Identification of ancestry proportions in admixed groups across the Americas using clinical pharmacogenomic SNP panels.

Abstract:

:We evaluated the performance of three PGx panels to estimate biogeographical ancestry: the DMET panel, and the VIP and Preemptive PGx panels described in the literature. Our analysis indicate that the three panels capture quite well the individual variation in admixture proportions observed in recently admixed populations throughout the Americas, with the Preemptive PGx and DMET panels performing better than the VIP panel. We show that these panels provide reliable information about biogeographic ancestry and can be used to guide the implementation of PGx clinical decision-support (CDS) tools. We also report that using these panels it is possible to control for the effects of population stratification in association studies in recently admixed populations, as exemplified with a warfarin dosing GWA study in a sample from Brazil.

journal_name

Sci Rep

journal_title

Scientific reports

authors

Debortoli G,de Araujo GS,Fortes-Lima C,Parra EJ,Suarez-Kurtz G

doi

10.1038/s41598-020-80389-9

subject

Has Abstract

pub_date

2021-01-13 00:00:00

pages

1007

issue

1

issn

2045-2322

pii

10.1038/s41598-020-80389-9

journal_volume

11

pub_type

杂志文章
  • Gram Negative Bacterial Inflammation Ameliorated by the Plasma Protein Beta 2-Glycoprotein I.

    abstract::Lipopolysaccharide (LPS) is a major component of the outer wall of gram negative bacteria. In high doses LPS contributes to the inflammation in gram negative sepsis, and in low doses contributes to the low grade inflammation characteristic of the metabolic syndrome. We wanted to assess the role of beta2-glycoprotein I...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep33656

    authors: Zhou S,Chen G,Qi M,El-Assaad F,Wang Y,Dong S,Chen L,Yu D,Weaver JC,Beretov J,Krilis SA,Giannakopoulos B

    更新日期:2016-09-27 00:00:00

  • Ternary phase behaviour and vesicle formation of a sodium N-lauroylsarcosinate hydrate/1-decanol/water system.

    abstract::The phase behaviour of a system composed of amino acid-based surfactant (sodium N-lauroylsarcosinate hydrate), 1-decanol and deionised water was investigated for vesicle formation. Changing the molar ratio of the amphiphiles, two important aggregate structures were observed in the aqueous corner of the phase diagram. ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep00071

    authors: Akter N,Radiman S,Mohamed F,Rahman IA,Reza MI

    更新日期:2011-01-01 00:00:00

  • Graphene-protected copper and silver plasmonics.

    abstract::Plasmonics has established itself as a branch of physics which promises to revolutionize data processing, improve photovoltaics, and increase sensitivity of bio-detection. A widespread use of plasmonic devices is notably hindered by high losses and the absence of stable and inexpensive metal films suitable for plasmon...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep05517

    authors: Kravets VG,Jalil R,Kim YJ,Ansell D,Aznakayeva DE,Thackray B,Britnell L,Belle BD,Withers F,Radko IP,Han Z,Bozhevolnyi SI,Novoselov KS,Geim AK,Grigorenko AN

    更新日期:2014-07-01 00:00:00

  • Artificial biofilms establish the role of matrix interactions in staphylococcal biofilm assembly and disassembly.

    abstract::We demonstrate that the microstructural and mechanical properties of bacterial biofilms can be created through colloidal self-assembly of cells and polymers, and thereby link the complex material properties of biofilms to well understood colloidal and polymeric behaviors. This finding is applied to soften and disassem...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep13081

    authors: Stewart EJ,Ganesan M,Younger JG,Solomon MJ

    更新日期:2015-08-14 00:00:00

  • Physical determinants of asymmetric cell divisions in the early development of Caenorhabditis elegans.

    abstract::Asymmetric cell divisions are of fundamental importance for the development of multicellular organisms, e.g. for the generation of founder cells. Prime examples are asymmetric cell divisions in germline precursors during the early embryogenesis of the transparent roundworm Caenorhabditis elegans, one of the major deve...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-09690-4

    authors: Fickentscher R,Weiss M

    更新日期:2017-08-24 00:00:00

  • Cognitive Function and Ophthalmological Diseases: The Beijing Eye Study.

    abstract::To examine associations between cognitive function and ophthalmological parameters, the population-based Beijing Eye Study examined ophthalmologically and physically 3127 individuals (mean age: 64.2 ± 9.8 years). Using the mini-mental state examination, cognitive function was assessed as cognitive function score (CFS)...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-23314-5

    authors: Jonas JB,Wei WB,Zhu LP,Xu L,Wang YX

    更新日期:2018-03-19 00:00:00

  • Caloric restriction promotes functional changes involving short-chain fatty acid biosynthesis in the rat gut microbiota.

    abstract::Caloric restriction (CR) is known to promote health and longevity, likely via modification of the gut microbiota (GM). However, functional and metabolic changes induced in the GM during CR are still unidentified. Here, we investigated the short- and long-term effects of CR on the rat GM using a metaproteogenomic appro...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-33100-y

    authors: Tanca A,Abbondio M,Palomba A,Fraumene C,Marongiu F,Serra M,Pagnozzi D,Laconi E,Uzzau S

    更新日期:2018-10-03 00:00:00

  • Atomic scale verification of oxide-ion vacancy distribution near a single grain boundary in YSZ.

    abstract::This study presents atomic scale characterization of grain boundary defect structure in a functional oxide with implications for a wide range of electrochemical and electronic behavior. Indeed, grain boundary engineering can alter transport and kinetic properties by several orders of magnitude. Here we report experime...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep02680

    authors: An J,Park JS,Koh AL,Lee HB,Jung HJ,Schoonman J,Sinclair R,Gür TM,Prinz FB

    更新日期:2013-01-01 00:00:00

  • Transcriptome analysis revealed chimeric RNAs, single nucleotide polymorphisms and allele-specific expression in porcine prenatal skeletal muscle.

    abstract::Prenatal skeletal muscle development genetically determines postnatal muscle characteristics such as growth and meat quality in pigs. However, the molecular mechanisms underlying prenatal skeletal muscle development remain unclear. Here, we performed the first genome-wide analysis of chimeric RNAs, single nuclear poly...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep29039

    authors: Yang Y,Tang Z,Fan X,Xu K,Mu Y,Zhou R,Li K

    更新日期:2016-06-29 00:00:00

  • FXR agonist obeticholic acid induces liver growth but exacerbates biliary injury in rats with obstructive cholestasis.

    abstract::Cholestasis impairs liver regeneration following partial liver resection (PHx). Bile acid receptor farnesoid X-receptor (FXR) is a key mediator of liver regeneration. The effects of FXR agonist obeticholic acid (OCA) on liver (re)growth were therefore studied in cholestatic rats. Animals underwent sham surgery or reve...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-33070-1

    authors: van Golen RF,Olthof PB,Lionarons DA,Reiniers MJ,Alles LK,Uz Z,de Haan L,Ergin B,de Waart DR,Maas A,Verheij J,Jansen PL,Damink SWO,Schaap FG,van Gulik TM,Heger M

    更新日期:2018-11-08 00:00:00

  • Rapid, topology-based particle tracking for high-resolution measurements of large complex 3D motion fields.

    abstract::Spatiotemporal tracking of tracer particles or objects of interest can reveal localized behaviors in biological and physical systems. However, existing tracking algorithms are most effective for relatively low numbers of particles that undergo displacements smaller than their typical interparticle separation distance....

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-23488-y

    authors: Patel M,Leggett SE,Landauer AK,Wong IY,Franck C

    更新日期:2018-04-03 00:00:00

  • Epigenetic biomarker to support classification into pluripotent and non-pluripotent cells.

    abstract::Quality control of human induced pluripotent stem cells (iPSCs) can be performed by several methods. These methods are usually relatively labor-intensive, difficult to standardize, or they do not facilitate reliable quantification. Here, we describe a biomarker to distinguish between pluripotent and non-pluripotent ce...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep08973

    authors: Lenz M,Goetzke R,Schenk A,Schubert C,Veeck J,Hemeda H,Koschmieder S,Zenke M,Schuppert A,Wagner W

    更新日期:2015-03-10 00:00:00

  • Part 1: profiling extra cellular matrix core proteome of human fetal nucleus pulposus in search for regenerative targets.

    abstract::Intervertebral disc degeneration is accompanied by a loss of Extra-cellular matrix (ECM) due to an imbalance in anabolic and catabolic pathways. Identifying ECM proteins with anabolic and/or regenerative potential could be the key to developing regenerative therapies. Since human fetal discs grow and develop rapidly, ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-72859-x

    authors: Rajasekaran S,Tangavel C,Djuric N,Raveendran M,Soundararajan DCR,Nayagam SM,Matchado MS,Anand KSSV

    更新日期:2020-09-24 00:00:00

  • Contribution of Atmospheric Diffusion Conditions to the Recent Improvement in Air Quality in China.

    abstract::This study analyzed hourly mass concentration observations of PM2.5 (particulate matters with diameter less than 2.5 μm) at 512 stations in China from December 2013 to May 2015. We found that the mean concentrations of PM2.5 during the winter and spring of 2015 Dec. 2014 to Feb. 2015 and Mar. 2015 to May 2015) decreas...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep36404

    authors: Wang X,Wang K,Su L

    更新日期:2016-11-02 00:00:00

  • Acetylation state of RelA modulated by epigenetic drugs prolongs survival and induces a neuroprotective effect on ALS murine model.

    abstract::Dysregulation in acetylation homeostasis has been implicated in the pathogenesis of the amyotrophic lateral sclerosis (ALS), a fatal neurodegenerative disorder. It is known that the acetylation of transcriptional factors regulates their activity. The acetylation state of NF-kB RelA has been found to dictate the neurop...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-30659-4

    authors: Schiaffino L,Bonafede R,Scambi I,Parrella E,Pizzi M,Mariotti R

    更新日期:2018-08-27 00:00:00

  • Differentially expressed microRNAs between cattleyak and yak testis.

    abstract::Cattleyak are interspecific hybrids between cattle and yak, exhibiting the same prominent adaptability as yak and much higher performances than yak. However, male infertility of cattleyak resulted from spermatogenic arrest has greatly restricted their effective utilization in yak breeding. In past decades, much work h...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-18607-0

    authors: Xu C,Wu S,Zhao W,Mipam T,Liu J,Liu W,Yi C,Shah MA,Yu S,Cai X

    更新日期:2018-01-12 00:00:00

  • Influence of deposition rate on the structural properties of plasma-enhanced CVD epitaxial silicon.

    abstract::Solar cells based on epitaxial silicon layers as the absorber attract increasing attention because of the potential cost reduction. In this work, we studied the influence of the deposition rate on the structural properties of epitaxial silicon layers produced by plasma-enhanced chemical vapor deposition (epi-PECVD) us...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep43968

    authors: Chen W,Cariou R,Hamon G,Léal R,Maurice JL,Cabarrocas PR

    更新日期:2017-03-06 00:00:00

  • Rosuvastatin Prevents the Exacerbation of Atherosclerosis in Ligature-Induced Periodontal Disease Mouse Model.

    abstract::Periodontitis is a local and systemic inflammatory condition and a risk factor of atherosclerosis, but no studies investigated the effect of a statin on atherogenesis affected by severe periodontitis. In this study, we investigated the effect of rosuvastatin (RSV) on atherogenesis in Apolipoprotein E-deficient mice re...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-63350-8

    authors: Suh JS,Lee SH,Fouladian Z,Lee JY,Kim T,Kang MK,Lusis AJ,Boström KI,Kim RH,Park NH

    更新日期:2020-04-14 00:00:00

  • Domestication Effects on Stress Induced Steroid Secretion and Adrenal Gene Expression in Chickens.

    abstract::Understanding the genetic basis of phenotypic diversity is a challenge in contemporary biology. Domestication provides a model for unravelling aspects of the genetic basis of stress sensitivity. The ancestral Red Junglefowl (RJF) exhibits greater fear-related behaviour and a more pronounced HPA-axis reactivity than it...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep15345

    authors: Fallahsharoudi A,de Kock N,Johnsson M,Ubhayasekera SJ,Bergquist J,Wright D,Jensen P

    更新日期:2015-10-16 00:00:00

  • Quantifying the functional disparity in pigment spot-background egg colour ICP-OES-based eggshell ionome at two extremes of avian embryonic development.

    abstract::It is known that a developing avian embryo resorbs micronutrients (calcium and other chemical elements) from the inner layer of the eggshell, inducing thinning and overall changes in the shell's chemical composition. However, an aspect yet to be explored relates to the local changes in the multi-elemental composition ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-79040-4

    authors: Orłowski G,Niedzielski P,Merta D,Pokorny P,Proch J

    更新日期:2020-12-17 00:00:00

  • X-ray diffraction and second harmonic imaging reveal new insights into structural alterations caused by pressure-overload in murine hearts.

    abstract::We demonstrate a label-free imaging approach to study cardiac remodeling of fibrotic and hypertrophic hearts, bridging scales from the whole organ down to the molecular level. To this end, we have used mice subjected to transverse aortic constriction and imaged adjacent cardiac tissue sections by microfocus X-ray diff...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-76163-6

    authors: Nicolas JD,Khan A,Markus A,Mohamed BA,Toischer K,Alves F,Salditt T

    更新日期:2020-11-09 00:00:00

  • Variability and associated factors in the management of cord clamping and the milking practice among Spanish obstetric professionals.

    abstract::Clinical practice guides recommend delayed clamping of the umbilical cord. If this is not possible, some authors suggest milking as an alternative. The objective of this study was to determine the variability in professional practice in the management of umbilical cord clamping and milking and to identify factors or c...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-58641-z

    authors: Ortiz-Esquinas I,Gómez-Salgado J,Pascual-Pedreño AI,Rodríguez-Almagro J,Ballesta-Castillejos A,Hernández-Martínez A

    更新日期:2020-02-03 00:00:00

  • MTHFR gene variants and non-MALT lymphoma development in primary Sjogren's syndrome.

    abstract::Primary Sjogren's syndrome (pSS) confers increased risk for non-Hodgkin lymphoma (NHL) development. Two common polymorphisms, the c. 677C > T and c. 1298A > C, of the methylene-tetrahydrofolate reductase (MTHFR) gene, an enzyme essential in DNA synthesis and methylation, have been associated with susceptibility to NHL...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-07347-w

    authors: Fragkioudaki S,Nezos A,Souliotis VL,Chatziandreou I,Saetta AA,Drakoulis N,Tzioufas AG,Voulgarelis M,Sfikakis PP,Koutsilieris M,Crow MK,Moutsopoulos HM,Mavragani CP

    更新日期:2017-08-04 00:00:00

  • Controlling striatal function via anterior frontal cortex stimulation.

    abstract::Motivational, cognitive and action goals are processed by distinct, topographically organized, corticostriatal circuits. We aimed to test whether processing in the striatum is under causal control by cortical regions in the human brain by investigating the effects of offline transcranial magnetic stimulation (TMS) ove...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-21346-5

    authors: van Holstein M,Froböse MI,O'Shea J,Aarts E,Cools R

    更新日期:2018-02-19 00:00:00

  • Rapidly discriminate commercial medicinal Pulsatilla chinensis (Bge.) Regel from its adulterants using ITS2 barcoding and specific PCR-RFLP assay.

    abstract::Pulsatillae radix is a conventional traditional Chinese medicine (TCM) with common name Baitouweng, and has notable effects on inflammation and dysentery. Pulsatilla chinensis (Bge.) Regel is the only source plant of Baitouweng recorded in Chinese Pharmacopoeia, but its adulteration often occurs in the market that pos...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep40000

    authors: Shi Y,Zhao M,Yao H,Yang P,Xin T,Li B,Sun W,Chen S

    更新日期:2017-01-06 00:00:00

  • High Speed Computational Ghost Imaging via Spatial Sweeping.

    abstract::Computational ghost imaging (CGI) achieves single-pixel imaging by using a Spatial Light Modulator (SLM) to generate structured illuminations for spatially resolved information encoding. The imaging speed of CGI is limited by the modulation frequency of available SLMs, and sets back its practical applications. This pa...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep45325

    authors: Wang Y,Liu Y,Suo J,Situ G,Qiao C,Dai Q

    更新日期:2017-03-30 00:00:00

  • A novel immunogenic mouse model of melanoma for the preclinical assessment of combination targeted and immune-based therapy.

    abstract::Both targeted therapy and immunotherapy have been used successfully to treat melanoma, but the development of resistance and poor response rates to the individual therapies has limited their success. Designing rational combinations of targeted therapy and immunotherapy may overcome these obstacles, but requires assess...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-37883-y

    authors: Lelliott EJ,Cullinane C,Martin CA,Walker R,Ramsbottom KM,Souza-Fonseca-Guimaraes F,Abuhammad S,Michie J,Kirby L,Young RJ,Slater A,Lau P,Meeth K,Oliaro J,Haynes N,McArthur GA,Sheppard KE

    更新日期:2019-02-04 00:00:00

  • Dna is a New Target of Parp3.

    abstract::Most members of the poly(ADP-ribose)polymerase family, PARP family, have a catalytic activity that involves the transfer of ADP-ribose from a beta-NAD+-molecule to protein acceptors. It was recently discovered by Talhaoui et al. that DNA-dependent PARP1 and PARP2 can also modify DNA. Here, we demonstrate that DNA-depe...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-22673-3

    authors: Belousova EA,Ishchenko АA,Lavrik OI

    更新日期:2018-03-08 00:00:00

  • Cardiac endothelial cell-derived exosomes induce specific regulatory B cells.

    abstract::The mechanism of immune tolerance is to be further understood. The present study aims to investigate the role of the Cardiac endothelial cell (CEC)-derived exosomes in the induction of regulatory B cells. In this study, CECs were isolated from the mouse heart. Exosomes were purified from the culture supernatant of the...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep07583

    authors: Song J,Chen X,Wang M,Xing Y,Zheng Z,Hu S

    更新日期:2014-12-23 00:00:00

  • Soil classification predicts differences in prokaryotic communities across a range of geographically distant soils once pH is accounted for.

    abstract::Agricultural land is typically managed based on visible plant life at the expense of the belowground majority. However, microorganisms mediate processes sustaining plant life and the soil environment. To understand the role of microbes we first must understand what controls soil microbial community assembly. We assess...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep45369

    authors: Kaminsky R,Trouche B,Morales SE

    更新日期:2017-03-28 00:00:00