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Mebrahtu TF, Santorelli G, Yang TC, Wright J, Tate J, McEachan RR. The effects of exposure to NO 2, PM 2.5 and PM 10 on health service attendances with respiratory illnesses: A time-series analysis. Environ Pollut 2023; 333:122123. [PMID: 37390911 DOI: 10.1016/j.envpol.2023.122123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2023] [Revised: 06/26/2023] [Accepted: 06/27/2023] [Indexed: 07/02/2023]
Abstract
The associations of exposure to air-pollutants and respiratory illness remains inconsistent and studies have not adequately addressed the non-linearity and delayed effects of exposure. This is a retrospective cohort study using linked routine health and pollution data collected between January 2018 and December 2021. Participants were patients who visited General Practice (GP) or accident and emergency (A&E) services for respiratory illness. Time-series analysis, distributed lagged models, was used to address the potential non-linearity and delayed effects of exposure. There were 114,930 GP and 9878 A&E respiratory visits. For every 10 μg/m3 increase in NO2 and PM2.5 above the WHO recommended 24-hr thresholds, the immediate relative risk of GP respiratory visits was 1.09 (95% CI: 1.07 to 1.05) and 1.06 (95% CI: 1.01 to 1.10), respectively. The respective relative risk of A&E visit was 1.10 (95% CI: 1.07 to 1.14) and 1.07 (95% CI: 1.00 to 1.14). Exposure to 10-unit increases in NO2, PM2.5 and PM10 above the WHO recommended 24-hr thresholds, was associated with lagged relative risks of 1.49 (95% CI: 1.42 to 1.56), 5.26 (95% CI: 4.18 to 6.61) and 2.32 (95% CI: 1.66 to 3.26), respectively, for GP respiratory attendances. The lagged relative risk of A&E respiratory visits for same units of exposure in NO2, PM2.5, and PM10 at the peak lag days were 1.98 (95% CI: 1.82 to 2.15), 4.52 (95% CI: 3.37 to 6.07) and 3.55 (95% CI: 1.85 to 6.84). A third of GP and half of A&E respiratory visits were attributable to exposure to NO2 beyond the WHO threshold. The combined cost of these visits over the study period was 1.95 million (95% CI: 1.82 to 2.09). High pollution events are related to increased health service use for respiratory illness, with impacts persisting up to 100 days post exposure. The burden of respiratory illness related to air-pollution may be considerably higher than previously reported.
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Affiliation(s)
- Teumzghi F Mebrahtu
- Born in Bradford, Bradford Institute for Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, UK; Wolfson Centre for Applied Health Research, Bradford Royal Infirmary, Bradford, UK.
| | - Gillian Santorelli
- Born in Bradford, Bradford Institute for Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, UK
| | - Tiffany C Yang
- Born in Bradford, Bradford Institute for Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, UK
| | - John Wright
- Born in Bradford, Bradford Institute for Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, UK
| | - James Tate
- Institute for Transport Studies, Faculty of Environment, University of Leeds, Leeds, UK
| | - Rosemary Rc McEachan
- Born in Bradford, Bradford Institute for Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, UK
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McEachan RRC, Rashid R, Santorelli G, Tate J, Thorpe J, McQuaid JB, Wright J, Pickett KE, Pringle K, Bojke L, Jones S, Islam S, Walker S, Yang TC, Bryant M. Study Protocol. Evaluating the life-course health impact of a city-wide system approach to improve air quality in Bradford, UK: A quasi-experimental study with implementation and process evaluation. Environ Health 2022; 21:122. [PMID: 36464683 PMCID: PMC9720926 DOI: 10.1186/s12940-022-00942-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2022] [Accepted: 11/21/2022] [Indexed: 06/17/2023]
Abstract
BACKGROUND Air quality is a major public health threat linked to poor birth outcomes, respiratory and cardiovascular disease, and premature mortality. Deprived groups and children are disproportionately affected. Bradford will implement a Clean Air Zone (CAZ) as part of the Bradford Clean Air Plan (B-CAP) in 2022 to reduce pollution, providing a natural experiment. The aim of the current study is to evaluate the impact of the B-CAP on health outcomes and air quality, inequalities and explore value for money. An embedded process and implementation evaluation will also explore barriers and facilitators to implementation, impact on attitudes and behaviours, and any adverse consequences. METHODS The study is split into 4 work packages (WP). WP1A: 20 interviews with decision makers, 20 interviews with key stakeholders; 10 public focus groups and documentary analysis of key reports will assess implementation barriers, acceptability and adverse or unanticipated consequences at 1 year post-implementation (defined as point at which charging CAZ goes 'live'). WP1B: A population survey (n = 2000) will assess travel behaviour and attitudes at baseline and change at 1 year post-implementation). WP2: Routine air quality measurements will be supplemented with data from mobile pollution sensors in 12 schools collected by N = 240 pupil citizen scientists (4 within, 4 bordering and 4 distal to CAZ boundary). Pupils will carry sensors over four monitoring periods over a 12 month period (two pre, and two post-implementation). We will explore whether reductions in pollution vary by CAZ proximity. WP3A: We will conduct a quasi-experimental interrupted time series analysis using a longitudinal routine health dataset of > 530,000 Bradford residents comparing trends (3 years prior vs 3 years post) in respiratory health (assessed via emergency/GP attendances. WP3B: We will use the richly-characterised Born in Bradford cohort (13,500 children) to explore health inequalities in respiratory health using detailed socio-economic data. WP4: will entail a multi-sectoral health economic evaluation to determine value for money of the B-CAP. DISCUSSION This will be first comprehensive quasi-experimental evaluation of a city-wide policy intervention to improve air quality. The findings will be of value for other areas implementing this type of approach. TRIAL REGISTRATION ISRCTN67530835 https://doi.org/10.1186/ISRCTN67530835.
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Affiliation(s)
- Rosemary R C McEachan
- Bradford Institute of Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, BD9 6RJ, England.
| | - Rukhsana Rashid
- Bradford Institute of Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, BD9 6RJ, England
| | - Gillian Santorelli
- Bradford Institute of Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, BD9 6RJ, England
| | - James Tate
- Institute for Transport Studies, University of Leeds, Leeds, LS2 9JT, England
| | - Jamie Thorpe
- St Stephen's Church of England Primary School, Bradford, BD5 7HU, England
| | - James B McQuaid
- School of Earth and Environment, University of Leeds, Leeds, LS2 9JT, England
| | - John Wright
- Bradford Institute of Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, BD9 6RJ, England
| | - Kate E Pickett
- Department of Health Sciences, University of York, York, YO10 5DD, UK
| | - Kirsty Pringle
- School of Earth and Environment, University of Leeds, Leeds, LS2 9JT, England
| | - Laura Bojke
- Centre for Health Economics, University of York, York, YO10 5DD, UK
| | - Sally Jones
- Bradford District Metropolitan Council, Bradford, BD1 1HX, England
| | - Shahid Islam
- Bradford Institute of Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, BD9 6RJ, England
| | - Simon Walker
- Centre for Health Economics, University of York, York, YO10 5DD, UK
| | - Tiffany C Yang
- Bradford Institute of Health Research, Bradford Teaching Hospitals NHS Foundation Trust, Bradford, BD9 6RJ, England
| | - Maria Bryant
- Department of Health Sciences, University of York, York, YO10 5DD, UK
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Coriati A, Ma X, Sykes J, Stanojevic S, Ruseckaite R, Lemonnier L, Tate J, Byrnes C, Bell S, Burgel P, Stephenson A. 36: International comparison of survival in cystic fibrosis between Canada, France, and Australia. J Cyst Fibros 2021. [DOI: 10.1016/s1569-1993(21)01461-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Chartier AT, Datta‐Barua S, McDonald SE, Bust GS, Tate J, Goncharenko LP, Romeo G, Schaefer RK. Night-Time Ionospheric Localized Enhancements (NILE) Observed in North America Following Geomagnetic Disturbances. J Geophys Res Space Phys 2021; 126:e2021JA029324. [PMID: 35846730 PMCID: PMC9285011 DOI: 10.1029/2021ja029324] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/11/2021] [Revised: 07/30/2021] [Accepted: 08/24/2021] [Indexed: 06/15/2023]
Abstract
The Ionospheric Data Assimilation Four-Dimensional (IDA4D) technique has been coupled to Sami3, which is another model of the ionosphere (SAMI3). In this application, ground-based and space-based GPS total electron content (TEC) data have been assimilated into SAMI3, while in-situ electron densities, autoscaled ionosonde NmF2, and reference GPS stations have been used for validation. IDA4D/SAMI3 shows that night-time ionospheric localized enhancements (NILE) are formed following geomagnetic storms in November 2003 and August 2018. The NILE phenomenon appears as a moderate, longitudinally extended enhancement of NmF2 at 30°-40°N MLAT, occurring in the late evening (20-24 LT) following much larger enhancements of the equatorial anomaly crests in the main phase of the storms. The NILE appears to be caused by upward and northward plasma transport around the dusk terminator, which is consistent with eastward polarization electric fields. Independent validation confirms the presence of the NILE, and indicates that IDA4D is effective in correcting random errors and systematic biases in SAMI3. In all cases, biases and root-mean-square errors are reduced by the data assimilation, typically by a factor of 2 or more. During the most severe part of the November 2003 storm, the uncorrected ionospheric error on a GPS 3D position at 1LSU (Louisiana) is estimated to exceed 34 m. The IDA4D/SAMI3 specification is effective in correcting this down to 10 m.
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Affiliation(s)
| | | | | | - G. S. Bust
- Johns Hopkins Applied Physics LaboratoryLaurelMDUSA
| | - J. Tate
- Computational Physics, Inc.SpringfieldVAUSA
| | | | - G. Romeo
- Johns Hopkins Applied Physics LaboratoryLaurelMDUSA
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Gordon KS, Manhapra A, Crystal S, Dziura J, Edelman EJ, Skanderson M, Kerns RD, Justice AC, Tate J, Becker WC. All-cause mortality among males living with and without HIV initiating long-term opioid therapy, and its association with opioid dose, opioid interruption and other factors. Drug Alcohol Depend 2020; 216:108291. [PMID: 33011662 PMCID: PMC7644145 DOI: 10.1016/j.drugalcdep.2020.108291] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Revised: 08/28/2020] [Accepted: 09/04/2020] [Indexed: 12/31/2022]
Abstract
BACKGROUND While the relationship between long-term opioid therapy (LTOT) dose and overdose is well-established, LTOT's association with all-cause mortality is less understood, especially among people living with HIV (PLWH). There is also limited information regarding the association of LTOT cessation or interruption with mortality. METHODS Among PLWH and matched uninfected male veterans in care, we identified those who initiated LTOT. Using time-updated cox regression, we examined the association between all-cause mortality, unnatural death, and overdose, and opioid use categorized as 1-20 (reference group), 21-50, 51-90, and ≥ 91 mg morphine equivalent daily dose (MEDD). RESULTS There were 22,996 patients on LTOT, 6,578 (29 %) PLWH and 16,418 (71 %) uninfected. Among 5,222 (23 %) deaths, 12 % were unnatural deaths and 6 % overdoses. MEDD was associated with risk of all 3 outcomes; compared to patients on 1-20 mg MEDD, adjusted risk for all-cause mortality monotonically increased (Hazard Ratios (HR) [95 % CI] for 21-50 mg MEDD = 1.36 [1.21, 1.52], 51-90 mg MEDD = 2.06 [1.82, 2.35], and ≥ 91 mg MEDD = 3.03 [2.71, 3.39]). Similar results were seen in models stratified by HIV. LTOT interruption was also associated with all-cause, unnatural, and overdose mortality (HR [95 % CI] 2.30 [2.09, 2.53], 1.47 [1.13, 1.91] and 1.52 [1.04, 2.23], respectively). CONCLUSIONS Among PLWH and uninfected patients on LTOT we observed a strong dose-response relationship with all 3 mortality outcomes. Opioid risk mitigation approaches should be expanded to address the potential effects of higher dose on all-cause mortality in addition to unnatural and overdose fatalities.
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Affiliation(s)
- K S Gordon
- VA Connecticut Healthcare System, West Haven, CT, United States; Department of Internal Medicine, Yale School of Medicine, New Haven, CT, United States.
| | - A Manhapra
- Department of Psychiatry, Yale School of Medicine, New Haven, CT, United States; Integrative Pain Recovery Service, Hampton VA Medical Center, Hampton, VA, United States; Departments of Physical Medicine & Rehabilitation and Psychiatry, Eastern Virginia Medical School, Norfolk, VA, United States
| | - S Crystal
- Rutgers University, New Brunswick, NJ, United States
| | - J Dziura
- Yale School of Public Health, New Haven, CT, United States
| | - E J Edelman
- Department of Internal Medicine, Yale School of Medicine, New Haven, CT, United States
| | - M Skanderson
- VA Connecticut Healthcare System, West Haven, CT, United States
| | - R D Kerns
- Department of Psychiatry, Yale School of Medicine, New Haven, CT, United States; Department of Neurology, Yale School of Medicine, New Haven, CT, United States
| | - A C Justice
- VA Connecticut Healthcare System, West Haven, CT, United States; Department of Internal Medicine, Yale School of Medicine, New Haven, CT, United States; Yale School of Public Health, New Haven, CT, United States
| | - J Tate
- VA Connecticut Healthcare System, West Haven, CT, United States; Department of Internal Medicine, Yale School of Medicine, New Haven, CT, United States
| | - W C Becker
- VA Connecticut Healthcare System, West Haven, CT, United States; Department of Internal Medicine, Yale School of Medicine, New Haven, CT, United States
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Kim A, Vakkalanka J, Tate J, Himadi E, Lee S. 405 Crisis Stabilization Unit Reduces Admission Rates for Suicidal Patients in a Midwest Emergency Department. Ann Emerg Med 2020. [DOI: 10.1016/j.annemergmed.2020.09.421] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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7
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Tate J, Jaksic M, Wong W, Lewis J, Byrnes C. P266 Retinol-binding protein in urine, an indicator of early kidney damage in children with cystic fibrosis. J Cyst Fibros 2020. [DOI: 10.1016/s1569-1993(20)30598-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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8
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Swenson D, Blauer J, Taepke R, Kwan E, Ghafoori E, Barton M, Tate J, Coles J, MacLeod R, Degroot P, Ranjan R. P6555A self-adaptive approach to antitachycardia pacing - a head to head comparison using advanced computational modeling. Eur Heart J 2019. [DOI: 10.1093/eurheartj/ehz746.1145] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Abstract
Background
Antitachycardia pacing (ATP) for monomorphic VT (MVT) reduces painful defibrillation shocks. Most ICD-treated ventricular arrhythmias are MVT, suggesting an opportunity for improved ATP to decrease shocks. We report on a new algorithm (Yee, Circ AE 2017) that uses electrophysiologic (EP) first-principles to design ATP sequences in real-time. Heart-rate history is used to design the first ATP sequence, and failed ATP post-pacing interval is used to design later sequences.
Purpose
The purpose of this modeling study was to understand how this new ATP algorithm would perform in a head-to-head comparison with traditional burst ATP. Modeling allows direct comparison of the two algorithms in identical, realistic, patient-derived cardiac arrythmias.
Methods
Patient-specific late gadolinium enhanced MRI and EP data were used to build an adjudicated cohort of realistic numerical heart models with varied EP, infarct, border zone. Publicly available EP modeling software CARPentry was used to calculate sustained reentrant VT initiated with the programmed electrical stimulation used to induce VT clinically. The VTs were physician-adjudicated to validate models. Burst ATP was 3 sequences of 8 pulses at 88% of VT cycle length, each decremented by 10ms. The new ATP was limited to 3 automatically designed sequences.
Results
Three hundred unique VT scenarios were generated from 6 human hearts with multiple VT circuits, 5 electrophysiologic states, and 10 pacing locations. Burst ATP terminated 168/300 VTs (56%) and accelerated 2.7%. The new ATP terminated 234/300 VTs (78%) with the same acceleration. The two dominant ATP failure mechanisms were identified as 1) insufficient prematurity to close the excitable gap, and 2) failure to reach the critical isthmus of the VT circuit. For these mechanisms, the new ATP algorithm reduce failures from 64 to 28 (44% reduction) without increasing acceleration.
Conclusion
The new automated ATP algorithm successfully adapted ATP sequences for VT episodes that burst ATP failed to terminate. The new ATP was successful even with complex scar geometries and electrophysiology heterogeneity as seen in the real world.
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Affiliation(s)
- D Swenson
- Medtronic, Minneapolis, United States of America
| | - J Blauer
- Medtronic, Minneapolis, United States of America
| | - R Taepke
- Medtronic, Minneapolis, United States of America
| | - E Kwan
- University of Utah, Div of Cardiovascular Medicine, Salt Lake City, United States of America
| | - E Ghafoori
- University of Utah, Div of Cardiovascular Medicine, Salt Lake City, United States of America
| | - M Barton
- Medtronic, Minneapolis, United States of America
| | - J Tate
- University of Utah, Salt Lake City, United States of America
| | - J Coles
- Medtronic, Minneapolis, United States of America
| | - R MacLeod
- University of Utah, Salt Lake City, United States of America
| | - P Degroot
- University of Utah, Salt Lake City, United States of America
| | - R Ranjan
- University of Utah, Div of Cardiovascular Medicine, Salt Lake City, United States of America
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Ahmed S, Tate J, Thrift-Perry M, Wait S. Barriers and Opportunities in Genetic Testing for BRCA Gene Mutations in Europe: A Strategic Policy Response to Support Women and Families At Risk for Breast Cancer. J Glob Oncol 2018. [DOI: 10.1200/jgo.18.17800] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Background and context: An estimated 12.5% of women are at risk for breast cancer. 5%-10% of these cases are hereditary, and of these, 20%-25% are due to BRCA gene mutations. Women with BRCA mutations are at higher risk of early onset, recurrence and of triple-negative breast cancer, with fewer treatment options. These women need to be supported to seek genetic testing as early as possible. They also need support and guidance to inform family members, consider preventive interventions and obtain appropriate care and counseling. Aim: To provide an overview of the BRCA genetic testing policy landscape in Europe and highlight barriers to women and their families to access testing, information and support. Strategy: A pragmatic review of international published and gray literature. With a focus on Europe and Israel, we looked for epidemiologic data in six countries and assessed the systems, policies and services in place for genetic testing, counseling and care. This was complemented by semistructured telephone interviews with healthcare professionals, researchers and patient representatives. Policy process: We must develop comprehensive cancer control plans that provide for high-quality prevention, treatment and care for all women with BRCA mutations, whether they develop breast cancer. The unmet needs of later-stage and more difficult-to-treat breast cancers, such as BRCA-mutated or triple-negative must not be neglected. Outcomes: Current BRCA genetic testing guidelines are insufficient. Testing eligibility is restricted to high-risk patients, despite evidence that over half of women diagnosed with BRCA-related breast cancer could be missed with this approach. Access barriers to information and services include: too few genetic counselors to provide information and support to women and their families; limited primary care genetics knowledge which may lead to low referral rates and unequal testing access based on region, age and race. Individuals may also forego testing for fear of discrimination by employers or insurance companies or the effect a positive test might have on families and relationships. What was learned: Opportunities to address the unmet needs of women considering BRCA genetic testing include: greater public awareness and understanding of testing; building professional capacity to better support those getting tested and policies to protect women against discrimination from employers or insurers. The emotional impact on women who undergo testing must also be considered, as well as the provision of appropriate information, support and care through every stage of a woman's experience. This research offers a starting point for discussion with policymakers and patient organizations to ensure pathways and policies are place which integrate the patient experience into comprehensive care pathways and national cancer control plans.
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Affiliation(s)
- S. Ahmed
- The Health Policy Partnership, London, United Kingdom
| | - J. Tate
- The Health Policy Partnership, London, United Kingdom
| | | | - S. Wait
- The Health Policy Partnership, London, United Kingdom
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Thrift-Perry M, Ahmed S, Wait S, Tate J. Genetic testing of BRCA mutations in breast cancer in six European countries: Barriers and opportunities. Ann Oncol 2018. [DOI: 10.1093/annonc/mdy297.011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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Khreis H, Kelly C, Tate J, Parslow R, Lucas K, Nieuwenhuijsen M. Exposure to traffic-related air pollution and risk of development of childhood asthma: A systematic review and meta-analysis. Environ Int 2017; 100:1-31. [PMID: 27881237 DOI: 10.1016/j.envint.2016.11.012] [Citation(s) in RCA: 393] [Impact Index Per Article: 56.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2016] [Revised: 11/04/2016] [Accepted: 11/10/2016] [Indexed: 05/19/2023]
Abstract
BACKGROUND AND OBJECTIVE The question of whether children's exposure to traffic-related air pollution (TRAP) contributes to their development of asthma is unresolved. We conducted a systematic review and performed meta-analyses to analyze the association between TRAP and asthma development in childhood. DATA SOURCES We systematically reviewed epidemiological studies published until 8 September 2016 and available in the Embase, Ovid MEDLINE (R), and Transport databases. STUDY ELIGIBILITY CRITERIA, PARTICIPANTS, AND INTERVENTIONS We included studies that examined the association between children's exposure to TRAP metrics and their risk of 'asthma' incidence or lifetime prevalence, from birth to age 18years old. STUDY APPRAISAL AND SYNTHESIS METHODS We extracted key characteristics of each included study using a predefined data items template and these were tabulated. We used the Critical Appraisal Skills Programme checklists to assess the validity of each included study. Where four or more independent risk estimates were available for a continuous pollutant exposure, we conducted overall and age-specific meta-analyses, and four sensitivity analyses for each summary meta-analytic exposure-outcome association. RESULTS Forty-one studies met our eligibility criteria. There was notable variability in asthma definitions, TRAP exposure assessment methods and confounder adjustment. The overall random-effects risk estimates (95% CI) were 1.08 (1.03, 1.14) per 0.5×10-5m-1 black carbon (BC), 1.05 (1.02, 1.07) per 4μg/m3 nitrogen dioxide (NO2), 1.48 (0.89, 2.45) per 30μg/m3 nitrogen oxides (NOx), 1.03 (1.01, 1.05) per 1μg/m3 Particulate Matter <2.5μm in diameter (PM2.5), and 1.05 (1.02, 1.08) per 2μg/m3 Particulate Matter <10μm in diameter (PM10). Sensitivity analyses supported these findings. Across the main analysis and age-specific analysis, the least heterogeneity was seen for the BC estimates, some heterogeneity for the PM2.5 and PM10 estimates and the most heterogeneity for the NO2 and NOx estimates. LIMITATIONS, CONCLUSIONS AND IMPLICATION OF KEY FINDINGS The overall risk estimates from the meta-analyses showed statistically significant associations for BC, NO2, PM2.5, PM10 exposures and risk of asthma development. Our findings support the hypothesis that childhood exposure to TRAP contributes to their development of asthma. Future meta-analyses would benefit from greater standardization of study methods including exposure assessment harmonization, outcome harmonization, confounders' harmonization and the inclusion of all important confounders in individual studies. SYSTEMATIC REVIEW REGISTRATION NUMBER PROSPERO 2014: CRD42014015448.
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Affiliation(s)
- Haneen Khreis
- Institute for Transport Studies, University of Leeds, Leeds, United Kingdom.
| | - Charlotte Kelly
- Institute for Transport Studies, University of Leeds, Leeds, United Kingdom; Leeds Institute of Health Sciences, University of Leeds, Leeds, United Kingdom
| | - James Tate
- Institute for Transport Studies, University of Leeds, Leeds, United Kingdom
| | - Roger Parslow
- Leeds Institute of Cardiovascular and Metabolic Medicine, University of Leeds, Leeds, United Kingdom
| | - Karen Lucas
- Institute for Transport Studies, University of Leeds, Leeds, United Kingdom
| | - Mark Nieuwenhuijsen
- ISGlobal CREAL, C/Dr. Aiguader 88, 08003 Barcelona, Spain; Universitat Pompeu Fabra (UPF), C/Dr. Aiguader 88, 08003, Barcelona, Spain; CIBER Epidemiología y Salud Pública (CIBERESP), C/Monforte de Lemos 3-5, 28029 Madrid, Spain
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Forbes SA, Beare D, Bindal N, Bamford S, Ward S, Cole CG, Jia M, Kok C, Boutselakis H, De T, Sondka Z, Ponting L, Stefancsik R, Harsha B, Tate J, Dawson E, Thompson S, Jubb H, Campbell PJ. COSMIC: High-Resolution Cancer Genetics Using the Catalogue of Somatic Mutations in Cancer. ACTA ACUST UNITED AC 2016; 91:10.11.1-10.11.37. [PMID: 27727438 DOI: 10.1002/cphg.21] [Citation(s) in RCA: 94] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
COSMIC (http://cancer.sanger.ac.uk) is an expert-curated database of somatic mutations in human cancer. Broad and comprehensive in scope, recent releases in 2016 describe over 4 million coding mutations across all human cancer disease types. Mutations are annotated across the entire genome, but expert curation is focused on over 400 key cancer genes. Now encompassing the majority of molecular mutation mechanisms in oncogenetics, COSMIC additionally describes 10 million non-coding mutations, 1 million copy-number aberrations, 9 million gene-expression variants, and almost 8 million differentially methylated CpGs. This information combines a consistent interpretation of the data from the major cancer genome consortia and cancer genome literature with exhaustive hand curation of over 22,000 gene-specific literature publications. This unit describes the graphical Web site in detail; alternative protocols overview other ways the entire database can be accessed, analyzed, and downloaded. © 2016 by John Wiley & Sons, Inc.
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Affiliation(s)
- S A Forbes
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - D Beare
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - N Bindal
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - S Bamford
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - S Ward
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - C G Cole
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - M Jia
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - C Kok
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - H Boutselakis
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - T De
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - Z Sondka
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - L Ponting
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - R Stefancsik
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - B Harsha
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - J Tate
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - E Dawson
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - S Thompson
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - H Jubb
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
| | - P J Campbell
- Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, United Kingdom
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13
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Barakat LA, Juthani-Mehta M, Allore H, Trentalange M, Tate J, Rimland D, Pisani M, Akgün KM, Goetz MB, Butt AA, Rodriguez-Barradas M, Duggal M, Crothers K, Justice AC, Quagliarello VJ. Comparing clinical outcomes in HIV-infected and uninfected older men hospitalized with community-acquired pneumonia. HIV Med 2015; 16:421-30. [PMID: 25959543 DOI: 10.1111/hiv.12244] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 11/26/2014] [Indexed: 01/18/2023]
Abstract
OBJECTIVES Outcomes of community-acquired pneumonia (CAP) among HIV-infected older adults are unclear. METHODS Associations between HIV infection and three CAP outcomes (30-day mortality, readmission within 30 days post-discharge, and hospital length of stay [LOS]) were examined in the Veterans Aging Cohort Study (VACS) of male Veterans, age ≥ 50 years, hospitalized for CAP from 10/1/2002 through 08/31/2010. Associations between the VACS Index and CAP outcomes were assessed in multivariable models. RESULTS Among 117 557 Veterans (36 922 HIV-infected and 80 635 uninfected), 1203 met our eligibility criteria. The 30-day mortality rate was 5.3%, the mean LOS was 7.3 days, and 13.2% were readmitted within 30 days of discharge. In unadjusted analyses, there were no significant differences between HIV-infected and uninfected participants regarding the three CAP outcomes (P > 0.2). A higher VACS Index was associated with increased 30-day mortality, readmission, and LOS in both HIV-infected and uninfected groups. Generic organ system components of the VACS Index were associated with adverse CAP outcomes; HIV-specific components were not. Among HIV-infected participants, those not on antiretroviral therapy (ART) had a higher 30-day mortality (HR 2.94 [95% CI 1.51, 5.72]; P = 0.002) and a longer LOS (slope 2.69 days [95% CI 0.65, 4.73]; P = 0.008), after accounting for VACS Index. Readmission was not associated with ART use (OR 1.12 [95% CI 0.62, 2.00] P = 0.714). CONCLUSION Among HIV-infected and uninfected older adults hospitalized for CAP, organ system components of the VACS Index were associated with adverse CAP outcomes. Among HIV-infected individuals, ART was associated with decreased 30-day mortality and LOS.
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Affiliation(s)
- L A Barakat
- Infectious Disease, Yale University School of Medicine, New Haven, CT, USA.,Internal Medicine, Yale University School of Medicine, New Haven, CT, USA
| | - M Juthani-Mehta
- Infectious Disease, Yale University School of Medicine, New Haven, CT, USA.,Internal Medicine, Yale University School of Medicine, New Haven, CT, USA
| | - H Allore
- Internal Medicine, Yale University School of Medicine, New Haven, CT, USA
| | - M Trentalange
- Internal Medicine, Yale University School of Medicine, New Haven, CT, USA
| | - J Tate
- Internal Medicine, VA Connecticut Healthcare System, West Haven, CT, USA
| | - D Rimland
- Infectious Disease, VA Medical Center, Decatur, GA, USA
| | - M Pisani
- Internal Medicine, Yale University School of Medicine, New Haven, CT, USA.,Pulmonary Disease and Critical Care, Yale University School of Medicine, New Haven, CT, USA
| | - K M Akgün
- Internal Medicine, Yale University School of Medicine, New Haven, CT, USA.,Internal Medicine, VA Connecticut Healthcare System, West Haven, CT, USA.,Pulmonary Disease and Critical Care, Yale University School of Medicine, New Haven, CT, USA
| | - M B Goetz
- Infectious Disease, VA Greater Los Angles Healthcare System, Los Angelos, CA, USA
| | - A A Butt
- Internal Medicine, University of Pittsburgh, Pittsburgh, PA, USA
| | - M Rodriguez-Barradas
- Infectious Diseases (MS 111G), Michael E. Debakey VA Medical Center, Houston, TX, USA
| | - M Duggal
- Internal Medicine, VA Connecticut Healthcare System, West Haven, CT, USA
| | - K Crothers
- Pulmonary Disease and Critical Care, University of Washington, Seattle, WA, USA
| | - A C Justice
- Internal Medicine, Yale University School of Medicine, New Haven, CT, USA.,Internal Medicine, VA Connecticut Healthcare System, West Haven, CT, USA
| | - V J Quagliarello
- Infectious Disease, Yale University School of Medicine, New Haven, CT, USA.,Internal Medicine, Yale University School of Medicine, New Haven, CT, USA
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14
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Choy K, Wijeratne N, Lu Z, Tate J, Jones G, Doery J. Harmonised calculation of osmolal gap using the kiss principle. Pathology 2015. [DOI: 10.1097/01.pat.0000461555.62342.de] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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15
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Jaksic M, Byrnes C, Tate J. 34 Children with a late diagnosis of CF despite a long-established newborn screening programme. J Cyst Fibros 2013. [DOI: 10.1016/s1569-1993(13)60177-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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16
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Parsonage W, Greenslade J, Ungerer J, Tate J, Pretorius C, Hammett C, Lamanna A, Chu K, Brown A, Cullen L. A Study of the Effect of the Manufacturers Advised Recalculation of the High Sensitivity Troponin T Assay on the Early Detection of Acute Myocardial Infarction in Patients Presenting to the Emergency Department. Heart Lung Circ 2013. [DOI: 10.1016/j.hlc.2013.05.495] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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17
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Pinzari F, Tate J, Bicchieri M, Rhee YJ, Gadd GM. Biodegradation of ivory (natural apatite): possible involvement of fungal activity in biodeterioration of the Lewis Chessmen. Environ Microbiol 2012; 15:1050-62. [DOI: 10.1111/1462-2920.12027] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2012] [Revised: 10/01/2012] [Accepted: 10/01/2012] [Indexed: 11/29/2022]
Affiliation(s)
- Flavia Pinzari
- Istituto Centrale per il Restauro e la Conservazione del Patrimonio Archivistico e Librario; Via Milano 76; 00184; Rome; Italy
| | - James Tate
- National Museums Scotland; EH5 1JA; Edinburgh; UK
| | - Marina Bicchieri
- Istituto Centrale per il Restauro e la Conservazione del Patrimonio Archivistico e Librario; Via Milano 76; 00184; Rome; Italy
| | - Young Joon Rhee
- Division of Molecular Microbiology; College of Life Sciences; University of Dundee; DD1 5EH; Dundee; UK
| | - Geoffrey Michael Gadd
- Division of Molecular Microbiology; College of Life Sciences; University of Dundee; DD1 5EH; Dundee; UK
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18
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Kahn G, Fitzwater S, Tate J, Kang G, Ganguly N, Nair G, Steele D, Arora R, Chawlasarkar M, Parashar U, Santosham M. Epidemiology and prospects for prevention of rotavirus disease in India. Indian Pediatr 2012; 49:467-74. [DOI: 10.1007/s13312-012-0076-7] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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19
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Tate J, Siddiqui M. Institutional Outcomes in Patients Evaluated for Possible Normal Pressure Hydrocephalus: Which Factors Are Predictive of Positive Response to Ventriculoperitoneal Shunt Placement? (P02.245). Neurology 2012. [DOI: 10.1212/wnl.78.1_meetingabstracts.p02.245] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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20
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Richard A, Russell J, Zakutayev A, Zakharov L, Keszler D, Tate J. Synthesis, structure, and optical properties of BiCuOCh (Ch=S, Se, and Te). J SOLID STATE CHEM 2012. [DOI: 10.1016/j.jssc.2011.11.013] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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21
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Cullen L, Parsonage W, Greenslade J, Lamanna A, Hammett C, Than M, Tate J, Kalinowski L, Ungerer J, Chu K, Brown A. Delta Troponin for the Diagnosis of AMI: Comparison of 2 and 6h Metrics Using a Contemporary Troponin Assay for Emergency Department Patients with Chest Pain. Heart Lung Circ 2012. [DOI: 10.1016/j.hlc.2012.05.094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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22
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Allen PH, Bloom AJ, Bragg R, Brown RT, Burgos A, Bushby N, Clarke ML, Dudin LF, Ellames GJ, Gee AD, Gouverneur V, Harding JR, Harrowven DC, Herbert JM, Hickey MJ, Husbands S, Jennings LE, Jones M, Kealey S, Killick D, Kingston LP, Kitson SL, Kohler A, Kostiuk SL, Le Strat F, Light ME, Lockley WJS, Long NJ, McNeill AH, Miller PW, Moody TS, Murrell VL, Nanson L, Pedersen MHF, Pinney KG, Plisson C, Schou S, Sharma RS, Shaw I, Sherhod R, Smith T, Sriram M, Tate J, Tredwell M, Twiddy S, Watters W, White AJP, Wilkinson DJ, Woodcock T. 19th international isotope society (UK group) symposium: synthesis & applications of labelled compounds 2010. J Labelled Comp Radiopharm 2011. [DOI: 10.1002/jlcr.1878] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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23
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Singh K, Buckner B, Tate J, Ndubani P, Kamwanga J. Age, poverty and alcohol use as HIV risk factors for women in Mongu, Zambia. Afr Health Sci 2011; 11:204-210. [PMID: 21857851 PMCID: PMC3158508] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/31/2023] Open
Abstract
BACKGROUND Age, poverty and alcohol use are seen as risk factors for HIV among women in sub-Saharan Africa. OBJECTIVE The objective of this study was to understand the influence of socioeconomic factors (including age and poverty) as well as alcohol use on risky sexual behaviors among women in Mongu, Zambia. METHODS This study examines these factors in the local context of Mongu, Zambia using the Priorities for Local AIDS Control Efforts (PLACE) methodology. This methodology allows for the study of risky behaviors while taking into consideration local factors. The two outcome variable studied were transactional sex in the past year and having two or more sexual partners in the past year. RESULTS In this study age was not a significant factor, but alcohol use and poverty/desire for economic advancement were significant factors. CONCLUSION Programs and policies need to address the influence of alcohol on risky sexual behaviors and also the important but complex influence of poverty.
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Affiliation(s)
- K Singh
- MEASURE Evaluation, University of North Carolina at Chapel Hill, USA.
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24
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Jaksic M, Tate J, Vyas J, Byrnes C. 328 Review of a paediatric cystic fibrosis (CF) centre to assess changes in outcomes over decade. J Cyst Fibros 2011. [DOI: 10.1016/s1569-1993(11)60341-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Abstract
ABSTRACTTransparent p-n heterojunction diodes are fabricated using p-type CuYO2:Ca and n-type ZnO:Al thin films on a glass substrate coated with indium-tin oxide (ITO). The contact between the n-ZnO:Al / p-CuYO2:Ca heterojunction is found to be rectifying, while the ITO / ZnO:Al contact is ohmic. The typical ratio of forward to reverse current is 15 in the range -3 to 3V. The diode current-voltage characteristics are dominated by the flow of space charge limited current, which is ascribed to the existence of an insulating ZnO interfacial layer. The diode structure has a total thickness of 0.85 μm and an optical transmission of 40%-50% in the visible region.
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26
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Jaksic M, Tate J, Carll J, Squire B, Vyas J, Webster D, Byrnes C. Years newborn screening programme suggests a changing CF incidence in New Zealand. J Cyst Fibros 2010. [DOI: 10.1016/s1569-1993(10)60027-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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27
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Cortes J, Esposito D, Cortese M, Bartlett D, Tate J, Payne D, Patel M, Curns A, Gentsch J, Parashar U. Uptake and impact of Rotavirus vaccines in US Children. Int J Infect Dis 2010. [DOI: 10.1016/j.ijid.2010.02.1875] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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28
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Chaudhry A, Tate J. West J Med 2009; 339:b5096-b5096. [DOI: 10.1136/bmj.b5096] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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29
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Mansten E, Dahlström JM, Mauritsson J, Ruchon T, L'huillier A, Tate J, Gaarde MB, Eckle P, Guandalini A, Holler M, Schapper F, Gallmann L, Keller U. Spectral signature of short attosecond pulse trains. Phys Rev Lett 2009; 102:083002. [PMID: 19257735 DOI: 10.1103/physrevlett.102.083002] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/06/2008] [Indexed: 05/27/2023]
Abstract
We report experimental measurements of high-order harmonic spectra generated in Ar using a carrier-envelope-offset (CEO) stabilized 12 fs, 800 nm laser field and a fraction (less than 10%) of its second harmonic. Additional spectral peaks are observed between the harmonic peaks, which are due to interferences between multiple pulses in the train. The position of these peaks varies with the CEO and their number is directly related to the number of pulses in the train. An analytical model, as well as numerical simulations, support our interpretation.
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Affiliation(s)
- E Mansten
- Department of Physics, Lund University, P. O. Box 118, SE-221 00 Lund, Sweden
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30
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Ropkins K, Quinn R, Beebe J, Li H, Daham B, Tate J, Bell M, Andrews G. Real-world comparison of probe vehicle emissions and fuel consumption using diesel and 5% biodiesel (B5) blend. Sci Total Environ 2007; 376:267-84. [PMID: 17307242 DOI: 10.1016/j.scitotenv.2006.11.021] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/11/2006] [Revised: 10/25/2006] [Accepted: 11/02/2006] [Indexed: 05/14/2023]
Abstract
An instrumented EURO I Ford Mondeo was used to perform a real-world comparison of vehicle exhaust (carbon dioxide, carbon monoxide, hydrocarbons and oxides of nitrogen) emissions and fuel consumption for diesel and 5% biodiesel in diesel blend (B5) fuels. Data were collected on multiple replicates of three standardised on-road journeys: (1) a simple urban route; (2) a combined urban/inter-urban route; and, (3) an urban route subject to significant traffic management. At the total journey measurement level, data collected here indicate that replacing diesel with a B5 substitute could result in significant increases in both NO(x) emissions (8-13%) and fuel consumption (7-8%). However, statistical analysis of probe vehicle data demonstrated the limitations of comparisons based on such total journey measurements, i.e., methods analogous to those used in conventional dynamometer/drive cycle fuel comparison studies. Here, methods based on the comparison of speed/acceleration emissions and fuel consumption maps are presented. Significant variations across the speed/acceleration surface indicated that direct emission and fuel consumption impacts were highly dependent on the journey/drive cycle employed. The emission and fuel consumption maps were used both as descriptive tools to characterise impacts and predictive tools to estimate journey-specific emission and fuel consumption effects.
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Affiliation(s)
- Karl Ropkins
- Institute for Transport Studies, University of Leeds, Leeds, LS2 9JT, UK.
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31
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Hauri CP, Lopez-Martens RB, Blaga CI, Schultz KD, Cryan J, Chirla R, Colosimo P, Doumy G, March AM, Roedig C, Sistrunk E, Tate J, Wheeler J, Dimauro LF, Power EP. Intense self-compressed, self-phase-stabilized few-cycle pulses at 2 microm from an optical filament. Opt Lett 2007; 32:868-70. [PMID: 17339964 DOI: 10.1364/ol.32.000868] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/14/2023]
Abstract
We report the compression of intense, carrier-envelope phase stable mid-IR pulses down to few-cycle duration using an optical filament. A filament in xenon gas is formed by using self-phase stabilized 330 microJ 55 fs pulses at 2 microm produced via difference-frequency generation in a Ti:sapphire-pumped optical parametric amplifier. The ultrabroadband 2 microm carrier-wavelength output is self-compressed below 3 optical cycles and has a 270 microJ pulse energy. The self-locked phase offset of the 2 microm difference-frequency field is preserved after filamentation. This is to our knowledge the first experimental realization of pulse compression in optical filaments at mid-IR wavelengths (lambda>0.8 microm).
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Affiliation(s)
- C P Hauri
- Laboratorie d'Optique Appliquée, ENSTA Ecole Polytechnique, CNRS UMR 7639, Palaiseau, France.
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Pierce Z, Strawbridge R, Gaito C, Dulatas L, Tate J, Ogden J, Hoopes PJ. In-Vitro Investigations of Nanoparticle Magnetic Thermotherapy: Adjuvant Effects and Comparison to Conventional Heating. Proc SPIE Int Soc Opt Eng 2007; 6440:64400J. [PMID: 25301984 PMCID: PMC4187113 DOI: 10.1117/12.710579] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/19/2023]
Abstract
Thermotherapy, particularly magnetic nanoparticle hyperthermia, is a promising modality both as a direct cancer cell killing and as a radiosensitization technique for adjuvant therapy. Dextran-coated iron oxide nanoparticles were mixed with multiple tumor cell lines in solution and exposed to varying magnetic field regimes and combined with traditional external radiotherapy. Heating of cell lines by water bath in temperature patterns comparable to those achieved by nanoparticle hyperthermia was conducted to assess the relative value of nano-magnetic thermotherapy compared with conventional bulk heating techniques and data.
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Affiliation(s)
- Z Pierce
- Dartmouth College, Thayer School of Engineering, and Dartmouth Medical School
| | - R Strawbridge
- Dartmouth College, Thayer School of Engineering, and Dartmouth Medical School
| | - C Gaito
- Dartmouth College, Thayer School of Engineering, and Dartmouth Medical School
| | - L Dulatas
- Dartmouth College, Thayer School of Engineering, and Dartmouth Medical School
| | - J Tate
- Dartmouth College, Thayer School of Engineering, and Dartmouth Medical School
| | - J Ogden
- Dartmouth College, Thayer School of Engineering, and Dartmouth Medical School
| | - P J Hoopes
- Dartmouth College, Thayer School of Engineering, and Dartmouth Medical School
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Tate J, Auguste T, Muller HG, Salières P, Agostini P, DiMauro LF. Scaling of wave-packet dynamics in an intense midinfrared field. Phys Rev Lett 2007; 98:013901. [PMID: 17358475 DOI: 10.1103/physrevlett.98.013901] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2006] [Indexed: 05/14/2023]
Abstract
A theoretical investigation is presented that examines the wavelength scaling from near-visible (0.8 micro m) to midinfrared (2 micro m) of the photoelectron distribution and high harmonics generated by a "single" atom in an intense electromagnetic field. The calculations use a numerical solution of the time-dependent Schrödinger equation (TDSE) in argon and the strong-field approximation in helium. The scaling of electron energies (lambda2), harmonic cutoff (lambda2), and attochirp (lambda -1) agree with classical mechanics, but it is found that, surprisingly, the harmonic yield follows a lambda -(5-6) scaling at constant intensity. In addition, the TDSE results reveal an unexpected contribution from higher-order returns of the rescattering electron wave packet.
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Affiliation(s)
- J Tate
- Department of Physics, The Ohio State University, Columbus, OH 43210, USA
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Tagari M, Tate J, Swaminathan GJ, Newman R, Naim A, Vranken W, Kapopoulou A, Hussain A, Fillon J, Henrick K, Velankar S. E-MSD: improving data deposition and structure quality. Nucleic Acids Res 2006; 34:D287-90. [PMID: 16381867 PMCID: PMC1347525 DOI: 10.1093/nar/gkj163] [Citation(s) in RCA: 35] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The Macromolecular Structure Database (MSD) (http://www.ebi.ac.uk/msd/) [H. Boutselakis, D. Dimitropoulos, J. Fillon, A. Golovin, K. Henrick, A. Hussain, J. Ionides, M. John, P. A. Keller, E. Krissinel et al. (2003) E-MSD: the European Bioinformatics Institute Macromolecular Structure Database. Nucleic Acids Res., 31, 458-462.] group is one of the three partners in the worldwide Protein DataBank (wwPDB), the consortium entrusted with the collation, maintenance and distribution of the global repository of macromolecular structure data [H. Berman, K. Henrick and H. Nakamura (2003) Announcing the worldwide Protein Data Bank. Nature Struct. Biol., 10, 980.]. Since its inception, the MSD group has worked with partners around the world to improve the quality of PDB data, through a clean up programme that addresses inconsistencies and inaccuracies in the legacy archive. The improvements in data quality in the legacy archive have been achieved largely through the creation of a unified data archive, in the form of a relational database that stores all of the data in the wwPDB. The three partners are working towards improving the tools and methods for the deposition of new data by the community at large. The implementation of the MSD database, together with the parallel development of improved tools and methodologies for data harvesting, validation and archival, has lead to significant improvements in the quality of data that enters the archive. Through this and related projects in the NMR and EM realms the MSD continues to improve the quality of publicly available structural data.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | | | - S. Velankar
- To whom correspondence should be addressed. Tel: +44 1223 494 646; Fax: +44 1223 494 468;
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Henrick K, Valenkar S, Boutselakis H, Hussain A, Ionides J, Kapopoulou A, Keller P, Newman R, Pineda J, Suarez A, Swaminathan J, Tate J. mmCIF and dictionary driven software with the MSD database production pipeline. Acta Crystallogr A 2005. [DOI: 10.1107/s0108767305094596] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
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Pillai S, Silventoinen V, Kallio K, Senger M, Sobhany S, Tate J, Velankar S, Golovin A, Henrick K, Rice P, Stoehr P, Lopez R. SOAP-based services provided by the European Bioinformatics Institute. Nucleic Acids Res 2005; 33:W25-8. [PMID: 15980463 PMCID: PMC1160251 DOI: 10.1093/nar/gki491] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
SOAP (Simple Object Access Protocol) () based Web Services technology () has gained much attention as an open standard enabling interoperability among applications across heterogeneous architectures and different networks. The European Bioinformatics Institute (EBI) is using this technology to provide robust data retrieval and data analysis mechanisms to the scientific community and to enhance utilization of the biological resources it already provides [N. Harte, V. Silventoinen, E. Quevillon, S. Robinson, K. Kallio, X. Fustero, P. Patel, P. Jokinen and R. Lopez (2004) Nucleic Acids Res., 32, 3–9]. These services are available free to all users from .
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Affiliation(s)
| | | | | | | | | | | | | | | | | | | | | | - R. Lopez
- To whom correspondence should be addressed at: EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 ISD, UK. Tel: +44 1223 494423; Fax: +44 1223 494468;
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Warren WW, Rajabzadeh A, Olheiser T, Liu J, Tate J, Jayaraj MK, Vanaja KA. Nuclear quadrupole resonance studies of transparent conducting oxides. Solid State Nucl Magn Reson 2004; 26:209-214. [PMID: 15388186 DOI: 10.1016/j.ssnmr.2004.03.008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2004] [Revised: 03/17/2004] [Indexed: 05/24/2023]
Abstract
We report (63,65)Cu spin-lattice relaxation rates measured by nuclear quadrupole resonance (NQR) in the delafossite compound CuYO(2) and CuYO(2):Ca over a temperature range from 200 to 450K. CuYO(2):Ca is a prototype transparent oxide exhibiting p-type electrical conductivity. Relaxation rates in CuYO(2):Ca are enhanced by one to two orders of magnitude relative to undoped material, exhibit much stronger temperature dependence, and contain contributions from magnetic and quadrupolar relaxation mechanisms with roughly equal strengths. Relaxation in undoped CuYO(2) is of purely quadrupolar origin and is attributed to interactions with lattice phonons. The main focus of this paper is the magnetic contribution to the relaxation rate in CuYO(2):Ca which is attributed to the hyperfine fields of carriers. It is argued that the dynamics of the hyperfine field are dominated by the hopping rate for carrier transfers between neighboring atoms in the copper planes of the delafossite structure. Comparison of the magnetic relaxation rates with the DC conductivity permits an estimate of the carrier concentration and mobility.
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Affiliation(s)
- W W Warren
- Department of Physics, Oregon State University, Corvallis, OR 97331-6507, USA.
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Arnold SJ, ApSimon H, Barlow J, Belcher S, Bell M, Boddy JW, Britter R, Cheng H, Clark R, Colvile RN, Dimitroulopoulou S, Dobre A, Greally B, Kaur S, Knights A, Lawton T, Makepeace A, Martin D, Neophytou M, Neville S, Nieuwenhuijsen M, Nickless G, Price C, Robins A, Shallcross D, Simmonds P, Smalley RJ, Tate J, Tomlin AS, Wang H, Walsh P. Introduction to the DAPPLE Air Pollution Project. Sci Total Environ 2004; 332:139-153. [PMID: 15336898 DOI: 10.1016/j.scitotenv.2004.04.020] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2003] [Revised: 02/01/2004] [Accepted: 04/28/2004] [Indexed: 05/24/2023]
Abstract
The Dispersion of Air Pollution and its Penetration into the Local Environment (DAPPLE) project brings together a multidisciplinary research group that is undertaking field measurements, wind tunnel modelling and computer simulations in order to provide better understanding of the physical processes affecting street and neighbourhood-scale flow of air, traffic and people, and their corresponding interactions with the dispersion of pollutants at street canyon intersections. The street canyon intersection is of interest as it provides the basic case study to demonstrate most of the factors that will apply in a wide range of urban situations. The aims of this paper are to introduce the background of the DAPPLE project, the study design and methodology for data collection, some preliminary results from the first field campaign in central London (28 April-24 May 2003) and the future for this work. Updated information and contact details are available on the web site at http://www.dapple.org.uk.
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Affiliation(s)
- S J Arnold
- Department of Environmental Science and Technology, Royal school of Mines Building (Rm. 4.33), Imperial College London, Prince Consort Rd., South Kensington, London SW7 2BP, UK.
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Boutselakis H, Dimitropoulos D, Fillon J, Golovin A, Henrick K, Hussain A, Ionides J, John M, Keller PA, Krissinel E, McNeil P, Naim A, Newman R, Oldfield T, Pineda J, Rachedi A, Copeland J, Sitnov A, Sobhany S, Suarez-Uruena A, Swaminathan J, Tagari M, Tate J, Tromm S, Velankar S, Vranken W. E-MSD: the European Bioinformatics Institute Macromolecular Structure Database. Nucleic Acids Res 2003; 31:458-62. [PMID: 12520052 PMCID: PMC165512 DOI: 10.1093/nar/gkg065] [Citation(s) in RCA: 77] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2002] [Accepted: 10/03/2002] [Indexed: 11/14/2022] Open
Abstract
The E-MSD macromolecular structure relational database (http://www.ebi.ac.uk/msd) is designed to be a single access point for protein and nucleic acid structures and related information. The database is derived from Protein Data Bank (PDB) entries. Relational database technologies are used in a comprehensive cleaning procedure to ensure data uniformity across the whole archive. The search database contains an extensive set of derived properties, goodness-of-fit indicators, and links to other EBI databases including InterPro, GO, and SWISS-PROT, together with links to SCOP, CATH, PFAM and PROSITE. A generic search interface is available, coupled with a fast secondary structure domain search tool.
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Affiliation(s)
- H Boutselakis
- EMBL Outstation, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
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Henrick K, Boutselakis H, Dimitropoulos D, Golovin A, Ionides J, John M, Keller P, Krissinel E, Mcneil P, Pineda J, Sobhany S, Tate J, Suarez-Uruena A, Velankar S. The EBI macromolecular structure database (E-MSD) and structural genomics. Acta Crystallogr A 2002. [DOI: 10.1107/s0108767302087081] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
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Liljas L, Tate J, Lin T, Christian P, Johnson JE. Evolutionary and taxonomic implications of conserved structural motifs between picornaviruses and insect picorna-like viruses. Arch Virol 2002; 147:59-84. [PMID: 11855636 DOI: 10.1007/s705-002-8303-1] [Citation(s) in RCA: 52] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
A comparison of the recently determined structure of an insect picorna-like virus, Cricket paralysis virus (CrPV), with that of the mammalian picornaviruses shows that several structural features are highly conserved between these viruses. These conserved features include the topology of the coat proteins, the conformation of most loops, and the general arrangement of the internally located N-terminal arms of the coat proteins. The conformational conservation of the N-termini of the three major coat proteins between CrPV and the picornaviruses suggests a putative ancestral T = 3 virus. Comparisons of the genome structure and amino-acid sequence of the coat proteins of CrPV with a number of other insect picorna-like viruses show that most of them belong to a novel group, recently given the interim name Cricket paralysis-like viruses. Two other insect picorna-like viruses, Infectious flacherie virus (IFV) and Sacbrood virus (SBV), for which the genome sequences have recently been determined, have very different coat protein sequences and a genome organization more like the picornaviruses. However, the position of the small VP4 protein in the structural protein polyprotein as well as the mechanism for its cleavage from VP3 upon assembly strongly suggests an evolutionary link to the "Cricket paralysis-like viruses". We propose that the picornaviruses, Cricket paralysis-like viruses and IFV/SBV group are a natural assemblage. The ancestor for this assemblage had a structure based upon the CrPV/picornavirus paradigm and a genome encoding a single major coat protein; gene duplication and rearrangements have subsequently produced the viruses that we observe today. We also discuss the possible relatives of the proposed assemblage and the likely implications of future structural studies that may be carried out on the putative relatives.
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Affiliation(s)
- L Liljas
- Department of Molecular Biology, The Scripps Research Institute, San Diego, California, USA.
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Tate J, Schumacher D. Interferometric pump-probe study of intense field excitation of sapphire. Phys Rev Lett 2001; 87:053901. [PMID: 11497771 DOI: 10.1103/physrevlett.87.053901] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2001] [Indexed: 05/23/2023]
Abstract
Under intense optical excitation, the polarizability of transparent optical materials has a significant third order, nonlinear contribution. This manifests itself in a wide variety of effects, which, under certain conditions, are collectively referred to as white light continuum generation. We report on a new approach that isolates, for the first time, some of these effects.
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Affiliation(s)
- J Tate
- The Ohio State University, Columbus, Ohio 43210, USA
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Tate J, Olencki T, Finke J, Kottke-Marchant K, Rybicki LA, Bukowski RM. Phase I trial of simultaneously administered GM-CSF and IL-6 in patients with renal-cell carcinoma: clinical and laboratory effects. Ann Oncol 2001; 12:655-9. [PMID: 11432624 DOI: 10.1023/a:1011123432765] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
BACKGROUND Metastatic renal-cell carcinoma is a neoplasm that is minimally responsive to cytotoxic chemotherapy. Tumor regression following therapy with cytokines such as interferon alpha and or interleukin-2 is seen in selected subsets of patients. Investigations with other immunomodulatory cytokines, such as GM-CSF and IL-6 are therefore of interest. PATIENTS AND METHODS A phase I trial of concomitantly administered granulocyte macrophage-colony stimulating factor (3.0 mcg/kg/day s.c. d1-14) and escalating doses of interleukin-6 (1.0, 5.0 or 10.0 microg/kg/day d1-14) was conducted in patients with metastatic renal-cell carcinoma to explore the toxicity of the combination and its hematologic effects. RESULTS The most common side effects seen were fever, fatigue and arthralgias. Dose limiting toxicity included thrombocytosis and hyperbilirubinemia in patients receiving 10 microg/kg/day of IL-6. The hematologic effects of IL-6 and GM-CSF included leukocytoses and thrombocytosis, with increases in peripheral blood progenitors (BFU-E, CFU-GM, and CFU-GEMM). Evidence of platelet activation demonstrated by increased platelet expression of CD62 was found. No clinical responses were observed. CONCLUSIONS The combination of IL-6 and GM-CSF has pleotropic hematologic effects. Further studies with this combination for the treatment of renal-cell carcinoma are not recommended.
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Affiliation(s)
- J Tate
- Department of Hematology and Medical Oncology, The Cleveland Clinic Foundation, Ohio, USA
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Affiliation(s)
- J Tate
- Advanced Specialty Roles Program, University of Pittsburgh, Pa., USA
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Tasota FJ, Tate J. Interpreting the highs and lows of platelet counts. Nursing 2001; 31:25. [PMID: 11272937 DOI: 10.1097/00152193-200131020-00009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/16/2023]
Affiliation(s)
- F J Tasota
- University of Pittsburgh (Pa.) School of Nursing, USA
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Tate J, Tasota FJ. Assessing thyroid function with serum tests. Nursing 2001; 31:22. [PMID: 11216237 DOI: 10.1097/00152193-200131010-00006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Affiliation(s)
- J Tate
- Advanced Specialty Roles Program, University of Pittsburgh (Pa.) School of Nursing, USA
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Affiliation(s)
- F J Tasota
- University of Pittsburgh (Pa.) School of Nursing, USA
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McCullen MA, Crawford DH, Dimeski G, Tate J, Hickman PE. Why there is discordance in reported decision thresholds for transferrin saturation when screening for hereditary hemochromatosis. Hepatology 2000; 32:1410-1. [PMID: 11186869 DOI: 10.1053/jhep.2000.20216] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/07/2022]
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Affiliation(s)
- J Tate
- Advanced Specialty Roles Program, University of Pittsburgh, Pa., USA
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