Estimating Global Methylation and Erasure Using Low-Coverage Whole-Genome Bisulfite Sequencing (WGBS ).
Sign Up to like & getrecommendations! Published in 2021 at "Methods in molecular biology"
DOI: 10.1007/978-1-0716-1294-1_3
Abstract: Whole-genome bisulfite sequencing (WGBS) is a popular method for characterizing cytosine methylation because it is fully quantitative and has base-pair resolution. While WGBS is prohibitively expensive for experiments involving many samples, low-coverage WGBS can accurately… read more here.
Keywords: genome bisulfite; low coverage; methylation; wgbs ... See more keywords
Low-coverage sequencing cost-effectively detects known and novel variation in underrepresented populations.
Sign Up to like & getrecommendations! Published in 2021 at "American journal of human genetics"
DOI: 10.1016/j.ajhg.2021.03.012
Abstract: Genetic studies in underrepresented populations identify disproportionate numbers of novel associations. However, most genetic studies use genotyping arrays and sequenced reference panels that best capture variation most common in European ancestry populations. To compare data… read more here.
Keywords: low coverage; variation; coverage sequencing; coverage ... See more keywords
Evaluating genotype imputation pipeline for ultra-low coverage ancient genomes
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DOI: 10.1038/s41598-020-75387-w
Abstract: Although ancient DNA data have become increasingly more important in studies about past populations, it is often not feasible or practical to obtain high coverage genomes from poorly preserved samples. While methods of accurate genotype… read more here.
Keywords: low coverage; genotype imputation; imputation; ancient genomes ... See more keywords
Low-coverage whole-genome sequencing of extracellular vesicle-associated DNA in patients with metastatic cancer
Sign Up to like & getrecommendations! Published in 2021 at "Scientific Reports"
DOI: 10.1038/s41598-021-83436-1
Abstract: Low-coverage whole-genome sequencing (LC-WGS) can provide insight into oncogenic molecular changes. Serum extracellular vesicles (EV) represent a novel liquid biopsy source of tumoral DNA. This study compared copy number alteration (CNA) profiles generated from LC-WGS… read more here.
Keywords: coverage whole; low coverage; whole genome; range ... See more keywords
NanoSNP: a progressive and haplotype-aware SNP caller on low-coverage nanopore sequencing data
Sign Up to like & getrecommendations! Published in 2022 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btac824
Abstract: Abstract Motivation Oxford Nanopore sequencing has great potential and advantages in population-scale studies. Due to the cost of sequencing, the depth of whole-genome sequencing for per individual sample must be small. However, the existing single… read more here.
Keywords: coverage; sequencing data; coverage nanopore; nanopore sequencing ... See more keywords
Testing the systematic status of Homalictus and Rostrohalictus with weakened cross-vein groups within Halictini (Hymenoptera: Halictidae) using low-coverage whole-genome sequencing.
Sign Up to like & getrecommendations! Published in 2022 at "Insect science"
DOI: 10.1111/1744-7917.13034
Abstract: The halictid genus Lasioglossum, as one of the most species-rich bee groups with persistently contentious subgeneric boundaries, is one of the most challenging bee groups from a systematic standpoint. An enduring question is the relationship… read more here.
Keywords: rostrohalictus; lasioglossum; low coverage; status ... See more keywords
An accurate assignment test for extremely low-coverage whole-genome sequence data.
Sign Up to like & getrecommendations! Published in 2021 at "Molecular ecology resources"
DOI: 10.1111/1755-0998.13551
Abstract: Genomic assignment tests can provide important diagnostic biological characteristics, such as population of origin or ecotype. Yet, assignment tests often rely on moderate- to high-coverage sequence data that can be difficult to obtain for fields… read more here.
Keywords: extremely low; low coverage; sequence data; coverage ... See more keywords
Benchmarking Imputed Low Coverage Genomes in a Human Population Genetics Context
Sign Up to like & getrecommendations! Published in 2024 at "Molecular Ecology Resources"
DOI: 10.1111/1755-0998.70007
Abstract: Ongoing advances in population genomic methodologies have recently made it possible to study millions of loci across hundreds of genomes at a relatively low cost, by leveraging a combination of low-coverage shotgun sequencing and innovative… read more here.
Keywords: coverage genomes; genetics; low coverage; population ... See more keywords
SNP discovery and genetic structure in blue mussel species using low coverage sequencing and a medium density 60 K SNP‐array
Sign Up to like & getrecommendations! Published in 2023 at "Evolutionary Applications"
DOI: 10.1111/eva.13552
Abstract: Blue mussels from the genus Mytilus are an abundant component of the benthic community, found in the high latitude habitats. These foundation species are relevant to the aquaculture industry, with over 2 million tonnes produced… read more here.
Keywords: snp array; density snp; medium density; mussel ... See more keywords
Low‐coverage sequencing and Wahlund effect severely bias estimates of inbreeding, heterozygosity and effective population size in North American wolves
Sign Up to like & getrecommendations! Published in 2024 at "Molecular Ecology"
DOI: 10.1111/mec.17415
Abstract: vonHoldt et al. ((2024), Molecular Ecology, 33, e17231) (vH24) used low‐coverage (average ~ 7X read depth) restriction site‐associated DNA sequence data to estimate individual inbreeding and heterozygosity, and recent effective population size (Ne), in Great Lakes (GL)… read more here.
Keywords: low coverage; coverage; sequence; heterozygosity ... See more keywords
Factors Associated with Low Coverage of Intermittent Preventive Treatment with Sulfadoxyne-Pyrimethamine in Pregnancy in Dassa-Glazoué
Sign Up to like & getrecommendations! Published in 2021 at "Journal of Geriatric Oncology"
DOI: 10.11648/j.jgo.20210906.12
Abstract: Introduction: Malaria during pregnancy is a major public health concern in most endemic areas, including Benin. To overcome this, the World Health Organization (WHO) recommends several prevention strategies, including the administration of sulfadoxine-pyrimethamine (SP) during… read more here.
Keywords: low coverage; associated low; pregnant women; coverage ... See more keywords