677 results on '"L Hyde"'
Search Results
2. 492 TOLERANCE OF MEDICATIONS PRESCRIBED IN CHILDREN FOR DAYTIME LOWER URINARY TRACT SYMPTOMS IN CHILDREN
- Author
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J Wong, H Lally, J Costello, R Hutchinson, K Thompson, L Hyde, C Ferguson, and H Corbett
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Diseases of the genitourinary system. Urology ,RC870-923 - Published
- 2022
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3. I love my job. But it’s physically, mentally, and emotionally draining': a cross-sectional survey exploring midwives’ intentions of leaving the profession in Melbourne, Australia
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Robyn P Matthews, Michelle S Newton, Rebecca L Hyde, Touran Shafiei, Fleur Llewelyn, and Della A Forster
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Midwives ,Attrition ,Intention to leave ,Burnout ,Job satisfaction ,Public aspects of medicine ,RA1-1270 - Abstract
Abstract Background Prior to the COVID-19 pandemic there were midwifery workforce deficits reported in Australia, but inadequate workforce data to identify retention and attrition in the profession. In the post-pandemic era, workforce deficits continue. This paper reports on midwives’ intentions to leave the profession and explores reasons for and factors associated with having high intention to leave, to inform strategies that can address retention and attrition of midwives. Methods A cross-sectional survey with midwives was conducted in 2017 via an online survey in two maternity care sites in Victoria, Australia. Plans for remaining in or leaving the profession were explored along with reasons for leaving or intending to leave the profession. Other data collected included demographic and workforce characteristics and occupational stressors. Burnout was measured using the Copenhagen Burnout Inventory and job satisfaction using the Midwifery Process Questionnaire. Descriptive statistics, univariate, multivariate analyses, and content analysis were used for data analysis. Results Of the 326 respondents (326/508, 64%), over half had considered leaving the midwifery profession in 12 months prior to the study, 20% had thought about leaving frequently and 12% were planning on leaving in the next five years. The main reasons for leaving were not wanting to do shift work, feeling worn out, and experiencing work-related stress. Factors associated with a high intention to leave the profession were work-related burnout, poor job satisfaction and a high intention to leave the workplace. Age did not impact intention to leave but was influential on the reasons for leaving. Conclusions Pre-pandemic, midwives in Victoria, Australia had a high intention to leave the profession regardless of age. Approaches that address midwifery stress, burnout, and fatigue need to be considered, including developing options that offer employment that does not require shift work. To provide safe quality care that supports positive outcomes for women and their families, an appropriate midwifery workforce must be achieved and maintained. Understanding midwives’ intentions to leave the profession is critical and requires ongoing attention given the workforce is likely to remain under significant stress until the major contributing factors are addressed.
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- 2024
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4. Orion Artemis I as Flown MMOD Analysis
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Kevin D Deighton, Eric L Christiansen, Dana M Lear, and James L Hyde
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Systems Analysis and Operations Research - Abstract
The Orion spacecraft conducted the Artemis I flight around the Moon from November 16 through December 11, 2022. After the flight, the NASA Johnson Space Center (JSC) Hypervelocity Impact Technology (HVIT) Group performed a Micrometeoroid and Orbital Debris (MMOD) analysis using the Bumper 3 risk assessment tool to predict the number of small impacts that would likely have occurred during the mission. Separately, the same group inspected the Orion capsule for hypervelocity impact damage features. The results of the inspection were compared to those of the analysis to aid in improving the analysis, including the environment models. The comparison showed that Bumper analysis predictions were generally within one integer value of the damage found, which is considered high accuracy. As this was the first large, non-ablative returned surface from a lunar mission, this effort extends the MMOD community’s insight beyond low Earth orbit into cis-lunar space.
- Published
- 2023
5. Host-specific sensing of coronaviruses and picornaviruses by the CARD8 inflammasome.
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Brian V Tsu, Rimjhim Agarwal, Nandan S Gokhale, Jessie Kulsuptrakul, Andrew P Ryan, Elizabeth J Fay, Lennice K Castro, Christopher Beierschmitt, Christina Yap, Elizabeth A Turcotte, Sofia E Delgado-Rodriguez, Russell E Vance, Jennifer L Hyde, Ram Savan, Patrick S Mitchell, and Matthew D Daugherty
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Biology (General) ,QH301-705.5 - Abstract
Hosts have evolved diverse strategies to respond to microbial infections, including the detection of pathogen-encoded proteases by inflammasome-forming sensors such as NLRP1 and CARD8. Here, we find that the 3CL protease (3CLpro) encoded by diverse coronaviruses, including Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2), cleaves a rapidly evolving region of human CARD8 and activates a robust inflammasome response. CARD8 is required for cell death and the release of pro-inflammatory cytokines during SARS-CoV-2 infection. We further find that natural variation alters CARD8 sensing of 3CLpro, including 3CLpro-mediated antagonism rather than activation of megabat CARD8. Likewise, we find that a single nucleotide polymorphism (SNP) in humans reduces CARD8's ability to sense coronavirus 3CLpros and, instead, enables sensing of 3C proteases (3Cpro) from select picornaviruses. Our findings demonstrate that CARD8 is a broad sensor of viral protease activities and suggests that CARD8 diversity contributes to inter- and intraspecies variation in inflammasome-mediated viral sensing and immunopathology.
- Published
- 2023
- Full Text
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6. Genome-wide pharmacogenetics of anti-drug antibody response to bococizumab highlights key residues in HLA DRB1 and DQB1
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Daniel I. Chasman, Craig L. Hyde, Franco Giulianini, Rebecca D. Danning, Ellen Q. Wang, Timothy Hickling, Paul M Ridker, and A. Katrina Loomis
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Medicine ,Science - Abstract
Abstract In this largest to-date genetic analysis of anti-drug antibody (ADA) response to a therapeutic monoclonal antibody (MAb), genome-wide association was performed for five measures of ADA status among 8844 individuals randomized to bococizumab, which targets PCSK9 for LDL-C lowering and cardiovascular protection. Index associations prioritized specific amino acid substitutions at the DRB1 and DQB1 MHC class II genes rather than canonical haplotypes. Two clusters of missense variants at DRB1 were associated with general ADA measures (residues 9, 11, 13; and 96, 112, 120, 180) and a third cluster of missense variants in DQB1 was associated with ADA measures including neutralizing antibody (NAb) titers (residues 66, 67, 71, 74, 75). The structural disposition of the missense substitutions implicates peptide antigen binding and CD4 effector function, mechanisms that are potentially generalizable to other therapeutic mAbs. Clinicaltrials.gov: NCT01968954, NCT01968967, NCT01968980, NCT01975376, NCT01975389, NCT02100514.
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- 2022
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7. Understanding the ZIF-L to ZIF-8 transformation from fundamentals to fully costed kilogram-scale production
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Adam Deacon, Ludovic Briquet, Magdalena Malankowska, Felicity Massingberd-Mundy, Svemir Rudić, Timothy l. Hyde, Hamish Cavaye, Joaquín Coronas, Stephen Poulston, and Timothy Johnson
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Chemistry ,QD1-999 - Abstract
The metal-organic framework ZIF-8 has demonstrated promise for a wide range of applications, but its synthesis typically involves methodologies that are difficult or expensive to scale up. Here the authors show how the production of nano-ZIF-8 can be conducted at the 1kg scale in an economical manner through the intermediate phase ZIF-L.
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- 2022
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8. Dream Catcher: Reflections on the Joseph Saga
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Randy L. Hyde
- Published
- 2022
9. High-throughput screening of the ReFRAME, Pandemic Box, and COVID Box drug repurposing libraries against SARS-CoV-2 nsp15 endoribonuclease to identify small-molecule inhibitors of viral activity.
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Ryan Choi, Mowei Zhou, Roger Shek, Jesse W Wilson, Logan Tillery, Justin K Craig, Indraneel A Salukhe, Sarah E Hickson, Neeraj Kumar, Rhema M James, Garry W Buchko, Ruilian Wu, Sydney Huff, Tu-Trinh Nguyen, Brett L Hurst, Sara Cherry, Lynn K Barrett, Jennifer L Hyde, and Wesley C Van Voorhis
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Medicine ,Science - Abstract
SARS-CoV-2 has caused a global pandemic, and has taken over 1.7 million lives as of mid-December, 2020. Although great progress has been made in the development of effective countermeasures, with several pharmaceutical companies approved or poised to deliver vaccines to market, there is still an unmet need of essential antiviral drugs with therapeutic impact for the treatment of moderate-to-severe COVID-19. Towards this goal, a high-throughput assay was used to screen SARS-CoV-2 nsp15 uracil-dependent endonuclease (endoU) function against 13 thousand compounds from drug and lead repurposing compound libraries. While over 80% of initial hit compounds were pan-assay inhibitory compounds, three hits were confirmed as nsp15 endoU inhibitors in the 1-20 μM range in vitro. Furthermore, Exebryl-1, a ß-amyloid anti-aggregation molecule for Alzheimer's therapy, was shown to have antiviral activity between 10 to 66 μM, in Vero 76, Caco-2, and Calu-3 cells. Although the inhibitory concentrations determined for Exebryl-1 exceed those recommended for therapeutic intervention, our findings show great promise for further optimization of Exebryl-1 as an nsp15 endoU inhibitor and as a SARS-CoV-2 antiviral.
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- 2021
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10. Who is at risk of burnout? A cross-sectional survey of midwives in a tertiary maternity hospital in Melbourne, Australia
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Robyn P Matthews, Rebecca L Hyde, Fleur Llewelyn, Touran Shafiei, Michelle S Newton, and Della A Forster
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Cross-Sectional Studies ,Pregnancy ,Nurse Midwives ,Surveys and Questionnaires ,Maternity and Midwifery ,Australia ,Humans ,Obstetrics and Gynecology ,Female ,Hospitals, Maternity ,Midwifery ,Burnout, Professional ,Job Satisfaction - Abstract
Burnout is an occupational phenomenon with the potential to affect a person's physical and mental health, job satisfaction and quality of work. There is evidence of burnout occurring in the midwifery profession, but inadequate data on the prevalence of, and the factors associated with, burnout.Identify the prevalence of burnout in a population of midwives and explore what individual and workforce characteristics, and what occupational stressors, were associated with burnout.A cross-sectional survey of permanently employed midwives was conducted in a tertiary maternity service in Melbourne, Australia in 2017. Data collected included individual and workforce-related characteristics and occupational stressors. Burnout was explored using the Copenhagen Burnout Inventory. Univariate and multivariate analyses were conducted to ascertain associations between respondents' characteristics, stressors, and burnout levels.A total of 257/266 midwives (97%) responded. There were significant levels of exhaustion and fatigue among respondents; 68% of midwives were experiencing personal burnout, 51% work-related burnout, and 10% were experiencing client-related burnout. Being aged ≤ 35 years, and/or having inadequate support was associated with personal and work-related burnout. Having inadequate acknowledgement was associated with client-related burnout.Health services need to understand the risk factors for burnout among midwives, identify and support groups that are most vulnerable, and address areas that are amenable to intervention. In our context this means ensuring midwives receive adequate acknowledgement and support, particularly younger midwives. These findings need to be tested in other settings to help inform a broader understanding and ensure the sustainability of the midwifery profession.
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- 2022
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11. Regulation of coronavirus nsp15 cleavage specificity by RNA structure
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Indranil Salukhe, Ryan Choi, Wesley Van Voorhis, Lynn Barrett, and Jennifer L. Hyde
- Abstract
SARS-CoV-2, the etiologic agent of the COVID-19 pandemic, has had an enduring impact on global public health. However, SARS-CoV-2 is only one of multiple pathogenic human coronaviruses (CoVs) to have emerged since the turn of the century. CoVs encode for several nonstructural proteins (NSPS) that are essential for viral replication and pathogenesis. Among them is nsp15, a uridine-specific viral endonuclease that is important in evading the host immune response and promoting viral replication. Despite the established function of nsp15 as a uridine-specific endonuclease, little is known about other determinants of its cleavage specificity. In this study we investigate the role of RNA secondary structure in SARS-CoV-2 nsp15 endonuclease activity.Using a series ofin vitroendonuclease assays, we observed that thermodynamically stable RNA structures were protected from nsp15 cleavage relative to RNAs lacking stable structure. We leveraged the s2m RNA from the SARS 3’UTR as a model for our structural studies as it adopts a well-defined structure with several uridines, two of which are unpaired and thus high probably targets for nsp15 cleavage. We found that SARS-CoV-2 nsp15 specifically cleaves s2m at the unpaired uridine within the GNRNA pentaloop of the RNA. Further investigation revealed that the position of uridine within the pentaloop also impacted nsp15 cleavage efficiency, suggesting that positioning within the pentaloop is necessary for optimal presentation of the scissile uridine and alignment within the nsp15 catalytic pocket. Our findings indicate that RNA secondary structure is an important determinant of nsp15 cleavage and provides insight into the molecular mechanisms of recognition of RNA by nsp15.
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- 2023
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12. Norovirus NS3 protein induces apoptosis through translation repression and dysregulation of BCL-2 pro-survival proteins
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Turgut E Aktepe, Joshua M Deerain, Jennifer L. Hyde, Svenja Fritzlar, Jaclyn Pearson, Peter A. White, and Jason M. Mackenzie
- Abstract
Norovirus infection is characterised by a rapid onset of disease and the development of debilitating symptoms including projectile vomiting and diffuse diarrhoea. Vaccines and antivirals are sorely lacking and developments in these areas are hampered by the lack of an adequate cell culture system to investigate human norovirus replication and pathogenesis. Herein, we describe how the model norovirus, Mouse norovirus (MNV), produces a viral protein, NS3, with the functional capacity to attenuate host protein translation which invokes the activation cell death via apoptosis. We show that this function of NS3 is conserved between human and mouse viruses and map the protein domain attributable to this function. Our study highlights a critical viral protein that mediates crucial activities during replication, potentially identifying NS3 as a worthy target for antiviral drug development.
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- 2023
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13. Review of the Online One Welfare Portal: Shared Curriculum Resources for Veterinary Undergraduate Learning and Teaching in Animal Welfare and Ethics
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Paul D. McGreevy, Anne Fawcett, Jane Johnson, Rafael Freire, Teresa Collins, Chris Degeling, Andrew D. Fisher, Susan J. Hazel, Jennifer Hood, Janice K. F. Lloyd, Clive J. C. Phillips, Kevin Stafford, Michelle L. Hyde, Bethany Wilson, and Vicky Tzioumis
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animal ethics ,animal welfare ,veterinary medicine ,online curriculum resources ,learning and teaching ,One Welfare ,Veterinary medicine ,SF600-1100 ,Zoology ,QL1-991 - Abstract
This article introduces the online One Welfare learning and teaching portal (OWP) and describes its development, use, importance and relevance to animal welfare and ethics (AWE) stakeholders. As animal welfare issues increase in importance, veterinarians must be trained to lead the science that underpins AWE discourses. The OWP is a collection of resources designed to engage and challenge veterinary science students as they become advocates for animals. It was developed collaboratively by all eight veterinary schools in Australia and New Zealand, and funded by the Australian Government Office for Learning and Teaching. Surveys to investigate the attitudes of students and educators to AWE issues in six context-specific themes based on the Australian Animal Welfare Strategy (AAWS) (companion animals; animals used in research and teaching; livestock/production animals; animals used for sport, recreation or display; animals in the wild and aquatic animals) were administered through all participating schools. Students assigned more importance to Day One competence in knowledge of welfare concepts than did educators for the following groups: production animals, companion animals, animals in the wild, aquatic animals, animals used in research and teaching, and animals used for sport, recreation or display (all p < 0.01). Agreement between educators and students was closer regarding the importance of Day One competence for euthanasia for all six context-specific themes (p < 0.01–0.03). Students assigned more importance than educators to social, economic and cultural drivers of welfare outcomes in production animals (p < 0.01); slaughter and preslaughter inspections in production animals (p < 0.01); animal abuse and hoarding in companion animals (p < 0.01); shelter medicine in companion animals (p < 0.01); disaster preparedness in wildlife animals (p < 0.01); pain and distress caused by fishing in aquatic animals (p < 0.01); conscientious objection related to animals held for research and teaching (p < 0.01); behaviour, selection and training of animals used for sport, recreation and display (p = 0.046) and educating the public around sporting animal welfare (p < 0.01). Agreement between educators and students was closer for strategies to address painful husbandryprocedures in production animals (p = 0.03); behaviour and training of companion animals (p = 0.03); veterinarians’ duties to wild animals in wildlife (p = 0.02); the 3Rs in animals held for research and teaching (p = 0.03) and ownership responsibility in sporting animals (p = 0.01). This report discusses the reasons for differences among students and educators as they approach these issues. The portal is expected to gather more content as veterinary schools in other countries use its resources and users submit scenarios and discussion topics that reflect local needs.
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- 2020
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14. Does Music Training Improve Inhibition Control in Children? A Systematic Review and Meta-Analysis
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Kevin Jamey, Nicholas E. V. Foster, Krista L. Hyde, and Simone Dalla Bella
- Abstract
Inhibition control is an essential executive function and the cornerstone of important skills during children’s development, like self-regulation and the development of social and language abilities. Better inhibition control is associated with higher academic achievement (e.g., reasoning skills, mathematics, and science). Music training requires inhibition control when learning new motor skills of an instrument, synchronized group training, monitoring performance, and auditory stream prioritization. This meta-analysis examined for the first time whether music-based training improves inhibition control in children. A rigorous search of the literature from 1980 to 2022 yielded 2182 records (N = 1528). Twenty studies had longitudinal designs, of which eight were randomized-clinical trials (RCTs) with an active control condition. Inhibition control measures included the flanker, go/no-go, and Stroop tests or similar preschool adaptations. A random-effects meta-analysis of these studies showed a moderate-to-large effect size for improvement in inhibition control after music training compared to control programs in the eight RCTs (SMD= 0.63,CI= 0.41 to 0.85,p< .0001). The full set of twenty longitudinal studies that included quasi-experimental designs and passive control groups showed a small-to-moderate effect size (SMD= 0.36,CI= 0.21 to 0.50,p< .0001). These findings highlight that music training, probably owing to its time-bound multisensory and multimodal demands fostering brain plasticity, plays a privileged role in improving executive functioning in children, especially inhibition control. We recommend further validation of music training to complement education and as a therapeutic tool for clinical populations with inhibition control difficulties (e.g., Autism, ADHD).Public Significance StatementThis meta-analysis is the first to show that music training in children specifically improves inhibition control, a critical executive function for self-regulation. Children generally enjoy music training, a complex multimodal activity that engages cognitive and speech abilities. Our results demonstrate that music training is an effective approach for strengthening cognition and highlight its potential to complement the rehabilitation of certain clinical disorders that involve inhibition control deficits. This review also identifies some limitations of current research and provides recommendations for future work.
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- 2023
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15. Imaging Brain Development: Benefiting from Individual Variability
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Megha Sharda, Nicholas E.V. Foster, and Krista L. Hyde
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Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Published
- 2015
16. Schooling in the Antebellum South: The Rise of Public and Private Education in Louisiana, Mississippi, and Alabama
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Sarah L. Hyde
- Published
- 2016
17. Mark Boonshoft. Aristocratic Education and the Making of the American Republic
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Sarah L. Hyde
- Subjects
Archeology ,History ,Museology - Published
- 2022
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18. Host specific sensing of coronaviruses and picornaviruses by the CARD8 inflammasome
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Brian V. Tsu, Rimjhim Agarwal, Nandan S. Gokhale, Jessie Kulsuptrakul, Andrew P. Ryan, Lennice K. Castro, Christopher M. Beierschmitt, Elizabeth A. Turcotte, Elizabeth J. Fay, Russell E. Vance, Jennifer L. Hyde, Ram Savan, Patrick S. Mitchell, and Matthew D. Daugherty
- Abstract
Hosts have evolved diverse strategies to respond to microbial infections, including the detection of pathogen-encoded proteases by inflammasome-forming sensors such as NLRP1 and CARD8. Here, we find that the 3CL protease (3CLpro) encoded by diverse coronaviruses, including SARS-CoV-2, cleaves a rapidly evolving region of human CARD8 and activates a robust inflammasome response. CARD8 is required for cell death and the release of pro-inflammatory cytokines during SARS-CoV-2 infection. We further find that natural variation alters CARD8 sensing of 3CLpro, including 3CLpro-mediated antagonism rather than activation of megabat CARD8. Likewise, we find that a single nucleotide polymorphism (SNP) in humans reduces CARD8’s ability to sense coronavirus 3CLpros, and instead enables sensing of 3C proteases (3Cpro) from select picornaviruses. Our findings demonstrate that CARD8 is a broad sensor of viral protease activities and suggests that CARD8 diversity contributes to inter- and intra-species variation in inflammasome-mediated viral sensing and immunopathology.
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- 2022
- Full Text
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19. Antitumor Necrosis Factor-like Ligand 1A Therapy Targets Tissue Inflammation and Fibrosis Pathways and Reduces Gut Pathobionts in Ulcerative Colitis
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Xingpeng Li, Mary Lynn Baniecki, Maria Kłopocka, Uwe Schoenbeck, Christopher Lepsy, Zhan Ye, Craig L. Hyde, Michael S. Vincent, Ellen Scherl, Randy S. Longman, Mina Hassan-Zahraee, Srividya Neelakantan, Silvio Danese, Deepa E. Chandra, Jessica R. Allegretti, Jie Quan, Fridrik Karlsson, Nancy Raha, Jacek Romatowski, Li Xi, Kenneth E. Hung, Daniel Ziemek, and Jenny Zhang
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Inflammation ,Proteomics ,Tumor Necrosis Factor Ligand Superfamily Member 15 ,business.industry ,T cell ,Gastroenterology ,Ligands ,medicine.disease ,Fibrosis ,Inflammatory bowel disease ,Ulcerative colitis ,Necrosis ,Immune system ,medicine.anatomical_structure ,Immunology ,medicine ,Humans ,Immunology and Allergy ,T helper 17 cell ,Macrophage ,Colitis, Ulcerative ,Tumor necrosis factor alpha ,business - Abstract
Background The first-in-class treatment PF-06480605 targets the tumor necrosis factor-like ligand 1A (TL1A) molecule in humans. Results from the phase 2a TUSCANY trial highlighted the safety and efficacy of PF-06480605 in ulcerative colitis. Preclinical and in vitro models have identified a role for TL1A in both innate and adaptive immune responses, but the mechanisms underlying the efficacy of anti-TL1A treatment in inflammatory bowel disease (IBD) are not known. Methods Here, we provide analysis of tissue transcriptomic, peripheral blood proteomic, and fecal metagenomic data from the recently completed phase 2a TUSCANY trial and demonstrate endoscopic improvement post-treatment with PF-06480605 in participants with ulcerative colitis. Results Our results revealed robust TL1A target engagement in colonic tissue and a distinct colonic transcriptional response reflecting a reduction in inflammatory T helper 17 cell, macrophage, and fibrosis pathways in patients with endoscopic improvement. Proteomic analysis of peripheral blood revealed a corresponding decrease in inflammatory T-cell cytokines. Finally, microbiome analysis showed significant changes in IBD-associated pathobionts, Streptococcus salivarius, S. parasanguinis, and Haemophilus parainfluenzae post-therapy. Conclusions The ability of PF-06480605 to engage and inhibit colonic TL1A, targeting inflammatory T cell and fibrosis pathways, provides the first-in-human mechanistic data to guide anti-TL1A therapy for the treatment of IBD.
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- 2021
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20. Joint engagement and movement: Active ingredients of a music-based intervention with school-age children with autism
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Cynthia Di Francesco, Melanie Custo-Blanch, Aparna Nadig, Nida Latif, Krista L. Hyde, and Megha Sharda
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Male ,Movement ,Psychological intervention ,Coding (therapy) ,Physical Therapy, Sports Therapy and Rehabilitation ,Musical instrument ,behavioral disciplines and activities ,Motion (physics) ,Developmental psychology ,03 medical and health sciences ,0302 clinical medicine ,Intervention (counseling) ,medicine ,Humans ,0501 psychology and cognitive sciences ,Autistic Disorder ,Child ,Students ,Music Therapy ,Schools ,Movement (music) ,05 social sciences ,Rehabilitation ,Reproducibility of Results ,Professional-Patient Relations ,medicine.disease ,humanities ,Isolation (psychology) ,Autism ,Female ,Neurology (clinical) ,Psychology ,human activities ,Music ,030217 neurology & neurosurgery ,050104 developmental & child psychology - Abstract
BACKGROUND: The effectiveness of music-based interventions (MI) in autism has been attested for decades. Yet, there has been little empirical investigation of the active ingredients, or processes involved in music-based interventions that differentiate them from other approaches. OBJECTIVES: Here, we examined whether two processes, joint engagement and movement, which have previously been studied in isolation, contribute as important active ingredients for the efficacy of music-based interventions. METHODS: In two separate analyses, we investigated whether (1) joint engagement with the therapist, measured using a coding scheme verified for reliability, and (2) movement elicited by music-making, measured using a computer-vision technique for quantifying motion, may drive the benefits previously observed in response to MI (but not a controlled non-MI) in children with autism. RESULTS: Compared to a non-music control intervention, children and the therapist in MI spent more time in triadic engagement (between child, therapist, and activity) and produced greater movement, with amplitude of motion closely linked to the type of musical instrument. CONCLUSIONS: Taken together, these findings provide initial evidence of the active ingredients of music-based interventions in autism.
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- 2021
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21. Sensitivity Analysis on Dependencies in Dynamic Availability Models for Large Systems.
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Meng-Lai Yin, Craig L. Hyde, and Rafael R. Arellano
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- 2000
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22. Evaluating the Sensitivity and Specificity of Promising Circulating Biomarkers to Diagnose Liver Injury in Humans
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Craig L. Hyde, Gerd A. Kullak-Ublick, James W. Dear, Seda Arat, Vishal S. Vaidya, Jianying Wang, Guruprasad P. Aithal, Roscoe L. Warner, Heather P. Llewellyn, Shashi K. Ramaiah, Kent J. Johnson, David Potter, Katherine Masek-Hammerman, Zhenyu Wang, Matthew Martin, Qing Zong, Qinghai Peng, University of Zurich, and Vaidya, Vishal S
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0301 basic medicine ,medicine.medical_specialty ,acetaminophen overdose ,610 Medicine & health ,Toxicology ,Gastroenterology ,03 medical and health sciences ,0302 clinical medicine ,Internal medicine ,medicine ,Animals ,Humans ,Osteopontin ,Acetaminophen ,Liver injury ,Gastrointestinal tract ,Kidney ,biology ,business.industry ,3005 Toxicology ,Alanine Transaminase ,medicine.disease ,Rats ,3. Good health ,MicroRNAs ,030104 developmental biology ,medicine.anatomical_structure ,Liver ,keratin-18, microRNA, glutamate dehydrogenase, diagnosis, liver ,10199 Clinic for Clinical Pharmacology and Toxicology ,Cohort ,biology.protein ,Biomarker (medicine) ,030211 gastroenterology & hepatology ,Chemical and Drug Induced Liver Injury ,business ,Biomarkers ,medicine.drug - Abstract
Early diagnosis of drug-induced liver injury (DILI) continues to be a major hurdle during drug development and postmarketing. The objective of this study was to evaluate the diagnostic performance of promising biomarkers of liver injury—glutamate dehydrogenase (GLDH), cytokeratin-18 (K18), caspase-cleaved K18 (ccK18), osteopontin (OPN), macrophage colony-stimulating factor (MCSF), MCSF receptor (MCSFR), and microRNA-122 (miR-122) in comparison to the traditional biomarker alanine aminotransferase (ALT). Biomarkers were evaluated individually and as a multivariate model in a cohort of acetaminophen overdose (n = 175) subjects and were further tested in cohorts of healthy adults (n = 135), patients with liver damage from various causes (n = 104), and patients with damage to the muscle (n = 74), kidney (n = 40), gastrointestinal tract (n = 37), and pancreas (n = 34). In the acetaminophen cohort, a multivariate model with GLDH, K18, and miR-122 was able to detect DILI more accurately than individual biomarkers alone. Furthermore, the three-biomarker model could accurately predict patients with liver injury compared with healthy volunteers or patients with damage to muscle, pancreas, gastrointestinal tract, and kidney. Expression of K18, GLDH, and miR-122 was evaluated using a database of transcriptomic profiles across multiple tissues/organs in humans and rats. K18 mRNA (Krt18) and MiR-122 were highly expressed in liver whereas GLDH mRNA (Glud1) was widely expressed. We performed a comprehensive, comparative performance assessment of 7 promising biomarkers and demonstrated that a 3-biomarker multivariate model can accurately detect liver injury.
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- 2021
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23. Enhanced Memory for Vocal Melodies in Autism Spectrum Disorder and Williams Syndrome
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Megha Sharda, Michael W. Weiss, Miriam D. Lense, Krista L. Hyde, and Sandra E. Trehub
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Adult ,Williams Syndrome ,Melody ,medicine.medical_specialty ,Adolescent ,Autism Spectrum Disorder ,Context (language use) ,Audiology ,03 medical and health sciences ,0302 clinical medicine ,medicine ,Humans ,0501 psychology and cognitive sciences ,Child ,Genetics (clinical) ,Mental age ,General Neuroscience ,05 social sciences ,medicine.disease ,Lyrics ,Social relation ,Autism spectrum disorder ,Auditory Perception ,Voice ,Autism ,Neurology (clinical) ,Williams syndrome ,Psychology ,Music ,030217 neurology & neurosurgery ,050104 developmental & child psychology - Abstract
Adults and children with typical development (TD) remember vocal melodies (without lyrics) better than instrumental melodies, which is attributed to the biological and social significance of human vocalizations. Here we asked whether children with autism spectrum disorder (ASD), who have persistent difficulties with communication and social interaction, and adolescents and adults with Williams syndrome (WS), who are highly sociable, even indiscriminately friendly, exhibit a memory advantage for vocal melodies like that observed in individuals with TD. We tested 26 children with ASD, 26 adolescents and adults with WS of similar mental age, and 26 children with TD on their memory for vocal and instrumental (piano, marimba) melodies. After exposing them to 12 unfamiliar folk melodies with different timbres, we required them to indicate whether each of 24 melodies (half heard previously) was old (heard before) or new (not heard before) during an unexpected recognition test. Although the groups successfully distinguished the old from the new melodies, they differed in overall memory. Nevertheless, they exhibited a comparable advantage for vocal melodies. In short, individuals with ASD and WS show enhanced processing of socially significant auditory signals in the context of music. LAY SUMMARY: Typically developing children and adults remember vocal melodies better than instrumental melodies. In this study, we found that children with Autistic Spectrum Disorder, who have severe social processing deficits, and children and adults with Williams syndrome, who are highly sociable, exhibit comparable memory advantages for vocal melodies. The results have implications for musical interventions with these populations.
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- 2021
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24. Unisensory and multisensory temporal processing in autism and dyslexia: A systematic review and meta-analysis
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Krista L. Hyde, Alexa Meilleur, Nicholas E.V. Foster, Simona Maria Brambati, and Sarah-Maude Coll
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medicine.medical_specialty ,Autism Spectrum Disorder ,Cognitive Neuroscience ,Theoretical models ,Audiology ,behavioral disciplines and activities ,Dyslexia ,03 medical and health sciences ,Behavioral Neuroscience ,0302 clinical medicine ,mental disorders ,medicine ,Humans ,0501 psychology and cognitive sciences ,050102 behavioral science & comparative psychology ,Autistic Disorder ,05 social sciences ,medicine.disease ,Neuropsychology and Physiological Psychology ,Autism spectrum disorder ,Meta-analysis ,Time Perception ,Auditory Perception ,Visual Perception ,Developmental dyslexia ,Autism ,Psychology ,Tactile processing ,030217 neurology & neurosurgery - Abstract
This study presents a comprehensive systematic review and meta-analysis of temporal processing in autism spectrum disorder (ASD) and developmental dyslexia (DD), two neurodevelopmental disorders in which temporal processing deficits have been highly researched. The results provide strong evidence for impairments in temporal processing in both ASD (g = 0.48) and DD (g = 0.82), as measured by judgments of temporal order and simultaneity. In individual analyses, multisensory temporal processing was impaired for both ASD and DD, and unisensory auditory, visual and tactile processing were all impaired in DD. In ASD, speech stimuli showed moderate impairment effect sizes, whereas nonspeech stimuli showed small effects. Greater reading and spelling skills in DD were associated with greater temporal precision. Temporal deficits did not show changes with age in either disorder. In addition to more clearly defining temporal impairments in ASD and DD, the results highlight common and distinct patterns of temporal processing between these disorders. Deficits are discussed in relation to existing theoretical models, and recommendations are made for future research.
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- 2020
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25. Enhanced liver fibrosis test for the non-invasive diagnosis of fibrosis in patients with NAFLD: A systematic review and meta-analysis
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Kevin L. Duffin, Patrick M.M. Bossuyt, Diana Julie Leeming, Jürgen Löffler, Ann K. Daly, Yasaman Vali, Koos H. Zwinderman, René Spijker, Detlef Schuppan, Pablo Ortiz, Guido Hanauer, Tim Bauer, Mohammad Hadi Zafarmand, Yu Chen, Jérôme Boursier, Matej Orešič, Craig L. Hyde, Peter Nissen Bjerring, Zsolt Böcskei, Christina Levick, Michael Pavlides, Pierre Bedossa, Joanne Verheij, M. Julia Brosnan, Jenny Lee, Quentin M. Anstee, Rémy Hanf, Elizabeth Shumbayawonda, University of Denver, Centre Hospitalier Universitaire d'Angers (CHU Angers), PRES Université Nantes Angers Le Mans (UNAM), Julius Center for Health Sciences and Primary Care, University Medical Center [Utrecht], University Hospital of Würzburg, VU University Medical Center [Amsterdam], SANOFI Recherche, Newcastle University [Newcastle], University of Amsterdam [Amsterdam] (UvA), Epidemiology and Data Science, Graduate School, APH - Methodology, Pathology, APH - Personalized Medicine, APH - Aging & Later Life, ARD - Amsterdam Reproduction and Development, and ACS - Atherosclerosis & ischemic syndromes
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Liver Cirrhosis ,0301 basic medicine ,medicine.medical_specialty ,Biopsy ,[SDV]Life Sciences [q-bio] ,Enhanced liver fibrosis test ,Cochrane Library ,Gastroenterology ,03 medical and health sciences ,0302 clinical medicine ,Predictive Value of Tests ,Fibrosis ,Internal medicine ,medicine ,Humans ,Blood test ,Hyaluronic Acid ,ComputingMilieux_MISCELLANEOUS ,Non-alcoholic steatohepatitis ,Tissue Inhibitor of Metalloproteinase-1 ,Hepatology ,medicine.diagnostic_test ,business.industry ,Fatty liver ,Biomarker ,Reference Standards ,medicine.disease ,Peptide Fragments ,3. Good health ,Meta-analysis ,030104 developmental biology ,Liver ,Liver biopsy ,Disease Progression ,Biomarker (medicine) ,030211 gastroenterology & hepatology ,business ,Algorithms ,Biomarkers ,Procollagen ,Non-alcoholic fatty liver disease - Abstract
BACKGROUND & AIMS:The enhanced liver fibrosis (ELF) test has been proposed for the non-invasive assessment of advanced fibrosis in patients with non-alcoholic fatty liver disease (NAFLD). We performed a systematic review to estimate the accuracy of this test against biopsy. METHODS:In this systematic review, we searched MEDLINE, Embase, Web of Science and the Cochrane Library for studies that included patients with NAFLD and that used both liver biopsy (as the reference standard) and the ELF test. Two authors independently screened the references, extracted the data and assessed the quality of included studies. Due to the variation in reported thresholds, we used a multiple thresholds random effects model for meta-analysis (diagmeta R-package). RESULTS:The meta-analysis of 11 studies reporting advanced fibrosis and 5 studies reporting significant fibrosis showed that the ELF test had a sensitivity of >0.90 for excluding fibrosis at a threshold of 7.7. However, as a diagnostic test at high thresholds, the test only achieved specificity and positive predictive value >0.80 in very high prevalence settings (>50%). To achieve a specificity of 0.90 for advanced and significant fibrosis, thresholds of 10.18 (sensitivity: 0.57) and 9.86 (sensitivity: 0.55) were required, respectively. CONCLUSION:The ELF test showed high sensitivity but limited specificity to exclude advanced and significant fibrosis at low cut-offs. The diagnostic performance of the test at higher thresholds was found to be more limited in low-prevalence settings. We conclude that clinicians should carefully consider the likely disease prevalence in their practice setting and adopt suitable test thresholds to achieve the desired performance. LAY SUMMARY:The enhanced liver fibrosis test has been suggested as a non-invasive blood test to aid the diagnosis of severe liver fibrosis in patients with non-alcoholic fatty liver disease (NAFLD). Our study results showed that the test has a high negative predictive value, especially in populations with low disease prevalence (likely encountered in primary care); so, it can exclude advanced fibrosis in patients with NAFLD. However, when prevalence is low, the positive predictive value of the enhanced liver fibrosis test is low, suggesting that additional strategies may be needed to make a positive diagnosis in such settings.
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- 2020
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26. High Performance Distributed Objects Using Distributed Shared Memory and Remote Method Invocation.
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Brett D. Fleisch and Randall L. Hyde
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- 1998
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27. Degenerate Sharing.
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Randall L. Hyde and Brett D. Fleisch
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- 1994
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28. Sequence diversity in the 3’ untranslated region of alphavirus modulates IFIT2-dependent restriction in a cell type-dependent manner
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Sarah E. Hickson, Eden Brekke, Johannes Schwerk, Indraneel Saluhke, Shivam Zaver, Joshua Woodward, Ram Savan, and Jennifer L. Hyde
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viruses - Abstract
Alphaviruses (family Togaviridae) are a diverse group of positive-sense RNA (+ssRNA) viruses that are transmitted by arthropods and are the causative agent of several significant human and veterinary diseases. Interferon (IFN)-induced proteins with tetratricopeptide repeats (IFITs) are a family of RNA-binding IFN stimulated genes (ISGs) that are highly upregulated following viral infection, and have been identified as potential restrictors of alphaviruses. The mechanism by which IFIT1 restricts RNA viruses is dependent on self and non-self-discrimination of RNA, and alphaviruses evade this recognition via their 5’UTR. However, the role of IFIT2 during alphavirus replication and the mechanism of viral replication inhibition is unclear. In this study, we identify IFIT2 as a restriction factor for Venezuelan equine encephalitis virus (VEEV) and show that IFIT2 binds the 3’ untranslated region (3’UTR) of the virus. We investigated the potential role of variability in the 3’UTR of the virus affecting IFIT2 antiviral activity by studying infection with VEEV. Comparison of recombinant VEEV clones containing 3’UTR sequences derived from epizootic and enzootic isolates exhibited differential sensitivity to IFIT2 restriction in vitro infection studies, suggesting that the alphavirus 3’UTR sequence may function in part to evade IFIT2 restriction. In vitro binding assays demonstrate that IFIT2 binds to the VEEV 3’UTR, however in contrast to previous studies VEEV restriction did not appear to be dependent on the ability of IFIT2 to inhibit translation of viral RNA, suggesting a novel mechanism of IFIT2 restriction. Our study demonstrates that IFIT2 is a restriction factor for alphaviruses and variability in the 3’UTR of VEEV can modulate viral restriction by IFIT2. Ongoing studies are exploring the biological consequences of IFIT2-VEEV RNA interaction in viral pathogenesis and defining sequence and structural features of RNAs that regulate IFIT2 recognition.
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- 2021
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29. High-density genotyping and functional SNP localization in the CETP genes⃞
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John F. Thompson, Linda S. Wood, Eve H. Pickering, Bryan DeChairo, and Craig L. Hyde
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genetics ,high density lipoprotein ,single nucleotide polymorphism ,cholesteryl ester transfer protein ,Biochemistry ,QD415-436 - Abstract
The cholesteryl ester transfer protein gene (CETP) has been the subject of hundreds of genetic analyses that typically focus on a small number of polymorphisms within a single ethnic group. Furthermore, the extent of DNA beyond the transcribed sequence from which single nucleotide polymorphisms (SNPs) may influence CETP expression has not been well defined. To better understand the role of natural variation in modulating CETP and high density lipoprotein-cholesterol (HDL-C) levels, dense genotyping of CETP and regions up to 15 kb on either side of the gene was carried out on >2,000 individuals. A complex, nonlinear set of linkage disequilibrium bins was found, with many bins interspersed along the DNA sequence and spread over large regions of the gene. Bins assigned based on large numbers of individuals matched the small subset of SNPs that had been assigned to bins previously with a small number of individuals. Associations of known functional SNPs with HDL-C were found, but there were suggestions that there are additional functional SNPs not characterized previously. Narrowing of the set of likely functional SNPs was accomplished by comparing associations observed in different ethnic groups. The promoter SNP most highly associated with HDL-C that is likely to be functional, position −4,502, alters a consensus transcription factor binding site.
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- 2007
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30. Integrating Audio and Telephony in a Distributed Workstation Environment.
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Susan Angebranndt, Richard L. Hyde, Daphne Huetu Loung, Nagendra Siravara, and Chris Schmandt
- Published
- 1991
31. The genomics of heart failure: design and rationale of the HERMES consortium
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Svati H. Shah, Olle Melander, Neneh Sallah, Quinn S. Wells, Jerome I. Rotter, Faye Zhao, Charlotte Andersson, Guðmundur Thorgeirsson, Ghazaleh Fatemifar, Alex S. F. Doney, Michael E. Dunn, David E. Lanfear, Ian Ford, Eric Boersma, Sonia Shah, Christopher Newton-Cheh, Douglas L. Mann, Niek Verweij, Carolina Roselli, Laura M. Yerges-Armstrong, Jian Yang, Christian Torp-Pedersen, Veikko Salomaa, Mary L. Biggs, Alaa Shalaby, Christoph Nowak, Stefan Gross, Patrick T. Ellinor, Mari Liis Tammesoo, Diane T. Smelser, Peter M. Visscher, Hans L. Hillege, Ruth C. Lovering, Honghuang Lin, Colin N. A. Palmer, Louis Philippe Lemieux Perreault, Jeffrey Brandimarto, Uwe Völker, Perttu Salo, Andrea Koekemoer, Rebecca Gutmann, Åsa K. Hedman, Nilesh J. Samani, Heming Xing, Faiez Zannad, Jaison Jacob, Harry Hemingway, Michael R. Brown, Franco Giulianini, Anubha Mahajan, Xing Chen, Alexander Niessner, Peter Almgren, Daniel I. Swerdlow, Gunnar Engström, Lars Lind, Tõnu Esko, Tomasz Czuba, Anna Helgadottir, Harvey D. White, David J. Stott, Johan Ärnlöv, Lars Køber, Chim C. Lang, Krishna G. Aragam, Kent D. Taylor, Anders Mälarstig, Frederick K. Kamanu, Kenneth B. Margulies, Michelle L. O'Donoghue, Andrew D. Morris, Sahar Ghasemi, J. Wouter Jukema, Jessica van Setten, Abbas Dehghan, Guillaume Paré, Luca A. Lotta, Giorgio E. M. Melloni, Albert Henry, Bruce M. Psaty, Paul M. Ridker, David J. Carey, Marie-Pierre Dubé, John S. Gottdiener, Xiaosong Wang, Per H. Svensson, Xu Chen, Patrik K. E. Magnusson, Claudia Langenberg, Alexander Teumer, Vilmantas Giedraitis, Simon de Denus, Michael W. Nagle, Marcus Dörr, Thomas P. Cappola, André G. Uitterlinden, Michael Morley, Eliana Portilla-Fernandez, J. Gustav Smith, Abirami Veluchamy, Peter Weeke, Ify R. Mordi, Unnur Thorsteinsdottir, Naveed Sattar, Folkert W. Asselbergs, Daniel I. Chasman, Daníel F. Guðbjartsson, Jonathan H. Chung, Marcus E. Kleber, Raul Weiss, Christopher P. Nelson, Spiros Denaxas, Bing Yu, Simon P. R. Romaine, Nicholas A Marston, Anjali T. Owens, Cecilia M. Lindgren, John J.V. McMurray, Joshua D. Backman, Michael V. Holmes, Stella Trompet, Hilma Holm, Kerri L. Wiggins, Jian'an Luan, Stephan B. Felix, Yifan Yang, Jemma B. Wilk, Maryam Kavousi, Markus Perola, Christian T. Ruff, Jean-Claude Tardif, G Sveinbjörnsson, Samuel C. Dudley, Nicholas J. Wareham, Teemu J. Niiranen, Andrew P. Morris, Danny Tuckwell, Maris Teder-Laving, R. Thomas Lumbers, James P. Cook, Géraldine Asselin, William A. Chutkow, Winfried März, Steven A. Lubitz, John G.F. Cleland, Bill Kraus, Ramachandran S. Vasan, Christopher M. Haggerty, Olympe Chazara, Chris Finan, Heather L. Bloom, Hans-Peter Brunner-La Rocca, Francoise Fougerousse, Kenneth Rice, Craig L. Hyde, Graciela E. Delgado, Mark Chaffin, Marc S. Sabatine, Alanna C. Morrison, Kay-Tee Khaw, Kari Stefansson, Felix Vaura, Barry London, Isabella Kardys, Aroon D. Hingorani, Hongsheng Gui, Steen Stender, René Fouodjio, Mohsen Ghanbari, Pim van der Harst, Nicholas L. Smith, Karoline Kuchenbaecker, Adriaan A. Voors, Benoit Tyl, University College of London [London] (UCL), University College London Hospitals (UCLH), Boston University School of Medicine (BUSM), Boston University [Boston] (BU), Lund University [Lund], Pfizer, Karolinska Institutet [Stockholm], Broad Institute of MIT and Harvard (BROAD INSTITUTE), Harvard Medical School [Boston] (HMS)-Massachusetts Institute of Technology (MIT)-Massachusetts General Hospital [Boston], University of Groningen [Groningen], University of Oxford [Oxford], Dalarna University, Massachusetts General Hospital [Boston], Montreal Heart Institute - Institut de Cardiologie de Montréal, Regeneron Genetics Center, 777 Old Saw Mill River Road, Tarrytown, University of Washington [Seattle], Emory University [Atlanta, GA], Erasmus University Medical Center [Rotterdam] (Erasmus MC), University of Pennsylvania [Philadelphia], The University of Texas Health Science Center at Houston (UTHealth), Maastricht University Medical Centre (MUMC), Maastricht University [Maastricht], Department of Molecular and Functional Genomics, Geisinger, Danville, PA, Brigham & Women’s Hospital [Boston] (BWH), Harvard Medical School [Boston] (HMS), AstraZeneca, Novartis Institutes for BioMedical Research (NIBR), University of Glasgow, University of Liverpool, Université de Montréal (UdeM), Imperial College London, University of Heidelberg, Medical Faculty, University of Dundee, Universität Greifswald - University of Greifswald, University of Minnesota Medical School, University of Minnesota System, German Center for Cardiovascular Research (DZHK), Berlin Institute of Health (BIH), Institut de Recherches Internationales Servier [Suresnes] (IRIS), Uppsala University, University of Maryland School of Medicine, University of Maryland System, University of Iceland [Reykjavik], deCODE genetics [Reykjavik], Henry Ford Hospital, Carver College of Medicine, University of Iowa, Geisinger Autism & Developmental Medicine Institute [Danville, PA, USA] (ADMI), ICIN - Netherlands Heart Institute, Leiden University Medical Center (LUMC), Netherlands Heart Institute, Partenaires INRAE, University of Cambridge [UK] (CAM), Rigshospitalet [Copenhagen], Copenhagen University Hospital, University of Leicester, Duke University [Durham], University of Iowa [Iowa City], Genentech, Inc., Genentech, Inc. [San Francisco], Washington University School of Medicine in St. Louis, Washington University in Saint Louis (WUSTL), Skane University Hospital [Malmo], University of Edinburgh, Medizinische Universität Wien = Medical University of Vienna, University of Turku, National Institute for Health and Welfare [Helsinki], McMaster University [Hamilton, Ontario], Kaiser Permanente Washington Health Research Institute [Seattle] (KPWHRI), Harbor UCLA Medical Center [Torrance, Ca.], University Medical Center [Utrecht], University of Pittsburgh Medical Center [Pittsburgh, PA, États-Unis] (UPMC), University of Tartu, Aalborg University [Denmark] (AAU), Leiden University, University of Queensland [Brisbane], Ohio State University [Columbus] (OSU), Auckland City Hospital, GlaxoSmithKline, Glaxo Smith Kline, University of Texas Health Science Center, Cardiovascular and Renal Clinical Trialists [Vandoeuvre-les-Nancy] (INI-CRCT), Institut Lorrain du Coeur et des Vaisseaux Louis Mathieu [Nancy], French-Clinical Research Infrastructure Network - F-CRIN [Paris] (Cardiovascular & Renal Clinical Trialists - CRCT ), Défaillance Cardiovasculaire Aiguë et Chronique (DCAC), Université de Lorraine (UL)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre Hospitalier Régional Universitaire de Nancy (CHRU Nancy), Duke University Medical Center, Regeneron Pharmaceuticals [Tarrytown], Vanderbilt University [Nashville], European Project, Langenberg, Claudia [0000-0002-5017-7344], Luan, Jian'an [0000-0003-3137-6337], Wareham, Nicholas [0000-0003-1422-2993], Apollo - University of Cambridge Repository, Cardiovascular Centre (CVC), Life Course Epidemiology (LCE), Groningen Kidney Center (GKC), Cardiology, University of Oxford, University of Pennsylvania, Universiteit Leiden, Centre Hospitalier Régional Universitaire de Nancy (CHRU Nancy)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Lorraine (UL), Cardiologie, MUMC+: MA Med Staf Spec Cardiologie (9), RS: Carim - H02 Cardiomyopathy, Epidemiology, and Internal Medicine
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Male ,Study Designs ,Cardiomyopathy ,Disease ,030204 cardiovascular system & hematology ,0302 clinical medicine ,AFRICAN ANCESTRY ,Epidemiology ,80 and over ,WIDE ASSOCIATION ,EPIDEMIOLOGY ,Cardiac and Cardiovascular Systems ,AGING RESEARCH ,RISK ,Aged, 80 and over ,0303 health sciences ,Kardiologi ,Genomics ,Middle Aged ,Prognosis ,3. Good health ,Female ,Cardiology and Cardiovascular Medicine ,medicine.medical_specialty ,Heart failure ,CLASSIFICATION ,Heart Failure/genetics ,03 medical and health sciences ,[SDV.MHEP.CSC]Life Sciences [q-bio]/Human health and pathology/Cardiology and cardiovascular system ,Internal medicine ,Genetic model ,medicine ,Genetics ,Diseases of the circulatory (Cardiovascular) system ,Humans ,Allele frequency ,Genotyping ,METAANALYSIS ,030304 developmental biology ,Aged ,Association studies ,Study Design ,business.industry ,Odds ratio ,ADULTS ,COHORTS ,medicine.disease ,RC666-701 ,REPLICATION ,business ,Biomarkers ,Genome-Wide Association Study - Abstract
Aims The HERMES (HEart failure Molecular Epidemiology for Therapeutic targets) consortium aims to identify the genomic and molecular basis of heart failure.Methods and results The consortium currently includes 51 studies from 11 countries, including 68 157 heart failure cases and 949 888 controls, with data on heart failure events and prognosis. All studies collected biological samples and performed genome-wide genotyping of common genetic variants. The enrolment of subjects into participating studies ranged from 1948 to the present day, and the median follow-up following heart failure diagnosis ranged from 2 to 116 months. Forty-nine of 51 individual studies enrolled participants of both sexes; in these studies, participants with heart failure were predominantly male (34-90%). The mean age at diagnosis or ascertainment across all studies ranged from 54 to 84 years. Based on the aggregate sample, we estimated 80% power to genetic variant associations with risk of heart failure with an odds ratio of >1.10 for common variants (allele frequency > 0.05) and >1.20 for low-frequency variants (allele frequency 0.01-0.05) at P < 5 x 10(-8) under an additive genetic model.Conclusions HERMES is a global collaboration aiming to (i) identify the genetic determinants of heart failure; (ii) generate insights into the causal pathways leading to heart failure and enable genetic approaches to target prioritization; and (iii) develop genomic tools for disease stratification and risk prediction.
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- 2021
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32. P041 Tandem mass tag-based quantitative proteomic profiling identifies novel putative serum biomarkers for the diagnosis of drug-induced liver injury in patients
- Author
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Raúl J. Andrade, Zhenyu Wang, Jane I. Grove, Shashi K. Ramaiah, Alexander L. Gerbes, Camilla Stephens, Andrew Fowell, Sabine Weber, Richard Virgen-Slane, Guido Stirnimann, Edmond Atallah, Einar Bjornsson, M. Isabel Lucena, James W. Dear, Hyder Hussaini, Vishal S. Vaidya, Ravi Kodihalli, Guruprasad P. Aithal, Robert A. Everley, Joel D. Federspiel, and Craig L. Hyde
- Subjects
Liver injury ,Drug ,Serum biomarkers ,Proteomic Profiling ,business.industry ,media_common.quotation_subject ,Cancer research ,Medicine ,In patient ,Tandem mass tag ,business ,medicine.disease ,media_common - Published
- 2021
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33. Multiplex proteomics identifies novel CSF and plasma biomarkers of early Alzheimer’s disease
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Oskar Hansson, Michael W. Nagle, Julie Lee, Anders Mälarstig, Craig L. Hyde, Shorena Janelidze, Tarek A. Samad, Lori Fitz, Swetha Vijayaraghavan, Christopher D. Whelan, Erik Stomrud, Niklas Mattsson, Gayathri Ramaswamy, and Richard A. Margolin
- Subjects
Oncology ,Male ,Proteomics ,medicine.medical_specialty ,Neurology ,Amyloid beta ,Inflammation ,Apoptosis ,lcsh:RC346-429 ,Pathology and Forensic Medicine ,Cohort Studies ,Cellular and Molecular Neuroscience ,Alzheimer Disease ,Internal medicine ,medicine ,Dementia ,Humans ,ALCAM ,lcsh:Neurology. Diseases of the nervous system ,Aged ,Immunoassay ,Amyloid beta-Peptides ,biology ,business.industry ,Research ,Neurodegeneration ,Mild cognitive impairment ,Biomarker ,Middle Aged ,medicine.disease ,Blood proteins ,biology.protein ,Biomarker (medicine) ,Female ,Neurology (clinical) ,Angiogenesis ,medicine.symptom ,business ,Alzheimer’s disease - Abstract
To date, the development of disease-modifying therapies for Alzheimer’s disease (AD) has largely focused on the removal of amyloid beta Aβ fragments from the CNS. Proteomic profiling of patient fluids may help identify novel therapeutic targets and biomarkers associated with AD pathology. Here, we applied the Olink™ ProSeek immunoassay to measure 270 CSF and plasma proteins across 415 Aβ- negative cognitively normal individuals (Aβ- CN), 142 Aβ-positive CN (Aβ+ CN), 50 Aβ- mild cognitive impairment (MCI) patients, 75 Aβ+ MCI patients, and 161 Aβ+ AD patients from the Swedish BioFINDER study. A validation cohort included 59 Aβ- CN, 23 Aβ- + CN, 44 Aβ- MCI and 53 Aβ+ MCI. To compare protein concentrations in patients versus controls, we applied multiple linear regressions adjusting for age, gender, medications, smoking and mean subject-level protein concentration, and corrected findings for false discovery rate (FDR, q d q d q q
- Published
- 2019
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34. Evidence for intact melodic and rhythmic perception in children with Autism Spectrum Disorder
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Kevin Jamey, Nicholas E.V. Foster, Megha Sharda, Krista L. Hyde, Carola Tuerk, and Aparna Nadig
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Melody ,030506 rehabilitation ,medicine.medical_specialty ,Music therapy ,genetic structures ,Sensory processing ,medicine.medical_treatment ,media_common.quotation_subject ,Sensory system ,Audiology ,behavioral disciplines and activities ,03 medical and health sciences ,Rhythm ,Perception ,mental disorders ,Developmental and Educational Psychology ,medicine ,0501 psychology and cognitive sciences ,10. No inequality ,media_common ,05 social sciences ,Cognition ,medicine.disease ,humanities ,Psychiatry and Mental health ,Clinical Psychology ,Autism spectrum disorder ,0305 other medical science ,Psychology ,psychological phenomena and processes ,050104 developmental & child psychology - Abstract
Background Autism spectrum disorder (ASD) is a complex neurodevelopmental condition characterized by socio-communicative difficulties and restricted patterns of behavior. Despite these challenges, some individuals with ASD have preserved or even enhanced sensory skills, for example in the case of music. As such, music provides a key way to study sensory processing and individual differences in ASD. However, current studies of music perception in ASD have mixed results. Methods This study sought to examine music perception in terms of melodic pitch, rhythm, and memory in school-age children with ASD compared to typically-developing (TD) children. Music perception was investigated as a function of verbal and non-verbal IQ, age, and ASD social symptom severity. Results Children with ASD performed similar to TD children on melodic pitch perception, rhythm perception and melodic memory. Melodic pitch perception in particular was strongly associated with non-verbal cognitive abilities in the ASD group. Similar effects of age on performance were observed in ASD and TD; in particular, rhythm discrimination increased with age in both groups. Music perception in ASD was not associated with ASD social symptom severity. Discussion These findings provide further evidence for intact melodic and rhythmic perception in children with ASD. In addition, music perception abilities were related to non-verbal cognitive ability and age in ASD, and not with ASD social symptom severity. This research provides a better understanding of individual differences in auditory processing, helps to better define phenotypes in ASD, and can guide future studies on the effects of music therapy in ASD.
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- 2019
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35. Endomembrane targeting of human OAS1 p46 augments antiviral activity
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Michael Gale, Ram Savan, Alison M. Kell, Eileen T. McAnarney, Vineet D. Menachery, Cate Speake, Daniel B. Stetson, Saumendra N. Sarkar, Frank Soveg, Katharina Esser-Nobis, Nandan S. Gokhale, Jennifer L. Hyde, Chiraag Balu, Jane H. Buckner, Justin A Roby, Julian R. Smith, Erola Pairo-Castineira, Snehal Ozarkar, Johannes Schwerk, Karen Cerosaletti, Shivam A. Zaver, J K Baillie, Amy E. L. Stone, Tien-Ying Hsiang, Jonathan M. Clingan, Joseph Perez, Adriana Forero, Eric J. Allenspach, Joshua J. Woodward, and Uma Malhotra
- Subjects
Gene isoform ,RNA virus ,QH301-705.5 ,Science ,viruses ,Polymorphism, Single Nucleotide ,General Biochemistry, Genetics and Molecular Biology ,Cell Line ,Immunology and Inflammation ,Genome editing ,Sense (molecular biology) ,2',5'-Oligoadenylate Synthetase ,Animals ,Humans ,Endomembrane system ,Biology (General) ,innate immunity ,Gene Editing ,Innate immune system ,General Immunology and Microbiology ,biology ,SARS-CoV-2 ,General Neuroscience ,interferon stimulated genes ,RNA ,COVID-19 ,General Medicine ,biology.organism_classification ,Cell biology ,Viral replication ,Medicine ,CRISPR-Cas Systems ,Research Article ,Human - Abstract
Many host RNA sensors are positioned in the cytosol to detect viral RNA during infection. However, most positive-strand RNA viruses replicate within a modified organelle co-opted from intracellular membranes of the endomembrane system, which shields viral products from cellular innate immune sensors. Targeting innate RNA sensors to the endomembrane system may enhance their ability to sense RNA generated by viruses that use these compartments for replication. Here, we reveal that an isoform of oligoadenylate synthetase 1, OAS1 p46, is prenylated and targeted to the endomembrane system. Membrane localization of OAS1 p46 confers enhanced access to viral replication sites and results in increased antiviral activity against a subset of RNA viruses including flaviviruses, picornaviruses, and SARS-CoV-2. Finally, our human genetic analysis shows that the OAS1 splice-site SNP responsible for production of the OAS1 p46 isoform correlates with protection from severe COVID-19. This study highlights the importance of endomembrane targeting for the antiviral specificity of OAS1 and suggests that early control of SARS-CoV-2 replication through OAS1 p46 is an important determinant of COVID-19 severity.
- Published
- 2021
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36. Improving Effectiveness and Efficiency
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Susan L. Hyde and Paul J. Bagdan
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Total quality management ,Business analytics ,Computer science ,Section (archaeology) ,business.industry ,DMAIC ,Six Sigma ,Change management ,Project management ,Statistical process control ,business ,Manufacturing engineering - Abstract
This chapter covers total quality management (TQM) with respect to the Lean and Six Sigma methods used to improve the effectiveness and efficiency of hospitality operations. In the first section, TQM is discussed. In the second section, Lean and Six Sigma techniques are examined individually. Then, Lean and Six Sigma are connected with an example of a housekeeping case study that applies both methodologies. In the third section, business analytics are explored and statistical process control analysis is demonstrated using a hotel room cleanliness example. The fourth section summarizes the concepts of change management, which is critical for embracing the philosophies of TQM. Finally, project management is discussed in the fifth and last section.
- Published
- 2021
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37. An Analysis of Degenerate Sharing and False Coherence.
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Randall L. Hyde and Brett D. Fleisch
- Published
- 1996
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38. Endomembrane targeting of human OAS1 p46 augments antiviral activity
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Eric J. Allenspach, Joshua J. Woodward, Nandan S. Gokhale, Jennifer L. Hyde, Karen Cerosaletti, Joseph Perez, Snehal Ozarkar, Jonathan M. Clingan, Saumendra N. Sarkar, Michael Gale, Justin A Roby, Shivam A. Zaver, Ram Savan, Alison M. Kell, Erola Pairo-Castineira, Adriana Forero, Eileen T. McAnarney, J Kenneth Baillie, Frank Soveg, Chiraag Balu, Jane H. Buckner, Uma Malhotra, Vineet D. Menachery, Cate Speake, Tien-Ying Hsiang, Daniel B. Stetson, Katharina Esser-Nobis, Johannes Schwerk, Amy E. L. Stone, and Julian R. Smith
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Gene isoform ,Flavivirus ,Innate immune system ,Viral replication ,Picornavirus ,viruses ,Sense (molecular biology) ,RNA ,Endomembrane system ,Biology ,biology.organism_classification ,Cell biology - Abstract
SUMMARYMany host RNA sensors are positioned in the cytosol to detect viral RNA during infection. However, most positive-strand RNA viruses replicate within a modified organelle co-opted from intracellular membranes of the endomembrane system, which shields viral products from host cell innate immune sensors. Targeting innate RNA sensors to the endomembrane system may enhance their ability to sense viral RNA generated by viruses that use these compartments for replication. Here, we reveal that an isoform of oligoadenylate synthetase 1, OAS1 p46, is prenylated and targeted to the endomembrane system. Membrane localization of OAS1 p46 confers enhanced access to viral replication sites and results in increased antiviral activity against a subset of RNA viruses including flavivirus, picornavirus, and SARS-CoV-2. Finally, our human genetic analysis shows that the OAS1 splice-site SNP responsible for production of the OAS1 p46 isoform strongly associates with COVID-19 severity. This study highlights the importance of endomembrane targeting for the antiviral specificity of OAS1 and suggests early control of SARS-CoV-2 replication through OAS1-p46 is an important determinant of COVID-19 severity.
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- 2021
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39. We need to appreciate the nuances and make connections to outcomes
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Robin L Hyde
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030504 nursing ,business.industry ,Public relations ,Anxiety ,Health outcomes ,03 medical and health sciences ,0302 clinical medicine ,030220 oncology & carcinogenesis ,Humans ,Nurse Practitioners ,Sociology ,0305 other medical science ,business ,General Nursing - Abstract
Robin Hyde considers some of the anxieties around advanced practice and reflects on how to allay these
- Published
- 2021
40. Mirage+: A Kernel Implementation of Distributed Shared Memory on a Network of Personal Computers.
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Brett D. Fleisch, Randall L. Hyde, and Niels Christian Juul
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- 1994
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41. High-throughput screening of the ReFRAME, Pandemic Box, and COVID Box drug repurposing libraries against SARS-CoV-2 nsp15 endoribonuclease to identify small-molecule inhibitors of viral activity
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Sydney Huff, Ryan Choi, Mowei Zhou, Ruilian Wu, Sara Cherry, Logan Tillery, Tu-Trinh Nguyen, Roger Shek, Wesley C. Van Voorhis, Sarah E. Hickson, Lynn K. Barrett, Rhema M. James, Justin K. Craig, Garry W. Buchko, Brett L. Hurst, Jesse W. Wilson, Indraneel A. Salukhe, Jennifer L. Hyde, and Neeraj Kumar
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0301 basic medicine ,RNA viruses ,Coronaviruses ,Epidemiology ,Viral Nonstructural Proteins ,01 natural sciences ,Fluorophotometry ,Spectrum Analysis Techniques ,Pandemic ,Chlorocebus aethiops ,Fluorescence Resonance Energy Transfer ,Medicine ,Repurposing ,Pathology and laboratory medicine ,media_common ,Virus Testing ,Multidisciplinary ,Crystallography ,Physics ,Monomers ,Medical microbiology ,Condensed Matter Physics ,Small molecule ,Molecular Docking Simulation ,Drug repositioning ,Chemistry ,Spectrophotometry ,Viruses ,Physical Sciences ,Crystal Structure ,SARS CoV 2 ,Pathogens ,Research Article ,Drug ,SARS coronavirus ,Science ,High-throughput screening ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,media_common.quotation_subject ,Endoribonuclease ,Library Screening ,Research and Analysis Methods ,Antiviral Agents ,Microbiology ,Small Molecule Libraries ,03 medical and health sciences ,Diagnostic Medicine ,Endoribonucleases ,Animals ,Humans ,Solid State Physics ,Molecular Biology Techniques ,Vero Cells ,Molecular Biology ,Pandemics ,Medicine and health sciences ,Molecular Biology Assays and Analysis Techniques ,Biology and life sciences ,business.industry ,SARS-CoV-2 ,010401 analytical chemistry ,Drug Repositioning ,Organisms ,Viral pathogens ,COVID-19 ,Polymer Chemistry ,Virology ,0104 chemical sciences ,High-Throughput Screening Assays ,COVID-19 Drug Treatment ,Microbial pathogens ,030104 developmental biology ,Vero cell ,Caco-2 Cells ,business - Abstract
SARS-CoV-2 has caused a global pandemic, and has taken over 1.7 million lives as of mid-December, 2020. Although great progress has been made in the development of effective countermeasures, with several pharmaceutical companies approved or poised to deliver vaccines to market, there is still an unmet need of essential antiviral drugs with therapeutic impact for the treatment of moderate-to-severe COVID-19. Towards this goal, a high-throughput assay was used to screen SARS-CoV-2 nsp15 uracil-dependent endonuclease (endoU) function against 13 thousand compounds from drug and lead repurposing compound libraries. While over 80% of initial hit compounds were pan-assay inhibitory compounds, three hits were confirmed as nsp15 endoU inhibitors in the 1-20 μM range in vitro. Furthermore, Exebryl-1, a β-amyloid anti-aggregation molecule for Alzheimer’s therapy, was shown to have antiviral activity between 10 to 66 μM, in VERO, Caco-2, and Calu-3 cells. Although the inhibitory concentrations determined for Exebryl-1 exceed those recommended for therapeutic intervention, our findings show great promise for further optimization of Exebryl-1 as an nsp15 endoU inhibitor and as a SARS-CoV-2 antiviral.Author summaryDrugs to treat COVID-19 are urgently needed. To address this, we searched libraries of drugs and drug-like molecules for inhibitors of an essential enzyme of the virus that causes COVID-19, SARS-CoV-2 nonstructural protein (nsp)15. We found several molecules that inhibited the nsp15 enzyme function and one was shown to be active in inhibiting the SARS-CoV-2 virus. This demonstrates that searching for SARS-CoV-2 nsp15 inhibitors can lead inhibitors of SARS-CoV-2, and thus therapeutics for COVID-19. We are currently working to see if these inhibitors could be turned into a drug to treat COVID-19.
- Published
- 2021
42. Bmal1 integrates mitochondrial metabolism and macrophage activation
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Ryan K. Alexander, Chih-Hao Lee, Kyle A Starost, Alexander L. Hyde, Nan-Shih Liao, Sihao Liu, Yae-Huei Liou, Nelson H. Knudsen, David Jacobi, and Chuanrui Xu
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Lipopolysaccharides ,Mitochondrial ROS ,0301 basic medicine ,Mouse ,Transcription, Genetic ,Lipopolysaccharide ,medicine.medical_treatment ,Circadian clock ,Melanoma, Experimental ,Gene Knockout Techniques ,Mice ,chemistry.chemical_compound ,0302 clinical medicine ,energy metabolism ,Tumor-Associated Macrophages ,Macrophage ,Biology (General) ,Amino Acids ,chemistry.chemical_classification ,0303 health sciences ,biology ,Chemistry ,General Neuroscience ,Succinate dehydrogenase ,ARNTL Transcription Factors ,General Medicine ,Mitochondria ,Cell biology ,Succinate Dehydrogenase ,030220 oncology & carcinogenesis ,Medicine ,anti-tumor activity ,Oxidation-Reduction ,Research Article ,QH301-705.5 ,Science ,macrophage ,General Biochemistry, Genetics and Molecular Biology ,Interferon-gamma ,03 medical and health sciences ,Immune system ,Circadian Clocks ,medicine ,Animals ,030304 developmental biology ,Tumor microenvironment ,Reactive oxygen species ,General Immunology and Microbiology ,Macrophages ,Cell Biology ,Immunotherapy ,Macrophage Activation ,Hypoxia-Inducible Factor 1, alpha Subunit ,Malonates ,Mice, Inbred C57BL ,Oxidative Stress ,Metabolic pathway ,030104 developmental biology ,biology.protein - Abstract
Metabolic pathways and inflammatory processes are under circadian regulation. While rhythmic immune cell recruitment is known to impact infection outcomes, whether the circadian clock modulates immunometabolism remains unclear. We find the molecular clock Bmal1 is induced by inflammatory stimulants, including Ifn-γ/lipopolysaccharide (M1) and tumor conditioned medium, to maintain mitochondrial metabolism under these metabolically stressed conditions in mouse macrophages. Upon M1 stimulation, myeloid-specificBmal1knockout (M-BKO) renders macrophages unable to sustain mitochondrial function, enhancing succinate dehydrogenase (SDH)-mediated mitochondrial ROS production and Hif-1α-dependent metabolic reprogramming and inflammatory damage. In tumor-associated macrophages, the aberrant Hif-1α activation and metabolic dysregulation by M-BKO contribute to an immunosuppressive tumor microenvironment. Consequently, M-BKO increases melanoma tumor burden, while administrating an SDH inhibitor dimethyl malonate suppresses tumor growth. Therefore, Bmal1 functions as a metabolic checkpoint integrating macrophage mitochondrial metabolism, redox homeostasis and effector functions. This Bmal1-Hif-1α regulatory loop may provide therapeutic opportunities for inflammatory diseases and immunotherapy.
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- 2020
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43. Author response: Bmal1 integrates mitochondrial metabolism and macrophage activation
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Nan-Shih Liao, Sihao Liu, Yae-Huei Liou, Nelson H. Knudsen, Kyle A Starost, Alexander L. Hyde, David Jacobi, Chuanrui Xu, Ryan K. Alexander, and Chih-Hao Lee
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Chemistry ,Macrophage ,Metabolism ,Cell biology - Published
- 2020
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44. Improved Inference and Prediction for Imbalanced Binary Big Data Using Case-Control Sampling: A Case Study on Deforestation in the Amazon Region
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Stephen G. Perz, Denis Valle, Jacy L. Hyde, and Matthew Marsik
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0106 biological sciences ,010504 meteorology & atmospheric sciences ,Computer science ,Big data ,Inference ,Logistic regression ,satellite imagery ,010603 evolutionary biology ,01 natural sciences ,Statistics ,deforestation ,lcsh:Science ,Amazon ,0105 earth and related environmental sciences ,inference ,business.industry ,Generalized additive model ,Sampling (statistics) ,pixel sampling ,prediction ,Outcome (probability) ,Random forest ,Sample size determination ,General Earth and Planetary Sciences ,lcsh:Q ,business ,case-control - Abstract
It is computationally challenging to fit models to big data. For example, satellite imagery data often contain billions to trillions of pixels and it is not possible to use a pixel-level analysis to identify drivers of land-use change and create predictions using all the data. A common strategy to reduce sample size consists of drawing a random sample but this approach is not ideal when the outcome of interest is rare in the landscape because it leads to very few pixels with this outcome. Here we show that a case-control (CC) sampling approach, in which all (or a large fraction of) pixels with the outcome of interest and a subset of the pixels without this outcome are selected, can yield much better inference and prediction than random sampling (RS) if the estimated parameters and probabilities are adjusted with the equations that we provide. More specifically, we show that a CC approach can yield unbiased inference with much less uncertainty when CC data are analyzed with logistic regression models and its semiparametric variants (e.g., generalized additive models). We also show that a random forest model, when fitted to CC data, can generate much better predictions than when fitted to RS data. We illustrate this improved performance of the CC approach, when used together with the proposed bias-correction adjustments, with extensive simulations and a case study in the Amazon region focused on deforestation.
- Published
- 2020
45. Sequence analysis of the IL28A/IL28B inverted gene duplication that contains polymorphisms associated with treatment response in hepatitis C patients.
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Jennifer M Reynolds, Sara A Paciga, Frances A Sanders, Craig L Hyde, A Katrina Loomis, and Geoffrey I Johnston
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Medicine ,Science - Abstract
Several SNPs located in or around the IL28B gene are associated with response of patients infected with Hepatitis C virus to treatment with pegylated interferon-α ⁺/⁻ ribavirin or with spontaneous clearance of the virus. The results of such studies are so compelling that future treatment approaches are likely to involve clinical decisions being made on the basis of a patient's genotype. Since IL28B is a paralogue of IL28A with greater than 95% sequence identity, it is possible that without genotyping assay specificity, sequences in IL28A may contribute to genotype identification, and potentially confound treatment decisions. This study aimed to 1) examine DNA sequences in IL28B surrounding each of the reported associated SNPs and the corresponding regions in IL28A; and 2) develop a robust assay for rs12979860, the most 'cosmopolitan' SNP most strongly associated with treatment response across all global populations studied to date. Bioinformatic analysis of genomic regions surrounding IL28A and IL28B demonstrated that 3 SNPs were unique to IL28B, whereas the remaining 6 SNP regions shared >93% identity between IL28A and IL28B. Using a panel of DNA samples, PCR amplification followed by Sanger sequencing was used to examine IL28B SNPs and the corresponding regions in IL28A. For the overlapping SNPs, all 6 in IL28B were confirmed to be polymorphic whereas the corresponding positions in IL28A were monomorphic. Based upon IL28A and IL28B sequence data, a specific TaqMan® assay was developed for SNP rs12979860 that was 100% concordant to the sequence-derived genotypes. Analysis using a commercial assay identified one discordant result which led to a change in their genotype-calling algorithm. Where future treatment decisions are made upon the results of genotyping assays, it is very important that results are concordant with data from a sequence-based format. This is especially so in situations where designing specific PCR primers is a challenge.
- Published
- 2012
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46. Transmission lines are an under-acknowledged conservation threat to the Brazilian Amazon
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Denis Valle, Stephanie A. Bohlman, and Jacy L. Hyde
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0106 biological sciences ,010504 meteorology & atmospheric sciences ,Amazon rainforest ,business.industry ,Environmental resource management ,Distribution (economics) ,010603 evolutionary biology ,01 natural sciences ,law.invention ,Transmission (mechanics) ,Geography ,Electric power transmission ,High forest ,law ,Hydroelectricity ,Terrestrial ecosystem ,Environmental impact assessment ,business ,Ecology, Evolution, Behavior and Systematics ,0105 earth and related environmental sciences ,Nature and Landscape Conservation - Abstract
The environmental impacts of energy generation plants, especially those with large dams, have been widely discussed in the Amazon region, but little attention has been paid to the impacts of the associated transmission lines. These impacts are likely to be substantial given the wide geographic extent of the lines and the relatively high forest cover in the traversed areas. Publicly available information about the location and extent of the transmission line network in the Amazon is neither accurate nor current, and its environmental impacts on terrestrial ecosystems have not been assessed on a large scale. This study estimates the scale of the impact of the current and planned transmission and distribution line network using a hand-digitized dataset and the predicted impact area determined from Environmental Impact Assessments. The Legal Amazon region contains 39,625 km of verified transmission and distribution lines, estimated to directly impact 23,467 km2 of land. We find that the transmission line network directly impacts double the area flooded by hydroelectric reservoirs in the Legal Amazon. Of the direct impact area, 5.1% is within protected areas and 10.3% overlaps with intact forest. By 2026, the transmission line network is estimated to grow by 37% in the Legal Amazon, increasing the direct impact to forests by 70% and to protected lands by 29%. Transmission lines are impacting enough land to be considered a serious conservation threat and should be treated as such in research and environmental planning in the Amazon region.
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- 2018
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47. Music improves social communication and auditory–motor connectivity in children with autism
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Melissa Tan, Krista L. Hyde, Nicholas E. V. Foster, Rakhee Chowdhury, Kevin Jamey, Carola Tuerk, Melanie Custo-Blanch, Aparna Nadig, and Megha Sharda
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Male ,medicine.medical_specialty ,Music therapy ,Autism Spectrum Disorder ,Psychological intervention ,Context (language use) ,Audiology ,Brain mapping ,behavioral disciplines and activities ,Article ,050105 experimental psychology ,lcsh:RC321-571 ,03 medical and health sciences ,Cellular and Molecular Neuroscience ,0302 clinical medicine ,Rhythm ,Intervention (counseling) ,Neural Pathways ,medicine ,Humans ,0501 psychology and cognitive sciences ,Child ,Social Behavior ,Music Therapy ,lcsh:Neurosciences. Biological psychiatry. Neuropsychiatry ,Biological Psychiatry ,Auditory Cortex ,Brain Mapping ,Communication ,05 social sciences ,Motor Cortex ,Brain ,medicine.disease ,Magnetic Resonance Imaging ,humanities ,Psychiatry and Mental health ,Treatment Outcome ,Autism spectrum disorder ,Autism ,Female ,Psychology ,human activities ,030217 neurology & neurosurgery - Abstract
Music has been identified as a strength in people with Autism Spectrum Disorder; however, there is currently no neuroscientific evidence supporting its benefits. Given its universal appeal, intrinsic reward value and ability to modify brain and behaviour, music may be a potential therapeutic aid in autism. Here we evaluated the neurobehavioural outcomes of a music intervention, compared to a non-music control intervention, on social communication and brain connectivity in school-age children (ISRCTN26821793). Fifty-one children aged 6–12 years with autism were randomized to receive 8–12 weeks of music (n = 26) or non-music intervention (n = 25). The music intervention involved use of improvisational approaches through song and rhythm to target social communication. The non-music control was a structurally matched behavioural intervention implemented in a non-musical context. Groups were assessed before and after intervention on social communication and resting-state functional connectivity of fronto-temporal brain networks. Communication scores were higher in the music group post-intervention (difference score = 4.84, P = .01). Associated post-intervention resting-state brain functional connectivity was greater in music vs. non-music groups between auditory and subcortical regions (z = 3.94, P z = 3.16, P z = 4.01, P z = 3.57, P
- Published
- 2018
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48. Genome-wide association analyses identify 44 risk variants and refine the genetic architecture of major depression
- Author
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Jens Treutlein, James B. Potash, Cheynna A. Crowley, Paul F. O'Reilly, Francis M. Mondimore, Nicholas G. Martin, Jodie N. Painter, Qingqin S. Li, Tõnu Esko, Michael Conlon O'Donovan, Markus M. Nöthen, Toni-Kim Clarke, Roseann E. Peterson, Shantel Weinsheimer, Naomi R. Wray, Marie Bækvad-Hansen, Pamela F.A. Madden, Johannes H. Smit, Gonneke Willemsen, Thomas Hansen, Andrew C. Heath, Carsten Horn, Udo Dannlowski, Fulai Jin, Robert A. Schoevers, Jian Yang, Nicholas Eriksson, Marianne Giørtz Pedersen, Patrik K. E. Magnusson, Hans J. Grabe, Michael Gill, Lili Milani, Caroline Hayward, Shaun Purcell, Stanley I. Shyn, Penelope A. Lind, Giorgio Pistis, Michel G. Nivard, Thorgeir E. Thorgeirsson, Abdel Abdellaoui, Andres Metspalu, David J. Porteous, Anders D. Børglum, Christine Søholm Hansen, Scott D. Gordon, Nicholas John Craddock, Susanne Lucae, Douglas Blackwood, Jürgen Wellmann, Till M.F. Andlauer, Wesley K. Thompson, Chao Tian, Rudolf Uher, Nese Direk, Yuri Milaneschi, Paola Giusti-Rodríguez, Rick Jansen, Marcus Ising, Yang Wu, Jesper Krogh, Merete Nordentoft, Jouke-Jan Hottenga, Robert Maier, Ming Hu, Kari Stefansson, Glyn Lewis, Peter McGuffin, Wolfgang Maier, Erin C. Dunn, Bradley T. Webb, Gerome Breen, Henning Teismann, Eric Jorgenson, Jorge A. Quiroz, Brenda W.J.H. Penninx, Jonas Bybjerg-Grauholm, Warren W. Kretzschmar, Dean F. MacKinnon, Craig A. Stockmeier, Wouter J. Peyrot, Enrico Domenici, E. C.J. De Geus, Alexander Teumer, Henry Völzke, Yihan Li, Michael John Owen, Manuel Mattheisen, Bernard Ng, Baptiste Couvy-Duchesne, Daniel J. Smith, Jana Strohmaier, Vassily Trubetskoy, Volker Arolt, Douglas F. Levinson, Futao Zhang, Daniel Umbricht, Aartjan F.T. Beekman, David A. Hinds, Bernhard T. Baune, Henning Tiemeier, Hualin S. Xi, Hamdi Mbarek, Steven P. Hamilton, Stefan Kloiber, Fernando S. Goes, Jianxin Shi, Marcella Rietschel, Dale R. Nyholt, Zoltán Kutalik, Niamh Mullins, Grant W. Montgomery, Henriette N. Buttenschøn, Georg Homuth, Katharina Domschke, Alexander Viktorin, Hilary K. Finucane, Ashley R. Winslow, Saira Saeed Mirza, Fabian Streit, Erik Pettersson, Martin Preisig, Danielle Posthuma, Stephan Ripke, Lucía Colodro-Conde, Thalia C. Eley, Pippa A. Thomson, Thomas Werge, Enrique Castelao, Klaus Berger, Yun Li, Stacy Steinberg, Dorret I. Boomsma, Matthias Nauck, Sara Mostafavi, Jacqueline M. Lane, Katherine E. Tansey, Divya Mehta, Gregory E. Crawford, Andreas J. Forstner, Jane H. Christensen, Silviu Alin Bacanu, Julia Kraft, David M. Hougaard, Peter M. Visscher, Valentina Escott-Price, Donald J. MacIntyre, Sarah E. Medland, Per Qvist, Kenneth S. Kendler, Jordan W. Smoller, J. Raymond DePaulo, Ian J. Deary, Thomas G. Schulze, Julien Bryois, Ian B. Hickie, Helena Gaspar, Jonathan Mill, James A. Knowles, Cathryn M. Lewis, Hassan S. Dashti, Stefan Herms, Margarita Rivera, John P. Rice, Lynsey S. Hall, Eilis Hannon, Nancy L. Pedersen, Eva C. Schulte, Hreinn Stefansson, Maciej Trzaskowski, André G. Uitterlinden, Bertram Müller-Myhsok, Gail Davies, Mark Adams, Jakob Grove, Eske M. Derks, Sven Cichon, Jonathan I.R. Coleman, Sandra Van der Auwera, Myrna M. Weissman, Preben Bo Mortensen, Josef Frank, Enda M. Byrne, Esben Agerbo, Engilbert Sigurdsson, Xiaoxiao Liu, Patrick F. Sullivan, Carsten Bøcker Pedersen, Ole Mors, Catherine Schaefer, Richa Saxena, Albert M. van Hemert, Jonathan Marchini, Hogni Oskarsson, Franziska Degenhardt, Tracy Air, Elisabeth B. Binder, Christel M. Middeldorp, Farnush Hassan Farhadi Kiadeh, Conor V. Dolan, Sara A. Paciga, Per Hoffmann, Leina Lu, Andrew M. McIntosh, Tim B. Bigdeli, Stephanie H. Witt, Matthew Traylor, Grant Sinnamon, Brien P. Riley, Roy H. Perlis, Patrick J. McGrath, Craig L. Hyde, Ling Shen, Na Cai, Yunpeng Wang, Evelin Mihailov, Isaac S. Kohane, APH - Mental Health, Adult Psychiatry, Amsterdam Neuroscience - Mood, Anxiety, Psychosis, Stress & Sleep, Biological Psychology, APH - Methodology, APH - Health Behaviors & Chronic Diseases, APH - Personalized Medicine, Integrative Neurophysiology, Complex Trait Genetics, Amsterdam Neuroscience - Complex Trait Genetics, Psychiatry, Amsterdam Reproduction & Development (AR&D), Human genetics, Epidemiology and Data Science, APH - Digital Health, Epidemiology, Child and Adolescent Psychiatry / Psychology, Internal Medicine, eQTLGen, 23andMe, Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium, Interdisciplinary Centre Psychopathology and Emotion regulation (ICPE), Perceptual and Cognitive Neuroscience (PCN), and Clinical Cognitive Neuropsychiatry Research Program (CCNP)
- Subjects
0301 basic medicine ,Male ,Netherlands Twin Register (NTR) ,Multifactorial Inheritance ,Schizophrenia/genetics ,LD SCORE REGRESSION ,LOCI ,Genome-wide association study ,Bioinformatics ,0302 clinical medicine ,Risk Factors ,POLYGENIC RISK ,Depression (differential diagnoses) ,3. Good health ,Phenotype ,Schizophrenia ,Meta-analysis ,MENDELIAN RANDOMIZATION ,Genome-Wide Association Study/methods ,Major depressive disorder ,Female ,Depressive Disorder, Major/genetics ,EUROPE 2010 ,Biology ,Polymorphism, Single Nucleotide ,Article ,03 medical and health sciences ,SDG 3 - Good Health and Well-being ,ddc:570 ,MENTAL-DISORDERS ,Mendelian randomization ,SYSTEMATIC ANALYSIS ,Genetics ,medicine ,Journal Article ,Humans ,Genetic Predisposition to Disease ,METAANALYSIS ,EDUCATIONAL-ATTAINMENT ,Depressive Disorder, Major ,Case-control study ,Case-Control Studies ,medicine.disease ,Genetic architecture ,BODY-MASS INDEX ,030104 developmental biology ,030217 neurology & neurosurgery ,Genome-Wide Association Study - Abstract
Major depressive disorder (MDD) is a common illness accompanied by considerable morbidity, mortality, costs, and heightened\ud risk of suicide. We conducted a genome-wide association meta-analysis based in 135,458 cases and 344,901 controls and identified\ud 44 independent and significant loci. The genetic findings were associated with clinical features of major depression and\ud implicated brain regions exhibiting anatomical differences in cases. Targets of antidepressant medications and genes involved\ud in gene splicing were enriched for smaller association signal. We found important relationships of genetic risk for major depression\ud with educational attainment, body mass, and schizophrenia: lower educational attainment and higher body mass were\ud putatively causal, whereas major depression and schizophrenia reflected a partly shared biological etiology. All humans carry\ud lesser or greater numbers of genetic risk factors for major depression. These findings help refine the basis of major depression\ud and imply that a continuous measure of risk underlies the clinical phenotype.
- Published
- 2018
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49. Pitch and Time Processing in Speech and Tones: The Effects of Musical Training and Attention
- Author
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Kachina Allen, Krista L. Hyde, Nicholas E.V. Foster, and Anastasia G. Sares
- Subjects
Adult ,Male ,Linguistics and Language ,Speech perception ,Pitch perception ,Musical ,050105 experimental psychology ,Language and Linguistics ,Young Adult ,03 medical and health sciences ,Speech and Hearing ,Discrimination, Psychological ,Professional Competence ,0302 clinical medicine ,Intonation (music) ,Humans ,Learning ,Attention ,0501 psychology and cognitive sciences ,Pitch Perception ,Time processing ,05 social sciences ,Training (meteorology) ,Time perception ,Music education ,Time Perception ,Speech Perception ,Female ,Psychology ,Music ,030217 neurology & neurosurgery ,Cognitive psychology - Abstract
Purpose Musical training is often linked to enhanced auditory discrimination, but the relative roles of pitch and time in music and speech are unclear. Moreover, it is unclear whether pitch and time processing are correlated across individuals and how they may be affected by attention. This study aimed to examine pitch and time processing in speech and tone sequences, taking musical training and attention into account. Method Musicians (16) and nonmusicians (16) were asked to detect pitch or timing changes in speech and tone sequences and make a binary response. In some conditions, the participants were focused on 1 aspect of the stimulus (directed attention), and in others, they had to pay attention to all aspects at once (divided attention). Results As expected, musicians performed better overall. Performance scores on pitch and time tasks were correlated, as were performance scores for speech and tonal stimuli, but most markedly in musicians. All participants performed better on the directed versus divided attention task, but again, musicians performed better than nonmusicians. Conclusion In general, this experiment shows that individuals with a better sense of pitch discrimination also have a better sense of timing discrimination in the auditory domain. In addition, although musicians perform better overall, these results do not support the idea that musicians have an added advantage for divided attention tasks. These findings serve to better understand how musical training and attention affect pitch and time processing in the context of speech and tones and may have applications in special populations. Supplemental Material https://doi.org/10.23641/asha.5895997
- Published
- 2018
- Full Text
- View/download PDF
50. Genome-wide association of lipid-lowering response to statins in combined study populations.
- Author
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Mathew J Barber, Lara M Mangravite, Craig L Hyde, Daniel I Chasman, Joshua D Smith, Catherine A McCarty, Xiaohui Li, Russell A Wilke, Mark J Rieder, Paul T Williams, Paul M Ridker, Aurobindo Chatterjee, Jerome I Rotter, Deborah A Nickerson, Matthew Stephens, and Ronald M Krauss
- Subjects
Medicine ,Science - Abstract
Statins effectively lower total and plasma LDL-cholesterol, but the magnitude of decrease varies among individuals. To identify single nucleotide polymorphisms (SNPs) contributing to this variation, we performed a combined analysis of genome-wide association (GWA) results from three trials of statin efficacy.Bayesian and standard frequentist association analyses were performed on untreated and statin-mediated changes in LDL-cholesterol, total cholesterol, HDL-cholesterol, and triglyceride on a total of 3932 subjects using data from three studies: Cholesterol and Pharmacogenetics (40 mg/day simvastatin, 6 weeks), Pravastatin/Inflammation CRP Evaluation (40 mg/day pravastatin, 24 weeks), and Treating to New Targets (10 mg/day atorvastatin, 8 weeks). Genotype imputation was used to maximize genomic coverage and to combine information across studies. Phenotypes were normalized within each study to account for systematic differences among studies, and fixed-effects combined analysis of the combined sample were performed to detect consistent effects across studies. Two SNP associations were assessed as having posterior probability greater than 50%, indicating that they were more likely than not to be genuinely associated with statin-mediated lipid response. SNP rs8014194, located within the CLMN gene on chromosome 14, was strongly associated with statin-mediated change in total cholesterol with an 84% probability by Bayesian analysis, and a p-value exceeding conventional levels of genome-wide significance by frequentist analysis (P = 1.8 x 10(-8)). This SNP was less significantly associated with change in LDL-cholesterol (posterior probability = 0.16, P = 4.0 x 10(-6)). Bayesian analysis also assigned a 51% probability that rs4420638, located in APOC1 and near APOE, was associated with change in LDL-cholesterol.Using combined GWA analysis from three clinical trials involving nearly 4,000 individuals treated with simvastatin, pravastatin, or atorvastatin, we have identified SNPs that may be associated with variation in the magnitude of statin-mediated reduction in total and LDL-cholesterol, including one in the CLMN gene for which statistical evidence for association exceeds conventional levels of genome-wide significance.PRINCE and TNT are not registered. CAP is registered at Clinicaltrials.gov NCT00451828.
- Published
- 2010
- Full Text
- View/download PDF
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