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Clustering of genotypes
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Drawing genotype-to-phenotype maps in tumors is of paramount importance for understanding tumor heterogeneity. Assignment of single cells to their tumor clones of origin can be approached by matching the genotypes of the clones to the mutations found in RNA sequencing of the cells.
16p
vibransone
28-03-2024
2
1
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The study was carried out with twenty-four genotypes of rice during the Spring season, 2020 in Hanoi, Vietnam in order to exploit the attributes and divergence of quality properties from existing rice cultivars in North Vietnam. The rice genotypes were characterized based on ten quality parameters of milling, physical appearance and physiochemical characters using Mahalanobis D2 statistic
10p
viengels
25-08-2023
2
2
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Accurate imputation plays a major role in genomic studies of livestock industries, where the number of genotyped or sequenced animals is limited by costs. This study explored methods to create an ideal reference population for imputation to Next Generation Sequencing data in cattle.
12p
vinarcissa
21-03-2023
4
1
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In this study, a total of 22 seed propagated EC genotypes that naturally grown in the Akkışla district of Kayseri province located in the middle part of Turkey were assessed in terms of their morphological (fruit dimensions, fruit weight, the number of fruit per cluster, and cluster weight) and biochemical (soluble solids content, pH, and organic acids), bioactive (total phenolic content, total flavonoid content, and antioxidant activity) content in order to determine the superior ones.
10p
lyhuyenthu
31-01-2023
6
2
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Proso millet (Panicum miliaceum L.) has many favored nutritional and agronomic traits, which makes it appropriate for cultivation and consumption all around the world. Genomic resources for proso millet are still very limited but the set of genomic data is improving. In this study, we genotyped six Slovenian landraces of proso millet (P. miliaceum L.) along with one Slovene autochthonous cultivar, Sonček. The chosen set of 11 SSR markers showed that there is low overall heterozygosity (0.561) among Slovenian landraces of proso millet.
11p
tudichquannguyet
29-11-2021
23
1
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Tuberculosis remains a serious public health concern globally. The enormous social, economic, and health impacts of the diseases are attributed to the lack of updated data on the prevalence, geospatial distribution, population structures, and genotypic variants of the circulating M. tuberculosis.
12p
vimackenziebezos
29-11-2021
8
2
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Amplicon deep sequencing permits sensitive detection of minority clones and improves discriminatory power for genotyping multi-clone Plasmodium falciparum infections. New amplicon sequencing and data analysis protocols are needed for genotyping in epidemiological studies and drug efficacy trials of P. falciparum.
13p
vilarryellison
29-10-2021
21
1
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Bacterial taxonomy aims to classify bacteria based on true evolutionary events and relies on a polyphasic approach that includes phenotypic, genotypic and chemotaxonomic analyses. Until now, complete genomes are largely ignored in taxonomy. The genus Lactobacillus consists of 173 species and many genomes are available to study taxonomy and evolutionary events.
15p
vibeauty
23-10-2021
6
1
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In recent years, epigenetics has gained a central role in the understanding of the process of natural selection. It is now clear how environmental impacts on the methylome could promote methylation variability with direct effects on disease etiology as well as phenotypic and genotypic variations in evolutionary processes. To identify possible factors influencing inter-individual methylation variability, we studied methylation values standard deviation of 166 healthy individuals searching for possible associations with genomic features and evolutionary signatures.
9p
vibeauty
23-10-2021
8
1
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The repetitive content of the genome, once considered to be “junk DNA”, is in fact an essential component of genomic architecture and evolution. In this study, we used the genomes of three varieties of Cannabis sativa, three varieties of Humulus lupulus and one genotype of Morus notabilis to explore their repetitive content using a graph-based clustering method, designed to explore and compare repeat content in genomes that have not been fully assembled.
9p
vibeauty
23-10-2021
10
0
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Ural genetic family is a part of the Euro-American lineage of Mycobacterium tuberculosis and is endemic in Northern Eurasia (former Soviet Union [FSU]). These strains were long described as drug susceptible and of low virulence, but recent studies reported an increasing circulation of the multidrug-resistant (MDR) and extensively drug-resistant (XDR) Ural strains.
9p
vitzuyu2711
29-09-2021
10
1
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Human perception of bitter substances is partially genetically determined. Previously we discovered a single nucleotide polymorphism (SNP) within the cluster of bitter taste receptor genes on chromosome 12 that accounts for 5.8% of the variance in the perceived intensity rating of quinine, and we strengthened the classic association between TAS2R38 genotype and the bitterness of propylthiouracil (PROP).
15p
vitzuyu2711
29-09-2021
17
1
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Anthrax is a zoonotic disease caused by the gram-positive bacterium Bacillus anthracis. The most anthrax-endemic regions of Russia are Siberia and North Caucasus. Previously, genotyping of Russian B.anthracis isolates was carried out using canSNP and MLVA data; these methods yield lower resolution results compared to whole genome SNP analysis (wgSNP).
8p
visilicon2711
20-08-2021
11
1
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The sample ascertainment bias due to complex population structures remains a major challenge in genome-wide investigations of complex traits. In this study we derived the high-resolution population structure and levels of autozygosity of 377 Lipizzan horses originating from five different European stud farms utilizing the SNP genotype information of the high density 700 k Affymetrix Axiom™ Equine genotyping array.
17p
visilicon2711
20-08-2021
6
1
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Host genetic backgrounds affect gene functions. The genetic backgrounds of genetically engineered organisms must be identified to confirm their genetic backgrounds identity with those of recipients. Marker-assisted backcrossing (MAB), transgenesis and clustered regularly interspaced short palindromic repeats (CRISPR)/ CRISPR-associated protein 9 (CRISPR/Cas9) editing are three commonly used genetic engineering techniques.
12p
visilicon2711
20-08-2021
6
1
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Quantum of genetic variability and the extent to which heritable and nonheritable variations are related to the characters, determines the extent of genetic amelioration. The present investigation was carried out in kharif, 2019 to understand the clustering pattern and correlation for yield attributing traits in aromatic landraces of rice. Here 90 aromatic rice landraces along with six check varieties were evaluated for 10 quantitative characters. Cluster analysis divided these 96 rice genotypes into 4 clusters.
8p
chauchaungayxua12
29-07-2021
22
1
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Hypothyroidism is a common complex endocrinopathy that typically has an autoimmune etiology, and it affects both humans and dogs. Genetic and environmental factors are both known to play important roles in the disease development. In this study, we sought to identify the genetic risk factors potentially involved in the susceptibility to the disease in the high-risk Giant Schnauzer dog breed.
16p
vijeeni2711
24-07-2021
12
0
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Tomato is one of the most important vegetables cultivated in Vietnam. Besides its regular consumption as a vegetable, a new demand for using tomato as a decorative plant on special occasions was identified in recent years. This study aimed to characterize new tomato accessions on their desirable morphological traits to select potential materials for further breeding programs of ornamental tomato varieties in Vietnam.
15p
chauchaungayxua12
09-07-2021
16
1
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The objectives of this study were to identify promising rice genotypes and evaluate the genetic variance and effectiveness of selection of the rice varieties for several yield attributing traits. A varietal trial of fifteen rice genotypes was laid out in a randomized complete block design (RCBD) with three replications in a farmer’s field in Sundarbazar, Lamjung, Nepal during the rainy season of 2018.
13p
chauchaungayxua12
09-07-2021
16
1
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In the present study, 22 tomato (Solanum lycopersicum L.) genotypes were evaluated to study the extent of genetic diversity through 20 quantitative traits. The genotypes were categorized into 5 distinct clusters using D2 statistics. Cluster I had the maximum number of genotypes (8), followed by clusters IV and V (4 genotypes each) and clusters II and III (3 genotypes each).
6p
chauchaungayxua10
19-03-2021
20
2
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