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Genotyping by Sequencing (GBS) for Genome-Wide SNP Identification in Plants.
Publication Type: Academic Journal
Source(s): Methods in molecular biology (Clifton, N.J.) [Methods Mol Biol] 2023; Vol. 2638, pp. 1-8.
Abstract: Marker-assisted selection has played a pivotal role in developing several elite varieties in the past two decades. Molecular markers employed in plant breeding programs have recently shifted from microsatellites or simple sequence repeats (SSRs) to sin...
Developmental validation of a 381 Y-chromosome SNP panel for haplogroup analysis in the Chinese populations.
Publication Type: Academic Journal
Source(s): Forensic science international. Genetics [Forensic Sci Int Genet] 2023 Jan; Vol. 62, pp. 102803. Date of Electronic Publication: 2022 Oct 29.
Abstract: Y-chromosome single nucleotide polymorphism (Y-SNP) shows great variation in geographical distribution and population heterogeneity and can be used to map population genetics around the world. Massive parallel sequencing (MPS) methodology enables high-...
SNPD-CRISPR: Single Nucleotide Polymorphism-Distinguishable Repression or Enhancement of a Target Gene Expression by CRISPR System.
Publication Type: Academic Journal
Source(s): Methods in molecular biology (Clifton, N.J.) [Methods Mol Biol] 2023; Vol. 2637, pp. 49-62.
Abstract: A wide range of diseases, including cancer, autoimmune diseases, or neurodegenerative diseases, have been associated with single nucleotide mutations in their causative genes. Clustered regularly interspaced short palindromic repeats/CRISPR-associated ...
In Silico Mining and Characterization of High-Quality SNP/Indels in Some Agro-Economically Important Species Belonging to the Family Euphorbiaceae.
Publication Type: Academic Journal
Source(s): Genes [Genes (Basel)] 2023 Jan 27; Vol. 14 (2). Date of Electronic Publication: 2023 Jan 27.
Abstract: (1) Background: To assess the genetic makeup among the agro-economically important members of Euphorbiaceae, the present study was conducted to identify and characterize high-quality single-nucleotide polymorphism (SNP) markers and their comparative di...
Rapid Identification of Relevant Microbial Strains by Identifying Multiple Marker Single Nucleotide Polymorphisms via Amplicon Sequencing: Epidemic Monkeypox Virus as a Proof of Concept.
Publication Type: Academic Journal
Source(s): Microbiology spectrum [Microbiol Spectr] 2023 Feb 14; Vol. 11 (1), pp. e0419622. Date of Electronic Publication: 2023 Jan 05.
Abstract: Despite the proven value of applying genomic data for epidemiological purposes, commonly used high-throughput sequencing formats are not adapted to the response times required to intervene and finally control outbreaks. In this study, we propose a fast...
Innovations in double digest restriction-site associated DNA sequencing (ddRAD-Seq) method for more efficient SNP identification.
Publication Type: Academic Journal
Source(s): Analytical biochemistry [Anal Biochem] 2023 Feb 01; Vol. 662, pp. 115001. Date of Electronic Publication: 2022 Dec 05.
Abstract: We present an improved ddRAD-Seq protocol for identifying single nucleotide polymorphisms (SNPs). It utilizes selected restriction enzyme digestion fragments, quick acting ligases that are neutral with the restriction enzyme buffer eliminating buffer e...
Modified High-Resolution Melting (HRM) Marker Systems Increasing Discriminability Between Homozygous Alleles.
Publication Type: Academic Journal
Source(s): Methods in molecular biology (Clifton, N.J.) [Methods Mol Biol] 2023; Vol. 2638, pp. 351-363.
Abstract: Targeted single-nucleotide polymorphism (SNP) genotyping, especially for functional nucleotide polymorphism, is widely used for current breeding programs in crops. One of the cost- and time-effective approaches for genotyping is high-resolution melting...
A New SNP Genotyping Technology by Target SNP-Seq.
Publication Type: Academic Journal
Source(s): Methods in molecular biology (Clifton, N.J.) [Methods Mol Biol] 2023; Vol. 2638, pp. 365-371.
Abstract: In order to promote the widespread application of single-nucleotide polymorphism (SNP)-based genotyping, a new method was developed and called target SNP-seq which combined the advantages of multiplex polymerase chain reaction (PCR) amplification and h...
An efficient genotyper and star-allele caller for pharmacogenomics.
Publication Type: Academic Journal
Source(s): Genome research [Genome Res] 2023 Jan; Vol. 33 (1), pp. 61-70. Date of Electronic Publication: 2023 Jan 19.
Abstract: High-throughput sequencing provides sufficient means for determining genotypes of clinically important pharmacogenes that can be used to tailor medical decisions to individual patients. However, pharmacogene genotyping, also known as star-allele callin...
HapCUT2: A Method for Phasing Genomes Using Experimental Sequence Data.
Publication Type: Academic Journal
Source(s): Methods in molecular biology (Clifton, N.J.) [Methods Mol Biol] 2023; Vol. 2590, pp. 139-147.
Abstract: Rapid advances in high-throughput DNA sequencing technologies have enabled variant discovery from whole-genome sequencing (WGS) datasets; however linking variants on a chromosome together into haplotypes, also known as haplotype phasing, remains diffic...