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521
Mapping rheumatoid arthritis susceptibility through integrative bioinformatics and genomics
Published 2023“…These functional annotations include missense/nonsense mutations, cis-expression quantitative trait locus (cis-eQTL), overlap knockout mouse phenotype (KMP), protein-protein interaction (PPI), molecular pathway analysis (MPA), and primary immunodeficiency (PID). 119 genetic variants mapped had a potential high risk for RA based on functional scoring. …”
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522
Genetically Modified Rice Is Associated with Hunger, Health, and Climate Resilience
Published 2023-07-01“…Specifically, a quantitative trait locus called grain weight on chromosome 6 has been identified, which was amplified by the Kasa allele, resulting in a substantial increase in grain weight and brown grain. …”
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523
Using social interaction models for genetic analysis of skin damage in gilts
Published 2023-07-01“…The results of the genome-wide association study indicate that CSD has a polygenic architecture and no major quantitative trait locus was detected.…”
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524
Transcriptome profiling reveals the expression and regulation of genes associated with Fusarium wilt resistance in chickpea (Cicer arietinum L.)
Published 2023-09-01“…Further, a considerable number of the identified DEGs (287) co‐localized with previously reported quantitative trait locus for FW resistance. Several resistance/susceptibility‐related genes, such as SERINE/THREONINE PROTEIN KINASE, DIRIGENT, and MLO exhibiting contrasting expression patterns in resistant and susceptible genotypes upon Foc inoculation, were identified. …”
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525
QTL mapping for seed density per silique in Brassica napus
Published 2023-01-01“…In this study, a quantitative trait locus (QTL) for SDPS was detected on chromosome A09 using the QTL-seq approach and confirmed via linkage analysis in the mapping population obtained from 4263 × 3001 cross. …”
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526
Integration of genomic variants and bioinformatic-based approach to drive drug repurposing for multiple sclerosis
Published 2022-12-01“…The prioritization was performed based on six defined categories of functional annotations, namely missense mutation, cis-expression quantitative trait locus (cis-eQTL), molecular pathway analysis, protein-protein interaction (PPI), genes overlap with knockout mouse phenotype, and primary immunodeficiency (PID). …”
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527
Natural sequence variants of yeast environmental sensors confer cell‐to‐cell expression variability
Published 2013-01-01“…These results demonstrate that an expression quantitative trait locus (eQTL) can simultaneously have a deterministic effect in cis and a probabilistic effect in trans. …”
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528
A Quantitative Proteomics View on the Function of Qfhb1, a Major QTL for Fusarium Head Blight Resistance in Wheat
Published 2018-06-01“…Fusarium head blight (FHB) is a highly detrimental disease of wheat. A quantitative trait locus for FHB resistance, Qfhb1, is the most utilized source of resistance in wheat-breeding programs, but very little is known about its resistance mechanism. …”
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529
A major QTL identification and candidate gene analysis of watermelon fruit cracking using QTL-seq and RNA-seq
Published 2023-05-01“…The cracking tolerance capacity (CTC), depth of fruit cracking (DFC), rind thickness (RT), and rind hardness (RH) were measured for quantitative trait locus (QTL) analysis. Of the four traits analyzed, one major QTL with high phenotypic variation (41.04%–61.37%) was detected at 76.613–76.919 cM on chromosome 2, which contained 104 annotated genes. …”
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530
Development of a SNP resource and a genetic linkage map for Atlantic cod (<it>Gadus morhua</it>)
Published 2010-03-01“…They have been used to build a genetic linkage map that can be applied to quantitative trait locus (QTL) discovery. Since these SNPs were generated from ESTs, they are linked to specific genes. …”
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531
meQTL mapping in the GENOA study reveals genetic determinants of DNA methylation in African Americans
Published 2023-05-01“…Abstract Identifying genetic variants that are associated with variation in DNA methylation, an analysis commonly referred to as methylation quantitative trait locus (meQTL) mapping, is an important first step towards understanding the genetic architecture underlying epigenetic variation. …”
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532
Applications and methods utilizing the Simple Semantic Web Architecture and Protocol (SSWAP) for bioinformatics resource discovery and disparate data and service integration
Published 2010-06-01“…</p> <p>Methods</p> <p>We selected high-priority Quantitative Trait Locus (QTL), genomic mapping, trait, phenotypic, and sequence data and associated services such as BLAST for publication, data retrieval, and service invocation via semantic web services. …”
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533
Gene expression changes in sickle cell reticulocytes and their clinical associations
Published 2023-08-01“…An erythroid expression quantitative trait locus of one of these genes, LNX2 encoding an E3 ubiquitin ligase, associated with severe pain episodes in 774 SCA patients (OR = 1.7, P = 3.9 × 10–5). …”
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534
Domestication and improvement genes reveal the differences of seed size- and oil-related traits in soybean domestication and improvement
Published 2022-01-01“…To address domestication and improvement studies of soybean seed size- and oil-related traits, a series of domesticated and improved regions, loci, and candidate genes were identified in 286 soybean accessions using domestication and improvement analyses, genome-wide association studies, quantitative trait locus (QTL) mapping and bulked segregant analyses in this study. …”
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535
A systems genetics approach identifies CXCL14, ITGAX, and LPCAT2 as novel aggressive prostate cancer susceptibility genes.
Published 2014-11-01“…The goal of this work is to identify susceptibility genes using the C57BL/6-Tg(TRAMP)8247Ng/J (TRAMP) mouse model of neuroendocrine prostate cancer. Quantitative trait locus (QTL) mapping was performed in transgene-positive (TRAMPxNOD/ShiLtJ) F2 intercross males (n = 228), which facilitated identification of 11 loci associated with aggressive disease development. …”
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536
An animal model of differential genetic risk for methamphetamine intake
Published 2015-09-01“…Using selective breeding, we created lines of mice that differ in genetic risk for voluntary MA intake and identified the chromosomal addresses of contributory genes. A quantitative trait locus was identified on chromosome 10 that accounts for more than 50% of the genetic variance in MA intake in the selected mouse lines. …”
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537
GAHP: An integrated software package on genetic analysis with bi-parental immortalized heterozygous populations
Published 2022-10-01“…Four functionalities have been implemented in the current version of GAHP, i.e., 1) MHP: visualization of genetic linkage maps; 2) VHP: analysis of variance (ANOVA) and estimation of heritability on phenotypic data; 3) QHP: quantitative trait locus (QTL) mapping on both genotypic and phenotypic data; 4) SHP: simulation of bi-parental immortalized heterozygous and pure-line populations, and power analysis of QTL mapping. …”
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538
Fine mapping of a QTL for ear size on porcine chromosome 5 and identification of high mobility group AT-hook 2 (<it>HMGA2</it>) as a positional candidate gene
Published 2012-03-01“…Previously, we identified a significant quantitative trait locus (QTL) influencing ear surface on pig chromosome 5 in a White Duroc × Erhualian F<sub>2 </sub>resource population. …”
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539
Genetic analysis of a phenotypic loss in the mechanosensory entrainment of a circalunar clock
Published 2023-06-01“…By combining quantitative trait locus mapping and genome-wide screens, we explored the genetics of this phenotypic loss. …”
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540
Integrated analysis of genome-wide association studies and 3D epigenomic characteristics reveal the BMP2 gene regulating loin muscle depth in Yorkshire pigs.
Published 2023-06-01“…<h4>Results</h4>Five single nucleotide polymorphisms (SNPs) located on porcine chromosome 17 were significantly associated with LMD in Yorkshire pigs. A 10 kb quantitative trait locus (QTL) was identified as a candidate functional genomic region through the integration of linkage disequilibrium and linkage analysis (LDLA) and high-throughput chromosome conformation capture (Hi-C) analysis. …”
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