bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cyanoacrylate Glue Versus Absorbable Tacks in Mesh Fixation for Laparoscopic Extraperitoneal Inguinal Hernia Repair: A Randomized Controlled Trial
Authors: Issa Michael , Tacey Mark , Geraghty Joshua , Das Atandrila , Dhir Arun , Mori Krinal , To Henry 
Published: February 2021

Background:
Cyanoacrylate glue (Glubran 2) is a synthetic adhesive mesh fixation material. Its utility is being evaluated in laparoscopic total extraperitoneal (TEP) inguinal hernia repair (IHR). A multicentre randomized controlled trial was performed comparing Glubran 2 to standard of care absorbable tacks, particularly assessing chronic postoperative inguinal pain and its effects.

Materials and Methods:
Patients undergoing elective TEP IHR at 2 centers from 2017 to 2019 were randomly assigned to Glubran 2 or absorbable tack mesh fixation, and followed for 6 months. All other aspects of surgery and aftercare remained the same. Surgeons documented operative and fixation time, and the placement of fixation on standardized diagrams. Via a questionnaire, aspects of inguinal pain were evaluated before surgery, and at various time-points postoperatively over 6 months. Postoperative clinical factors were also collected.

Results:
A total of 106 operative sides were randomized to either glue (51) or tack (55) mesh fixation over a 14-month period. Similar median operative times between tack (83.0 min) and glue fixation (75.0 min) were observed. There were no significant surgical complications or observed hernia recurrences in either group. There was no significant difference in pain scores between the 2 groups at all time-points after analysis through mixed effects modeling. Temporal pain profiles over time were also similar. Totally, 55% of patients in the glue group had returned to work within 2 weeks of surgery. There was no increase in complications or pain scores despite regular lateral fixation of glue in these patients.

Conclusion:
Adding to known data, we observed no significant difference in postoperative pain, demonstrating that cyanoacrylate glue is a viable and safe alternative fixation method to absorbable tacks in laparoscopic TEP IHR. As secondary outcomes, cyanoacrylate glue permits some patients to return to work early, and we observed regular lateral mesh glue fixation without increased pain or complications.
The humoral response to BK polyomavirus in kidney transplant recipients is dominated by IgM antibodies that use a distinct repertoire compared to IgG against the same antigen
Authors: Ngoc-Khanh Nguyen , Laetitia Gautreau-Rolland , Marie-Claire Devilder , Cynthia Fourgeux , Debajyoti Sinha , Jeremie Poschmann , Maryvonne Hourmant , Céline Bressollette-Bodin , Xavier Saulquin , Dorian McIlroy 
Published: February 2021

1.AbstractThe BK polyomavirus (BKPyV) persists asymptomatically in the kidney and active replication is only seen in immunosuppressed individuals, such as kidney transplant (KTx) recipients, in whom BKPyV reactivation can cause significant morbidity. KTx recipients with BKPyV reactivation mount a robust humoral response, but this often fails to clear the virus. In order to characterize the BKPyV-specific B-cell receptor (BCR) repertoire in KTx recipients, we used fluorescence-labeled BKPyV virus-like particles (VLPs) to sort with BKPyV-specific B-cells, then single-cell RNAseq to obtain paired heavy and light chain antibody sequences, and gene transcriptome data. The BCR repertoire was highly diverse in terms of both V-gene usage and clonotype diversity, with approximately 3% repertoire overlap between patients. The BKPyV-specific response was characterized by the presence of both memory IgG and memory IgM B-cells with extensive somatic hypermutation, which expressed distinct BCR repertoires within the same patient. The gene expression profile of IgG and IgM memory B-cells was highly similar, with only 19 genes, includingCD83, CD79AandPARP1showing significant differential expression. These results confirm that the IgM memory B-cells are a significant component of the BKPyV-specific humoral response, and show for the first time that IgG and IgM repertoires directed against the same antigen can have significant differences.
Electronic data management for vaccine trials in low resource settings: Upgrades, scalability and impact of ODK
Authors: Marks Michael , Lal Sham , Brindle Hannah , Gsell Pierre-Stéphane , MacGregor Matthew , Stott Callum , van de Rijdt Martijn , Gutiérrez Almazor Guillermo , Golia Suman , Watson Conall , Diallo Abdourahamane , Toure Alhassane , Houlihan Catherine , Keating Patrick , Martin Hélène , Restrepo Ana-Maria Henao , Anokwa Yaw , Roberts Chrissy h 
Published: February 2021

ABSTRACTBackgroundODK provides software and standards that are popular solutions for off-grid electronic data collection and has substantial code overlap and interoperability with a number of related software products including CommCare, Enketo, Ona, SurveyCTO and KoBoToolbox. In combination with the use of statistical analysis software such as R, these tools provide fully open-source options for off-grid use in public health data collection, management, analysis and reporting. During the 2018-2020 Ebola epidemic in the North Kivu & Ituri regions of Democratic Republic of Congo, we leveraged ODK and other tools to support the DRC Ministère de la Santé RDC and World Health Organization in their efforts to administer an experimental vaccine (VSV-Zebov-GP) as part of their strategy to control the transmission of infection.MethodNew functions were developed to facilitate the use of ODK, Enketo and R in large scale data collection, aggregation, monitoring and near-real-time analysis during clinical research in health emergencies. We present open-source enhancements to ODK that include a built-in audit-trail, a framework and companion app for biometric registration of ISO/IEC 19794-2 fingerprint templates, enhanced performance features, better scalability for studies featuring millions of data form submissions, increased options for parallelization of research projects, and pipelines for automated management and analysis of data. We also developed novel encryption protocols for enhanced web-form security in Enketo.ResultsAgainst the backdrop of a complex and challenging epidemic response, our enhanced platform of open tools was used to collect and manage data from more than 280,000 eligible study participants who received VSV-Zebov-GP under informed consent. These data were used to determine whether the VSV-Zebov-GP was safe and effective and to guide daily field operations.ConclusionsWe present open-source developments that make electronic data management during clinical research and health emergencies more viable and robust. These developments will also enhance and expand the functionality of a diverse range of data collection platforms (Ona, KoBoToolbox etc.) that are based on the ODK software and standards.FundingThis research is funded by the Department of Health and Social Care using UK Aid funding and is managed by the NIHR (PR-OD-1017-20001). The views expressed in this publication are those of the authors and not necessarily those of the Department of Health and Social Care.
Negative-Binomial and Quasi-Poisson regressions between COVID-19, mobility and environment in São Paulo, Brazil
Authors: Ibarra-Espinosa Sergio , de Freitas Edmilson Dias , Ropkins Karl , Dominici Francesca , Rehbein Amanda 
Published: February 2021

AbstractBrazil, the country most impacted by the coronavirus disease 2019 (COVID-19) on the southern hemisphere, use intensive care admissions per day, mobility and other indices to monitor quarantines and prevent the transmissions of SARS-CoV-2. In this study we quantified the associations between residential mobility index (RMI), air pollution, meteorology, and daily cases and deaths of COVID-19 in São Paulo, Brazil. We applied a semiparametric generalized additive model (GAM) to estimate: 1) the association between RMI and COVID-19, accounting for ambient particulate matter (PM2.5), ozone (O3), relative humidity, temperature and delayed exposure between 3-21 days, and 2) the association between COVID-19 and exposure to for ambient particulate matter (PM2.5), ozone (O3), accounting for relative humidity, temperature and mobility. We found that an RMI of 45.28% results in 1,212 cases (95% CI: 1,189 to 1,235) and 44 deaths (95% CI: 40 to 47). Increasing the isolation from 45.28% to 50% would avoid 438 cases and 21 deaths. Also, we found that an increment of 10 μg·m-3of PM2.5results in a risk of 1.140 (95% CI: 1.021 to 1.274) for cases and 1.086 (95% CI: 1.008 to 1.170) for deaths, while O3produces a relative risk of 1.075 (95% CI: 1.006 to 1.150) for cases and 1.063 (95% CI: 1.006 to 1.124) for deaths, respectively. We compared our results with observations and literature review, finding well agreement. Policymakers can use such mobility indices as tools to control social distance activities. Spatial distancing is an important factor to control COVID-19. Small increments of air pollution result in an increased number of COVID-19 cases and deaths.
Lower regional gray matter volume in the absence of higher cortical amyloid burden in late-life depression
Authors: Takamiya Akihiro , Casteele Thomas Vande , Koole Michel , De Winter François-Laurent , Bouckaert Filip , Van den Stock Jan , Sunaert Stefan , Dupont Patrick , Vandenberghe Rik , Van Laere Koen , Vandenbulcke Mathieu , Emsell Louise 
Published: February 2021

AbstractLate-life depression (LLD) is associated with a risk of developing Alzheimer’s disease (AD). However, the role of AD-pathophysiology in LLD, and its association with clinical symptoms and cognitive function are elusive. In this study, one hundred subjects underwent amyloid positron emission tomography (PET) imaging with [18F]-flutemetamol and structural MRI: 48 severely depressed elderly subjects (age 74.1±7.5 years, 33 female) and 52 age-/gender-matched healthy controls (72.4±6.4 years, 37 female). The Geriatric Depression Scale (GDS) and Rey Auditory Verbal Learning Test (RAVLT) were used to assess the severity of depressive symptoms and episodic memory function respectively. Amyloid deposition was quantified using the standardized uptake value ratio. Whole-brain voxel-wise comparisons of amyloid deposition and gray matter volume (GMV) between LLD and controls were performed. Multivariate analysis of covariance was conducted to investigate the association of regional differences in amyloid deposition and GMV with clinical factors, including GDS and RAVLT. As a result, there were no significant group differences in amyloid deposition. In contrast, LLD showed significant lower GMV in the left temporal and parietal region. GMV reduction in the left temporal region was associated with episodic memory dysfunction, but not with depression severity. Regional GMV reduction was not associated with amyloid deposition. LLD is associated with lower GMV in regions that overlap with AD-pathophysiology, and which are associated with episodic memory function. The lack of corresponding associations with amyloid suggests that lower GM driven by non-amyloid pathology may play a central role in the neurobiology of LLD presenting as a psychiatric disorder.
Effect of Adapted Ergometer Setup and Rowing Speed on Lower Extremity Loading in People with and without Spinal Cord Injury
Authors: Fang Ying , Troy Karen L. 
Published: February 2021

AbstractIntroductionFunctional electrical stimulation assisted rowing (FES-rowing) on an adapted ergometer is used in spinal cord injury (SCI) rehabilitation. A primary goal is to mechanically load the lower extremity to prevent disuse osteoporosis. Recent studies reported the small foot reaction force in FES-rowing was not sufficient to prevent bone loss.ObjectiveThis study aims to investigate the effect of ergometer setup and rowing speed on lower extremity loading in able-bodied and SCI individuals.DesignTwenty able-bodied novice rowers and one experienced SCI rower rowed on an adapted ergometer with different speeds and setups. Motion capture system and force sensors were used to calculate forces and moments at the knee.Main Outcome MeasuresFoot reaction force and knee moment for all participants, and tibiofemoral force of the SCI rower.ResultsPeak foot reaction forces of able-bodied rowers ranged from 0.28 – 0.45 body weights (BW), which was less than half the force in normal rowing. A fast rowing speed, forward seat position, and large knee RoM were associated with higher foot force and knee moment during able-bodied rowing. The SCI subject had the greatest foot reaction force (0.40 BW) when rowing with small knee RoM at a rear seat position and the highest tibiofemoral force (2.23 BW) with large knee RoM at a rear seat position.ConclusionErgometer setup and speed can double the force generation at the foot during both able-bodied rowing and FES-rowing. Rowing forms (range of motion and speed) that resulted in the greatest foot reaction force were different for able-bodied rowers and SCI rowers, indicating a trade-off between motion and force generation in FES-rowing that warrants further investigation with more SCI rowers. Clinicians and physical therapist should be aware that ergometer setups can be easily adjusted to modify rowing forms and loading patterns of users with SCI.
Assessment of Post SARS CoV 2 Fatigue among Physicians Working in COVID Designated Hospitals in Dhaka, Bangladesh
Authors: Hasan A T M Hasibul , Islam Muhammad Sougatul , Khan Nushrat , Munna Nazmul Hoque , Choton Wahidur Rahman , Arefin Mostofa Kamal , Zubayer Khan Mohammad Abdullah Az , Mansur Mohaimen , Hassan Rashedul , Siddiqui Numera , Arefin Muhammad Shamsul , Afroze Nayema , Islam Md. Salequl 
Published: February 2021

AbstractBackgroundFatigue has been observed after a number of infectious disease outbreaks around the world. After the outbreak of SARS CoV-2 in Wuhan, China in 2019, the disease turned into a pandemic very rapidly. Mental health is a key issue associated with such outbreaks. To explore the fatigue level among physicians working in designated public and private hospitals in Bangladesh, we conducted a matched case-control study of post-SARS-CoV-2 fatigue.MethodIn this study 105 physicians who were diagnosed as COVID-19 infected, got treatment, and declared cured at least 6 weeks before the interview date, were recruited as cases and the same number of age and designation matched healthy physicians as control who are working in the same hospital. Case and control were selected in 1:1 ratio from each of the hospitals. The study population was selected by inclusion and exclusion criteria after taking informed written consent. Data collection was done by a semi-structured questionnaire. Diagnosis of COVID--19 infection was done by detection of SARS CoV-2 antigen by RT-PCR from reference laboratories in Bangladesh or by HRCT Chest.ResultAround two-thirds of the physicians were male (67.6% versus 32.4%). Most of them aged less than forty years (80.5%). The cases had a greater number of comorbid conditions than those who were negative. The FSS score (mean) was much higher for cases (36.7 ± 5.3 versus 19.3 ± 3.8) than the control group with a statistically significant difference with no significant gender differentiation. Similarly, around 67.7% of the previously COVID positive physicians represented in the highest FSS score tertile compared to the respondents in the control group had a mean score of less than 3. The difference was also highly significant.ConclusionPhysicians, who had a previous history of COVID-19 infection had a higher total and mean FSS score, signifying a more severe level of fatigue than the physicians who had never been COVID-19 positive while working in the same hospital irrespective of their age and sex.
A potent bispecific nanobody protects hACE2 mice against SARS-CoV-2 infection via intranasal administration
Authors: Wu Xilin , Cheng Lin , Fu Ming , Huang Bilian , Zhu Linjing , Xu Shijie , Shi Haixia , Zhang Doudou , Yuan Huanyun , Nawaz Waqas , Yang Ping , Hu Qinxue , Liu Yalan , Wu Zhiwei 
Published: February 2021

AbstractThe dramatically expanding COVID-19 needs multiple effective countermeasures. Neutralizing antibodies are a potential therapeutic strategy for treating COVID-19. A number of neutralizing nanobodies (Nbs) were reported for their in vitro activities. However, in vivo protection of these nanobodies was not reported in animal models. In the current report, we characterized several RBD-specific Nbs isolated from a screen of an Nb library derived from an alpaca immunized with SARS-CoV-2 spike glycoprotein (S); among them, three Nbs exhibited picomolar potency against SARS-CoV-2 live virus, pseudotyped viruses, and 15 circulating SARS-CoV-2 variants. To improve the efficacy, various configurations of Nbs were engineered. Nb15-NbH-Nb15, a novel trimer constituted of three Nbs, was constructed to be bispecific for human serum albumin (HSA) and RBD of SARS-CoV-2. Nb15-NbH-Nb15 exhibited sub-ng/ml neutralization potency against the wild-type and currently circulating variants of SARS-CoV-2 with a long half-life in vivo. In addition, we showed that intranasal administration of Nb15-NbH-Nb15 provided 100% protection for both prophylactic and therapeutic purposes against SARS-CoV-2 infection in transgenic hACE2 mice. Nb15-NbH-Nb15 is a potential candidate for both prevention and treatment of SARS-CoV-2 through respiratory administration.One sentence summaryNb15-NbH-Nb15, with a novel heterotrimeric bispecific configuration, exhibited potent and broad neutralization potency against SARS-CoV-2 in vitro and provided in vivo protection against SARS-CoV-2 infection in hACE2 transgenic mice via intranasal delivery.Graphical abstract:HighlightsWe described a novel heterotrimeric configuration of Nb-NbH-Nb (Nb15-NbH-Nb15) that exhibited improved viral inhibition and stability.Nb15-NbH-Nb15 provides ultrahigh neutralization potency against SARS-CoV-2 wild type and 18 mutant variants, including the current circulating variants of D614G and N501Y predominantly in the UK and South Africa.It is the first to demonstrate the Nbs efficacy in preventing and treating SARS-CoV-2 infection in hACE2 transgenic mice via intranasal delivery.
Development and Validation of a Deep Learning Algorithm and Open-Source Platform for the Automatic Labelling of Motion Capture Markers
Authors: Clouthier Allison L. , Ross Gwyneth B. , Mavor Matthew P. , Coll Isabel , Boyle Alistair , Graham Ryan B. 
Published: February 2021

AbstractThe purpose of this work was to develop an open-source deep learning-based algorithm for motion capture marker labelling that can be trained on measured or simulated marker trajectories. In the proposed algorithm, a deep neural network including recurrent layers is trained on measured or simulated marker trajectories. Labels are assigned to markers using the Hungarian algorithm and a predefined generic marker set is used to identify and correct mislabeled markers. The algorithm was first trained and tested on measured motion capture data. Then, the algorithm was trained on simulated trajectories and tested on data that included movements not contained in the simulated data set. The ability to improve accuracy using transfer learning to update the neural network weights based on labelled motion capture data was assessed. The effect of occluded and extraneous markers on labelling accuracy was also examined. Labelling accuracy was 99.6% when trained on measured data and 92.8% when trained on simulated trajectories, but could be improved to up to 98.8% through transfer learning. Missing or extraneous markers reduced labelling accuracy, but results were comparable to commercial software. The proposed labelling algorithm can be used to accurately label motion capture data in the presence of missing and extraneous markers and accuracy can be improved as data are collected, labelled, and added to the training set. The algorithm and user interface can reduce the time and manual effort required to label optical motion capture data, particularly for those with limited access to commercial software.
RNA fragment assembly with experimental restraints
Authors: Chojnowski Grzegorz , Zaborowski Rafał , Magnus Marcin , Bujnicki Janusz M. 
Published: February 2021

ABSTRACTWe present RNA Masonry, a computer program and a web service for a fully automated assembly of RNA fragments into geometrically plausible models fulfilling user-provided secondary structure constraints and restraints on tertiary contacts and Small Angle X-ray Scattering (SAXS) data. We illustrate the method description with its recent application to structural studies of viral RNAs with SAXS restraints. The program web server is available athttp://iimcb.genesilico.pl/rnamasonry.Contactgchojnowski@embl-hamburg.de
How much does it take to be old? Modelling the time since the last harvesting to infer the distribution of overmature forests in France
Authors: Thompson Lucie , Cateau Eugénie , Debaive Nicolas , Bray Frédéric , Torre André , Vallet Patrick , Paillet Yoan 
Published: February 2021

AbstractAimThe distribution of overmature forests in metropolitan France is poorly known, with only a few well-studied prominent sites, and has never been evaluated countrywide. Here, we modelled French forest reserves’ time since the last harvesting operation - a proxy for forest maturity - then inferred the current statistical distribution of overmature forests (i.e. forests over 50 years without harvesting) in France.LocationMetropolitan FranceMethodsWe used inventories from forest reserves and managed forests to calibrate a generalised linear mixed model explaining the time since the last harvesting with selected structural attributes and environmental variables. We then projected this model on the independent National Forest Inventory dataset. We thus obtained an updated estimation of the proportion and a rough distribution of overmature forest stands in metropolitan France.ResultsWe found that high basal area of very large trees, high volumes of standing and downed deadwood, high diversity of tree-related microhabitats and more marginally diversity of decay stages best characterized the time since the last harvesting. Volumes of stumps and high density of coppices translating legacy of past forest management also distinguished more overmature plots. Our projection yielded an estimated 3% of French forests over 50 years without harvesting mostly located in more inaccessible areas (i.e. mountainous areas) and a promising proportion of future overmature forests if left unharvested.Main conclusionsOur study showed that the time since the last harvesting is a good proxy for a combination of stand structure attributes key in characterising overmature temperate forests. It gives the first robust statistical estimate of the proportion of overmature forests and may serve to report on their status in metropolitan France. Our method could be implemented at a larger spatial scale, notably in countries with accessible National Forest Inventory and calibration data, to produce indicators at international level.