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https://www.readbyqxmd.com/read/28214367/population-genetic-structure-and-adaptation-of-malaria-parasites-on-the-edge-of-endemic-distribution
#1
Craig W Duffy, Hampate Ba, Samuel Assefa, Ambroise D Ahouidi, Yacine B Deh, Abderahmane Tandia, Freja C M Kirsebom, Dominic P Kwiatkowski, David J Conway
To determine whether the major human malaria parasite Plasmodium falciparum exhibits fragmented population structure or local adaptation at the northern limit of its African distribution where the dry Sahel zone meets the Sahara, samples were collected from diverse locations within Mauritania over a range of ~ 1000 kilometres. Microsatellite genotypes were obtained for 203 clinical infection samples from eight locations, and Illumina paired-end sequences were obtained to yield high coverage genome-wide single nucleotide polymorphism (SNP) data for 65 clinical infection samples from four locations...
February 18, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28213601/protocol-for-a-scoping-review-of-post-trial-extensions-of-randomised-controlled-trials-using-individually-linked-administrative-and-registry-data
#2
Tiffany Fitzpatrick, Laure Perrier, Andrea C Tricco, Sharon E Straus, Peter Jüni, Merrick Zwarenstein, Lisa M Lix, Mark Smith, Laura C Rosella, David A Henry
INTRODUCTION: Well-conducted randomised controlled trials (RCTs) provide the least biased estimates of intervention effects. However, RCTs are costly and time-consuming to perform and long-term follow-up of participants may be hampered by lost contacts and financial constraints. Advances in computing and population-based registries have created new possibilities for increasing the value of RCTs by post-trial extension using linkage to routinely collected administrative/registry data in order to determine long-term interventional effects...
February 17, 2017: BMJ Open
https://www.readbyqxmd.com/read/28211614/opportunities-for-improving-triple-negative-breast-cancer-outcomes-results-of-a-population-based-study
#3
Elisabetta Rapiti, Kim Pinaud, Pierre O Chappuis, Valeria Viassolo, Aurélie Ayme, Isabelle Neyroud-Caspar, Massimo Usel, Christine Bouchardy
Triple-negative breast cancer (TNBC) is associated with a poor prognosis. Surgery, radiotherapy, chemotherapy, and referral for genetic counseling are the standard of care. We assessed TNBC prevalence, management, and outcome using data from the population-based Geneva cancer registry. 2591 women had a first invasive stage I-III breast cancer diagnosed between 2003 and 2011. We compared TNBC to other breast cancers (OBC) by χ(2) -test and logistic regression. Kaplan-Meier survival curves, up to 31-12-2014, were compared using log-rank test...
February 17, 2017: Cancer Medicine
https://www.readbyqxmd.com/read/28207813/interacting-networks-of-resistance-virulence-and-core-machinery-genes-identified-by-genome-wide-epistasis-analysis
#4
Marcin J Skwark, Nicholas J Croucher, Santeri Puranen, Claire Chewapreecha, Maiju Pesonen, Ying Ying Xu, Paul Turner, Simon R Harris, Stephen B Beres, James M Musser, Julian Parkhill, Stephen D Bentley, Erik Aurell, Jukka Corander
Recent advances in the scale and diversity of population genomic datasets for bacteria now provide the potential for genome-wide patterns of co-evolution to be studied at the resolution of individual bases. Here we describe a new statistical method, genomeDCA, which uses recent advances in computational structural biology to identify the polymorphic loci under the strongest co-evolutionary pressures. We apply genomeDCA to two large population data sets representing the major human pathogens Streptococcus pneumoniae (pneumococcus) and Streptococcus pyogenes (group A Streptococcus)...
February 2017: PLoS Genetics
https://www.readbyqxmd.com/read/28207535/an-investigation-of-obesity-susceptibility-genes-in-northern-han-chinese-by-targeted-resequencing
#5
Yili Wu, Weijing Wang, Wenjie Jiang, Jie Yao, Dongfeng Zhang
Our earlier genome-wide linkage study of body mass index (BMI) showed strong signals from 7q36.3 and 8q21.13. This case-control study set to investigate 2 genomic regions which may harbor variants contributed to development of obesity.We employed targeted resequencing technology to detect single nucleotide polymorphisms (SNPs) in 7q36.3 and 8q21.13 from 16 individuals with obesity. These were compared with 504 East Asians in the 1000 Genomes Project as a reference panel. Linkage disequilibrium (LD) block analysis was performed for the significant SNPs located near the same gene...
February 2017: Medicine (Baltimore)
https://www.readbyqxmd.com/read/28206819/norrisk-2-a-norwegian-risk-model-for-acute-cerebral-stroke-and-myocardial-infarction
#6
Randi Selmer, Jannicke Igland, Inger Ariansen, Aage Tverdal, Inger Njølstad, Kari Furu, Grethe S Tell, Tor Ole Klemsdal
Background Guidelines for the prevention of cardiovascular disease recommend the estimation of an individual's total risk. We have developed a new model for the prediction of the 10-year risk of incident acute myocardial infarction or cerebral stroke based on Norwegian data, NORRISK 2. Design The model was based on 10-year follow-up of a large population-based cohort (CONOR) through linkage to the CVDNOR project, a database of cardiovascular disease hospital discharge diagnoses and mortality in Norway in 1994-2009...
January 1, 2017: European Journal of Preventive Cardiology
https://www.readbyqxmd.com/read/28205529/genetic-polymorphism-and-evolutionary-differentiation-of-eastern-chinese-han-a-comprehensive-and-comparative-analysis-on-kirs
#7
Caiyong Yin, Li Hu, Huijie Huang, Yanfang Yu, Zheng Li, Qiang Ji, Xiaochao Kong, Zhongqun Wang, Jinchuan Yan, Jiangwei Yan, Bofeng Zhu, Feng Chen
Killer cell immunoglobulin-like receptor genes, namely KIRs, cluster together within the 160 kb genomic DNA region. In this study, we used PCR-SSP approach and successfully identified the genotype of 17 KIR genes in 123 independent healthy donors residing in the Jiangsu province, China. All individuals were positive at the 7 genes. The observed carrier gene frequencies (OFs) of remaining 10 KIRs ranged from 14.63% (KIR2DS3) to 95.93% (KIR3DL1). We found 27 distinct genotypes excluding KIR1D. The most frequent occurred in 63 individuals (51...
February 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28204921/the-impact-of-parental-offending-on-offspring-aggression-in-early-childhood-a-population-based-record-linkage-study
#8
Stacy Tzoumakis, Kimberlie Dean, Melissa J Green, Catherine Zheng, Maina Kariuki, Felicity Harris, Vaughan J Carr, Kristin R Laurens
PURPOSE: To examine the impact of parental criminal offending, both paternal and maternal, on offspring aggression at age 5 years, while also considering key risk factors, including parental mental illness, child's sex, and socioeconomic disadvantage. METHODS: The sample comprised 69,116 children, with linked parental information, from the New South Wales Child Development Study, a population-based multi-agency, multi-generational record linkage study that combines information from a teacher-reported cross-sectional survey of early childhood development at age 5 years (the 2009 Australian Early Development Census; AEDC) with data obtained via administrative records from multiple sources (e...
February 15, 2017: Social Psychiatry and Psychiatric Epidemiology
https://www.readbyqxmd.com/read/28202950/including-non-informative-parents-in-transmission-based-association-tests
#9
Hemant Kulkarni, Saurabh Ghosh
The classical transmission disequilibrium test (TDT) based on a trio design uses information only on the allele transmitted by a heterozygous parent at a marker locus as homozygous parents are non-informative about linkage. However, the phenotype of an offspring depends on the alleles transmitted by both parents, irrespective of whether the parents are homozygous or heterozygous, and hence carry useful information on association. In this article, we propose modifications to the TDT procedures by incorporating transmission data on both parents in an informative trio to explore possible gain in power in detecting association...
February 16, 2017: Journal of Human Genetics
https://www.readbyqxmd.com/read/28198814/inference-of-multiple-wave-population-admixture-by-modeling-decay-of-linkage-disequilibrium-with-polynomial-functions
#10
Y Zhou, K Yuan, Y Yu, X Ni, P Xie, E P Xing, S Xu
To infer the histories of population admixture, one important challenge with methods based on the admixture linkage disequilibrium (ALD) is to remove the effect of source LD (SLD), which is directly inherited from source populations. In previous methods, only the decay curve of weighted LD between pairs of sites whose genetic distance were larger than a certain starting distance was fitted by single or multiple exponential functions, for the inference of recent single- or multiple-wave admixture. However, the effect of SLD has not been well defined and no tool has been developed to estimate the effect of SLD on weighted LD decay...
February 15, 2017: Heredity
https://www.readbyqxmd.com/read/28197657/gestational-diabetes-and-adverse-perinatal-outcomes-from-716-152-births-in-france-in-2012
#11
Cécile Billionnet, Delphine Mitanchez, Alain Weill, Jacky Nizard, François Alla, Agnès Hartemann, Sophie Jacqueminet
AIMS/HYPOTHESIS: The aim of this study was to assess the risk of adverse perinatal outcomes in gestational diabetes mellitus (GDM) in a large national cohort. METHODS: All deliveries taking place after 22 weeks in France in 2012 were included by extracting data from the hospital discharge database and the national health insurance system. The diabetic status of mothers was determined by the use of glucose-lowering agents and by hospital diagnosis. Outcomes were analysed according to the type of diabetes and, in the GDM group, whether or not diabetes was insulin-treated...
February 15, 2017: Diabetologia
https://www.readbyqxmd.com/read/28197587/modeling-excitation-energy-transfer-in-multi-bodipy-architectures
#12
Cloé Azarias, Roberto Russo, Lorenzo Cupellini, Benedetta Mennucci, Denis Jacquemin
The excitation energy transfer (EET) allowing the concentration of the energy has been investigated in several multi-BODIPY architectures with the help of an approach coupling time dependent density functional theory to an implicit solvation scheme, the polarizable continuum model. We have first considered several strategies to compute the electronic coupling in a dyad varying the size of the donor/acceptor units, the bridge, the geometries and conformations. We have next studied the electronic coupling in three different architectures for which the EET rate constants have been experimentally measured both from luminescence and transient absorption data and from Förster theory...
February 15, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28196849/a-population-based-study-of-sociodemographic-and-geographic-variation-in-hpv-vaccination
#13
Lila J Finney Rutten, Patrick M Wilson, Debra J Jacobson, Amenah A Agunwamba, Carmen Radecki Breitkopf, Robert M Jacobson, Jennifer L St Sauver
BACKGROUND: HPV vaccination rates in the U.S. remain low and lag behind other recommended adolescent vaccines. Studies evaluating the association of geographic and area-level characteristics with HPV vaccination rates provide a valuable resource for public health planning. METHOD: We used the Rochester Epidemiology Project data linkage system to ascertain HPV vaccination rates between 2010 and 2015 in a 7-county region of southern MN. Geocoded individual patient data was spatially linked to socioeconomic data from the American Community Survey at the census block group level...
February 14, 2017: Cancer Epidemiology, Biomarkers & Prevention
https://www.readbyqxmd.com/read/28196830/the-benefits-of-data-linkage-for-firefighter-injury-surveillance
#14
Shannon A Widman, Michael T LeVasseur, Loni P Tabb, Jennifer A Taylor
BACKGROUND: While survey data are available for national estimates of fire events and firefighter fatalities, data on firefighter injury at the national and local levels remain incomplete and unreliable. Data linkage provides a vehicle to maximise case detection and deepen injury description for the US fire service. METHODS: By linking departmental Human Resources records, despatch data, workers' compensation and first reports of injury, researchers were able to describe reported non-fatal injuries to 3063 uniformed members of the Philadelphia Fire Department (PFD), for the period of 2005 through 2013...
February 14, 2017: Injury Prevention: Journal of the International Society for Child and Adolescent Injury Prevention
https://www.readbyqxmd.com/read/28196481/nuctools-analysis-of-chromatin-feature-occupancy-profiles-from-high-throughput-sequencing-data
#15
Yevhen Vainshtein, Karsten Rippe, Vladimir B Teif
BACKGROUND: Biomedical applications of high-throughput sequencing methods generate a vast amount of data in which numerous chromatin features are mapped along the genome. The results are frequently analysed by creating binary data sets that link the presence/absence of a given feature to specific genomic loci. However, the nucleosome occupancy or chromatin accessibility landscape is essentially continuous. It is currently a challenge in the field to cope with continuous distributions of deep sequencing chromatin readouts and to integrate the different types of discrete chromatin features to reveal linkages between them...
February 14, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28195588/increased-childhood-bmi-is-associated-with-young-adult-serum-uric-acid-levels-a-linkage-study-from-japan
#16
Erika Kuwahara, Yoshitaka Murakami, Tomonori Okamura, Hirokazu Komatsu, Akemi Nakazawa, Hideo Ushiku, Fumio Maejima, Yoshio Nishigaki, Yuji Nishiwaki
BACKGROUND: Growth pattern in early life is one of the most important factors affecting the pathogenesis of metabolic-associated diseases. The associations between serum uric acid (SUA) and hypertension, kidney disease, and coronary heart disease have been recognized. We investigated the association between increased BMI during childhood and adult SUA levels in Japan. METHODS: We included 298 children with health examination data between 1981 and 2002 who had also undergone physical examinations after reaching early adulthood (approximately 27 y old)...
February 2017: Pediatric Research
https://www.readbyqxmd.com/read/28195516/young-adulthood-cognitive-ability-predicts-statin-adherence-in-middle-aged-men-after-first-myocardial-infarction-a-swedish-national-registry-study
#17
John Wallert, Claudia Lissåker, Guy Madison, Claes Held, Erik Olsson
Background Cognitive ability (CA) is positively related to later health, health literacy, health behaviours and longevity. Accordingly, a lower CA is expected to be associated with poorer adherence to medication. We investigated the long-term role of CA in adherence to prescribed statins in male patients after a first myocardial infarction (MI). Methods CA was estimated at 18-20 years of age from Military Conscript Register data for first MI male patients (≤60 years) and was related to the one- and two-year post-MI statin adherence on average 30 years later...
January 1, 2017: European Journal of Preventive Cardiology
https://www.readbyqxmd.com/read/28195363/liver-fibrosis-scores-predict-liver-disease-mortality-in-the-united-states-population
#18
Aynur Unalp-Arida, Constance E Ruhl
BACKGROUND AND RATIONALE: Fatty liver disease is common in the United States and worldwide due to changing lifestyles and can progress to fibrosis and cirrhosis contributing to premature death. We examined whether liver fibrosis scores were associated with increased overall and disease-specific mortality in a U.S. population-based prospective survey with up to 23 years of linked-mortality data. METHODS: Data were analyzed from 14,841 viral hepatitis negative adult participants in the third National Health and Nutrition Examination Survey, 1988-1994...
February 13, 2017: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://www.readbyqxmd.com/read/28193716/preventing-falls-in-a-high-risk-vision-impaired-population-through-specialist-orientation-and-mobility-services-protocol-for-the-platform-randomised-trial
#19
Lisa Keay, Lisa Dillon, Lindy Clemson, Anne Tiedemann, Catherine Sherrington, Peter McCluskey, Pradeep Ramulu, Stephen Jan, Kris Rogers, Jodi Martin, Frances Tinsley, Kirsten Bonrud Jakobsen, Rebecca Q Ivers
BACKGROUND: Older people with vision impairment have significant ongoing morbidity, including risk of falls, but are neglected in fall prevention programmes. PlaTFORM is a pragmatic evaluation of the Lifestyle-integrated Functional Exercise fall prevention programme for older people with vision impairment or blindness (v-LiFE). Implementation and scalability issues will also be investigated. METHODS: PlaTFORM is a single-blinded, randomised trial designed to evaluate the v-LiFE programme compared with usual care...
February 13, 2017: Injury Prevention: Journal of the International Society for Child and Adolescent Injury Prevention
https://www.readbyqxmd.com/read/28193307/heritability-and-gwas-studies-for-monocyte-lymphocyte-ratio
#20
Bochao D Lin, Gonneke Willemsen, Iryna O Fedko, Rick Jansen, Brenda Penninx, E de Geus, C Kluft, JoukeJan Hottenga, Dorret I Boomsma
The monocyte-lymphocyte ratio (MLR) is a useful biomarker for disease development, but little is known about the extent to which genetic and environmental factors influence MLR variation. Here, we study the genetic architecture of MLR and determine the influence of demographic and lifestyle factors on MLR in data from a Dutch non-patient twin-family population. Data were obtained in 9,501 individuals from the Netherlands Twin Register. We used regression analyses to determine the effects of age, sex, smoking, and body mass index (BMI) on MLR and its subcomponents...
February 14, 2017: Twin Research and Human Genetics: the Official Journal of the International Society for Twin Studies
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