bluuebunny/crossref_metadata_2025_split huggingface dataset:
An Opportune and Relevant Design for Studying the Health Trajectories of Healthcare Workers
Authors: Ebinger Joseph E. , Botwin Gregory J. , Albert Christine M. , Berg Anders H. , Binek Aleksandra , Botting Patrick , Brystrom Cory , Chavira Cindy , Figueiredo Jane C. , Ghandi Soniya S. , Goldzweig Caroline Lubick , Hasan Wohaib , Henglin Mir , Huballa Khalil , Hussain Shehnaz K. , Jain Mohit , Jenrette John E. , Joung Sandy , Kim Elizabeth H. , McArdle Angela , Miller Shaun J. , Minissian Margo , Nguyen Trevor Trung , Chazarin Blandine , Raedschelders Koen , Rashid Mohamad A. , Riggs Richard V. , Sobhani Kimia , Sun Nancy , Tourtellotte Warren G. , McGovern Dermot P. B. , Braun Jonathan G. , Van Eyk Jennifer E. , Cheng Susan , Miles Peggy B. 
Published: July 2020

ABSTRACTWe describe the rationale, design, and implementation of baseline enrollment for a longitudinal, observational cohort study of healthcare workers. The importance of workplace as a characteristic of interest in population-based studies has become increasingly apparent over time. Most adults spend a majority of their waking hours living in their workplace environment, which serves as a source of unique as well as shared exposures, stressors, and related determinants of health. A rapidly expanding segment of the working population includes those individuals who work in the fields of healthcare. The healthcare workforce, at large, represents an increasingly diverse subset of the population with broad exposures; some exposures are specific to the workplace and others are common to persons living in the community. Importantly, healthcare workers tend to have general interest and willingness to participate in research, in addition to stable employment and easy access to on-site clinical research assessment locations. Accordingly, from a population of individuals working at a large medical delivery network, we enrolled over 6300 healthcare workers into a cohort study involving survey data collection on medical history, work environment, and family and living situation; this information was linked to participant electronic health record data and collected biospecimens.
Indication for SARS-CoV-2 serology: first month follow-up
Authors: Coste Alix T. , Jaton Katia , Papadimitriou-Olivgeris Matthaios , Croxatto Antony , Greub Gilbert 
Published: July 2020

AbstractSARS-CoV-2 detection is mainly performed by RT-PCR but recently serological tests were made available. A first one month follow-up of the SARS-CoV-2 serology records was performed in our laboratory to precise the diversity and proportion of the SARS-CoV-2 serology test indications and to identify new valid indications (meningoencephalitis, vasculitis, …)
Chopping the tail: how preventing superspreading can help to maintain COVID-19 control
Authors: Kain Morgan P. , Childs Marissa L. , Becker Alexander D. , Mordecai Erin A. 
Published: July 2020

AbstractDisease transmission is notoriously heterogeneous, and SARS-CoV-2 is no exception. A skewed distribution where few individuals or events are responsible for the majority of transmission can result in explosive, superspreading events, which produce rapid and volatile epidemic dynamics, especially early or late in epidemics. Anticipating and preventing superspreading events can produce large reductions in overall transmission rates. Here, we present a compartmental (SEIR) epidemiological model framework for estimating transmission parameters from multiple imperfectly observed data streams, including reported cases, deaths, and mobile phone-based mobility that incorporates individual-level heterogeneity in transmission using previous estimates for SARS-CoV-1 and SARS-CoV-2. We parameterize the model for COVID-19 epidemic dynamics by estimating a time-varying transmission rate that incorporates the impact of non-pharmaceutical intervention strategies that change over time, in five epidemiologically distinct settings—Los Angeles and Santa Clara Counties, California; Seattle (King County), Washington; Atlanta (Dekalb and Fulton Counties), Georgia; and Miami (Miami-Dade County), Florida. We find the effective reproduction number ℛE dropped below 1 rapidly following social distancing orders in mid-March, 2020 and remained there into June in Santa Clara County and Seattle, but climbed above 1 in late May in Los Angeles, Miami, and Atlanta, and has trended upward in all locations since April. With the fitted model, we ask: how does truncating the tail of the individual-level transmission rate distribution affect epidemic dynamics and control? We find interventions that truncate the transmission rate distribution while partially relaxing social distancing are broadly effective, with impacts on epidemic growth on par with the strongest population-wide social distancing observed in April, 2020. Given that social distancing interventions will be needed to maintain epidemic control until a vaccine becomes widely available, “chopping off the tail” to reduce the probability of superspreading events presents a promising option to alleviate the need for extreme general social distancing.
Rapid detection of SARS-CoV-2 infection by multicapillary column coupled ion mobility spectrometry (MCC-IMS) of breath. A proof of concept study
Authors: Steppert Claus , Steppert Isabel , Sterlacci William , Bollinger Thomas 
Published: July 2020

AbstractThere is an urgent need for screening of patients having a communicable viral disease to cut infection chains.We could recently demonstrate that MCC-IMS of breath is able to identify Influenza-A infected patients. With decreasing Influenza epidemic and upcoming SARS-CoV-2 infections we went on and also analysed patients with suspected SARS-CoV-2 infections.75 patients, 34m, 41f, aged 64.4 ± 15.4 years, 14 positive for Influenza-A, 16 positive for SARS-CoV-2, the remaining 44 patients were used as controls. In one patient RT-PCR was highly suspicious of SARS-CoV-2 but initially inconclusive.Besides RT-PCR analysis of nasopharyngeal swabs all patients underwent MCC-IMS analysis of breath. There was no difference in gender or age according to the groups.97.3% of the patients could be correctly classified to the respective group by discriminant analysis. Even the inconclusive patient could be mapped to the SARS-CoV-2 group applying the discrimination function.ConclusionMCC-IMS is able to detect SARS-CoV-2 infection and Influenza-A infection in breath. As this method provides exact, fast non-invasive diagnosis it should be further developed for screening of communicable viral diseases.Trial registration: ClinicalTrial.gov, NCT04282135 Registered 20 February 2020 - Retrospectively registered, https://clinicaltrials.gov/ct2/show/NCT04282135?term=IMS&draw=2&rank=1
Disruption of the renal service during COVID-19 pandemic, physicians survey responses from 5 countries
Authors: Abdelaziz Tarek Samy , Elsayed Eman , Fatthy Moataz 
Published: July 2020

AbstractThe outbreak of COVID-19 has significant impact on health care systems. The workflow in renal care facilities and dialysis facilities is complex. The aim of his study was to explore multinational renal physician perspective about the disruption of outflow of renal service amid COVID-19 pandemic.Methodswe distributed a questionnaire electronically to renal physicians of various grades from 5 countries. The questionnaire was formulated of 9 questions with domains centered on the acute and chronic renal servicesResults97 physicians took part in the survey from 5 countries. 58% of the participating renal physicians agreed that there has been disruption to the acute service offered to renal patients. 38% of the physicians who took the survey report disruption to the hemodialysis facilities.ConclusionAt this challenging time of the pandemic, it is important to perform audits and quality control to explore the deficiencies of acute and chronic renal care pathways.
Is an integrated model of school eye health delivery more cost effective than a vertical model? An implementation research in Zanzibar
Authors: Chan Ving Fai , Omar Fatma , Yard Elodie , Mashayo Eden , Mulewa Damaris , Drake Lesley , Wepo Mary , Minto Hasan 
Published: July 2020

AbstractObjectiveTo review and compare the cost effectiveness of the integrated model (IM) and vertical model (VM) of school eye health programme in Zanzibar.Methods and AnalysisThis 6-month implementation research was conducted in four districts in Zanzibar. Nine and ten schools were recruited into the IM and VM respectively. In the VM, teachers conducted eye health screening and education only while these eye health components were added to the existing School Feeding Programme (IM). The number of children screened and identified was collected monthly. A review of project accounts records was conducted with 19 key informants. The actual costs were calculated for each cost categories, and costs per child screened and cost per child identified were compared between the two models.ResultsScreening coverage was 96% and 90% in the IM and VM with 297 children (69.5%) from the IM and 130 children (30.5%) from VM failed eye health screening. The 6-month eye health screening cost for VM and IM was USD 6 728 and USD 7 355. The cost per child screened for IM and VM were USD 1.23 and USD 1.31, and the cost per child identified were USD 51.75 and USD 24.76 respectively.ConclusionsBoth models achieved high coverage of eye health screening with the IM being a more cost-effective school eye health delivery screening compared to VM with great opportunities for cost savings.Key messagesThere is a dearth of information on the actual cost of school eye health (SEH) delivery. This was the first implementation research to review and compare cost effectiveness of the integrated model (IM) versus the vertical model (VM) SEH delivery in Africa.VM used 1.2 times more resources per child screened compared to the IM and the cost per child identified in the VM is twice that of the IM, thus the IM is highly cost effective.Stakeholders in low- and middle-income settings will be better able to plan for a cost-effective SEH delivery model that suits their contexts and needs using these findings.
Structural and functional characterization of allatostatin receptor type-C ofThaumetopoea pityocamparevealed the importance of Q2716.55residue in G protein-dependent activation pathway
Authors: Shahraki Aida , Isbilir Ali , Dogan Berna , Lohse Martin J. , Durdagi Serdar , Birgul-Iyison Necla 
Published: July 2020

AbstractInsect neuropeptide receptors are among the potential targets for designing next-generation pesticides. Activation of allatostatin receptor type C (AstR-C), a G Protein-coupled receptor (GPCR), upon stimulation with its endogenous ligand, allatostatin C (AST-C), leads to the inhibition of juvenile hormone (JH) secretion that consequently regulates physiology of insects. Here we conductedin silicoandin vitroapproaches to characterize the structure and function of AstR-C ofThaumetopoea pityocampa (T.pit), a well-known pest in Mediterranean countries. The sequence of AstR-C and AST-C were derived from whole genome sequencing (WGS) data. Resonance energy transfer (RET) methods were used to investigate the downstream effectors of the receptor and the temporal kinetics of G protein activation. Three-dimensional (3D) structure of AstR-C constructed via homology modeling methods was subjected to molecular dynamics (MD) simulations and docking studies to identify the orthosteric pocket. Our results showed thatT.pitAstR-C couples to Gαi/o subtype of G proteins at sub-nanomolar ranges of the the ligand with the G protein recruitment and activation kinetics of ∼4 and 6 seconds, respectively, when 1 nM AST-C is administered. At the increasing concentration of native ligand, βarrestin was shown to be recruited at nanomolar ranges the ligand. Docking and MD simulation studies revealed the importance of extracellular loop 2 (ECL2) inT.pitAstRC/AST-C interaction, and combination ofin silicoandin vitromethods supported the accuracy of the built model and the predicted orthosteric pocket. Q2716.55(Ballesteros-Weinstein generic numbering) was found to have a substantial role in G protein dependent activation of AstR-C possibly via contributing to the flexibility of the structure.
Interactomic affinity profiling by holdup assay: acetylation and distal residues impact the PDZome-binding specificity of PTEN phosphatase
Authors: Jané Pau , Gógl Gergő , Kostmann Camille , Bich Goran , Girault Virginie , Caillet-Saguy Célia , Eberling Pascal , Vincentelli Renaud , Wolff Nicolas , Travé Gilles , Nominé Yves 
Published: July 2020

AbstractProtein domains often recognize short linear protein motifs composed of a core conserved consensus sequence surrounded by less critical, modulatory positions. Here we used an accurate experimental approach combining high-throughput holdup chromatographic assay and fluorescence polarization to measure quantitative binding affinity profiles of the PDZ domain-binding motif (PBM) of PTEN phosphatase towards the 266 known human PDZ domains. Inclusion of N-terminal flanking residues, acetylation or mutation of a lysine at a modulatory position significantly altered the PDZome-binding profile of the PTEN PBM. A specificity index is also introduced to quantify the specificity of a given PBM over the complete PDZome. Our results highlight the impact of modulatory residues and post-translational modifications on PBM interactomes and their specificity.
S-acylation is involved in tonoplast targeting of flax resistance protein M
Authors: Batistič Oliver 
Published: July 2020

AbstractSeveral plant resistance proteins require accurate targeting to cellular membranes for effective pathogen defence function. The resistance protein variant M fromLinum ussitatissimum(flax) protects plants against the flax rust disease and is specifically targeted to the vacuolar membrane. This localization mechanism involves the S-acylation of cysteine residues within the N-terminus of the protein. Moreover, the M S-acylation and targeting signal likely binds to membranes in the absence of lipid modifications and can switch from the vacuolar membrane to the plasma membrane depending on the S-acylation status. Importantly, plasma membrane targeting was observed when the short targeting signal from M was expressed in anArabidopsis thalianapat10 mutant plant. On the other hand, tonoplast localization of the N-terminal S-acylation domain was reconstituted in the mutant plant upon co-expression of two highly related PAT10 enzymes from flax. In contrast to the Golgi and tonoplast targetedArabidopsisPAT10, the two homologous enzymes from flax mainly localized to the plasma membrane and were partially observed at the vacuolar membrane when expressed in flax as well as inArabidopsiscells. This implicates that S-acylation of flax proteins could occur at the plasma membrane and that the lipid modification is required for subsequent routing to the vacuolar membrane, which could be also involved in the localization mechanism of M.
Network-based protein-protein interaction prediction method maps perturbations of cancer interactome
Authors: Qiu Jiajun , Chen Kui , Zhong Chunlong , Zhu Sihao , Ma Xiao 
Published: July 2020

AbstractThe perturbations of protein-protein interactions (PPIs) were found to be the main cause of cancer. Previous gene relationship prediction methods which were trained with non-disease gene interaction data were not compatible to map the PPI network in cancer. Therefore, we established a novel cancer specific PPI prediction method dubbed NECARE, which was based on relational graph convolutional network (R-GCN) with knowledge-based features. It achieved the best performance with a Matthews correlation coefficient (MCC) = 0.84±0.03 and an F1 = 91±2% comparing with other methods. With NECARE, we mapped the cancer interactome atlas and revealed that the perturbations of PPIs were enriched on 1362 genes, which were named cancer hub genes. Those genes were found to over-represent with mutations occurring at protein-macromolecules binding interfaces. Furthermore, over 42% of cancer treatment-related genes belonged to hub genes, which were significantly related to the prognosis of 32 types of cancers. Finally, by coimmunoprecipitation, we confirmed that the NECARE prediction method was highly reliable with a 90% accuracy. Overall, we provided the novel network-based protein-protein interaction prediction method and mapped the perturbation of cancer interactome. NECARE is available at:https://github.com/JiajunQiu/NECARE.
Finding New Molecular Targets of Familiar Natural Products Using In Silico Target Prediction
Authors: Mayr Fabian , Möller Gabriele , Garscha Ulrike , Fischer Jana , Castaño Patricia Rodríguez , Inderbinen Silvia G. , Temml Veronika , Waltenberger Birgit , Schwaiger Stefan , Hartmann Rolf W. , Gege Christian , Martens Stefan , Odermatt Alex , Pandey Amit V. , Werz Oliver , Adamski Jerzy , Stuppner Hermann , Schuster Daniela 
Published: July 2020

ABSTRACTNatural products comprise a rich reservoir for innovative drug leads and are a constant source of bioactive compounds. To find pharmacological targets for new or already known natural products using modern computer-aided methods is a current endeavor in drug discovery. Nature’s treasures, however, could be used more effectively. Yet, reliable pipelines for large scale target prediction of natural products are still rare. We have developed an in silico workflow consisting of four independent, stand-alone target prediction tools and evaluated its performance on dihydrochalcones (DHCs) – a well-known class of natural products. Thereby, we revealed four previously unreported protein targets for DHCs, namely 5-lipoxygenase, cyclooxygenase-1, 17β-hydroxysteroid dehydrogenase 3, and aldo-keto reductase 1C3. Moreover, we provide a thorough strategy on how to perform computational target prediction and guidance on using the respective tools.
Is there a neuropathic-like component to endometriosis-associated pain? Results from a large cohort questionnaire study
Authors: Coxon Lydia , Wiech Katja , Vincent Katy 
Published: July 2020

AbstractBackgroundPain is one of the primary symptoms of endometriosis, a chronic inflammatory condition characterised by the presence of endometrial tissue outside the uterus. Endometriosis-associated pain is commonly considered as nociceptive in nature but its clinical presentation suggests that it might have neuropathic-like properties in a subgroup of patients.MethodsThis is a cross sectional study using an online survey. The survey was distributed by patient support websites. The survey was composed of validated questionnaires assessing pain symptoms, psychological measures and questions about number of surgeries.Main results and the role of chanceWe had 1417 responses which met the inclusion criteria. Using standard painDETECT cut-off scores, we found that pain was classified as neuropathic in 40% of patients and as mixed neuropathic/nociceptive in a further 35%. In line with observations in other neuropathic conditions, the neuropathic subgroup reported higher pain intensities, greater psychological distress and cognitive impairment. Neuropathic pain was also more likely in those with more surgeries to the abdomen and a longer history of pain. As revealed by a cluster analysis, those with a neuropathic pain component could further be divided into two subgroups based on their sensory profile.ConclusionsThe data presented here indicate that endometriosis-associated pain includes a neuropathic-like component in a substantial proportion of women. Although further investigation is required, our finding challenges the current conceptualisation of endometriosis-associated pain as nociceptive and advocates for a new perspective on this type of pain, which is so debilitating to a large number of women.
Additive and non-additive epigenetic signatures of hybridisation between fish species with different mating systems
Authors: Berbel-Filho Waldir M. , Tatarenkov Andrey , Pacheco George , Espírito-Santo Helder M. V. , Lira Mateus G. , de Leaniz Carlos Garcia , Avise John C. , Lima Sergio M. Q. , Rodríguez-López Carlos M. , Consuegra Sofia 
Published: July 2020

AbstractHybridisation is a major source of evolutionary innovation. However, several prezygotic and postzygotic factors influence its likelihood and evolutionary outcomes. Differences in mating systems can have a major effect on the extent and direction of hybridisation and introgression. In plants, epigenetic mechanisms help to stabilize hybrid genomes and contribute to reproductive isolation, but the relationship between genetic and epigenetic changes in animal hybrids is unclear. We analysed the extent of a unique case of natural hybridisation between two genetically distant mangrove killifish species with different mating systems,Kryptolebias hermaphroditus(self-fertilising) andK. ocellatus(outcrossing), and the methylation patterns of their hybrids. Hybridisation rate between the species ranged between 14% and 26%. Although co-existing parental species displayed highly distinct genetic (microsatellites and SNPs) and methylation patterns (37,000 differentially methylated cytosines), our results indicate that F1 hybrids are viable and able to backcross with parental species. Hybrids had predominantly intermediate methylation patterns (88.5% of the sites) suggesting additive effects, as expected from hybridisation between genetically distant species. Differentially methylated cytosines between hybrids and both parental species (5,800) suggest that introgressive hybridisation may play a role in generating novel genetic and epigenetic variation which could lead to species diversification. We also found a small percentage of non-additive epigenetic effects which might act as an evolutionary bet-hedging strategy and increase fitness under environmental change.
A chronic photocapacitor implant for noninvasive neurostimulation with deep red light
Authors: Silverå-Ejneby Malin , Jakešová Marie , Ferrero Jose J. , Migliaccio Ludovico , Zhao Zifang , Berggren Magnus , Khodagholy Dion , Đerek Vedran , Gelinas Jennifer , Głowacki Eric Daniel 
Published: July 2020

AbstractImplantable clinical neuroelectronic devices are limited by a lack of reliable, safe, and minimally invasive methods to wirelessly modulate neural tissue. Here, we address this challenge by using organic electrolytic photocapacitors (OEPCs) to perform chronic peripheral nerve stimulation via transduction of tissue-penetrating deep-red light into electrical signals. The operating principle of the OEPC relies on efficient charge generation by nanoscale organic semiconductors comprising nontoxic commercial pigments. OEPCs integrated on an ultrathin cuff are implanted, and light impulses at wavelengths in the tissue transparency window are used to stimulate from outside of the body. Typical stimulation parameters involve irradiation with pulses of 50-1000 μs length (638 or 660 nm), capable of actuating the implant about 10 mm below the skin. We detail how to benchmark performance parameters of OEPCs firstex vivo, andin vivousing a rat sciatic nerve. Incorporation of a microfabricated zip-tie mechanism enabled stable, long-term nerve implantation of OEPC devices in rats, with sustained ability to non-invasively mediate neurostimulation over 100 days. OEPC devices introduce a high performance, ultralow volume (0.1 mm3), biocompatible approach to wireless neuromodulation, with potential applicability to an array of clinical bioelectronics.