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1.
Hum Genet ; 141(1): 127-146, 2022 Jan.
Article in English | MEDLINE | ID: mdl-34859289

ABSTRACT

Mitochondrial DNA copy number (mtDNA-CN) measured from blood specimens is a minimally invasive marker of mitochondrial function that exhibits both inter-individual and intercellular variation. To identify genes involved in regulating mitochondrial function, we performed a genome-wide association study (GWAS) in 465,809 White individuals from the Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) consortium and the UK Biobank (UKB). We identified 133 SNPs with statistically significant, independent effects associated with mtDNA-CN across 100 loci. A combination of fine-mapping, variant annotation, and co-localization analyses was used to prioritize genes within each of the 133 independent sites. Putative causal genes were enriched for known mitochondrial DNA depletion syndromes (p = 3.09 × 10-15) and the gene ontology (GO) terms for mtDNA metabolism (p = 1.43 × 10-8) and mtDNA replication (p = 1.2 × 10-7). A clustering approach leveraged pleiotropy between mtDNA-CN associated SNPs and 41 mtDNA-CN associated phenotypes to identify functional domains, revealing three distinct groups, including platelet activation, megakaryocyte proliferation, and mtDNA metabolism. Finally, using mitochondrial SNPs, we establish causal relationships between mitochondrial function and a variety of blood cell-related traits, kidney function, liver function and overall (p = 0.044) and non-cancer mortality (p = 6.56 × 10-4).


Subject(s)
DNA Copy Number Variations , DNA, Mitochondrial , Megakaryocytes/physiology , Mitochondria/genetics , Platelet Activation , Polymorphism, Single Nucleotide , Aged , Cell Proliferation , Female , Genetic Predisposition to Disease , Genome-Wide Association Study , Humans , Male , Middle Aged , Nucleotides/metabolism , Phenotype
2.
Bioinformatics ; 37(1): 1-8, 2021 04 09.
Article in English | MEDLINE | ID: mdl-33836063

ABSTRACT

MOTIVATION: Gene prioritization at human GWAS loci is challenging due to linkage-disequilibrium and long-range gene regulatory mechanisms. However, identifying the causal gene is crucial to enable identification of potential drug targets and better understanding of molecular mechanisms. Mapping GWAS traits to known phenotypically relevant Mendelian disease genes near a locus is a promising approach to gene prioritization. RESULTS: We present MendelVar, a comprehensive tool that integrates knowledge from four databases on Mendelian disease genes with enrichment testing for a range of associated functional annotations such as Human Phenotype Ontology, Disease Ontology and variants from ClinVar. This open web-based platform enables users to strengthen the case for causal importance of phenotypically matched candidate genes at GWAS loci. We demonstrate the use of MendelVar in post-GWAS gene annotation for type 1 diabetes, type 2 diabetes, blood lipids and atopic dermatitis. AVAILABILITY AND IMPLEMENTATION: MendelVar is freely available at https://mendelvar.mrcieu.ac.uk. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.


Subject(s)
Diabetes Mellitus, Type 2 , Genome-Wide Association Study , Humans , Linkage Disequilibrium , Molecular Sequence Annotation , Phenotype , Polymorphism, Single Nucleotide
3.
Clin Radiol ; 73(10): 839-854, 2018 10.
Article in English | MEDLINE | ID: mdl-29914689

ABSTRACT

The craniovertebral junction (CVJ) is the bony transition between the cranium and cervical spine. It is a biomechanically complex articulation comprising the occipital condyles (Oc) the atlas (C1) and axis (C2). Pathologies affecting the CVJ in children are myriad with clinical features resulting from biomechanical instability, deformity, or neuraxial compression. Establishing the natural history and clinical burden of a condition is challenging in infants and young children, often complicated by co-existing neuromuscular and cognitive impairment. This makes investigation and treatment planning difficult. Each disease entity has a predilection for a particular biomechanical abnormality. Investigation using dynamic imaging is most appropriate in instability, computed tomography examination in abnormalities of deformity and magnetic resonance imaging examination in neuraxial compression. Treatment comprises reduction and immobilisation of instability, re-alignment of deformity, or decompression of the neuraxis. We present a review of disease entities affecting the CVJ in children categorised according to a simple mechanistic approach to aid investigation and treatment planning.


Subject(s)
Axis, Cervical Vertebra/physiology , Cervical Atlas/physiology , Occipital Bone/physiology , Spinal Diseases/physiopathology , Axis, Cervical Vertebra/abnormalities , Biomechanical Phenomena/physiology , Cervical Atlas/abnormalities , Child , Down Syndrome/complications , Down Syndrome/physiopathology , Humans , Incidental Findings , Joint Instability/diagnosis , Joint Instability/etiology , Joint Instability/physiopathology , Magnetic Resonance Imaging , Occipital Bone/abnormalities , Range of Motion, Articular/physiology , Spinal Diseases/diagnosis , Spinal Diseases/etiology , Tomography, X-Ray Computed , Torsion Abnormality/diagnosis , Torsion Abnormality/physiopathology
4.
Mol Psychiatry ; 22(2): 250-256, 2017 02.
Article in English | MEDLINE | ID: mdl-27217153

ABSTRACT

Attention-deficit/hyperactivity disorder (ADHD) is a prevalent developmental disorder, associated with a range of long-term impairments. Variation in DNA methylation, an epigenetic mechanism, is implicated in both neurobiological functioning and psychiatric health. However, the potential role of DNA methylation in ADHD symptoms is currently unclear. In this study, we examined data from the Avon Longitudinal Study of Parents and Children (ALSPAC)-specifically the subsample forming the Accessible Resource for Integrated Epigenomics Studies (ARIES)-that includes (1) peripheral measures of DNA methylation (Illumina 450k) at birth (n=817, 49% male) and age 7 (n=892, 50% male) and (2) trajectories of ADHD symptoms (7-15 years). We first employed a genome-wide analysis to test whether DNA methylation at birth associates with later ADHD trajectories; and then followed up at age 7 to investigate the stability of associations across early childhood. We found that DNA methylation at birth differentiated ADHD trajectories across multiple genomic locations, including probes annotated to SKI (involved in neural tube development), ZNF544 (previously implicated in ADHD), ST3GAL3 (linked to intellectual disability) and PEX2 (related to perixosomal processes). None of these probes maintained an association with ADHD trajectories at age 7. Findings lend novel insights into the epigenetic landscape of ADHD symptoms, highlighting the potential importance of DNA methylation variation in genes related to neurodevelopmental and peroxisomal processes that play a key role in the maturation and stability of cortical circuits.


Subject(s)
Attention Deficit Disorder with Hyperactivity/genetics , DNA Methylation/genetics , Adolescent , Child , DNA Fingerprinting/methods , Epigenesis, Genetic/genetics , Epigenomics/methods , Female , Humans , Infant, Newborn , Longitudinal Studies , Male , Prospective Studies
5.
Transl Psychiatry ; 6(12): e976, 2016 12 06.
Article in English | MEDLINE | ID: mdl-27922636

ABSTRACT

Epigenetic processes have been implicated in addiction; yet, it remains unclear whether these represent a risk factor and/or a consequence of substance use. Here, we believe we conducted the first genome-wide, longitudinal study to investigate whether DNA methylation patterns in early life prospectively associate with substance use in adolescence. The sample comprised of 244 youth (51% female) from the Avon Longitudinal Study of Parents and Children (ALSPAC), with repeated assessments of DNA methylation (Illumina 450k array; cord blood at birth, whole blood at age 7) and substance use (tobacco, alcohol and cannabis use; age 14-18). We found that, at birth, epigenetic variation across a tightly interconnected genetic network (n=65 loci; q<0.05) associated with greater levels of substance use during adolescence, as well as an earlier age of onset amongst users. Associations were specific to the neonatal period and not observed at age 7. Key annotated genes included PACSIN1, NEUROD4 and NTRK2, implicated in neurodevelopmental processes. Several of the identified loci were associated with known methylation quantitative trait loci, and consequently likely to be under significant genetic control. Collectively, these 65 loci were also found to partially mediate the effect of prenatal maternal tobacco smoking on adolescent substance use. Together, findings lend novel insights into epigenetic correlates of substance use, highlight birth as a potentially sensitive window of biological vulnerability and provide preliminary evidence of an indirect epigenetic pathway linking prenatal tobacco exposure and adolescent substance use.


Subject(s)
Alcohol Drinking/genetics , DNA Methylation , Epigenesis, Genetic/genetics , Genome, Human/genetics , Marijuana Abuse/genetics , Smoking/genetics , Adolescent , Child , Child, Preschool , Female , Genome-Wide Association Study , Humans , Infant , Infant, Newborn , Longitudinal Studies , Male , Nerve Tissue Proteins/genetics , Pregnancy , Prospective Studies , Risk
6.
Diabetologia ; 54(7): 1710-9, 2011 Jul.
Article in English | MEDLINE | ID: mdl-21455730

ABSTRACT

AIMS/HYPOTHESIS: We quantified the effect of ADRA2A (encoding α-2 adrenergic receptor) variants on metabolic traits and type 2 diabetes risk, as reported in four studies. METHODS: Genotype data for ADRA2A single nucleotide polymorphisms (SNPs) rs553668 and rs10885122 were analysed in >17,000 individuals (1,307 type 2 diabetes cases) with regard to metabolic traits and type 2 diabetes risk. Two studies (n = 9,437), genotyped using the Human Cardiovascular Disease BeadChip, provided 12 additional ADRA2A SNPs. RESULTS: Rs553668 was associated with per allele effects on fasting glucose (0.03 mmol/l, p = 0.016) and type 2 diabetes risk (OR 1.17, 95% CI 1.04-1.31; p = 0.01). No significant association was observed with rs10885122. Of the 12 SNPs, several showed associations with metabolic traits. Overall, after variable selection, rs553668 was associated with type 2 diabetes risk (OR 1.38, 95% CI 1.09-1.73; p = 0.007). rs553668 (per allele difference 0.036 mmol/l, 95% CI 0.008-0.065) and rs17186196 (per allele difference 0.066 mmol/l, 95% CI 0.017-0.115) were independently associated with fasting glucose, and rs17186196 with fasting insulin and HOMA of insulin resistance (4.3%, 95% CI 0.6-8.1 and 4.9%, 95% CI 1.0-9.0, respectively, per allele). Per-allele effects of rs491589 on systolic and diastolic blood pressure were 1.19 mmHg (95% CI 0.43-1.95) and 0.61 mmHg (95% CI 0.11-1.10), respectively, and those of rs36022820 on BMI 0.58 kg/m(2) (95% CI 0.15-1.02). CONCLUSIONS/INTERPRETATION: Multiple ADRA2A SNPs are associated with metabolic traits, blood pressure and type 2 diabetes risk. The α-2 adrenergic receptor should be revisited as a therapeutic target for reduction of the adverse consequences of metabolic trait disorders and type 2 diabetes.


Subject(s)
Blood Glucose/metabolism , Blood Pressure/physiology , Body Mass Index , Diabetes Mellitus, Type 2/blood , Diabetes Mellitus, Type 2/genetics , Fasting/blood , Receptors, Adrenergic, alpha-2/genetics , Aged , Female , Genetic Predisposition to Disease/genetics , Genotype , Humans , Male , Middle Aged , Polymorphism, Single Nucleotide/genetics , Prospective Studies
7.
Growth Horm IGF Res ; 20(4): 310-8, 2010 Aug.
Article in English | MEDLINE | ID: mdl-20627640

ABSTRACT

OBJECTIVE: Genetic variation at the insulin-like binding protein 2 (IGF2BP2) gene has been associated with type 2 diabetes (T2D) by genome-wide association studies and by replication analyses. Our aim was to explore the underlying genetic model and mechanism of action, factors accounting for non-replications of the associations, and the effect of variation from pathway-related genes IGF2BP1 and IGF2BP3. METHOD: We analysed here the association between T2D (and related traits) and rs4402960 and rs1470579 in IGF2BP2, and rs46522 and rs6949019 (marking IGF2BP1 and IGF2BP3 respectively) from the Age, Gene/Environment Susceptibility (AGES)-Reykjavik Study (N approximately 2500 aged 65-96 years). We undertook a retrospective analysis of the deviations from the multiplicative model in previous studies and the present study. RESULTS: We replicated an association between rs4402960 and T2D status, and reported significant associations with anthropometric traits, fasting insulin, HOMA-IR and HOMA-%B. These associations were also observed for rs1470579, but not for the SNPs marking IGF2BP1 and IGF2BP3. CONCLUSIONS: The lower fasting insulin levels and the impaired beta-cell function associated with IGF2BP2 SNPs are independent of obesity phenotypes. The action of these SNPs on T2D may result from an effect on beta-cell function. This could lead to lower insulin levels, the association with anthropometric traits being secondary. We discuss possible mechanisms of action relating IGF2BP2 with T2D traits. The occurrence of null alleles, the inclusion of T2D patients in analyses of metabolic syndrome risk traits and the genetic model, are possible factors accounting for non-replications of IGF2BP2 associations with T2D.


Subject(s)
Diabetes Mellitus, Type 2/genetics , Insulin-Like Growth Factor Binding Protein 1/genetics , Insulin-Like Growth Factor Binding Protein 2/genetics , Insulin-Like Growth Factor Binding Protein 3/genetics , Metabolic Syndrome/genetics , Aged , Aged, 80 and over , Cohort Studies , Female , Genetic Predisposition to Disease , Genetic Variation , Genotype , Haplotypes , Humans , Male , Models, Genetic , Obesity/genetics , Phenotype
8.
Ann Hum Genet ; 70(Pt 6): 848-56, 2006 Nov.
Article in English | MEDLINE | ID: mdl-17044860

ABSTRACT

Previous analyses have provided evidence for one or more loci affecting body weight in the H19-IGF2-INS-TH region on chromosome 11p15. To identify the location of a possible causal locus or loci we applied association analysis by composite likelihood to a large cohort under the Malecot model for body weight. A random sample of 2731 men in the UK were typed for eleven single nucleotide polymorphisms (SNPs) in IGF2, two SNPs in H19, one SNP in INS and one microsatellite marker in the TH genes. Using F tests appropriate to small marker sets, the superiority of regression over correlation was confirmed. All the evidence for association came from IGF2, with P= 0.007 for height-adjusted weight and P= 0.019 for weight additionally adjusted for smoking and alcohol drinking. Although the estimated point location for the suspected causal variant was close to IGF2 ApaI, the 95% confidence and support intervals covered most of IGF2 but none of the other loci. Identification of the causal SNP or SNPs within IGF2 will require typing of more variants in this region.


Subject(s)
Body Weight/genetics , Chromosome Mapping , Chromosomes, Human, Pair 11 , Microsatellite Repeats/genetics , Quantitative Trait Loci , Body Mass Index , Cohort Studies , Humans , Insulin-Like Growth Factor II , Linkage Disequilibrium , Male , Middle Aged , Polymorphism, Single Nucleotide , Proinsulin/genetics , Proteins/genetics , RNA, Long Noncoding , RNA, Untranslated/genetics , Tyrosine 3-Monooxygenase/genetics
9.
Diabetologia ; 49(4): 673-7, 2006 Apr.
Article in English | MEDLINE | ID: mdl-16468038

ABSTRACT

AIMS/HYPOTHESIS: It has been suggested that the gene encoding lymphotoxin-alpha (LTA) is associated with insulin resistance, and genetic association studies in the LTA region offer some support for this. However, LTA is in linkage disequilibrium with both the HLA gene cluster and the gene encoding TNF-alpha, making inferences about causality difficult. In this study, we used the galectin 2 (LGALS2) genotype, which affects LTA secretion but is located on another chromosome than the HLA gene cluster or TNF, to examine the relationship between the LTA pathway and traits of the metabolic syndrome. SUBJECTS: A cross-sectional genetic association study was carried out in 3,272 British women of European origin who were aged 60 to 79 years and were randomly selected from the community. RESULTS: Fasting plasma glucose and serum insulin were statistically significantly associated with LGALS2 rs7291467, with this association being independent of BMI and WHR. The mean difference in fasting insulin per minor allele was -4% (p=0.01 for trend by allele) and the mean per minor allele difference in fasting glucose was -2% (p=0.02 for trend by allele). When women with known diabetes were excluded from the analyses the findings did not differ from those for the whole cohort. CONCLUSIONS/INTERPRETATION: Our findings for the physically unlinked LGALS2, invite further study of LGALS2 specifically and the LTA pathway generally for their influence on glucose-insulin regulation.


Subject(s)
Blood Glucose/metabolism , Galectin 2/genetics , Health Surveys , Insulin/blood , Aged , Alleles , Fasting , Female , Genotype , Humans , Life Style , Middle Aged , United Kingdom
10.
J Med Genet ; 42(5): 396-401, 2005 May.
Article in English | MEDLINE | ID: mdl-15863668

ABSTRACT

BACKGROUND: The renin angiotensin system is important in the regulation of vascular tone and fluid and electrolyte balance. The angiotensin converting enzyme gene (ACE) genotype has been shown to affect exercise response and glucose load response dependent on birth weight. Angiotensin II type I receptor (AGTR1) A1166C has previously been associated with the development of hypertension and coronary disease, but its metabolic effects have not been investigated. METHOD: AGTR1 A1166C was genotyped by allele specific PCR in 378 individuals from Hertfordshire, UK, who had been characterised for metabolic syndrome traits. RESULTS: Genotype counts were: AA, 183; AC, 170; CC, 25, consistent with Hardy-Weinberg equilibrium. The CC genotype was associated with significantly lower body mass index (by 1.7 units) in men (p = 0.03), and the same magnitude effect in women with significant lower weight in both genders (p = 0.01), also lower waist circumference and waist-hip ratio (p = 0.01) in men, with a trend for lower waist circumference in women also. Additionally, the CC genotype and/or C allele was associated with lower fasting glucose and insulin, and 30 and 120 min glucose in men (respectively, p = 0.08, 0.04, 0.01, 0.06). Lower means of systolic blood pressure, pulse pressure, cholesterol, and fasting triglyceride were also observed for the CC genotype in both genders though these were not statistically significant. CONCLUSIONS: The AGTR1 1166 CC genotype appears to predispose to favourable anthropometric and metabolic traits, relative to cardiovascular risk.


Subject(s)
Metabolic Diseases/diagnosis , Metabolic Diseases/genetics , Polymorphism, Genetic , Receptor, Angiotensin, Type 1/genetics , Aged , Analysis of Variance , Anthropometry , Base Sequence , Gene Frequency , Genetic Testing , Genotype , Humans , Middle Aged , Molecular Sequence Data , Regression Analysis , Syndrome , United Kingdom
11.
Clin Exp Allergy ; 33(8): 1111-7, 2003 Aug.
Article in English | MEDLINE | ID: mdl-12911786

ABSTRACT

BACKGROUND: IL-4 by binding to its receptor (IL-4R) is essential for the development of airway inflammation present in asthma, through the induction of IgE synthesis in B cells and differentiation of T cells to a Th2 phenotype. OBJECTIVE: To investigate the role of four common polymorphisms in the IL-4 (IL4-34CT and IL4-589CT) and IL-4Ralpha chain (IL4RAI50V and IL4RAQ576R) genes in conferring susceptibility to the development of atopy and/or asthma. METHODS: Two polymorphisms in the IL-4 gene promoter, IL4-34CT and IL4-589CT, and two polymorphisms in the IL-4Ralpha chain gene, IL4RAI50V and IL4RAQ576R, have been genotyped using PCR-based methods in 341 asthmatic families and in 184 non-asthmatic adults recruited from the south of England. RESULTS: Case-control analysis did not reveal differences in the distribution of the four polymorphisms between asthmatics and controls. However, the transmission disequilibrium test showed that the IL4-589 T allele was preferentially transmitted to asthmatic children (P=0.036) and that the IL4RAQ576 was preferentially transmitted to children with atopic asthma (P=0.018). Haplotype analysis showed a strong association between the IL4-34T/-589T haplotype and asthma per se (P=0.041), and a strong association between the IL4RA I50/Q576 haplotype and atopic asthma (P=0.006). CONCLUSION: Our data suggest that polymorphisms in the IL-4 and IL-4Ralpha chain genes might play a role both conferring susceptibility to and modulating severity of atopy and asthma.


Subject(s)
Genetic Predisposition to Disease , Hypersensitivity, Immediate/genetics , Interleukin-4/genetics , Polymorphism, Genetic , Receptors, Interleukin-4/genetics , Adolescent , Adult , Asthma/genetics , Asthma/immunology , Case-Control Studies , Child , Child, Preschool , Female , Gene Frequency , Genotype , Haplotypes , Humans , Hypersensitivity, Immediate/immunology , Linkage Disequilibrium , Male , Phenotype , Statistics as Topic
12.
Biomaterials ; 23(15): 3063-72, 2002 Aug.
Article in English | MEDLINE | ID: mdl-12102177

ABSTRACT

Unlike sintered hydroxyapatite there is evidence to suggest that calcium phosphate cement (CPC) is actively remodelled in vivo and because CPC is formed by a low-temperature process, thermally unstable compounds such as proteins may be incorporated into the matrix of the cement which can then be released after implantation. The efficacy of a macroporous CPC as a bone tissue engineering scaffold has been reported; however, there have been few previous studies on the effect of macroporosity on the mechanical properties of the CPC. This study reports a novel method for the formation of macroporous CPC scaffolds, which has two main advantages over the previously reported manufacturing route: the cement matrix is considerably denser than CPC formed from slurry systems and the scaffold is formed at temperatures below room temperature. A mixture of frozen sodium phosphate solution particles and CPC powder were compacted at 106 MPa and the sodium phosphate was allowed to melt and simultaneously set the cement. The effect of the amount of porogen used during processing on the porosity, pore size distribution and compressive strength of the scaffold was investigated. It was found that macroporous CPC could reliably be fabricated using cement:ice ratios as low as 5:2.


Subject(s)
Bone Cements/isolation & purification , Calcium Phosphates/isolation & purification , Compressive Strength , Humans , Materials Testing , Microscopy, Electron, Scanning , Tissue Engineering , X-Ray Diffraction
13.
J Biomed Mater Res ; 63(1): 1-9, 2002.
Article in English | MEDLINE | ID: mdl-11787022

ABSTRACT

Hydroxyapatite (HA) calcium phosphate cements (CPCs) are attractive materials for orthopedic applications because they can be molded into shape during implantation. However their low strength and brittle nature limits their potential applications to principally non-load-bearing applications. Little if any use has been made of the HA cement systems as manufacturing routes for preset HA bone grafts, which although not moldable pastes, are resorbable, unlike HA sintered ceramic. It is known that the strength of cements can be increased beyond that attainable from slurry systems by compaction, and this study investigates whether compaction significantly alters the specific surface area and pore-size distribution of CPC prepared according to the method of Brown and Chow. Compaction pressures of between 18 and 106 MPa were used to decrease the porosity from 50 to 31%, which resulted in an increase in the wet compressive strength from 4 to 37 MPa. The Weibull modulus was found to increase as porosity decreased; in addition the amount of porosity larger than the reactant particle size increased as porosity decreased. It is proposed that this was caused by a combination of voids created by the aqueous solvent used in fabrication and shrinkage that occurs on reaction. The specific surface area was unchanged by compaction.


Subject(s)
Biocompatible Materials/chemistry , Bone Cements/chemistry , Calcium Phosphates/chemistry , Compressive Strength , Materials Testing , Microscopy, Electron, Scanning , Particle Size , Porosity , Pressure , Solvents/pharmacology , Surface Properties
14.
Hum Mol Genet ; 10(14): 1491-501, 2001 Jul 01.
Article in English | MEDLINE | ID: mdl-11448941

ABSTRACT

We previously demonstrated an association between the insulin-like growth factor 2 (IGF2) gene 3'-untranslated region (3'-UTR) ApaI polymorphism and body mass index (BMI) in over 2500 middle-aged Caucasoid males. In the same cohort, we have now tested association with 11 more markers, including seven novel single nucleotide polymorphisms (SNPs), spanning >30 kb across the IGF2 gene. Three SNPs showed significant positive associations with BMI: 6815 A/T in the IGF2 P1 promoter (P = 0.00012, n = 2394) and the newly identified SNPs 1156 C/T in intron 2 (P = 0.017, n = 1567) and 1926 C/G in the 3'-UTR (P = 0.0062, n = 1872). There was strong pairwise linkage disequilibrium (LD) between the ApaI and 1926 C/G sites, whereas LD between ApaI and 6815 A/T, and between ApaI and 1156 T/C, was minimal. Univariately 6815 A/T, 1156 T/C and ApaI explained 1.03, 1.02 and 0.67% of the variation in BMI. Multi-way analysis of variance (ANOVA) models showed that 6815 A/T and 1156 T/C explained a further 0.4 and 0.8% of the variation beyond that accounted for by ApaI and the association of 1926 C/G with BMI disappeared after adjustment. The 6815 A/T, 1156 T/C and ApaI markers in effect constitute independent affirmations of our original hypothesized candidate gene region. In a stepwise multi-way ANOVA model, all three terms were significantly independently associated with BMI. The total proportion of BMI variance explained by this model was 2.25%, strongly suggesting that IGF2 genetic variation is a significant determinant of body weight in middle-aged males.


Subject(s)
Biomarkers/analysis , Body Mass Index , Insulin-Like Growth Factor II/genetics , Insulin/genetics , Polymorphism, Single Nucleotide , 3' Untranslated Regions/genetics , Cohort Studies , Deoxyribonucleases, Type II Site-Specific/metabolism , Gene Amplification , Genotype , Humans , Linkage Disequilibrium , Male , Middle Aged , Oligonucleotide Array Sequence Analysis , Polymerase Chain Reaction , Sequence Alignment
15.
Genes Immun ; 2(1): 20-4, 2001 Feb.
Article in English | MEDLINE | ID: mdl-11294563

ABSTRACT

Atopy and asthma are complex genetic diseases resulting from the interactions of a number of genetic and environmental factors. We had previously reported allelic association between the IL9 marker on chromosome 5q31-33 and atopy. In order to further investigate the role of susceptibility genes on 5q31-33 in the development of atopy and asthma we have studied 240 UK families comprising 131 families selected at random, 60 multiplex families with affected sib pairs, and 49 single proband nuclear families. Polymorphic markers on 5q31-33 were genotyped and both single and multipoint linkage analysis was undertaken using the BETA program. We have used both affection status and quantitative scores for atopy and asthma for phenotypic variables, combining data into scores for asthma and atopy. The strongest suggestion of linkage using multipoint analysis was centred around D5S410 with a maximum Lod of 1.946 at location 171.3 cM and a standard error of 3.3 for the asthma quantitative score. There was no evidence of linkage with atopy, the atopy quantitative score or total serum IgE.


Subject(s)
Asthma/genetics , Chromosomes, Human, Pair 5 , Genetic Linkage , Genetic Predisposition to Disease , Humans , Phenotype , United Kingdom
16.
Biotechniques ; 29(3): 500-4, 505-6, 2000 Sep.
Article in English | MEDLINE | ID: mdl-10997263

ABSTRACT

A new modification of the microplate array diagonal gel electrophoresis (MADGE) system accommodates the dual amplification refractory mutation system (ARMS) products of 96 samples on one 192-well gel. Simultaneous electrophoresis of a number of horizontal ARMS-MADGE gels achieves high throughput. Gels are imaged digitally, here using the FluorImager 595 fluorescent scanning system. Customized software by Phoretix enables rapid computerized calling of band patterns in ARMS-MADGE arrays, in which the two wells receiving a pair of allele-specific assays for a single template are juxtaposed to form one virtual track, with genotype data exported directly into Microsoft Excel for statistical analysis. An ARMS assay of the A/T base change at the -23/HphI RFLP in the insulin gene promoter, which initiates from 2.5 ng template DNA, was used here to demonstrate this improved general approach for population SNP analyses.


Subject(s)
Electrophoresis/methods , Genotype , Polymorphism, Single Nucleotide/genetics , Humans , Image Processing, Computer-Assisted , Insulin/genetics , Mutagenesis , Polymerase Chain Reaction , Polymorphism, Restriction Fragment Length , Promoter Regions, Genetic , Software , alpha 1-Antitrypsin/genetics
17.
Mil Med ; 164(3): 239-41, 1999 Mar.
Article in English | MEDLINE | ID: mdl-10091502

ABSTRACT

OBJECTIVES: Few data exist concerning the combined use of fluconazole systemically and as an irrigant for nephrostomy tubes in a patient with renal candidiasis. The patient described here presented with renal fungal balls obstructing the drainage of urine from her nephrostomy tubes. METHODS: Twelve months after chemoradiation for a stage IIB squamous cell carcinoma of the uterine cervix, a 35-year-old woman presented with renal obstruction necessitating insertion of ureteral stents. After 6 months of chemotherapy, the patient developed uremia. After nephrostomy tubes were placed, renal candidiasis was noted, and fluconazole was begun systemically. When the renal candidiasis failed to clear, nephrostomy tube irrigations were begun. RESULTS: Fourteen days of therapy with fluconazole resulted in the resolution of the uremia. The patient died 6 months later with her nephrostomy tubes in situ and without evidence of candidiasis in her urinary tract. CONCLUSIONS: The patient described was successfully treated without having to remove her nephrostomy tubes. Two other authors have reported the successful use of fluconazole irrigation to treat candidiasis in nephrostomy tubes that was unresponsive to systemic fluconazole. Before the appearance of these reports, the best results were obtained with removal of the catheter in renal candidiasis.


Subject(s)
Antifungal Agents/therapeutic use , Candidiasis/drug therapy , Fluconazole/therapeutic use , Fungemia/drug therapy , Kidney Diseases/drug therapy , Nephrostomy, Percutaneous , Therapeutic Irrigation/methods , Adult , Candidiasis/etiology , Carcinoma, Squamous Cell/drug therapy , Fatal Outcome , Female , Fungemia/etiology , Humans , Kidney Diseases/etiology , Uterine Cervical Neoplasms/drug therapy
18.
Q J Exp Psychol A ; 43(3): 327-47, 1991 Aug.
Article in English | MEDLINE | ID: mdl-1775646

ABSTRACT

This study examines a form of masking that can take place when the signal and masker are widely separated in frequency and cannot be explained in terms of the traditional concept of the auditory filter or critical band. We refer to this as across-channel masking. The task of the subject was to detect an increment in modulation depth of a 1000-Hz sinusoidal carrier. The carrier could either be sinusoidally amplitude modulated or sinusoidally frequency modulated at a 10-Hz rate. Modulation increment thresholds of this "target" signal were measured for the target alone, and in the presence of two interfering sounds with carrier frequencies of 230 and 3300 Hz. When the interfering sounds were unmodulated, they had no effect on modulation increment thresholds. When the interfering sounds were either amplitude or frequency modulated, thresholds increased. Amplitude modulation (AM) increment thresholds were affected by both amplitude-modulated and frequency-modulated interference. Similarly, frequency modulation (FM) increment thresholds were affected by both amplitude-modulated and frequency-modulated interference. For both types of signal, the interference was tuned for modulation rate; across-channel masking was greatest when the interfering sounds were modulated at rates close to 10 Hz, and declined for higher or lower rates. However, the tuning was rather broad. When the target and interfering sounds were modulated at the same rate, there was no effect of the relative phase of the modulators. Two possible explanations for the results are discussed. One is based on the idea that carriers that are modulated in a similar way tend to be perceptually "grouped". The other is based on the idea that there are "channels" in the auditory system tuned for AM and FM rate. Neither explanation appears completely satisfactory.


Subject(s)
Attention , Perceptual Masking , Pitch Discrimination , Adult , Auditory Threshold , Humans , Pilot Projects , Psychoacoustics
19.
Gen Comp Endocrinol ; 62(2): 327-34, 1986 May.
Article in English | MEDLINE | ID: mdl-3465668

ABSTRACT

Seawater-adapted eels were implanted with both venous and arterial cannulae and catheterised. Prostaglandin in 0.9% glucose saline was given either by 10 microliters injection or by infusion (40 ng/min) while blood pressure recordings and blood samples were taken from the dorsal aorta. Glomerular filtration rates were calculated from the clearance of [3H]inulin, renal plasma flow from the clearance of PAH, and functional tubular mass from measurements of glucose reabsorption maxima (TmG). Cortisol levels were measured by radioimmunoassay. Injections of prostaglandin E1, E2, and A2 (0.01-10 ng/kg body wt) induced transient reductions in dorsal aortic blood pressure whilst concentrations of between 10 and 100 ng/kg body wt caused both prolonged vasodepression and glomerular antidiuresis, with decreased TmG and CPAH. Fractional excretion of electrolytes remained unchanged. Doses of 10-50 micrograms/kg body wt caused an initial glomerular diuresis, increased TmG and CPAH but were without effect on the fractional excretion of the filtered load. This diuretic action was followed by a longer period of antidiuresis. The vasodepression during 24 hr prostaglandin infusion became less severe after an initial 2-hr period, indicating a degree of tachyphylaxis. Prostaglandin F2 alpha in doses of 10-50 micrograms/kg body wt was slightly vasopressor but with no obvious effect on kidney function. All prostaglandins so far used, given either by infusion or injection caused a significant increase in cortisol production. These results suggest that prostaglandins may play similar roles throughout a range of vertebrates.


Subject(s)
Eels/physiology , Hemodynamics/drug effects , Kidney/drug effects , Prostaglandins/pharmacology , Adaptation, Physiological , Alprostadil/pharmacology , Animals , Blood Pressure/drug effects , Dinoprost , Dinoprostone , Fresh Water , Hydrocortisone/blood , Kidney/physiology , Prostaglandins A/pharmacology , Prostaglandins E/pharmacology , Prostaglandins F/pharmacology , Seawater
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