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SNP Array

Tìm thấy 14+ kết quả cho từ khóa "SNP Array"

Integration of Infinium and Axiom SNP array data in the outcrossing species Malus × domestica and causes for seemingly incompatible calls

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Of the 8412 SNPs deemed compatible, 2030 are also present on the Illumina Infi- nium 8 K SNP array (Additional file 1) [2], indicating prospects for data integration with that array as well.. of the initial 18,019 on the Infinium array and exclude 5613 SNPs that were originally included in the iGL map [15].

GCViT: A method for interactive, genomewide visualization of resequencing and SNP array data

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In this paper we describe a new tool, GCViT (Geno- type Comparison Visualization Tool) for dynamic, whole genome visualization of resequencing and SNP array data through histogram, heatmap or haplotype views of two or more accessions selected from a genotyping data set. (https://github.com/LegumeFederation/gcvit)..

High-density linkage map construction and QTL analyses for fiber quality, yield and morphological traits using CottonSNP63K array in upland cotton (Gossypium hirsutum L.)

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Two major QTLs (qBW-16- CH4-A11–1, qBW-16-CH22-D13–1) with of Table 4 Details of the linkage maps constructed using the Cotton 63 K SNP array and the RIL population of cross between. Table 5 Major b QTLs for the fiber quality traits identified in the RIL population phenotyped at the Central Crops Research Station, Clayton, NC in years 2016 and 2017.

Development and validation of a RAD-Seq target-capture based genotyping assay for routine application in advanced black tiger shrimp (Penaeus monodon) breeding programs

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Development of the catfish 250K SNP array for genome-wide association studies. Zeng Q, Fu Q, Li Y, Waldbieser G, Bosworth B, Liu S, et al. Development of a 690 K SNP array in catfish and its application for genetic mapping and validation of the reference genome sequence. Xu J, Zhao Z, Zhang X, Zheng X, Li J, Jiang Y, et al. Development and evaluation of the first high-throughput SNP array for common carp ( Cyprinus carpio. Antolín – Sánchez R, Hamilton A, Guy DR, et al..

High resolution mapping of restoration of fertility (Rf) by combining large population and high density genetic map in pigeonpea [Cajanus cajan (L.) Millsp]

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An “ axiom Cajanus SNP Array ” based high density genetic map and QTL mapping for high-selfing flower and seed quality traits in pigeonpea

A new mouse SNP genotyping assay for speed congenics: Combining flexibility, affordability, and power

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Other SNP arrays have been developed to survey genetic variation across mul- tiple strains and substrains using many thousands of SNPs (e.g., the Mouse Diversity Array [10] and the Mouse Universal Genotyping Arrays or MUGAs [9, 11]).. the sequence data, including SNP genotyping and calculation of the percentage of alleles that match the backcross recipient strain for each sample.

Concordance rate between copy number variants detected using either high- or medium-density single nucleotide polymorphism genotype panels and the potential of imputing copy number variants from flanking high density single nucleotide polymorphism haplotypes in cattle

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Fine mapping of copy number variations on two cattle genome assemblies using high density SNP array. Genome-wide detection of copy number variations using high-density SNP genotyping platforms in Holsteins. Copy number variation in livestock: a mini review. PennCNV: an integrated hidden Markov model designed for high resolution copy number variation detection in whole-genome SNP genotyping data..

Genome-wide association studies detects candidate genes for wool traits by resequencing in Chinese fine-wool sheep

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However, genotype data of the above mentioned stud- ies were obtained based on the SNP array. The currently available commercial SNP array such as the Illumina Ovine SNP50K BeadChip cannot cover all the SNPs in- volved in the fine-wool sheep genome. With reference to the gen- etic background of Chinese fine-wool sheep breeds, the previous GWAS was mainly based on one breed, which inevitably affected the applicability of QTL for wool traits.

A global analysis of CNVs in Chinese indigenous fine-wool sheep populations using whole-genome resequencing

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Genome- wide detection of copy number variation in Chinese indigenous sheep using an ovine high-density 600 K SNP array. Copy number variation in the MSRB3 gene enlarges porcine ear size through a mechanism involving miR-584-5p. Analysis of copy number variations by SNP50 BeadChip array in Chinese sheep. Analysis of copy number variations in the sheep genome using 50K SNP BeadChip array. Genome-wide detection of copy number variations using high-density SNP genotyping platforms in Holsteins.

Identification and characterization of QTLs for fruit quality traits in peach through a multi-family approach

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Individuals were previously genotyped as part of the US Peach Crop Reference Set and Breeding Pedigree Set [24] using the IPSC 9 K SNP Array for Peach [62]. It al- lows for a QTL to be evaluated across diverse genetic backgrounds while, simultaneously, increases the chances of recombination events nearby the QTL of the trait of interest [65, 66]. The statistical evidence for QTLs was evaluated by twice the natural logarithm of the obtained Bayes Factors (BF) [2ln(BF)] [68].

Genome-wide identification of loci associated with growth in rainbow trout

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In addition, a recent GWA study using a 57 K SNP array identified QTL explaining a small proportion of additive genetic variance for body weight in rainbow trout. A single window on chromo- some 5 was responsible for 1.4 and 1.0% of the addi- tive genetic variance in body weight at 10 and 13 months post-hatching, respectively [22].. The SNP chip has been successfully used to identify QTL associated with muscle yield [19], and fillet firmness and protein content [25] in rainbow trout.

QTL mapping of root traits in wheat under different phosphorus levels using hydroponic culture

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Thirty-four QTL with significant phenotypic varia- tions for root system architecture and biomass- related traits were identified using high-density genetic map constructed from 660 k SNP array and cost-effective hydroponic-based phenotyping pipe- line. A stable QTL QRRS.caas-4DS Mb) was also detected across the three P levels, accounted for 8.4 to 20.4% of the phenotypic vari- ances, which could be used for speedy selection of genotypes for P-uptake.

Exome resequencing and GWAS for growth, ecophysiology, and chemical and metabolomic composition of wood of Populus trichocarpa

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In comparison to similar preceding studies that used SNP array plat- forms the number of SNPs in our ana- lyses represent an increase in the power of applied genomic scanning. The estimated extent of LD decay predicted in our study is higher than the observed by Wegrzyn et al. [18] (r 2 0.2 at ~ 0.5 kbp) and Wang et al .[28] (r 2 0.2 at ~ 8 kbp) for P.

Construction of a high-density genetic map and mapping of growth related QTLs in the grass carp (Ctenopharyngodon idellus)

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Isolation and characterization of 25 novel EST-SNP markers in grass carp. Detection of EST-SSRs markers and genetic structure of different populations of grass carp in Yantze River system. "The grass carp genome database (GCGD): an online platform for genome features and annotations.". Development and evaluation of the first high-throughput SNP array for common carp (Cyprinus carpio).

Multi-trait GWAS using imputed highdensity genotypes from whole-genome sequencing identifies genes associated with body traits in Nile tilapia

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Development and Validation of 58K SNP-Array and High-Density Linkage Map in Nile Tilapia (O.. Genome-Wide Association Study and Cost-Efficient Genomic Predictions for Growth and Fillet Yield in Nile Tilapia ( Oreochromis niloticus. Genomic prediction for commercial traits using univariate and multivariate approaches in Nile tilapia (Oreochromis niloticus). Tsai HY, Hamilton A, Tinch AE, Guy DR, Gharbi K, Stear MJ, et al. https://doi.org/10.1186/s .

An Axiom SNP genotyping array for Douglas-fir

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A SNP resource for Douglas-fir: de novo transcriptome assembly and SNP detection and validation. A powerful tool for genome analysis in maize: development and evaluation of the high density 600 k SNP genotyping array. Development and validation of the axiom®Apple480K SNP genotyping array. A catalogue of putative unique transcripts from Douglas-fir (Pseudotsuga menziesii) based on 454 transcriptome sequencing of genetically diverse, drought stressed seedlings.

How imputation can mitigate SNP ascertainment Bias

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A high-density SNP-based linkage map of the chicken genome reveals sequence features correlated with recombination rate. https://doi.org/10.1038/srep10442.. https://doi.org/10.1038/s

How to study runs of homozygosity using PLINK? A guide for analyzing medium density SNP data in livestock and pet species

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However, the length of the autosomal genome depends on the genome as- sembly used for SNP mapping and can therefore differ between genotyping arrays. The detection of ROH in these regions is not only dependent on the SNP density of the array, but also on the specific criteria assigned to PLINK to detect ROH..

BÀI BÁO CÁO NHÓM 5 (SNP).doc

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Người ta có thể dự đoán 100.000hoặc nhiều hơn nữa SNP marker (trong quãng 30-kb, hoặc 5 marker cho một gen)trong genome người (Collins và ctv. Những phương pháp đánh giá kiểu genvới kết quả cao đòi hỏi một kiến thức về chuỗi trình tự rất chính xác của SNP. Dođó, bất cứ công bố nào về SNP phải hàm chứa hai nội dung: (1) Xác định chuỗi trình tự DNA.

Micro Array Trong Chan Doan Truoc Sinh

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High resolution array-CGH analysis of single cells. ArrayCyGHt: a web application for analysis and visualization of array-CGH data. (2006) Prenatal detection of unbalanced chromosomal rearrangements by array CGH. Prenatal Diagnosis by Array-CGH. Medical applications of array-CGH and the transformation of clinical cytogenetics. (2005) Submicroscopic deletions and duplications in individuals with intellectual disability detected by array-CGH