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| 5. |
- Blösch, Günter, et al.
(author)
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Twenty-three unsolved problems in hydrology (UPH) - a community perspective
- 2019
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In: Hydrological Sciences Journal. - : Informa UK Limited. - 0262-6667 .- 2150-3435. ; 64:10, s. 1141-1158
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Journal article (peer-reviewed)abstract
- This paper is the outcome of a community initiative to identify major unsolved scientific problems in hydrology motivated by a need for stronger harmonisation of research efforts. The procedure involved a public consultation through online media, followed by two workshops through which a large number of potential science questions were collated, prioritised, and synthesised. In spite of the diversity of the participants (230 scientists in total), the process revealed much about community priorities and the state of our science: a preference for continuity in research questions rather than radical departures or redirections from past and current work. Questions remain focused on the process-based understanding of hydrological variability and causality at all space and time scales. Increased attention to environmental change drives a new emphasis on understanding how change propagates across interfaces within the hydrological system and across disciplinary boundaries. In particular, the expansion of the human footprint raises a new set of questions related to human interactions with nature and water cycle feedbacks in the context of complex water management problems. We hope that this reflection and synthesis of the 23 unsolved problems in hydrology will help guide research efforts for some years to come.
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| 6. |
- Coomans, Emma M., et al.
(author)
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Performance of a [18F]Flortaucipir PET Visual Read Method Across the Alzheimer Disease Continuum and in Dementia with Lewy Bodies
- 2023
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In: Neurology. - 0028-3878 .- 1526-632X. ; 101:19, s. 1850-1862
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Journal article (peer-reviewed)abstract
- Background and ObjectivesRecently, the US Food and Drug Administration approved the tau-binding radiotracer [18F]flortaucipir and an accompanying visual read method to support the diagnostic process in cognitively impaired patients assessed for Alzheimer disease (AD). Studies evaluating this visual read method are limited. In this study, we evaluated the performance of the visual read method in participants along the AD continuum and dementia with Lewy bodies (DLB) by determining its reliability, accordance with semiquantitative analyses, and associations with clinically relevant variables.MethodsWe included participants who underwent tau-PET at Amsterdam University Medical Center. A subset underwent follow-up tau-PET. Two trained nuclear medicine physicians visually assessed all scans. Inter-reader agreement was calculated using Cohen . To examine the concordance of visual read tau positivity with semiquantification, we defined standardized uptake value ratio (SUVr) positivity using different threshold approaches. To evaluate the prognostic value of tau-PET visual read, we performed linear mixed models with longitudinal Mini-Mental State Examination (MMSE).ResultsWe included 263 participants (mean age 68.5 years, 45.6% female), including 147 cognitively unimpaired (CU) participants, 97 amyloid-positive participants with mild cognitive impairment or AD dementia (AD), and 19 participants with DLB. The visual read inter-reader agreement was excellent ( = 0.95, CI 0.91-0.99). None of the amyloid-negative CU participants (0/92 [0%]) and 1 amyloid-negative participant with DLB (1/12 [8.3%]) were tau-positive. Among amyloid-positive participants, 13 CU participants (13/52 [25.0%]), 85 with AD (85/97 [87.6%]), and 3 with DLB (3/7 [42.9%]) were tau-positive. Two-year follow-up visual read status was identical to baseline. Tau-PET visual read corresponded strongly to SUVr status, with up to 90.4% concordance. Visual read tau positivity was associated with a decline on the MMSE in CU participants (β =-0.52, CI-0.74 to-0.30, p < 0.001) and participants with AD (β =-0.30, CI-0.58 to-0.02, p = 0.04).DiscussionThe excellent inter-reader agreement, strong correspondence with SUVr, and longitudinal stability indicate that the visual read method is reliable and robust, supporting clinical application. Furthermore, visual read tau positivity was associated with prospective cognitive decline, highlighting its additional prognostic potential. Future studies in unselected cohorts are needed for a better generalizability to the clinical population.Classification of EvidenceThis study provides Class II evidence that [18F]flortaucipir visual read accurately distinguishes patients with low tau-Tracer binding from those with high tau-Tracer binding and is associated with amyloid positivity and cognitive decline.
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| 7. |
- Okhuijsen-Pfeifer, C, et al.
(author)
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Genome-wide association analyses of symptom severity among clozapine-treated patients with schizophrenia spectrum disorders
- 2022
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In: Translational psychiatry. - : Springer Science and Business Media LLC. - 2158-3188. ; 12:1, s. 145-
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Journal article (peer-reviewed)abstract
- Clozapine is the most effective antipsychotic for patients with treatment-resistant schizophrenia. However, response is highly variable and possible genetic underpinnings of this variability remain unknown. Here, we performed polygenic risk score (PRS) analyses to estimate the amount of variance in symptom severity among clozapine-treated patients explained by PRSs (R2) and examined the association between symptom severity and genotype-predicted CYP1A2, CYP2D6, and CYP2C19 enzyme activity. Genome-wide association (GWA) analyses were performed to explore loci associated with symptom severity. A multicenter cohort of 804 patients (after quality control N = 684) with schizophrenia spectrum disorder treated with clozapine were cross-sectionally assessed using the Positive and Negative Syndrome Scale and/or the Clinical Global Impression-Severity (CGI-S) scale. GWA and PRS regression analyses were conducted. Genotype-predicted CYP1A2, CYP2D6, and CYP2C19 enzyme activities were calculated. Schizophrenia-PRS was most significantly and positively associated with low symptom severity (p = 1.03 × 10−3; R2 = 1.85). Cross-disorder-PRS was also positively associated with lower CGI-S score (p = 0.01; R2 = 0.81). Compared to the lowest tertile, patients in the highest schizophrenia-PRS tertile had 1.94 times (p = 6.84×10−4) increased probability of low symptom severity. Higher genotype-predicted CYP2C19 enzyme activity was independently associated with lower symptom severity (p = 8.44×10−3). While no locus surpassed the genome-wide significance threshold, rs1923778 within NFIB showed a suggestive association (p = 3.78×10−7) with symptom severity. We show that high schizophrenia-PRS and genotype-predicted CYP2C19 enzyme activity are independently associated with lower symptom severity among individuals treated with clozapine. Our findings open avenues for future pharmacogenomic projects investigating the potential of PRS and genotype-predicted CYP-activity in schizophrenia.
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| 8. |
- Sakornsakolpat, Phuwanat, et al.
(author)
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Genetic landscape of chronic obstructive pulmonary disease identifies heterogeneous cell-type and phenotype associations
- 2019
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In: Nature Genetics. - : Springer Science and Business Media LLC. - 1061-4036 .- 1546-1718. ; 51:3, s. 494-505
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Journal article (peer-reviewed)abstract
- Chronic obstructive pulmonary disease (COPD) is the leading cause of respiratory mortality worldwide. Genetic risk loci provide new insights into disease pathogenesis. We performed a genome-wide association study in 35,735 cases and 222,076 controls from the UK Biobank and additional studies from the International COPD Genetics Consortium. We identified 82 loci associated with P < 5 x 10-8; 47 of these were previously described in association with either COPD or population-based measures of lung function. Of the remaining 35 new loci, 13 were associated with lung function in 79,055 individuals from the SpiroMeta consortium. Using gene expression and regulation data, we identified functional enrichment of COPD risk loci in lung tissue, smooth muscle, and several lung cell types. We found 14 COPD loci shared with either asthma or pulmonary fibrosis. COPD genetic risk loci clustered into groups based on associations with quantitative imaging features and comorbidities. Our analyses provide further support for the genetic susceptibility and heterogeneity of COPD.
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| 9. |
- Scutelnic, Adrian, et al.
(author)
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Management of Cerebral Venous Thrombosis Due to Adenoviral COVID-19 Vaccination.
- 2022
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In: Annals of neurology. - : Wiley. - 1531-8249 .- 0364-5134. ; 92:4, s. 562-573
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Journal article (peer-reviewed)abstract
- Cerebral venous thrombosis (CVT) caused by vaccine-induced immune thrombotic thrombocytopenia (VITT) is a rare adverse effect of adenovirus-based severe acute respiratory syndrome-coronavirus 2 (SARS-CoV-2) vaccines. In March 2021, after autoimmune pathogenesis of VITT was discovered, treatment recommendations were developed. These comprised immunomodulation, non-heparin anticoagulants, and avoidance of platelet transfusion. The aim of this study was to evaluate adherence to these recommendations and its association with mortality.We used data from an international prospective registry of patients with CVT after the adenovirus-based SARS-CoV-2 vaccination. We analyzed possible, probable, or definite VITT-CVT cases included until January 18, 2022. Immunomodulation entailed administration of intravenous immunoglobulins and/or plasmapheresis.Ninety-nine patients with VITT-CVT from 71 hospitals in 17 countries were analyzed. Five of 38 (13%), 11 of 24 (46%), and 28 of 37 (76%) of the patients diagnosed in March, April, and from May onward, respectively, were treated in-line with VITT recommendations (p<0.001). Overall, treatment according to recommendations had no statistically significant influence on mortality (14/44 [32%] vs 29/55 [52%], adjusted odds ratio [OR]=0.43, 95% confidence interval [CI]=0.16-1.19). However, patients who received immunomodulation had lower mortality (19/65 [29%] vs 24/34 [70%], adjusted OR=0.19, 95% CI=0.06-0.58). Treatment with non-heparin anticoagulants instead of heparins was not associated with lower mortality (17/51 [33%] vs 13/35 [37%], adjusted OR=0.70, 95% CI=0.24-2.04). Mortality was also not significantly influenced by platelet transfusion (17/27 [63%] vs 26/72 [36%], adjusted OR=2.19, 95% CI=0.74-6.54).In patients with VITT-CVT, adherence to VITT treatment recommendations improved over time. Immunomodulation seems crucial for reducing mortality of VITT-CVT. ANN NEUROL 2022;92:562-573.
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| 10. |
- Manry, Jérémy, et al.
(author)
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The risk of COVID-19 death is much greater and age dependent with type I IFN autoantibodies.
- 2022
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In: Proceedings of the National Academy of Sciences of the United States of America. - : Proceedings of the National Academy of Sciences. - 1091-6490. ; 119:21
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Journal article (peer-reviewed)abstract
- Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection fatality rate (IFR) doubles with every 5 y of age from childhood onward. Circulating autoantibodies neutralizing IFN-α, IFN-ω, and/or IFN-β are found in ∼20% of deceased patients across age groups, and in ∼1% of individuals aged <70 y and in >4% of those >70 y old in the general population. With a sample of 1,261 unvaccinated deceased patients and 34,159 individuals of the general population sampled before the pandemic, we estimated both IFR and relative risk of death (RRD) across age groups for individuals carrying autoantibodies neutralizing type I IFNs, relative to noncarriers. The RRD associated with any combination of autoantibodies was higher in subjects under 70 y old. For autoantibodies neutralizing IFN-α2 or IFN-ω, the RRDs were 17.0 (95% CI: 11.7 to 24.7) and 5.8 (4.5 to 7.4) for individuals <70 y and ≥70 y old, respectively, whereas, for autoantibodies neutralizing both molecules, the RRDs were 188.3 (44.8 to 774.4) and 7.2 (5.0 to 10.3), respectively. In contrast, IFRs increased with age, ranging from 0.17% (0.12 to 0.31) for individuals <40 y old to 26.7% (20.3 to 35.2) for those ≥80 y old for autoantibodies neutralizing IFN-α2 or IFN-ω, and from 0.84% (0.31 to 8.28) to 40.5% (27.82 to 61.20) for autoantibodies neutralizing both. Autoantibodies against type I IFNs increase IFRs, and are associated with high RRDs, especially when neutralizing both IFN-α2 and IFN-ω. Remarkably, IFRs increase with age, whereas RRDs decrease with age. Autoimmunity to type I IFNs is a strong and common predictor of COVID-19 death.
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| 11. |
- van Dijk, B. J., et al.
(author)
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Complement C5 Contributes to Brain Injury After Subarachnoid Hemorrhage
- 2020
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In: Translational Stroke Research. - : Springer Science and Business Media LLC. - 1868-4483 .- 1868-601X. ; 11, s. 678-688
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Journal article (peer-reviewed)abstract
- Previous studies showed that complement activation is associated with poor functional outcome after aneurysmal subarachnoid hemorrhage (SAH). We investigated whether complement activation is underlying brain injury after aneurysmal SAH (n=7) and if it is an appropriate treatment target. We investigated complement expression in brain tissue of aneurysmal SAH patients (n =930) and studied the role of common genetic variants in C3 and C5 genes in outcome. We analyzed plasma levels (n =229) to identify the functionality of a single nucleotide polymorphism (SNP) associated with outcome. The time course of C5a levels was measured in plasma (n =31) and CSF (n =10). In an SAH mouse model, we studied the extent of microglia activation and cell death in wild-type mice, mice lacking the C5a receptor, and in mice treated with C5-specific antibodies (n=15 per group). Brain sections from aneurysmal SAH patients showed increased presence of complement components C1q and C3/C3b/iC3B compared to controls. The complement component 5 (C5) SNP correlated with C5a plasma levels and poor disease outcome. Serial measurements in CSF revealed that C5a was >1400-fold increased 1 day after aneurysmal SAH and then gradually decreased. C5a in plasma was 2-fold increased at days 3–10 after aneurysmal SAH. In the SAH mouse model, we observed a ≈40% reduction in both microglia activation and cell death in mice lacking the C5a receptor, and in mice treated with C5-specific antibodies. These data show that C5 contributes to brain injury after experimental SAH, and support further study of C5-specific antibodies as novel treatment option to reduce brain injury and improve prognosis after aneurysmal SAH.
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| 12. |
- van Gorp, Marloes, et al.
(author)
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The course of health-related quality of life after the diagnosis of childhood cancer : a national cohort study
- 2023
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In: BMC Cancer. - 1471-2407. ; 23, s. 1-13
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Journal article (peer-reviewed)abstract
- BACKGROUND: Comprehensive insight in the longitudinal development of health-related quality of life (HRQOL) after childhood cancer diagnosis could improve quality of care. Thus, we aimed to study the course and biopsychosocial determinants of HRQOL in a unique national cohort of children with cancer.METHODS: HRQOL of 2154 children with cancer was longitudinally reported (median: 3 reports) between diagnosis and 5 years after, using the pediatric quality of life inventory generic core scales (PedsQL). HRQOL was modelled over time since diagnosis using mixed model analysis for children 2-7 years (caregiver-reports) and ≥ 8 years (self-reports). Differences in the course between hematological, solid and central nervous system malignancies were studied. Additional associations of demographics, disease characteristics (age at diagnosis, relapse, diagnosis after the national centralization of childhood cancer care and treatment components) and caregiver distress (Distress thermometer) were studied.RESULTS: Overall, HRQOL improved with time since diagnosis, mostly in the first years. The course of HRQOL differed between diagnostic groups. In children aged 2-7 years, children with a solid tumor had most favorable HRQOL. In children aged ≥ 8 years, those with a hematological malignancy had lower HRQOL around diagnosis, but stronger improvement over time than the other diagnostic groups. In both age-groups, the course of HRQOL of children with a CNS tumor showed little or no improvement. Small to moderate associations (β: 0.18 to 0.67, p < 0.05) with disease characteristics were found. Centralized care related to better HRQOL (β: 0.25 to 0.44, p < 0.05). Caregiver distress was most consistently associated with worse HRQOL (β: - 0.13 to - 0.48, p < 0.01).CONCLUSIONS: The HRQOL course presented can aid in identifying children who have not fully recovered their HRQOL following cancer diagnosis, enabling early recognition of the issue. Future research should focus on ways to support children, especially those with a CNS tumor, for example by decreasing distress in their caregivers.
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| 14. |
- Matuozzo, D, et al.
(author)
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Rare predicted loss-of-function variants of type I IFN immunity genes are associated with life-threatening COVID-19
- 2022
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In: medRxiv : the preprint server for health sciences. - : Cold Spring Harbor Laboratory.
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Journal article (other academic/artistic)abstract
- BackgroundWe previously reported inborn errors of TLR3- and TLR7-dependent type I interferon (IFN) immunity in 1-5% of unvaccinated patients with life-threatening COVID-19, and auto-antibodies against type I IFN in another 15-20% of cases.MethodsWe report here a genome-wide rare variant burden association analysis in 3,269 unvaccinated patients with life-threatening COVID-19 (1,301 previously reported and 1,968 new patients), and 1,373 unvaccinated SARS-CoV-2-infected individuals without pneumonia. A quarter of the patients tested had antibodies against type I IFN (234 of 928) and were excluded from the analysis.ResultsNo gene reached genome-wide significance. Under a recessive model, the most significant gene with at-risk variants wasTLR7, with an OR of 27.68 (95%CI:1.5-528.7,P=1.1×10−4), in analyses restricted to biochemically loss-of-function (bLOF) variants. We replicated the enrichment in rare predicted LOF (pLOF) variants at 13 influenza susceptibility loci involved in TLR3-dependent type I IFN immunity (OR=3.70 [95%CI:1.3-8.2],P=2.1×10−4). Adding the recently reportedTYK2COVID-19 locus strengthened this enrichment, particularly under a recessive model (OR=19.65 [95%CI:2.1-2635.4];P=3.4×10−3). When these 14 loci andTLR7were considered, all individuals hemizygous (n=20) or homozygous (n=5) for pLOF or bLOF variants were patients (OR=39.19 [95%CI:5.2-5037.0],P=4.7×10−7), who also showed an enrichment in heterozygous variants (OR=2.36 [95%CI:1.0-5.9],P=0.02). Finally, the patients with pLOF or bLOF variants at these 15 loci were significantly younger (mean age [SD]=43.3 [20.3] years) than the other patients (56.0 [17.3] years;P=1.68×10−5).ConclusionsRare variants of TLR3- and TLR7-dependent type I IFN immunity genes can underlie life-threatening COVID-19, particularly with recessive inheritance, in patients under 60 years old.
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| 19. |
- Wolters, E. E., et al.
(author)
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Tau PET and relative cerebral blood flow in dementia with Lewy bodies : A PET study
- 2020
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In: NeuroImage: Clinical. - : Elsevier BV. - 2213-1582. ; 28
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Journal article (peer-reviewed)abstract
- Purpose: Alpha-synuclein often co-occurs with Alzheimer's disease (AD) pathology in Dementia with Lewy Bodies (DLB). From a dynamic [18F]flortaucipir PET scan we derived measures of both tau binding and relative cerebral blood flow (rCBF). We tested whether regional tau binding or rCBF differed between DLB patients and AD patients and controls and examined their association with clinical characteristics of DLB. Methods: Eighteen patients with probable DLB, 65 AD patients and 50 controls underwent a dynamic 130-minute [18F]flortaucipir PET scan. DLB patients with positive biomarkers for AD based on cerebrospinal fluid or amyloid PET were considered as DLB with AD pathology (DLB-AD+). Receptor parametric mapping (cerebellar gray matter reference region) was used to extract regional binding potential (BPND) and R1, reflecting (AD-specific) tau pathology and rCBF, respectively. First, we performed regional comparisons of [18F]flortaucipir BPND and R1 between diagnostic groups. In DLB patients only, we performed regression analyses between regional [18F]flortaucipir BPND, R1 and performance on ten neuropsychological tests. Results: Regional [18F]flortaucipir BPND in DLB was comparable with tau binding in controls (p > 0.05). Subtle higher tau binding was observed in DLB-AD+ compared to DLB-AD- in the medial temporal and parietal lobe (both p < 0.05). Occipital and lateral parietal R1 was lower in DLB compared to AD and controls (all p < 0.01). Lower frontal R1 was associated with impaired performance on digit span forward (standardized beta, stβ = 0.72) and category fluency (stβ = 0.69) tests. Lower parietal R1 was related to lower delayed (stβ = 0.50) and immediate (stβ = 0.48) recall, VOSP number location (stβ = 0.70) and fragmented letters (stβ = 0.59) scores. Lower occipital R1 was associated to worse performance on VOSP fragmented letters (stβ = 0.61), all p < 0.05. Conclusion: The amount of tau binding in DLB was minimal and did not differ from controls. However, there were DLB-specific occipital and lateral parietal relative cerebral blood flow reductions compared to both controls and AD patients. Regional rCBF, but not tau binding, was related to cognitive impairment. This indicates that assessment of rCBF may give more insight into disease mechanisms in DLB than tau PET.
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| 21. |
- van der Beek, Justine N., et al.
(author)
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MRI Characteristics of Pediatric Renal Tumors : A SIOP-RTSG Radiology Panel Delphi Study
- 2022
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In: Journal of Magnetic Resonance Imaging. - : Wiley. - 1053-1807 .- 1522-2586. ; 55:2, s. 543-552
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Journal article (peer-reviewed)abstract
- Background: The SIOP-Renal Tumor Study Group (RTSG) does not advocate invasive procedures to determine histology before the start of therapy. This may induce misdiagnosis-based treatment initiation, but only for a relatively small percentage of approximately 10% of non-Wilms tumors (non-WTs). MRI could be useful for reducing misdiagnosis, but there is no global consensus on differentiating characteristics. Purpose: To identify MRI characteristics that may be used for discrimination of newly diagnosed pediatric renal tumors. Study Type: Consensus process using a Delphi method. Population: Not applicable. Field Strength/Sequence: Abdominal MRI including T1- and T2-weighted imaging, contrast-enhanced MRI, and diffusion-weighted imaging at 1.5 or 3 T. Assessment: Twenty-three radiologists from the SIOP-RTSG radiology panel with ≥5 years of experience in MRI of pediatric renal tumors and/or who had assessed ≥50 MRI scans of pediatric renal tumors in the past 5 years identified potentially discriminatory characteristics in the first questionnaire. These characteristics were scored in the subsequent second round, consisting of 5-point Likert scales, ranking- and multiple choice questions. Statistical Tests: The cut-off value for consensus and agreement among the majority was ≥75% and ≥60%, respectively, with a median of ≥4 on the Likert scale. Results: Consensus on specific characteristics mainly concerned the discrimination between WTs and non-WTs, and WTs and nephrogenic rest(s) (NR)/nephroblastomatosis. The presence of bilateral lesions (75.0%) and NR/nephroblastomatosis (65.0%) were MRI characteristics indicated as specific for the diagnosis of a WT, and 91.3% of the participants agreed that MRI is useful to distinguish NR/nephroblastomatosis from WT. Furthermore, all participants agreed that age influenced their prediction in the discrimination of pediatric renal tumors. Data Conclusion: Although the discrimination of pediatric renal tumors based on MRI remains challenging, this study identified some specific characteristics for tumor subtypes, based on the shared opinion of experts. These results may guide future validation studies and innovative efforts. Level of Evidence: 3. Technical Efficacy Stage: 3.
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| 23. |
- de Graaf, M., et al.
(author)
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Emergence of a novel GII.17 norovirus - End of the GII.4 era?
- 2015
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In: Eurosurveillance. - : EUR CENTRE DIS PREVENTION and CONTROL. - 1025-496X .- 1560-7917. ; 20:26, s. 21178-
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Journal article (peer-reviewed)abstract
- In the winter of 2014/15 a novel GII.P17-GII.17 norovirus strain (GII.17 Kawasaki 2014) emerged, as a major cause of gastroenteritis outbreaks in China and Japan. Since their emergence these novel GII.P17-GII.17 viruses have replaced the previously dominant GII.4 genotype Sydney 2012 variant in some areas in Asia but were only detected in a limited number of cases on other continents. This perspective provides an overview of the available information on GII.17 viruses in order to gain insight in the viral and host characteristics of this norovirus genotype. We further discuss the emergence of this novel GII.P17-GII.17 norovirus in context of current knowledge on the epidemiology of noroviruses. It remains to be seen if the currently dominant norovirus strain GII.4 Sydney 2012 will be replaced in other parts of the world. Nevertheless, the public health community and surveillance systems need to be prepared in case of a potential increase of norovirus activity in the next seasons caused by this novel GII.P17-GII.17 norovirus.
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| 25. |
- Matuozzo, Daniela, et al.
(author)
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Rare predicted loss-of-function variants of type I IFN immunity genes are associated with life-threatening COVID-19.
- 2023
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In: Genome medicine. - 1756-994X. ; 15:1
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Journal article (peer-reviewed)abstract
- We previously reported that impaired type I IFN activity, due to inborn errors of TLR3- and TLR7-dependent type I interferon (IFN) immunity or to autoantibodies against type I IFN, account for 15-20% of cases of life-threatening COVID-19 in unvaccinated patients. Therefore, the determinants of life-threatening COVID-19 remain to be identified in~80% of cases.We report here a genome-wide rare variant burden association analysis in 3269 unvaccinated patients with life-threatening COVID-19, and 1373 unvaccinated SARS-CoV-2-infected individuals without pneumonia. Among the 928 patients tested for autoantibodies against type I IFN, a quarter (234) were positive and were excluded.No gene reached genome-wide significance. Under a recessive model, the most significant gene with at-risk variants was TLR7, with an OR of 27.68 (95%CI 1.5-528.7, P=1.1×10-4) for biochemically loss-of-function (bLOF) variants. We replicated the enrichment in rare predicted LOF (pLOF) variants at 13 influenza susceptibility loci involved in TLR3-dependent type I IFN immunity (OR=3.70[95%CI 1.3-8.2], P=2.1×10-4). This enrichment was further strengthened by (1) adding the recently reported TYK2 and TLR7 COVID-19 loci, particularly under a recessive model (OR=19.65[95%CI 2.1-2635.4], P=3.4×10-3), and (2) considering as pLOF branchpoint variants with potentially strong impacts on splicing among the 15 loci (OR=4.40[9%CI 2.3-8.4], P=7.7×10-8). Finally, the patients with pLOF/bLOF variants at these 15 loci were significantly younger (mean age [SD]=43.3 [20.3] years) than the other patients (56.0 [17.3] years; P=1.68×10-5).Rare variants of TLR3- and TLR7-dependent type I IFN immunity genes can underlie life-threatening COVID-19, particularly with recessive inheritance, in patients under 60years old.
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| 26. |
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| 27. |
- Inguanzo, A, et al.
(author)
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MRI data-driven clustering reveals different subtypes of Dementia with Lewy bodies
- 2023
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In: NPJ Parkinson's disease. - : Springer Science and Business Media LLC. - 2373-8057. ; 9:1, s. 5-
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Journal article (peer-reviewed)abstract
- Dementia with Lewy bodies (DLB) is a neurodegenerative disorder with a wide heterogeneity of symptoms, which suggests the existence of different subtypes. We used data-driven analysis of magnetic resonance imaging (MRI) data to investigate DLB subtypes. We included 165 DLB from the Mayo Clinic and 3 centers from the European DLB consortium and performed a hierarchical cluster analysis to identify subtypes based on gray matter (GM) volumes. To characterize the subtypes, we used demographic and clinical data, as well as β-amyloid, tau, and cerebrovascular biomarkers at baseline, and cognitive decline over three years. We identified 3 subtypes: an older subtype with reduced cortical GM volumes, worse cognition, and faster cognitive decline (n = 49, 30%); a subtype with low GM volumes in fronto-occipital regions (n = 76, 46%); and a subtype of younger patients with the highest cortical GM volumes, proportionally lower GM volumes in basal ganglia and the highest frequency of cognitive fluctuations (n = 40, 24%). This study shows the existence of MRI subtypes in DLB, which may have implications for clinical workout, research, and therapeutic decisions.
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| 28. |
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| 29. |
- van de Beek, Jaap, et al.
(author)
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REM-enabled opportunistic LTE in the TV band
- 2012
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In: 2012 IEEE International Symposium on Dynamic Spectrum Access Networks (DYSPAN 2012). - Piscataway, NJ : IEEE Communications Society. - 9781467344470 ; , s. 272-273
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Conference paper (peer-reviewed)abstract
- In this demonstration paper we describe a prototype of an LTE system deployment that opportunistically exploits the spectral white spaces in the upper UHF TV bands, intelligently guided in its spectum access by a radio environment map (REM). The architecture is modular in the sense that interfaces are generic and minimal. In the proposed demo we will illustrate how information of primary transmitters and other secondary transmitters as well as estimates of the radio field strength over frequency, time and space can be made available and exploited by a secondary TDD-LTE base station to make judicious decisions on its spectral occupation.
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| 30. |
- Atanasovski, Vladimir M., et al.
(author)
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Constructing radio environment maps with heterogeneous spectrum sensors
- 2011
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In: 2011 IEEE Symposium on New Frontiers in Dynamic Spectrum Access Networks (DySPAN 2011). - Piscataway, NJ : IEEE Communications Society. - 9781457701771 ; , s. 660-661
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Conference paper (peer-reviewed)abstract
- In this demonstration proposal we describe a prototype of a radio environment map (REM) for storing and reasoning about spectrum data obtained from heterogeneous sources. The architecture of the REM prototype is both modular and extendible, and can be used with very diverse spectrum sensors, ranging from high-fidelity spectrum analyzers to dedicated low-cost embedded solutions. In the proposed demonstration we will illustrate how information such as transmitter locations and estimates of spectrum occupancy over space and time can be inferred and made available through the REM, based on information obtained from a network of different spectrum sensors deployed specifically for the demonstration
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| 32. |
- Gavrilovska, Liljana M., et al.
(author)
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Enabling LTE in TVWS with radio environment maps: From an architecture design towards a system level prototype
- 2014
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In: Computer Communications. - : Elsevier BV. - 0140-3664 .- 1873-703X. ; 53, s. 62-72
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Journal article (peer-reviewed)abstract
- This paper reports recent prototyping efforts that show the feasibility of the radio environmental map to enable efficient exploitation of TV white spaces by a cellular LTE system. We describe a flexible REM backend implementation, fully integrated with standard-compliant operational LTE base station equipment. Simulations results indicate that REMs enhance white-space detection by their means to incorporate accurate and local channel propagation information, while experimental laboratory results illustrate the feasibility and performance of transmitter localization capabilities in a REM.
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| 33. |
- Hunter, P, et al.
(author)
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A vision and strategy for the virtual physiological human in 2010 and beyond
- 2010
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In: Philosophical transactions. Series A, Mathematical, physical, and engineering sciences. - : The Royal Society. - 1364-503X. ; 368:1920, s. 2595-2614
-
Journal article (peer-reviewed)abstract
- European funding under framework 7 (FP7) for the virtual physiological human (VPH) project has been in place now for nearly 2 years. The VPH network of excellence (NoE) is helping in the development of common standards, open-source software, freely accessible data and model repositories, and various training and dissemination activities for the project. It is also helping to coordinate the many clinically targeted projects that have been funded under the FP7 calls. An initial vision for the VPH was defined by framework 6 strategy for a European physiome (STEP) project in 2006. It is now time to assess the accomplishments of the last 2 years and update the STEP vision for the VPH. We consider the biomedical science, healthcare and information and communications technology challenges facing the project and we propose the VPH Institute as a means of sustaining the vision of VPH beyond the time frame of the NoE.
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| 34. |
- Stemkens, Ralf, et al.
(author)
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Drug interaction potential of high-dose rifampicin in patients with pulmonary tuberculosis
- 2023
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In: Antimicrobial Agents and Chemotherapy. - : American Society for Microbiology. - 0066-4804 .- 1098-6596. ; 67:10
-
Journal article (peer-reviewed)abstract
- Accumulating evidence supports the use of higher doses of rifampicin for tuberculosis (TB) treatment. Rifampicin is a potent inducer of metabolic enzymes and drug transporters, resulting in clinically relevant drug interactions. To assess the drug interaction potential of higher doses of rifampicin, we compared the effect of high-dose rifampicin (40 mg/kg daily, RIF40) and standard-dose rifampicin (10 mg/kg daily, RIF10) on the activities of major cytochrome P450 (CYP) enzymes and P-glycoprotein (P-gp). In this open-label, single-arm, two-period, fixed-order phenotyping cocktail study, adult participants with pulmonary TB received RIF10 (days 1–15), followed by RIF40 (days 16–30). A single dose of selective substrates (probe drugs) was administered orally on days 15 and 30: caffeine (CYP1A2), tolbutamide (CYP2C9), omeprazole (CYP2C19), dextromethorphan (CYP2D6), midazolam (CYP3A), and digoxin (P-gp). Intensive pharmacokinetic blood sampling was performed over 24 hours after probe drug intake. In all, 25 participants completed the study. Geometric mean ratios (90% confidence interval) of the total exposure (area under the concentration versus time curve, RIF40 versus RIF10) for each of the probe drugs were as follows: caffeine, 105% (96%–115%); tolbutamide, 80% (74%–86%); omeprazole, 55% (47%–65%); dextromethorphan, 77% (68%–86%); midazolam, 62% (49%–78%), and 117% (105%–130%) for digoxin. In summary, high-dose rifampicin resulted in no additional effect on CYP1A2, mild additional induction of CYP2C9, CYP2C19, CYP2D6, and CYP3A, and marginal inhibition of P-gp. Existing recommendations on managing drug interactions with rifampicin can remain unchanged for the majority of co-administered drugs when using high-dose rifampicin. Clinical Trials registration number NCT04525235.
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| 35. |
- Vergouwen, Daphne P. C., et al.
(author)
-
The enigma of sclera-specific autoimmunity in scleritis
- 2024
-
In: Journal of Autoimmunity. - : Elsevier. - 0896-8411 .- 1095-9157. ; 144
-
Journal article (peer-reviewed)abstract
- Scleritis is a severe and painful ophthalmic disorder, in which a pathogenic role for collagen-directed autoimmunity was repeatedly suggested. We evaluated the presence of sclera-specific antibodies in a large cohort of patients with non-infectious scleritis. Therefore, we prospectively collected serum samples from 121 patients with non-infectious scleritis in a multicenter cohort study in the Netherlands. In addition, healthy (n = 39) and uveitis controls (n = 48) were included. Serum samples were tested for anti-native human type II collagen antibodies using a validated enzyme-linked immunosorbent assay (ELISA). Further, sclera-specific antibodies were determined using indirect immunofluorescence (IIF) on primate retinal/scleral cryosections. Lastly, human leukocyte antigen (HLA) typing was performed in 111 patients with scleritis. Anti-type II collagen antibodies were found in 13% of scleritis patients, in 10% of healthy controls and in 11% of uveitis controls (p = 0.91). A specific reaction to scleral nerve tissue on IIF was observed in 33% of patients with scleritis, which was higher than in healthy controls (11%; p = 0.01), but similar to uveitis controls (25%; p = 0.36). Reactivity to the scleral nerve tissue was significantly associated with earlier onset of scleritis (48 versus 56 years; p < 0.001), bilateral involvement (65% versus 42%; p = 0.01), and less frequent development of scleral necrosis (5% versus 22%; p = 0.02). HLA-B27 was found to be twice as prevalent in patients with scleritis (15.3%) compared to a healthy population (7.2%). In conclusion, scleral nerve autoantibody reactivity was more common in scleritis and uveitis patients in contrast to healthy controls. Further research is needed to characterize these scleral-nerve directed antibodies and assess their clinical value.
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| 36. |
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| 37. |
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| 38. |
- Browne Mwakyanjala, Moses, et al.
(author)
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Concurrent development and verification of an all‐software baseband for satellite ground operations
- 2020
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In: International Journal of Satellite Communications And Networking. - : John Wiley & Sons. - 1542-0973 .- 1542-0981. ; 38:2, s. 209-227
-
Journal article (peer-reviewed)abstract
- Communication systems are adopting all‐software architectures, because of their scalability, extensibility, flexibility, and cost‐effectiveness. This paper introduces a concurrent approach to the development and verification of baseband systems for satellite ground operations based on the behaviour‐driven development methodology. The open‐source GNU Radio development kit is used for developing the software‐defined radio baseband signal processing, as well as simulating the satellite and realistic channel impairments. The system performance at the end shows deviations of less than 1 dB with respect to the ideal performance and the Green Book standards specified by the Consultative Committee for Space Data Systems.
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| 39. |
- Cai, Tao, et al.
(author)
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A TD-LTE prototype system with modules for general-purpose cognitive resource management and radio-environmental mapping
- 2011
-
In: International Journal of Wireless Information Networks. - : Springer Science and Business Media LLC. - 1068-9605 .- 1572-8129. ; 18:3, s. 131-145
-
Journal article (peer-reviewed)abstract
- In this article we describe a demonstrator that shows how the cognitive resource manager (CRM) and the radio-environmental map (REM) can be efficiently implemented in full commercial grade cellular system (i.e., LTE system). The demonstrator shows how the modular CRM together with its open interface, the universal link-layer API (ULLA), facilitates the implementation of efficient radio resource management techniques guaranteeing the quality of service in the LTE system. The CRM, through ULLA, is able to obtain PHY/MAC status information of the link between the tested eNode B and the user equipment, and reconfigure link parameters. This measure-and-control by CRM/ULLA is independent of the underlying radio access technology, which shows the neutrality of CRM/ULLA towards PHY/MAC characteristics. The article also shows how the REM can be easily implemented in such system and how the REM provides the CRM with environmental information that enhances system management performance
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| 40. |
- Hoch, Jannis M, et al.
(author)
-
Projecting armed conflict risk in Africa towards 2050 along the SSP-RCP scenarios : a machine learning approach
- 2021
-
In: Environmental Research Letters. - : Institute of Physics Publishing (IOPP). - 1748-9326. ; 16:12
-
Journal article (peer-reviewed)abstract
- In the past decade, several efforts have been made to project armed conflict risk into the future. This study broadens current approaches by presenting a first-of-its-kind application of machine learning (ML) methods to project sub-national armed conflict risk over the African continent along three Shared Socioeconomic Pathway (SSP) scenarios and three Representative Concentration Pathways towards 2050. Results of the open-source ML framework CoPro are consistent with the underlying socioeconomic storylines of the SSPs, and the resulting out-of-sample armed conflict projections obtained with Random Forest classifiers agree with the patterns observed in comparable studies. In SSP1-RCP2.6, conflict risk is low in most regions although the Horn of Africa and parts of East Africa continue to be conflict-prone. Conflict risk increases in the more adverse SSP3-RCP6.0 scenario, especially in Central Africa and large parts of Western Africa. We specifically assessed the role of hydro-climatic indicators as drivers of armed conflict. Overall, their importance is limited compared to main conflict predictors but results suggest that changing climatic conditions may both increase and decrease conflict risk, depending on the location: in Northern Africa and large parts of Eastern Africa climate change increases projected conflict risk whereas for areas in the West and northern part of the Sahel shifting climatic conditions may reduce conflict risk. With our study being at the forefront of ML applications for conflict risk projections, we identify various challenges for this arising scientific field. A major concern is the limited selection of relevant quantified indicators for the SSPs at present. Nevertheless, ML models such as the one presented here are a viable and scalable way forward in the field of armed conflict risk projections, and can help to inform the policy-making process with respect to climate security.
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| 41. |
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| 42. |
- Perotti, Alberto G., et al.
(author)
-
Downlink Overloaded Multiple Access Based on Constellation Expansion
- 2015
-
In: 2014 IEEE Globecom Workshops. - Piscataway, Nj : IEEE Communications Society. - 9781479974702 ; , s. 977-982
-
Conference paper (peer-reviewed)abstract
- A new overloaded multiple access scheme for the downlink of wireless systems is presented. It performs simultaneous transmission of multiple data streams intended for users experiencing similar signal-to-noise ratios (SNR). The proposed scheme performs stream multiplexing by mapping the coded bits of each stream onto the labels of an expanded constellation according to a time-varying pattern designed for providing the same level of protection against errors to all streams. Using this scheme, multiple data streams can be concurrently transmitted on the same time-frequency resource blocks of OFDMA systems, thus achieving a higher aggregate spectral efficiency and tighter delay constraints.
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| 43. |
- Pitaval, Renaud-Alexandre, et al.
(author)
-
N-continuous SC-FDMA and its Polarized Transmission and Reception
- 2017
-
In: IEEE Transactions on Communications. - : Institute of Electrical and Electronics Engineers (IEEE). - 0090-6778 .- 1558-0857. ; 65:11, s. 4911-4925
-
Journal article (peer-reviewed)abstract
- This paper investigates the application of N -continuous spectral projection precoding design to single-carrier frequency-division multiple access (SC-FDMA). It first considers a general orthogonal projection-based precoded system with an improved iterative receiver and analyzes its ultimate performance in an additive white Gaussian noise channel, both in terms of achievable throughput and symbol-error rates. For N -continuous SC-FDMA, the distribution of the symbol errors is very much asymmetric; a few base pulses carry the lion share of the self-induced interference, resulting in a zero throughput. We show that an optimized transmission and reception scheme based on a polarized use of the base pulses can satisfactorily deal with this asymmetry, and the end-to-end throughput can be recovered to be close to optimal. Applying a similar scheme to N -continuous OFDM enables also an improved performance in the high-SNR regime, where the interference effect strikes the most.
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| 44. |
- Popović, Branislav M., et al.
(author)
-
User traffic multiplexing on OFDM downlink
- 2004
-
In: Proceedings of the 2004 IEEE International Symposium on Spread Spectrum Techniques and Applications. - Piscataway, NJ : IEEE Communications Society. ; , s. 429-433
-
Conference paper (peer-reviewed)abstract
- A user traffic multiplexing scheme for the downlink of an OFDM cellular system is proposed and evaluated. The scheme is based on the set of orthogonal time-frequency (T-F) patterns obtained from a generic Costas sequence. An inter-cell interference averaging method, based on randomly variable cyclic time offsetting of the whole set of orthogonal T-F patterns, is also part of the scheme. The time offset is changed for each transmission time interval, according to a cell-specific multi-level pseudo-random sequence. In such a way the inter-cell OFDM interference becomes limited and noise-like, while no resource planning on the system level is required
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| 45. |
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| 46. |
- van de Beek, Jaap, et al.
(author)
-
Benefits of modulation diversity in turbo-coded OFDM systems
- 2004
-
In: IEEE Vehicular Technology Conference (VTC) Proceedings. - 1550-2252. ; 59:2, s. 929-933
-
Journal article (peer-reviewed)abstract
- In this paper we show that the use of modulation diversity provides gains to punctured, turbo-coded OFDM systems. For an OFDM transmission scenario based on the downlink of the 3GPP standard for mobile communications, we show that the order-2 modulation diversity observed for the raw bit-error rate transfers to the block-error rate in a number of investigated channel environments. We demonstrate gains of up to 2.5 dB depending on the puncturing rate of the scheme and the particular channel characteristics. Alternatively, for schemes with higher puncturing rates, 2 or 3 turbo decoder iterations suffice to achieve the same performance as achieved by 8 decoder iterations in a regular transmission.
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| 47. |
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| 48. |
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| 49. |
- van de Beek, Jaap, et al.
(author)
-
Multiple access with low-density signatures
- 2009
-
In: GLOBECOM 2009. - Piscataway, NJ : IEEE Communications Society. - 9781424441488
-
Conference paper (peer-reviewed)abstract
- We present sets of spreading sequences that are specifically designed to suit a belief-propagation multiuser detection structure, recently presented for overloaded system scenarios. On one hand, our sequences are of the low-density type; on the other their distance spectrum properties ensure good performance in AWGN channels. Simulations results for raw and coded bit-error probability indicate that significant performance gain is achieved over random sequences and that the loss compared to the single-user bound can be kept small.
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