to disease association studies. Unlike genotyping chips, NGS is not limited to a fixed set of SNPs. Prices for NGS are now comparable to...

Descripción completa

Detalles Bibliográficos
Autores principales:	Guo, Yan, Samuels, David C., Li, Jiang, Clark, Travis, Li, Chung-I, Shyr, Yu
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Hindawi Publishing Corporation 2013
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3582166/ https://www.ncbi.nlm.nih.gov/pubmed/23476151 http://dx.doi.org/10.1155/2013/895496

Ejemplares similares

Estimating microhaplotype allele frequencies from low-coverage or pooled sequencing data
por: Delomas, Thomas A., et al.
Publicado: (2023)

Detecting SNPs and estimating allele frequencies in clonal bacterial populations by sequencing pooled DNA
por: Holt, Kathryn E., et al.
Publicado: (2009)

Estimating Allele Frequency from Next-Generation Sequencing of Pooled Mitochondrial DNA Samples
por: Wang, Tao, et al.
Publicado: (2011)

High-throughput estimation of allele frequencies using combined pooled-population sequencing and haplotype-based data processing
por: Schneider, Michael, et al.
Publicado: (2022)

The impact of library preparation protocols on the consistency of allele frequency estimates in Pool‐Seq data
por: Kofler, Robert, et al.
Publicado: (2015)

The effect of strand bias in Illumina short-read sequencing data
por: Guo, Yan, et al.
Publicado: (2012)

Estimation of allele frequency and association mapping using next-generation sequencing data
por: Kim, Su Yeon, et al.
Publicado: (2011)

A unified approach for allele frequency estimation, SNP detection and association studies based on pooled sequencing data using EM algorithms
por: Chen, Quan, et al.
Publicado: (2013)

Association studies using family pools of outcrossing crops based on allele-frequency estimates from DNA sequencing
por: Ashraf, Bilal H., et al.
Publicado: (2014)

Pool-hmm: a Python program for estimating the allele frequency spectrum and detecting selective sweeps from next generation sequencing of pooled samples
por: Boitard, Simon, et al.
Publicado: (2013)

Microarray-based estimation of SNP allele-frequency in pooled DNA using the Langmuir kinetic model
por: Yin, Bin-Cheng, et al.
Publicado: (2008)

Maximum Likelihood Estimation of Frequencies of Known Haplotypes from Pooled Sequence Data
por: Kessner, Darren, et al.
Publicado: (2013)

Polymorphism discovery and allele frequency estimation using high-throughput DNA sequencing of target-enriched pooled DNA samples
por: Mullen, Michael P, et al.
Publicado: (2012)

RnaSeqSampleSize: real data based sample size estimation for RNA sequencing
por: Zhao, Shilin, et al.
Publicado: (2018)

SNP Calling, Genotype Calling, and Sample Allele Frequency Estimation from New-Generation Sequencing Data
por: Nielsen, Rasmus, et al.
Publicado: (2012)

A central resource for accurate allele frequency estimation from pooled DNA genotyped on DNA microarrays
por: Simpson, Claire L., et al.
Publicado: (2005)

PPC: an algorithm for accurate estimation of SNP allele frequencies in small equimolar pools of DNA using data from high density microarrays
por: Brohede, Jesper, et al.
Publicado: (2005)

The discrepancy among single nucleotide variants detected by DNA and RNA high throughput sequencing data
por: Guo, Yan, et al.
Publicado: (2017)

Cost-effective genome-wide estimation of allele frequencies from pooled DNA in Atlantic salmon (Salmo salar L.)
por: Ozerov, Mikhail, et al.
Publicado: (2013)

Estimating inbreeding coefficients from NGS data: Impact on genotype calling and allele frequency estimation
por: Vieira, Filipe G., et al.
Publicado: (2013)

Confirming putative variants at ≤ 5% allele frequency using allele enrichment and Sanger sequencing
por: Yan, Yan Helen, et al.
Publicado: (2021)

Large Scale Comparison of Gene Expression Levels by Microarrays and RNAseq Using TCGA Data
por: Guo, Yan, et al.
Publicado: (2013)

T-lex2: genotyping, frequency estimation and re-annotation of transposable elements using single or pooled next-generation sequencing data
por: Fiston-Lavier, Anna-Sophie, et al.
Publicado: (2015)

Validation of SNP Allele Frequencies Determined by Pooled Next-Generation Sequencing in Natural Populations of a Non-Model Plant Species
por: Rellstab, Christian, et al.
Publicado: (2013)

High Throughput Automated Allele Frequency Estimation by Pyrosequencing
por: Doostzadeh, Julie, et al.
Publicado: (2008)

Estimation of German KIR Allele Group Haplotype Frequencies
por: Solloch, Ute V., et al.
Publicado: (2020)

coiaf: Directly estimating complexity of infection with allele frequencies
por: Paschalidis, Aris, et al.
Publicado: (2023)

Reducing Bias of Allele Frequency Estimates by Modeling SNP Genotype Data with Informative Missingness
por: Lin, Wan-Yu, et al.
Publicado: (2012)

ABO allele-level frequency estimation based on population-scale genotyping by next generation sequencing
por: Lang, Kathrin, et al.
Publicado: (2016)

Fast and accurate haplotype frequency estimation for large haplotype vectors from pooled DNA data
por: Iliadis, Alexandros, et al.
Publicado: (2012)

Estimating Selection Coefficients in Spatially Structured Populations from Time Series Data of Allele Frequencies
por: Mathieson, Iain, et al.
Publicado: (2013)

PoolHap: Inferring Haplotype Frequencies from Pooled Samples by Next Generation Sequencing
por: Long, Quan, et al.
Publicado: (2011)

Fish scales and SNP chips: SNP genotyping and allele frequency estimation in individual and pooled DNA from historical samples of Atlantic salmon (Salmo salar)
por: Johnston, Susan E, et al.
Publicado: (2013)

Impact of QTL minor allele frequency on genomic evaluation using real genotype data and simulated phenotypes in Japanese Black cattle
por: Uemoto, Yoshinobu, et al.
Publicado: (2015)

Quantitative high resolution melting: two methods to determine SNP allele frequencies from pooled samples
por: Capper, Roxana L., et al.
Publicado: (2015)

Accurate Allele Frequencies from Ultra-low Coverage Pool-Seq Samples in Evolve-and-Resequence Experiments
por: Tilk, Susanne, et al.
Publicado: (2019)

Baseline Micronuclei Frequency in Children: Estimates from Meta- and Pooled Analyses
por: Neri, Monica, et al.
Publicado: (2005)

Estimating haplotype frequencies in pooled DNA samples when there is genotyping error
por: Quade, Shannon RE, et al.
Publicado: (2005)

Steps to ensure accuracy in genotype and SNP calling from Illumina sequencing data
por: Liu, Qi, et al.
Publicado: (2012)

TrEMOLO: accurate transposable element allele frequency estimation using long-read sequencing data combining assembly and mapping-based approaches
por: Mohamed, Mourdas, et al.
Publicado: (2023)

Cannot write session to /tmp/vufind_sessions/sess_eie0h8u806g096g13vgla9jses