SNP discovery, genotyping and array development
Transcriptomic SNP discovery for custom genotyping arrays: impacts of sequence data, SNP calling method and genotyping technology on the probability of validation success
... successful SNP discovery both by explor- ing the overlap between SNPs called using four differ- ent methods and by evaluating predicted validation ...two genotyping technologies would be to genotype ...
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GBS-SNP-CROP: a reference-optional pipeline for SNP discovery and plant germplasm characterization using variable length, paired-end genotyping-by-sequencing data
... reduction, genotyping-by- sequencing (GBS) is a flexible and cost-effective strategy for SNP discovery and genotyping, provided an appropriate reference genome is ...high-density SNP ...
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Employing genome-wide SNP discovery and genotyping strategy to extrapolate the natural allelic diversity and domestication patterns in chickpea
... wide discovery and genotyping of SNPs in ...(maximum SNP detection limited to 64-bp sequence reads), the use of integrated reference genome (desi and kabuli)– and de novo-based GBS approaches would ...
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High throughput SNP discovery and genotyping in grapevine (Vitis vinifera L.) by combining a re-sequencing approach and SNPlex technology
... as SNP and haplotype ...a SNP discovery approach in grapevine providing SNPs of suita- ble quality for high throughput genotyping technologies such as ...this genotyping technology in ...
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SNP discovery and genetic mapping using genotyping by sequencing of whole genome genomic DNA from a pea RIL population
... Massive SNP dis- covery was first limited to the few species with an avail- able reference ...the development of novel ap- proaches for reducing genome complexity ...large-scale SNP discovery ...
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Genome-wide SNP discovery and genetic linkage map construction in sunflower (Helianthus annuus L.) using a genotyping by sequencing (GBS) approach
... Discussion GBS and SNP identification The genotyping by sequencing approach has been applied to many species for SNP discovery. Although the numbers of sequence reads and percentages of ...
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Genome-wide SNP discovery and QTL mapping for fruit quality traits in inbred backcross lines (IBLs) of solanum pimpinellifolium using genotyping by sequencing
... and SNP (Single Nucleotide Polymorphism) ...contain SNP markers designed from the Solana- ceae Genomics Network [10] and Tomato Mapping Resource databases ...233 SNP markers genotyped in ...VeraCode ...
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Development of a universal and simplified ddRAD library preparation approach for SNP discovery and genotyping in angiosperm plants
... to SNP marker development, high-density genetic map construction, QTL mapping, population genetics and phylogenetic research on eggplants, chickpeas, sesames, soybeans, cucurbit bottle gourds, bamboos, ...
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Genotyping by sequencing in almond : SNP discovery, linkage mapping, and marker sesign
... and development corporation for Australian horticulture), which supported this research using the almond industry and development levy and contributions from the Australian Government; the Com- monwealth ...
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Genome-wide SNP discovery and identification of QTL associated with agronomic traits in oil palm using genotyping-by-sequencing (GBS)
... With rapid advancement in sequencing throughput together with an overall decrease in sequencing cost, next generation sequencing technologies have been applied to SNP identi fication in various plant species [20] . ...
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Development and validation of a high density SNP genotyping array for African Oil Palm
... Davidson, L. (1991). Management for efficient cost-effective and productive oil palm plantations. In: International Palm Oil Conference Kuala Lumpur: Palm Oil Research Insititute of Malaysia. 153 - 167. Ganal, M.W., ...
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Medium-throughput SNP genotyping and linkage mapping in Haliotis midae
... novo SNP discovery is gained through transcriptome sequencing and because the SNPs are identified from transcriptomic data, they are directly associated with actual genes (Helyar et ...to SNP ...
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A bioinformatics analysis of contributors to false discovery for a mouse genotyping array
... for genotyping and marker requirements for CNV calling, microarray data are not without technical ...example, array-based platforms are a cost-effective method for CNV discovery but are limited in ...
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Development and validation of a 20K Single Nucleotide Polymorphism (SNP) whole genome genotyping array for apple (Malus × domestica Borkh)
... High-density SNP arrays for genome-wide assessment of allelic variation have made high resolution genetic characterization of crop germplasm ...density array for apple, the IRSC 8 K SNP array, ...
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Development of a dense SNP-based linkage map of an apple rootstock progeny using the Malus Infinium whole genome genotyping array
... IRSC array in the M432 rootstock mapping progeny to determine its utility to genome-wide saturated map ...marker development follow- ing QTL analysis. We evaluated the SNP-based linkage map produced ...
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Development of a dense SNP-based linkage map of an apple rootstock progeny using the Malus Infinium whole genome genotyping array
... an SNP or indel, or the detection of more than one allele con- taining SNPs within the probe sequence [4], leading to non-uniform clustering of the detected ...IRSC array, but which could not be located to ...
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Development of a dense SNP-based linkage map of an apple rootstock progeny using the Malus Infinium whole genome genotyping array
... all SNP data and the SSR data of Fernández- Fernández et ...Initially SNP markers were ordered using the QMAP procedure of Genstat 14 ...[22]. SNP marker orders were then fixed and SSRs were added to ...
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Arrayed Primer Extension in the Array of Arrays Format: A Rational Approach for Microarray-Based SNP Genotyping ABSTRACT
... tial SNP loci on the National Center for Biotechnology Infor- mation (NCBI) SNP database ...an array specific for nucleotides A and ...an array specific for nucleotides C and ...
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Illumina Snp Array Protocol
... custom genotyping and the genotyping? Types of technology and new reagent names, treatment upon the ...for snp chips with postnatal samples to load each snp causing the ...to array ...
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Genome Wide Sampling Sequencing for SNP Genotyping: Methods, Challenges and Future Development
... DraI, HaeIII, HindIII, MluCI, MlyI, MseI, MspI, NlaIII, PstI, SbfI and SphI are resistant to Dam (methylated by the dam methylase), Dcm (methylated by the dcm methylase) and CpG (methylated by the CpG methylase) blocks, ...
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