PubAg

Main content area

You searched for: Subject "genotyping" Remove constraint Subject: "genotyping"
Start Over

Search

8,233  Search Results

« Previous | 1 - 20 of 8,233 |
Number of results to display per page

Search Results

1. Mosaicism in CRISPR/Cas9-mediated genome editing

Author:
Mehravar, Maryam; Shirazi, Abolfazl; Nazari, Mahboobeh; Banan, Mehdi
Source:
Developmental biology 2019 v.445 no.2 pp. 156-162
ISSN:
0012-1606
Subject:
genotyping,   etc   ; animals; gene editing; germ cells; mutation;     Show all 5 Subjects
Abstract:
... The CRISPR/Cas9 system is a rapid, simple, and often extremely efficient gene editing method. This method has been used in a variety of organisms and cell types over the past several years. However, using this technology for generating gene-edited animals involves a number of obstacles. One such obstacle is mosaicism, which is common in founder animals. This is especially the case when the CRISPR/ ...
DOI:
10.1016/j.ydbio.2018.10.008

2. Improving genomic predictions by correction of genotypes from genotyping by sequencing in livestock populations

Author:
Wang, Xiao; Lund, Mogens Sandø; Ma, Peipei; Janss, Luc; Kadarmideen, Haja N.; Su, Guosheng
Source:
Journal of animal science and biotechnology 2019 v.10 no.1 pp. 8
ISSN:
2049-1891
Subject:
genotyping by sequencing; genotyping errors,   etc   ; genomics; homozygosity; livestock; loci; prediction; quality control; single nucleotide polymorphism;     Show all 9 Subjects
Abstract:
... BACKGROUND: Genotyping by sequencing (GBS) is a robust method to genotype markers. Many factors can influence the genotyping quality. One is that heterozygous genotypes could be wrongly genotyped as homozygotes, dependent on the genotyping depths. In this study, a method correcting this type of genotyping error was demonstrated. The efficiency of this correction method and its effect on genomic pr ...
DOI:
10.1186/s40104-019-0315-z

3. AncestryPainter: A Graphic Program for Displaying Ancestry Composition of Populations and Individuals

Author:
Feng, Qidi; Lu, Dongsheng; Xu, Shuhua
Source:
Genomics, proteomics & bioinformatics 2018 v.16 no.5 pp. 382-385
ISSN:
1672-0229
Subject:
genotyping,   etc   ; ancestry; color;     Show all 3 Subjects
Abstract:
... Ancestry composition of populations and individuals has been extensively investigated in recent years due to advances in the genotyping and sequencing technologies. As the number of populations and individuals used for ancestry inference increases remarkably, say more than 100 populations or 1000 individuals, it is usually challenging to present the ancestry composition in a traditional way using ...
DOI:
10.1016/j.gpb.2018.05.002

4. Characterizing the Major Structural Variant Alleles of the Human Genome

Author:
Audano, Peter A.; Sulovari, Arvis; Graves-Lindsay, Tina A.; Cantsilieris, Stuart; Sorensen, Melanie; Welch, AnneMarie E.; Dougherty, Max L.; Nelson, Bradley J.; Shah, Ankeeta; Dutcher, Susan K.; Warren, Wesley C.; Magrini, Vincent; McGrath, Sean D.; Li, Yang I.; Wilson, Richard K.; Eichler, Evan E.
Source:
Cell 2019 v.176 no.3 pp. 663-675.e19
ISSN:
0092-8674
Subject:
genotyping,   etc   ; alleles; allelic variation; humans; loci; minisatellite repeats;     Show all 6 Subjects
Abstract:
... In order to provide a comprehensive resource for human structural variants (SVs), we generated long-read sequence data and analyzed SVs for fifteen human genomes. We sequence resolved 99,604 insertions, deletions, and inversions including 2,238 (1.6 Mbp) that are shared among all discovery genomes with an additional 13,053 (6.9 Mbp) present in the majority, indicating minor alleles or errors in th ...
DOI:
10.1016/j.cell.2018.12.019

5. Consumer genomics will change your life, whether you get tested or not

Author:
Khan, Razib; Mittelman, David
Source:
Genome biology 2018 v.19 no.1 pp. 120
ISSN:
1474-760X
Subject:
genotyping,   etc   ; consumers (people); genomics; industry;     Show all 4 Subjects
Abstract:
... With more than 10 million genotyped customers, the consumer genomics industry is maturing and becoming a mainstream phenomenon. At last, innovations and applications, some unforeseen, are being brought to the masses. ...
DOI:
10.1186/s13059-018-1506-1

6. Performance of 6 HCV genotyping 9G test for HCV genotyping in clinical samples

Author:
Warkad, Shrikant Dasharath; Nimse, Satish Balasaheb; Song, Keum-Soo; Chantratita, Wasun; Pongthanapisith, Viroj; Nawale, Laxman Uddhav; Kim, Taisun
Source:
Virology journal 2018 v.15 no.1 pp. 107
ISSN:
1743-422X
Subject:
genotyping,   etc   ; drugs; hepatitis C; subgenotype;     Show all 4 Subjects
Abstract:
... BACKGROUND: A treatment of HCV infection depends on the genotype and sub-genotype. Therefore, accurate HCV genotyping is critical for selecting the appropriate treatment regimen. METHOD: This study included 280 plasma samples to evaluate the performance of 6 HCV Genotyping 9G test. The performance of 6 HCV Genotyping 9G test for accurate detection of HCV 1a, 1b, 2, 3, 4, and 6 genotypes was evalua ...
DOI:
10.1186/s12985-018-1017-4

7. Accuracy of imputation to whole-genome sequence in sheep

Author:
Bolormaa, Sunduimijid; Chamberlain, Amanda J.; Khansefid, Majid; Stothard, Paul; Swan, Andrew A.; Mason, Brett; Prowse-Wilkins, Claire P.; Duijvesteijn, Naomi; Moghaddar, Nasir; van der Werf, Julius H.; Daetwyler, Hans D.; MacLeod, Iona M.
Source:
Genetics, selection, evolution 2019 v.51 no.1 pp. 1
ISSN:
1297-9686
Subject:
genotyping,   etc   ; Border Leicester; Merino; alleles; chromosomes; computer software; genomics; genotype; heritability; prediction; sheep; single nucleotide polymorphism;     Show all 12 Subjects
Abstract:
... BACKGROUND: The use of whole-genome sequence (WGS) data for genomic prediction and association studies is highly desirable because the causal mutations should be present in the data. The sequencing of 935 sheep from a range of breeds provides the opportunity to impute sheep genotyped with single nucleotide polymorphism (SNP) arrays to WGS. This study evaluated the accuracy of imputation from SNP g ...
DOI:
10.1186/s12711-018-0443-5

8. A genome wide association study for the number of animals born dead in domestic pigs

Author:
Wu, Pingxian; Wang, Kai; Zhou, Jie; Yang, Qiang; Yang, Xidi; Jiang, Anan; Jiang, Yanzhi; Li, Mingzhou; Zhu, Li; Bai, Lin; Li, Xuewei; Tang, Guoqing
Source:
BMC genetics 2019 v.20 no.1 pp. 4
ISSN:
1471-2156
Subject:
genotyping,   etc   ; Large White; genes; genome-wide association study; landraces; loci; nucleoproteins; single nucleotide polymorphism; sows;     Show all 9 Subjects
Abstract:
... BACKGROUND: The number of animals born dead, which includes the number of mummified (NM) and stillborn (NS) animals, is the most important trait to directly quantify the reproductive loss in domestic pigs. In this study, 282 Landrace sows and 250 Large White sows were genotyped by sequencing (GBS). A total of 816 and 1068 litter records for NM and NS were collected from them. A genome-wide associa ...
DOI:
10.1186/s12863-018-0692-x

9. Phenotypic and genomic analysis of Zymomonas mobilis ZM4 mutants with enhanced ethanol tolerance

Author:
Carreón-Rodríguez, Ofelia E.; Gutiérrez-Ríos, Rosa María; Acosta, José L.; Martinez, Alfredo; Cevallos, Miguel A.
Source:
Biotechnology reports 2019 v.23 pp. e00328
ISSN:
2215-017X
Subject:
genotyping,   etc   ; Zymomonas mobilis; alleles; biotechnology; cell viability; ethanol; genomics; mutants; mutation; phenotype; solvents;     Show all 11 Subjects
Abstract:
... Zymomonas mobilis ZM4 is an ethanol-producing microbe that is constitutively tolerant to this solvent. For a better understanding of the ethanol tolerance phenomenon we obtained and characterized two ZM4 mutants (ER79ap and ER79ag) with higher ethanol tolerance than the wild-type. Mutants were evaluated in different ethanol concentrations and this analysis showed that mutant ER79ap was more tolera ...
DOI:
10.1016/j.btre.2019.e00328

10. Importance of the 3′-Terminal Nucleotide of the Forward Primer for Nucleoprotein Gene Detection of Viral Hemorrhagic Septicemia Virus by Conventional Reverse-Transcription PCR

Author:
Kim, Hyoung Jun
Source:
Indian journal of microbiology 2019 v.59 no.2 pp. 234-236
ISSN:
0046-8991
Subject:
genotyping,   etc   ; Viral hemorrhagic septicemia virus; disease severity; farmed fish; genes; nucleoproteins; reverse transcriptase polymerase chain reaction;     Show all 7 Subjects
Abstract:
... Viral hemorrhagic septicemia virus (VHSV), causing severe diseases in farmed fish, is detected and genotyped using conventional reverse-transcription PCR (cRT-PCR) targeting the nucleoprotein gene with corresponding VN F (forward) and VN R (reverse) primers. However, these primers have low sensitivity to VHSV subtype IVa; I investigated the cause for the poor cRT-PCR performance using various prim ...
DOI:
10.1007/s12088-019-00791-4

11. Genotyping and study of adherence-related genes of Streptococcus uberis isolates from bovine mastitis

Author:
Fessia, Aluminé S.; Dieser, Silvana A.; Raspanti, Claudia G.; Odierno, Liliana M.
Source:
Microbial pathogenesis 2019 v.130 pp. 295-301
ISSN:
0882-4010
Subject:
genotyping,   etc   ; Streptococcus uberis; bovine mastitis; genes; nucleotides; polymerase chain reaction; pulsed-field gel electrophoresis; Argentina;     Show all 8 Subjects
Abstract:
... The aim of this study was to determine the presence, conservation, and distribution of 6 potential adherence genes and their relationship with diverse molecular types in 34 S. uberis isolated from bovine mastitis in Argentina. Pulsed-field gel electrophoresis (PFGE) typing with SmaI was performed. The PCR for the detection of each gene, scpA, acdA, fbp, lbp, lmb, and sua was standardized. Samples ...
DOI:
10.1016/j.micpath.2019.03.027

12. Impact of different panels of microsatellite loci, different numbers of loci, sample sizes, and gender ratios on population genetic results in red deer

Author:
Reiner, Gerald; Lang, M.; Willems, H.
Source:
European journal of wildlife research 2019 v.65 no.2 pp. 25
ISSN:
1612-4642
Subject:
genotyping,   etc   ; Cervus elaphus; animals; females; genetic markers; genotype; loci; males; microsatellite repeats; population genetics; population structure;     Show all 11 Subjects
Abstract:
... Population genetic parameters from different studies might be significantly influenced by differences in sample size, fraction of males and females, marker number, and sets of markers used, reducing the comparability between studies. This hypothesis was tested on a red deer population of 205 individuals with an estimated size of 1000 animals. Four tests were performed: (1) the population was subdi ...
DOI:
10.1007/s10344-019-1262-x

13. Short communication: Calculating analytical reliabilities for single-step predictions

Author:
Edel, C.; Pimentel, E.C.G.; Erbe, M.; Emmerling, R.; Götz, K.-U.
Source:
Journal of dairy science 2019 v.102 no.4 pp. 3259-3265
ISSN:
0022-0302
Subject:
genotyping,   etc   ; Simmental; animal models; cattle; genes; genomics; genotype; pedigree; prediction; single nucleotide polymorphism;     Show all 10 Subjects
Abstract:
... It has been shown that single-step genomic BLUP (ssGBLUP) can be reformulated, resulting in an equivalent SNP model that includes the explicit imputation of gene contents of all ungenotyped animals in the pedigree. This reformulation reveals the underlying mechanism enabling ungenotyped animals to contribute information to genotyped animals via estimates of marker effects and consequently to the r ...
DOI:
10.3168/jds.2018-15707

14. TARGET-seq Takes Aim at Cancer Evolution through Multi-omics Single-Cell Genotyping and Transcriptomics

Author:
Chaligne, Ronan; Nam, Anna S.; Landau, Dan A.
Source:
Molecular cell 2019 v.73 no.6 pp. 1092-1094
ISSN:
1097-2765
Subject:
genotyping,   etc   ; genotype; neoplasm cells; neoplasms; phenotype; somatic mutation; transcription (genetics); transcriptome; transcriptomics;     Show all 9 Subjects
Abstract:
... In this issue of Molecular Cell, Rodriguez-Meira et al. (2019) present TARGET-seq, an elegant single-cell method that genotypes somatic mutations and captures whole transcriptomes in the same tumor cells, thus paving the way to directly link somatic mutations with resulting transcriptional phenotypes in clonally diverse cancer populations. ...
DOI:
10.1016/j.molcel.2019.03.009

15. Low-density genotype panel for both parentage verification and discovery in a multi-breed sheep population

Author:
Berry, D.P.; McHugh, N.; Wall, E.; McDermott, K.; O’Brien, A.C.
Source:
Irish journal of agricultural and food research 2019 v.58 no.1 pp. 1-12
ISSN:
2009-9029
Subject:
genotyping,   etc   ; alleles; artificial insemination; chromosomes; dams (mothers); genotype; lambing; parentage; purebreds; sheep; single nucleotide polymorphism; sires;     Show all 12 Subjects
Abstract:
... The generally low usage of artificial insemination and single-sire mating in sheep, compounded by mob lambing (and lambing outdoors), implies that parentage assignment in sheep is challenging. The objective here was to develop a low-density panel of single nucleotide polymorphisms (SNPs) for accurate parentage verification and discovery in sheep. Of particular interest was where SNP selection was ...
DOI:
10.2478/ijafr-2019-0001

16. Genetic diversity of Mycobacterium tuberculosis isolates causing pulmonary and extrapulmonary tuberculosis in the capital of Iran

Author:
Hadifar, Shima; Shamkhali, Leila; Kargarpour Kamakoli, Mansour; Mostafaei, Shayan; Khanipour, Sharareh; Mansoori, Noormohamad; Fateh, Abolfazl; Siadat, Seyed Davar; Vaziri, Farzam
Source:
Molecular phylogenetics and evolution 2019 v.132 pp. 46-52
ISSN:
1055-7903
Subject:
genotyping,   etc   ; Mycobacterium tuberculosis; data analysis; databases; genetic variation; genotype; patients; regression analysis; tuberculosis; Iran;     Show all 10 Subjects
Abstract:
... Evaluation of the genetic diversity of Mycobacterium tuberculosis (M.tb) and determining if the association between a specific genotype and the site of infection is crucial. Accordingly, the current study aimed at comparing predominant M.tb genotypes in pulmonary (PTB) and extrapulmonary tuberculosis (EPTB) isolates circulating in the capital of Iran.The genetic diversity of culture-confirmed PTB ...
DOI:
10.1016/j.ympev.2018.11.019

17. International bull evaluations by genomic BLUP with a prediction population

Author:
Fragomeni, B.; Masuda, Y.; Bradford, H.L.; Lourenco, D.A.L.; Misztal, I.
Source:
Journal of dairy science 2019 v.102 no.3 pp. 2330-2335
ISSN:
0022-0302
Subject:
genotyping,   etc   ; bulls; genetic correlation; genetic variance; genomics; genotype; phenotype; prediction; single nucleotide polymorphism;     Show all 9 Subjects
Abstract:
... The purpose of this study was to determine whether multi-country genomic evaluation can be accomplished by multiple-trait genomic best linear unbiased predictor (GBLUP) without sharing genotypes of important animals. Phenotypes and genotypes with 40k SNP were simulated for 25,000 animals, each with 4 traits assuming the same genetic variance and 0.8 genetic correlations. The population was split i ...
DOI:
10.3168/jds.2018-15554

18. Modeling missing pedigree in single-step genomic BLUP

Author:
Bradford, H.L.; Masuda, Y.; VanRaden, P.M.; Legarra, A.; Misztal, I.
Source:
Journal of dairy science 2019 v.102 no.3 pp. 2336-2346
ISSN:
0022-0302
Subject:
genotyping,   etc   ; dairy cattle; genetic merit; genetic trend; genomics; heritability; models; pedigree; prediction; young animals;     Show all 10 Subjects
Abstract:
... The objective was to compare methods of modeling missing pedigree in single-step genomic BLUP (ssGBLUP). Options for modeling missing pedigree included ignoring the missing pedigree, unknown parent groups (UPG) based on A (the numerator relationship matrix) or H (the unified pedigree and genomic relationship matrix), and metafounders. The assumptions for the distribution of estimated breeding valu ...
DOI:
10.3168/jds.2018-15434

19. The high prolificacy of D’man sheep is associated with the segregation of the FecLL mutation in the B4GALNT2 gene

Author:
Ben Jemaa, Slim; Ruesche, Julien; Sarry, Julien; Woloszyn, Florent; Lassoued, Narjess; Fabre, Stéphane
Source:
Reproduction in domestic animals 2019 v.54 no.3 pp. 531-537
ISSN:
0936-6768
Subject:
genotyping,   etc   ; alleles; breeding; ewes; fecundity; heterozygosity; homozygosity; lambs; litter size; loci; mutation; ovulation; sheep breeds;     Show all 13 Subjects
Abstract:
... Mutations in the FecL locus are associated with large variation in ovulation rate and litter size in the French Lacaune sheep breed. It has been shown that the B4GALNT2 gene within the FecL locus is most likely responsible for the high fecundity in the French breed. In this study, we have highlighted the segregation of the FecLᴸ mutation within the B4GALNT2 gene in North African sheep breeds and n ...
DOI:
10.1111/rda.13391

20. Genetic Meningococcal Antigen Typing System (gMATS): A genotyping tool that predicts 4CMenB strain coverage worldwide

Author:
Muzzi, Alessandro; Brozzi, Alessandro; Serino, Laura; Bodini, Margherita; Abad, Raquel; Caugant, Dominique; Comanducci, Maurizio; Lemos, Ana Paula; Gorla, Maria Cecilia; Křížová, Pavla; Mikula, Claudia; Mulhall, Robert; Nissen, Michael; Nohynek, Hanna; Simões, Maria João; Skoczyńska, Anna; Stefanelli, Paola; Taha, Muhamed-Kheir; Toropainen, Maija; Tzanakaki, Georgina; Vadivelu-Pechai, Kumaran; Watson, Philip; Vazquez, Julio A.; Rajam, Gowrisankar; Rappuoli, Rino; Borrow, Ray; Medini, Duccio
Source:
Vaccine 2019 v.37 no.7 pp. 991-1000
ISSN:
0264-410X
Subject:
genotyping,   etc   ; antigens; blood serum; complement; genotype; humans; prediction; vaccines; England; Wales;     Show all 10 Subjects
Abstract:
... The Meningococcal Antigen Typing System (MATS) was developed to identify meningococcus group B strains with a high likelihood of being covered by the 4CMenB vaccine, but is limited by the requirement for viable isolates from culture-confirmed cases. We examined if antigen genotyping could complement MATS in predicting strain coverage by the 4CMenB vaccine.From a panel of 3912 MATS-typed invasive m ...
DOI:
10.1016/j.vaccine.2018.12.061