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single-nucleotide polymorphism (snp) genotyping microarray  (WholeGenome LLC)

 
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    WholeGenome LLC single-nucleotide polymorphism (snp) genotyping microarray
    Single Nucleotide Polymorphism (Snp) Genotyping Microarray, supplied by WholeGenome LLC, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/microarray+snp+genotype+data/snps/pm35016480-129-1-0
    Average 90 stars, based on 1 article reviews
    single-nucleotide polymorphism (snp) genotyping microarray - by Bioz Stars, 2026-11
    90/100 stars

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    other:

    Article Title: Conservation and Monitoring of Tree Genetic Resources in Temperate Forests
    Article Snippet: In genomic monitoring, marker loci (mostly single nucleotide polymorphisms (SNPs) originating from candidate genes or from wholegenome scans) can be genotyped in trees from different target populations, such as gene conservation units, and tested for patterns of variation that signal selection.

    Article Title: Population structure and ongoing microevolution of the emerging multidrug-resistant Salmonella Typhimurium ST213.
    Article Snippet: The population structure of the S. Typhimurium ST213 shows intra-sequence type evolution To establish and understand the population structure of the ST213 sequence type, 275 S. Typhimurium ST213 genomes publicly available in the EnteroBase database3,14, were used to build a wholegenome single-nucleotide polymorphism (SNP) phylogenetic analysis, and cluster designation was performed using FastBAPs15.

    Article Title: A distinct and genetically diverse lineage of the hybrid fungal pathogen Verticillium longisporum population causes stem striping in British oilseed rape.
    Article Snippet: Small polymorphisms (SNPs and INDELs) between genomes were extracted from the wholegenome alignments using show-snps (excluding ambiguous alignments), which is part of the mummer package (v3.1).

    Article Title: A high-density genetic map and multiple environmental tests reveal novel quantitative trait loci and candidate genes for fibre quality and yield in cotton.
    Article Snippet: Key message A high-density linkage map of an intraspecific RIL population was constructed using 6187 bins to identify QTLs for fibre qualityand yield-related traits in upland cotton by whole-genome resequencing.. Abstract Good fibre quality and high yield are important production goals in cotton (Gossypium hirsutum L.), which is a leading natural fibre crop worldwide.. However, a greater understanding of the genetic variants underlying fibre qualityand yield-related traits is still required.

    Article Title: Coexistence of plasma cell neoplasia and myelodysplastic syndrome with excess blasts: case reports and literature review.
    Article Snippet: Wholegenome single-nucleotide polymorphism (SNP) genotyping microarray also showed abnormalities in 2 distinct groups at the mosaicism level.

    Article Title: The weight of weights: Causal impact of overweight on major depressive disorder and its disparate association with suicide attempts in over 450,000 individuals of European ancestry (AM-SRNMA 003).
    Article Snippet: Aim: Some studies and societal discussions have suggested a potential link between overweight and a higher risk of mental disorders and suicidal ideation.. However, the causal relationships between these factors remain unclear.. This study aims to assess the bidirectional causal associations between overweight and mental disorders, including suicidal attempts.

    Methylation:

    Article Title: The methylome is altered for plants in a high CO 2 world: Insights into the response of a wild plant population to multigenerational exposure to elevated atmospheric [CO 2 ].
    Article Snippet: .. TA B L E 1 Population genomic analysis statistics calculated from SNPs for wholegenome and exon-only regions relatively high with 83%, 70% and 15% of cytosines methylated in the CG, CHG and CHH contexts, respectively. ..



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    Mapping of the CFTR locus in a nonconsanguineous CEPH family (Pedigree 3, see the section Methods), using variant data derived either ( A ) from exome sequencing or ( B ) from microarray SNP genotyping (Affymetrix SNP 6.0). Display of Chromosome 7 haplotypes was performed using Phaser [Carr et al., ]. In this display, blue and pink vertical bars denote the haplotypes inherited by the first affected offspring from the father and mother, respectively. The disease locus must be located in a region where all affected individuals share the same combination of maternal (pink) and paternal (blue) haplotypes as this first individual. This is denoted by a purple color in the central vertical bar (region of overlap between the affected paternal and maternal haplotypes). Unaffected offspring should be discordant with their affected siblings at the disease locus (i.e., no purple bar). In this example, the actual position of the CFTR gene is marked by a horizontal red line. It can be seen that the candidate region containing CFTR is considerably smaller in ( B ), due to the superior resolution and distribution of the microarray SNPs.
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    Mapping of the CFTR locus in a nonconsanguineous CEPH family (Pedigree 3, see the section Methods), using variant data derived either ( A ) from exome sequencing or ( B ) from microarray SNP genotyping (Affymetrix SNP 6.0). Display of Chromosome 7 haplotypes was performed using Phaser [Carr et al., ]. In this display, blue and pink vertical bars denote the haplotypes inherited by the first affected offspring from the father and mother, respectively. The disease locus must be located in a region where all affected individuals share the same combination of maternal (pink) and paternal (blue) haplotypes as this first individual. This is denoted by a purple color in the central vertical bar (region of overlap between the affected paternal and maternal haplotypes). Unaffected offspring should be discordant with their affected siblings at the disease locus (i.e., no purple bar). In this example, the actual position of the CFTR gene is marked by a horizontal red line. It can be seen that the candidate region containing CFTR is considerably smaller in ( B ), due to the superior resolution and distribution of the microarray SNPs.
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    Mapping of the CFTR locus in a nonconsanguineous CEPH family (Pedigree 3, see the section Methods), using variant data derived either ( A ) from exome sequencing or ( B ) from microarray SNP genotyping (Affymetrix SNP 6.0). Display of Chromosome 7 haplotypes was performed using Phaser [Carr et al., ]. In this display, blue and pink vertical bars denote the haplotypes inherited by the first affected offspring from the father and mother, respectively. The disease locus must be located in a region where all affected individuals share the same combination of maternal (pink) and paternal (blue) haplotypes as this first individual. This is denoted by a purple color in the central vertical bar (region of overlap between the affected paternal and maternal haplotypes). Unaffected offspring should be discordant with their affected siblings at the disease locus (i.e., no purple bar). In this example, the actual position of the CFTR gene is marked by a horizontal red line. It can be seen that the candidate region containing CFTR is considerably smaller in ( B ), due to the superior resolution and distribution of the microarray SNPs.

    Journal: Human Mutation

    Article Title: Rapid Detection of Rare Deleterious Variants by Next Generation Sequencing with Optional Microarray SNP Genotype Data

    doi: 10.1002/humu.22818

    Figure Lengend Snippet: Mapping of the CFTR locus in a nonconsanguineous CEPH family (Pedigree 3, see the section Methods), using variant data derived either ( A ) from exome sequencing or ( B ) from microarray SNP genotyping (Affymetrix SNP 6.0). Display of Chromosome 7 haplotypes was performed using Phaser [Carr et al., ]. In this display, blue and pink vertical bars denote the haplotypes inherited by the first affected offspring from the father and mother, respectively. The disease locus must be located in a region where all affected individuals share the same combination of maternal (pink) and paternal (blue) haplotypes as this first individual. This is denoted by a purple color in the central vertical bar (region of overlap between the affected paternal and maternal haplotypes). Unaffected offspring should be discordant with their affected siblings at the disease locus (i.e., no purple bar). In this example, the actual position of the CFTR gene is marked by a horizontal red line. It can be seen that the candidate region containing CFTR is considerably smaller in ( B ), due to the superior resolution and distribution of the microarray SNPs.

    Article Snippet: Exome variant data were only available for two affected siblings, while Affymetrix SNP 6.0 microarray SNP genotype data were available for a third affected sibling and two unaffected siblings.

    Techniques: Variant Assay, Derivative Assay, Sequencing, Microarray