bluuebunny/crossref_metadata_2025 huggingface dataset:
High-definition image transmission through dynamically perturbed multimode fiber by a self-attention based neural network
Authors: Wu Guohua , Sun Yong , Yin Longfei , Song Zhixiong , Yu Wenting
Published: April 2023

We implement faithful multimode fiber (MMF) image transmission by a
self-attention-based neural network. Compared with a real-valued
artificial neural network (ANN) based on a convolutional neural
network (CNN), our method utilizes a self-attention mechanism to
achieve a higher image quality. The enhancement measure (EME) and
structural similarity (SSIM) of the dataset collected in the
experiment improved by 0.79 and 0.04; the total number of parameters
can be reduced by up to 25%. To enhance the robustness of the neural
network to MMF bending in image transmission, we use a simulation
dataset to prove that the hybrid training method is helpful in MMF
transmission of a high-definition image. Our findings may pave the way
for simpler and more robust single-MMF image transmission schemes with
hybrid training; SSIM on datasets under different disturbances improve
by 0.18. This system has the potential to be applied to various
high-demand image transmission tasks, such as endoscopy.
Broadband phase shifter based on SiN-MoS2 integrated racetrack resonator
Authors: Shang Zhenyuan , Wang Guoqing , Li Jiatong , Huang Qianrui , Sun Jiahao , Cheng Rumin , Zhang Mengyu , Yang Junbo , Zhang Ziming , Yin Jinde , Guo Kai , Yan Peiguang
Published: April 2023

As the critical device of microwave photonics and optical communication, the low-loss and high-efficiency optical phase shifter has attracted intense attention in photonic integrated circuits. However, most of their applications are restricted to a particular band. Little is known about the characteristics of broadband. In this paper, an SiN-MoS2 integrated broadband racetrack phase shifter is demonstrated. The coupling region and the structure of the racetrack resonator are elaborately designed to improve the coupling efficiency at each resonance wavelength. The ionic liquid is introduced to form a capacitor structure. Then, the effective index of the hybrid waveguide can be efficiently tuned by adjusting the bias voltage. We achieve a phase shifter with a tunable range covering all the WDM bands and even up to 1900 nm. The highest phase tuning efficiency is measured to be 72.75 pm/V at 1860 nm, and the corresponding half-wave-voltage-length product is calculated as 0.0608 V·cm.
Deep-red laser operation of cleaved single-crystal plates of Eu:CsGd(MoO4)2 molybdate
Authors: Baillard Amandine , Loiko Pavel , Pavlyuk Anatoly , Brasse Gurvan , Braud Alain , Camy Patrice
Published: April 2023

We report on the first deep-red laser operation of a heavily Eu3+-doped cesium gadolinium double molybdate crystal with a perfect cleavage. A 17 at. % Eu:CsGd(MoO4)2 laser based on cleaved single-crystal plates generated a maximum continuous-wave output power of 212 mW at 703.1 nm (5D0 → 7F4 transition) with a slope efficiency of 30.1%, a low laser threshold of 51 mW, linear polarization, and a beam quality factor M2 = 1.6–1.7. This monoclinic crystal is promising for deep-red microchip lasers.
Cascade bunch focusing on chip using terahertz pulses to drive prism arrays
Authors: Zhang Liwen , Liu Weihao , Xu Hongliang , Jia Qika , Lu Yalin
Published: April 2023

The dielectric laser accelerator (DLA) is a promising candidate for next-generation table-top and even on-chip particle accelerators. Long-range focusing of a tiny-size electron bunch on chip is crucial for the practical applications of DLA, which has been a challenge. Here we propose a bunch focusing scheme, which uses a pair of readily available few-cycle terahertz (THz) pulses to drive an array of millimeter-scale prisms via the inverse Cherenkov effect. The THz pulses are reflected and refracted multiple times through the prism arrays, synchronizing with and periodically focusing the electron bunch along the bunch channel. Cascade bunch-focusing is realized by making the electromagnetic field phase experienced by electrons in each stage of the array, that is, the synchronous phase, in the focusing phase region. The focusing strength can be adjusted via changing the synchronous phase and THz field intensity, optimization of which will sustain the stable bunch transportation in a tiny-size bunch channel on chip. This bunch-focusing scheme sets a base for developing a long-acceleration-range and high-gain DLA.
An optical beam scanner with reconfigurable non mechanical control of beam position, angle and focus for low-cost whole-eye OCT imaging
Authors: Urizar Pilar , Gambra Enrique , De la Peña Álvaro , Cetinkaya Onur , de Castro Alberto , Marcos Susana , Curatolo Andrea
Published: April 2023

Whole-eye optical coherence tomography (OCT) imaging is a promising tool in ocular biometry for cataract surgery planning, glaucoma diagnostics and myopia progression studies. However, conventional OCT systems are set up to perform either anterior or posterior eye segment scans and cannot easily switch between the two scan configurations without adding or exchanging optical components to account for the refraction of the eye’s optics. Even in state-of-the-art whole-eye OCT systems, the scan configurations are pre-selected and cannot be dynamically reconfigured. In this work, we present the design, optimization and experimental validation of a reconfigurable and low-cost optical beam scanner based on three electro-tunable lenses, capable of non-mechanically controlling the beam position, angle and focus. We derive the analytical theory behind its control. We demonstrate its use in performing alternate anterior and posterior segment imaging by seamlessly switching between a telecentric focused beam scan to an angular collimated beam scan. We characterize the corresponding beam profiles and record whole-eye OCT images in a model eye and in an ex vivo rabbit eye, observing features comparable to those obtained with conventional anterior and posterior OCT scanners. The proposed beam scanner reduces the complexity and cost of other whole-eye scanners and is well suited for 2-D ocular biometry. Additionally, with the added versatility of seamless scan reconfiguration, its use can be easily expanded to other ophthalmic applications and beyond.
Cheating leads to the evolution of multipartite viruses
Authors: Leeks Asher , Young Penny Grace , Turner Paul Eugene , Wild Geoff , West Stuart Andrew
Published: April 2023

In multipartite viruses, the genome is split into multiple segments, each of which is transmitted via a separate capsid. The existence of multipartite viruses poses a problem, because replication is only possible when all segments are present within the same host. Given this clear cost, why is multipartitism so common in viruses? Most previous hypotheses try to explain how multipartitism could provide an advantage. In so doing, they require scenarios that are unrealistic and that cannot explain viruses with more than 2 multipartite segments. We show theoretically that selection for cheats, which avoid producing a shared gene product, but still benefit from gene products produced by other genomes, can drive the evolution of both multipartite and segmented viruses. We find that multipartitism can evolve via cheating under realistic conditions and does not require unreasonably high coinfection rates or any group-level benefit. Furthermore, the cheating hypothesis is consistent with empirical patterns of cheating and multipartitism across viruses. More broadly, our results show how evolutionary conflict can drive new patterns of genome organisation in viruses and elsewhere.
MultiCens: Multilayer network centrality measures to uncover molecular mediators of tissue-tissue communication
Authors: Kumar Tarun , Sethuraman Ramanathan , Mitra Sanga , Ravindran Balaraman , Narayanan Manikandan
Published: April 2023

With the evolution of multicellularity, communication among cells in different tissues and organs became pivotal to life. Molecular basis of such communication has long been studied, but genome-wide screens for genes and other biomolecules mediating tissue-tissue signaling are lacking. To systematically identify inter-tissue mediators, we present a novel computational approach MultiCens (Multilayer/Multi-tissue network Centrality measures). Unlike single-layer network methods, MultiCens can distinguish within- vs. across-layer connectivity to quantify the “influence” of any gene in a tissue on a query set of genes of interest in another tissue. MultiCens enjoys theoretical guarantees on convergence and decomposability, and performs well on synthetic benchmarks. On human multi-tissue datasets, MultiCens predicts known and novel genes linked to hormones. MultiCens further reveals shifts in gene network architecture among four brain regions in Alzheimer’s disease. MultiCens-prioritized hypotheses from these two diverse applications, and potential future ones like “Multi-tissue-expanded Gene Ontology” analysis, can enable whole-body yet molecular-level systems investigations in humans.
Comparing households’ perception of flood hazard with historical climate and hydrological data in the Lower Mono River catchment (West Africa), Benin and Togo
Authors: Dossoumou Nadège I. P. , Gnazou Masamaéya D. T. , Villamor Grace B. , Agbossou Euloge K. , Thiam Sophie , Wagner Simon , Idrissou Mohamed
Published: April 2023

The comparison of local perception of flood hazards, with hydrological and climate parameters, can give more insight and understanding on the causes of flood, its impacts and the strategies to effectively address the problem. This study examines whether households’ perception of rainfall and flood occurrence are consistent with observed variation in climate parameter (rainfall) and hydrological (discharge) data in the Lower Mono River catchment (Togo-Benin, West Africa). Perceptions of the 744 households from the catchment were collected and compared to historical climatic and hydrological data using correlation analysis. The Standardized Precipitation Index was utilized to identify the extreme years in terms of precipitation. Chi-test and binary regression analyses were performed to identify the most affected communes within the catchment, and the factors that influence household perceptions on rainfall change, respectively. Findings reveal that 85% of the respondents perceived an excess in rainfall during the last 20 years and identify two particular years as the most affected by flood, which correspond to the climate data analysis. Households’ perceptions on flooded months are correlated with the monthly precipitation and discharge at the upper part of the catchment while the ones at down part are not correlated. Furthermore, the chi-test analysis shows that in the perception of households, the communes at the down part are more affected by flood than those at the upper part of the catchment. It is then important for decision maker to consider local communities’ perception for having insight regarding climate parameters, the causes of flood and in the decision making for implementing measures to cope with this phenomenon.
Association between antenatal diagnosis of late fetal growth restriction and educational outcomes in mid-childhood: A UK prospective cohort study with long-term data linkage study
Authors: Olga Laurentya , Sovio Ulla , Wong Hilary , Smith Gordon , Aiken Catherine
Published: April 2023

Background

Fetal growth restriction (FGR) is associated with a suboptimal intrauterine environment, which may adversely impact fetal neurodevelopment. However, analysing neurodevelopmental outcomes by observed birthweight fails to differentiate between true FGR and constitutionally small infants and cannot account for iatrogenic intervention. This study aimed to determine the relationship between antenatal FGR and mid-childhood (age 5 to 7 years) educational outcomes.

Methods and findings

The Pregnancy Outcome Prediction Study (2008–2012) was a prospective birth cohort conducted in a single maternity hospital in Cambridge, United Kingdom. Clinicians were blinded to the antenatal diagnosis of FGR. FGR was defined as estimated fetal weight (EFW) <10th percentile at approximately 36 weeks of gestation, plus one or more indicators of placental dysfunction, including ultrasonic markers and maternal serum levels of placental biomarkers. A total of 2,754 children delivered at term were divided into 4 groups: FGR, appropriate-for-gestational age (AGA) with markers of placental dysfunction, healthy small-for-gestational age (SGA), and healthy AGA (referent). Educational outcomes (assessed at 5 to 7 years using UK national standards) were assessed with respect to FGR status using regression models adjusted for relevant covariates, including maternal, pregnancy, and socioeconomic factors.

Compared to healthy AGA (N = 1,429), children with FGR (N = 250) were at higher risk of “below national standard” educational performance at 6 years (18% versus 11%; aOR 1.68; 95% CI 1.12 to 2.48, p = 0.01). By age 7, children with FGR were more likely to perform below standard in reading (21% versus 15%; aOR 1.46; 95% CI 0.99 to 2.13, p = 0.05), writing (28% versus 23%; aOR 1.46; 95% CI 1.02 to 2.07, p = 0.04), and mathematics (24% versus 16%; aOR 1.49; 95% CI 1.02 to 2.15, p = 0.03). This was consistent whether FGR was defined by ultrasound or biochemical markers. The educational attainment of healthy SGA children (N = 126) was comparable to healthy AGA, although this comparison may be underpowered. Our study design relied on linkage of routinely collected educational data according to nationally standardised metrics; this design allowed a high percentage of eligible participants to be included in the analysis (75%) but excludes those children educated outside of government-funded schools in the UK. Our focus on pragmatic and validated measures of educational attainment does not exclude more subtle effects of the intrauterine environment on specific aspects of neurodevelopment.

Conclusions

Compared to children with normal fetal growth and no markers of placental dysfunction, FGR is associated with poorer educational attainment in mid-childhood.
Spatiotemporal variations and potential influencing factors of hemorrhagic fever with renal syndrome: A case study in Weihe Basin, China
Authors: Zhu Lingli , Lu Liang , Li Shujuan , Ren Hongyan
Published: April 2023

Background

Hemorrhagic fever with renal syndrome (HFRS) is a widespread zoonotic disease seriously threatening Chinese residents’ health. HFRS of Weihe Basin remains highly prevalent in recent years and attracts wide attention. With the acceleration of urbanization and related environmental changes, the interaction among anthropogenic activities, environmental factors, and host animals becomes more complicated in this area, which posed increasingly complex challenges for implementing effective prevention measures. Identifying the potential influencing factors of continuous HFRS epidemics in this typical area is critical to make targeted prevention and control strategies.

Methods

Spatiotemporal characteristics of HFRS epidemic were analyzed based on HFRS case point data in Weihe Basin from 2005 to 2020. MaxEnt models were constructed to explore the main influencing factors of HFRS epidemic based on HFRS data, natural environment factors and socioeconomic factors.

Results

Results showed that the HFRS epidemics in Weihe Basin were temporally divided into three periods (the relatively stable period, the rapid rising period, and the fluctuating rising period) and were spatially featured by relatively concentrated in the plains alongside the Weihe River. Landscape played controlling effect in this area while land use, vegetation and population in the area interacted with each other and drove the change of HFRS epidemic. The potential high-risk area for HFRS epidemic was 419 km2, where the HFRS case density reached 12.48 cases/km2, especially in the northern plains of Xi’an City.

Conclusion

We suggested that the temporal and spatial variations in the HFRS epidemics, as well as their dominant influencing factors should be adequately considered for making and/or adjusting the targeted prevention and control strategies on this disease in Weihe Basin.
Taxonomic identification accuracy from BOLD and GenBank databases using over a thousand insect DNA barcodes from Colombia
Authors: Baena-Bejarano Nathalie , Reina Catalina , Martínez-Revelo Diego Esteban , Medina Claudia A. , Tovar Eduardo , Uribe-Soto Sandra , Neita-Moreno Jhon Cesar , Gonzalez Mailyn A.
Published: April 2023

Recent declines of insect populations at high rates have resulted in the need to develop a quick method to determine their diversity and to process massive data for the identification of species of highly diverse groups. A short sequence of DNA from COI is widely used for insect identification by comparing it against sequences of known species. Repositories of sequences are available online with tools that facilitate matching of the sequences of interest to a known individual. However, the performance of these tools can differ. Here we aim to assess the accuracy in identification of insect taxonomic categories from two repositories, BOLD Systems and GenBank. This was done by comparing the sequence matches between the taxonomist identification and the suggested identification from the platforms. We used 1,160 COI sequences representing eight orders of insects from Colombia. After the comparison, we reanalyzed the results from a representative subset of the data from the subfamily Scarabaeinae (Coleoptera). Overall, BOLD systems outperformed GenBank, and the performance of both engines differed by orders and other taxonomic categories (species, genus and family). Higher rates of accurate identification were obtained at family and genus levels. The accuracy was higher in BOLD for the order Coleoptera at family level, for Coleoptera and Lepidoptera at genus and species level. Other orders performed similarly in both repositories. Moreover, the Scarabaeinae subset showed that species were correctly identified only when BOLD match percentage was above 93.4% and a total of 85% of the samples were correctly assigned to a taxonomic category. These results accentuate the great potential of the identification engines to place insects accurately into their respective taxonomic categories based on DNA barcodes and highlight the reliability of BOLD Systems for insect identification in the absence of a large reference database for a highly diverse country.
Non-invasive prenatal diagnosis of single gene disorders with enhanced relative haplotype dosage analysis for diagnostic implementation
Authors: Pacault Mathilde , Verebi Camille , Champion Magali , Orhant Lucie , Perrier Alexandre , Girodon Emmanuelle , Leturcq France , Vidaud Dominique , Férec Claude , Bienvenu Thierry , Daveau Romain , Nectoux Juliette
Published: April 2023

Non-invasive prenatal diagnosis of single-gene disorders (SGD-NIPD) has been widely accepted, but is mostly limited to the exclusion of either paternal or de novo mutations. Indeed, it is still difficult to infer the inheritance of the maternal allele from cell-free DNA (cfDNA) analysis. Based on the study of maternal haplotype imbalance in cfDNA, relative haplotype dosage (RHDO) was developed to address this challenge. Although RHDO has been shown to be reliable, robust control of statistical error and explicit delineation of critical parameters for assessing the quality of the analysis have not been fully addressed. We present here a universal and adaptable enhanced-RHDO (eRHDO) procedure through an automated bioinformatics pipeline with a didactic visualization of the results, aiming to be applied for any SGD-NIPD in routine care. A training cohort of 43 families carrying CFTR, NF1, DMD, or F8 mutations allowed the characterization and optimal setting of several adjustable data variables, such as minimum sequencing depth, type 1 and type 2 statistical errors, as well as the quality assessment of intermediate steps and final results by block score and concordance score. Validation was successfully performed on a test cohort of 56 pregnancies. Finally, computer simulations were used to estimate the effect of fetal-fraction, sequencing depth and number of informative SNPs on the quality of results. Our workflow proved to be robust, as we obtained conclusive and correctly inferred fetal genotypes in 94.9% of cases, with no false-negative or false-positive results. By standardizing data generation and analysis, we fully describe a turnkey protocol for laboratories wishing to offer eRHDO-based non-invasive prenatal diagnosis for single-gene disorders as an alternative to conventional prenatal diagnosis.
Traditional health practices: A qualitative inquiry among traditional health practitioners in northern Uganda on becoming a healer, perceived causes of illnesses, and diagnostic approaches
Authors: Mwaka Amos Deogratius , Achan Jennifer , Orach Christopher Garimoi
Published: April 2023

Background

The practice of traditional and complementary medicine is increasing in most low-and middle-income countries especially for chronic communicable and non-communicable diseases. In this study, we aimed to understand how people gain healing power and become traditional health practitioners (THPs), perceived causes of illnesses, and how THPs diagnose illnesses.

Methods

This was a cross-sectional qualitative interview-based study. We used semi-structured in-depth guides to collect data from THPs identified through the Acoli cultural institutions and snowball sampling technique. The study team visited the THPs and interviewed them in their homes. Some THPs allowed the study team to visit them more than once and as well observe their healing practices and medicines. Thematic analysis approach was used to analyze the data. Atlas.ti version 9.2 was used to support data analysis.

Results

Twenty two THPs aged 39–80 years were included in the study. Most of the respondents were male, and married. We identified three main themes: (i) how people gain healing power and become traditional health practitioners; (ii) perceived causes of illnesses; and (iii) how illnesses are diagnosed. The majority of respondents reported that most people become THPs through: inheriting healing power from their parents or grandparents; transfer of healing powers from senior healers; instructions during visions and dreams; and, acquiring healing power during spirits possessions. Perceived causes of illnesses included: fate and natural causes, spirits attacks, curses by elders, witchcraft, contagion and infections, poor hygiene, heredity, and malevolent actions. THPs diagnose illnesses through various approaches including consultations with spirits, observing patterns of occurrences and events, evaluation of symptoms and signs of illnesses, use of bones from animals/birds and other objects to diagnose illnesses, performing diagnostic rituals, and using biomedical laboratory testing in health facilities.

Conclusion

Healing knowledge and powers are acquired in particular ways that can be traced to appraise authenticity of healers during registration and licensing to ensure safety of patients. Understanding perspectives of the THPS on causes of illnesses and how diagnoses are made potentially informs strategies for integration and or collaboration between the national biomedical health system and traditional health practices.
A systematic review of the burden of, access to services for and perceptions of patients with overweight and obesity, in humanitarian crisis settings
Authors: Shortland Thomas , McGranahan Majel , Stewart Daniel , Oyebode Oyinlola , Shantikumar Saran , Proto William , Malik Bassit , Yau Roger , Cobbin Maddie , Sabouni Ammar , Rudge Gavin , Kidy Farah
Published: April 2023

Introduction

Excess body weight causes 4 million deaths annually across the world. The number of people affected by humanitarian crises stands at a record high level with 1 in 95 people being forcibly displaced. These epidemics overlap. Addressing obesity is a post-acute phase activity in non-communicable disease management in humanitarian settings. Information is needed to inform guidelines and timing of interventions. The objective of this review was to explore the prevalence of overweight and obesity in populations directly affected by humanitarian crises; the cascade of care in these populations and perceptions of patients with overweight and obesity.

Methods

Literature searches were carried out in five databases. Grey literature was identified. The population of interest was non-pregnant, civilian adults who had experience of humanitarian crises (armed conflict, complex emergencies and natural disasters). All study types published from January 1st, 2011, were included. Screening, data extraction and quality appraisal were carried out in duplicate. A narrative synthesis is presented.

Results

Fifty-six reports from forty-five studies were included. Prevalence estimates varied widely across the studies and by subgroups. Estimates of overweight and obesity combined ranged from 6.4% to 82.8%. Studies were heterogenous. Global distribution was skewed. Increasing adiposity was seen over time, in older adults and in women. Only six studies were at low risk of bias. Body mass index was the predominant measure used. There were no studies reporting cascade of care. No qualitative studies were identified.

Conclusion

Overweight and obesity varied in crisis affected populations but were rarely absent. Improved reporting of existing data could provide more accurate estimates. Worsening obesity may be prevented by acting earlier in long-term crises and targeting risk groups. The use of waist circumference would provide useful additional information. Gaps remain in understanding the existing cascade of care. Cultural norms around diet and ideal body size vary.
Robust tracking control for a quadrotor subjected to disturbances using new hyperplane-based fast Terminal Sliding Mode
Authors: Labbadi Moussa , Iqbal Jamshed , Djemai Mohamed , Boukal Yassine , Bouteraa Yassine
Published: April 2023

This paper presents a finite-time approach for tracking control of a quadrotor system subjected to external disturbances and model uncertainties. The proposed approach offers a preassigned performance guarantee. Firstly, integral terminal sliding manifolds and nonsingular terminal sliding manifolds are considered to produce the new hyperplane sliding variables for both position and attitude of a quadrotor. The designed hyperplane sliding variables guaranteed a finite-time convergence. The objective is to develop a finite-time control scheme for a disturbed quadrotor to follow a predefined trajectory based on a nonlinear sliding mode controller. The main contribution of this paper is to design a hyperplane-based nonlinear sliding mode control strategy for a quadrotor subjected to disturbances. A concept of robust controllers for a quadrotor is presented based on Lyapunov theory, which proves finite-time stability of the proposed control technique. Numerical simulations with two different scenarios verify the accuracy of the proposed hyperplane-based sliding mode control approach. The simulations study also included a comparison with another nonlinear controller. Results demonstrated overperformance of the proposed control strategy.
Effects of kettlebell swing training on cardiorespiratory and metabolic demand to a simulated competition in young female artistic gymnasts
Authors: Melo Xavier , Arrais Inês , Marôco João Luís , Ribeiro Pedro Neto , Nabais Sara , Coelho Raquel , Reis Joana , Angarten Vítor , Fernhall Bo , Santa-Clara Helena
Published: April 2023

We examined the effects of adding a Kettlebell Swing training program (KB) to the regular skill-training protocol (REGULAR) on cardiorespiratory fitness, cardiorespiratory/metabolic demand, and recovery to a simulated competition of female artistic gymnastics. Nine gymnasts (13±2 years) had their REGULAR complemented with a 4-week kettlebell training (REGULAR+KB), consisting of 3 sessions/week of 12x30” swings x 30” rest with ¼ of their body weight, while 9 aged-matched gymnasts acted as a comparison group. Peak oxygen uptake (V˙O2ext) during routines was estimated from the O2 recovery curve using backward extrapolation and off-kinetics parameters were modeled through a mono-exponential function. Heart rate (HR) was monitored continuously and capillary blood lactate (BLa-) was measured before and after each routine (1st and 3rd min). Cardiorespiratory fitness (V˙O2max) was evaluated using a ramp cycle ergometer test. A training-by-time interaction effect was observed for V˙O2max (p = 0.009) as increments were only observed after REGULAR+KB (M = 8.85, SD = 9.67 ml.kg.min-1). No training-by-time interactions were observed for HRpeak (p = 0.39), V˙O2ext (p = 0.07), or La-post3 (p = 0.25), both training protocols reduced HRpeak (M = -12; SD = 11 b.min-1) and BLa-post1 (M = -0.70; SD = 1.29 mmol.L-1) during the simulated competition, but not relative V˙O2ext. No training-by-time interaction was observed for the off-transient V˙O2 time constant (p = 0.38). V˙O2 recovery was slower (M = 5; SD = 10 s) after both protocols. Both training protocols improved cardiorespiratory and metabolic demands and recovery kinetics to a simulated competition of female artistic gymnastics, although increases in cardiorespiratory fitness were only observed in REGULAR+KB.
Corrective adjustment methods for relative age effects on French young swimmers’ performances
Authors: Difernand Audrey , De Larochelambert Quentin , Pla Robin , Barlier Kilian , Marc Andy , Ferri Samuel , Dupas Olivier , Antero Juliana , Toussaint Jean-François , Sedeaud Adrien
Published: April 2023

Background

This study aimed to identify a Relative Age Effect (RAE) among French young swimmers and apply corrective adjustment procedures to rebalance performances according to categories and events.

Methods

5,339,351 performances of French swimmers aged 10 to 18 were collected between 2000 and 2019. Birth quarters distribution was examined according to competitiveness level (‘All’, ‘Top50%’, ‘Top25%’ and ‘Top10%’), event and age category. A linear relationship between the distribution of performances and calendar days provides a calibration coefficient allowing to rebalance performances by considering the effect of RAE for each event. Then, adjusted performances are recalculated using this coefficient, the initial performance and the relative age.

Results

Proportion of swimmers born in the first quarter was higher than the proportion of those born in the last quarter for all events and strokes (p < 0.01). RAE increases with the competitiveness level for all events. Indeed, among ’All’ 12 years old 50m freestyle swimmers, the proportion born in the first quarter is 30.9% vs 19.2% in the fourth quarter, while among the “Top10%”, 47.5% were born in the first quarter vs 10.3% in the last one. (p-value < 0.01). In average, each day represents a gap of 0.008 second, resulting in a difference of almost 3 seconds over a year. This tool is validated by comparing swimmers who have performed at least twice in a season. It provides a day by day rebalancing method for all swimming events and age categories.

Conclusions

Relative age effect is present among French young male and female swimmers, and is strengthened by competitiveness level. A new corrective adjustment procedure to rebalance performances considering categories and events is proposed and validated. By applying such a tool, we are able to reveal the full potential of swimmers and make it possible to compare them at the same relative age.
Mycobacterium ulcerans culture results according to duration of prior antibiotic treatment: A cohort study
Authors: Tweedale Brodie , Collier Fiona , Waidyatillake Nilakshi T. , Athan Eugene , O’Brien Daniel P.
Published: April 2023

Mycobacterium ulcerans disease is a necrotising disease of the skin and subcutaneous tissue and is effectively treated with eight-weeks antibiotic therapy. Significant toxicities, however, are experienced under this prolonged regimen. Here, we investigated the length of antibiotic duration required to achieve negative cultures of M. ulcerans disease lesions and evaluated the influence of patient characteristics on this outcome. M. ulcerans cases from an observational cohort that underwent antibiotic treatment prior to surgery and had post-excision culture assessment at Barwon Health, Victoria, from May 25 1998 to June 30 2019, were included. Antibiotic duration before surgery was grouped as <2 weeks, ≥2-<4 weeks, ≥4-<6 weeks, ≥6-<8 weeks, ≥8-<10 weeks and ≥10–20 weeks. Cox regression analyses were performed to assess the association between variables and culture positive results. Ninety-two patients fitted the inclusion criteria. The median age was 60 years (IQR 28–74.5) and 51 (55.4%) were male. Rifampicin-based regimens were predominantly used in combination with clarithromycin (47.8%) and ciprofloxacin (46.7%), and the median duration of antibiotic treatment before surgery was 23 days (IQR, 8.0–45.5). There were no culture positive results after 19 days of antibiotic treatment and there was a significant association between antibiotic duration before surgery and a culture positive outcome (p<0.001). The World Health Organisation category of the lesion and the antibiotic regimen used had no association with the culture outcome. Antibiotics appear to be effective at achieving negative cultures of M. ulcerans disease lesions in less than the currently recommended eight-week duration.
The emotional side of taking part in a cancer clinical trial
Authors: Chichua Mariam , Filipponi Chiara , Mazzoni Davide , Pravettoni Gabriella
Published: April 2023

Background

Taking part in a cancer clinical trial often represents a source of psychological distress and emotional activation among patients and their caregivers. Nowadays, social media platforms provide a space for these groups to freely express and share their emotional experiences.

Aims

We aimed to reveal the most prevalent basic and complex emotions and sentiments in the posts of the patients and caregivers contemplating clinical trials on Reddit. Additionally, we aimed to categorize the types of users and posts.

Methods

With the use of keywords referring to clinical trials, we searched for public posts on the subreddit ‘cancer’. R studio v. 4.1.2 (2021-11-01) and NRC Emotion Lexicon was used for analysis. Following the theoretical framework of Plutchik’s wheel of emotions, the analysis included: 8 basic emotions (anger, fear, anticipation, trust, surprise, sadness, joy, and disgust) and 4 types of complex emotions (primary, secondary, tertiary, and opposite dyads). We utilized the package ‘PyPlutchik’ to visualize the emotion wheels in Python 3.10.5.

Results

A total of 241 posts were included in the final database. User types (129 patients, 112 caregivers) and post types (142 expressed shared experience, 77 expressed advice, and 85 conveyed both) were identified. Both positive (N = 2557, M = .68) and negative (N = 2154, M = .57) sentiments were high. The most prevalent basic emotions were: fear (N = 1702, M = .45), sadness (N = 1494, M = .40), trust (N = 1470, M = .44), and anticipation (N = 1376, M = .37). The prevalence of complex/dyadic emotions and their interpretation is further discussed.

Conclusion

In this contribution, we identified and discussed prevalent emotions such as fear, sadness, optimism, hope, despair, and outrage that mirror the psychological state of users and affect the medical choices they make. The insights gained in our study contribute to the understanding of the barriers and reinforcers to participation in trials and can improve the ability of healthcare professionals to assist patients when confronted with this choice.
Comparison of new and emerging SARS-CoV-2 variant transmissibility through active contact testing. A comparative cross-sectional household seroprevalence study
Authors: Gaskell Katherine M. , El Kheir Natalie , Mirfendesky Mariyam , Rampling Tommy , Marks Michael , Houlihan Catherine F. , Lemonge Norbert , Bristowe Hannah , Aslam Suhail , Kyprianou Demetra , Nastouli Eleni , Goldblatt David , Fielding Katherine , Moore David A. J. ,   CONTACT team (field team)
Published: April 2023

Historically SARS-CoV-2 secondary attack rates (SAR) have been based on PCR positivity on screening symptomatic contacts; this misses transmission events and identifies only symptomatic contacts who are PCR positive at the time of sampling. We used serology to detect the relative transmissibility of Alpha Variant of Concern (VOC) to non-VOC SARS-CoV-2 to calculate household secondary attack rates. We identified index patients diagnosed with Alpha and non-VOC SARS-CoV-2 across two London Hospitals between November 2020 and January 2021 during a prolonged and well adhered national lockdown. We completed a household seroprevalence survey and found that 61.8% of non-VOC exposed household contacts were seropositive compared to 82.1% of Alpha exposed household contacts. The odds of infection doubled with exposure to an index diagnosed with Alpha. There was evidence of transmission events in almost all households. Our data strongly support that estimates of SAR should include serological data to improve accuracy and understanding.
Normative values of cardiorespiratory fitness in Croatian children and adolescents
Authors: Sagat Peter , Štefan Lovro , Petrić Vilko , Štemberger Vesna , Blažević Iva
Published: April 2023

Although defining normative values of cardiorespiratory fitness have been the topic of many Western societies, little evidence has been provided for less developed countries like Croatia. Since cardiorespiratory fitness rapidly declines in Croatian children and adolescents, the newly established normative values would help health-related professionals and physical education teachers to detect ‘talented’ groups and direct them towards sport and ‘risky’ groups for planning special interventions. Therefore, the main purpose of the study was to determine normative reference values of cardiorespiratory fitness. A total of 1,612 children and adolescents aged 7–14 years (mean±SD; age 9.7±2.4 years; stature 151.0±17.6 cm; body mass 45.1±19.1 kg; 52.5% girls) participated in this cross-sectional study. Cardiorespiratory fitness was assessed by the Maximal multistage 20-m shuttle run test and the performance was expressed as the number of stages. Maximal oxygen uptake (VO2max) was estimated by equations. Smoothed percentile curves were calculated. Boys outperformed girls in the maximal number of levels achieved after the 20-m shuttle run test and in the VO2max values at each age category. In boys, a gradually higher level of performance between ages 11 and 14 was observed, while in girls the values started to rise after the age of 8. Our study provides one of the first sex- and age-specific normative values for cardiorespiratory fitness assessed by the 20-m shuttle run test in Croatian children and adolescents.
Do you get what you see? Insights of using mAP to select architectures of pretrained neural networks for automated aerial animal detection
Authors: Moreni Mael , Theau Jerome , Foucher Samuel
Published: April 2023

The vast amount of images generated by aerial imagery in the context of regular wildlife surveys nowadays require automatic processing tools. At the top of the mountain of different methods to automatically detect objects in images reigns deep learning’s object detection. The recent focus given to this task has led to an influx of many different architectures of neural networks that are benchmarked against standard datasets like Microsoft’s Common Objects in COntext (COCO). Performance on COCO, a large dataset of computer vision images, is given in terms of mean Average Precision (mAP). In this study, we use six pretrained networks to detect red deer from aerial images, three of which have never been used, to our knowledge, in a context of aerial wildlife surveys. We compare their performance along COCO’s mAP and a common test metric in animal surveys, the F1-score. We also evaluate how dataset imbalance and background uniformity, two common difficulties in wildlife surveys, impact the performance of our models. Our results show that the mAP is not a reliable metric to select the best model to count animals in aerial images and that a counting-focused metric like the F1-score should be favored instead. Our best overall performance was achieved with Generalized Focal Loss (GFL). It scored the highest along both metrics, combining most accurate counting and localization (with average F1-score of 0.96 and 0.97 and average mAP scores of 0.77 and 0.89 on both datasets respectively) and is therefore very promising for future applications. While both imbalance and background uniformity improved the performance of our models, their combined effect had twice as much impact as the choice of architecture. This finding seems to confirm that the recent data-centric shift in the deep learning field could also lead to performance gains in wildlife surveys.
Transforming RNA-Seq gene expression to track cancer progression in the multi-stage early to advanced-stage cancer development
Authors: Livesey Michelle , Rossouw Sophia Catherine , Blignaut Renette , Christoffels Alan , Bendou Hocine
Published: April 2023

Background

Cancer progression can be tracked by gene expression changes that occur throughout early-stage to advanced-stage cancer development. The accumulated genetic changes can be detected when gene expression levels in advanced-stage are less variable but show high variability in early-stage. Normalizing advanced-stage expression samples with early-stage and clustering of the normalized expression samples can reveal cancers with similar or different progression and provide insight into clinical and phenotypic patterns of patient samples within the same cancer.

Objective

This study aims to investigate cancer progression through RNA-Seq expression profiles across the multi-stage process of cancer development.

Methods

RNA-sequenced gene expression of Diffuse Large B-cell Lymphoma, Lung cancer, Liver cancer, Cervical cancer, and Testicular cancer were downloaded from the UCSC Xena database. Advanced-stage samples were normalized with early-stage samples to consider heterogeneity differences in the multi-stage cancer progression. WGCNA was used to build a gene network and categorized normalized genes into different modules. A gene set enrichment analysis selected key gene modules related to cancer. The diagnostic capacity of the modules was evaluated after hierarchical clustering.

Results

Unnormalized RNA-Seq gene expression failed to segregate advanced-stage samples based on selected cancer cohorts. Normalization with early-stage revealed the true heterogeneous gene expression that accumulates across the multi-stage cancer progression, this resulted in well segregated cancer samples. Cancer-specific pathways were enriched in the normalized WGCNA modules. The normalization method was further able to stratify patient samples based on phenotypic and clinical information. Additionally, the method allowed for patient survival analysis, with the Cox regression model selecting gene MAP4K1 in cervical cancer and Kaplan-Meier confirming that upregulation is favourable.

Conclusion

The application of the normalization method further enhanced the accuracy of clustering of cancer samples based on how they progressed. Additionally, genes responsible for cancer progression were discovered.
Evaluation of the FAST-M maternal sepsis intervention in Pakistan: A qualitative exploratory study
Authors: Ahmed Sheikh Irfan , Khowaja Bakhtawar M. Hanif , Barolia Rubina , Sikandar Raheel , Rind Ghulam Kubra , Jahangir Arshia , Parveen Fahmida , Cheshire James , Dunlop Catherine , Petrucka Pammla Margaret , Sheikh Lumaan , Coomarasamy Arri , Lissauer David
Published: April 2023

Introduction

The World Health Organization and partners developed and evaluated a maternity-specific sepsis care bundle called ‘FAST-M’ for low-resource settings. However, this bundle has not yet been studied in Asia. Our study sought to evaluate the perceptions of healthcare providers about the implementation of the FAST-M intervention in Pakistan.

Materials and methods

The study was conducted at a public sector hospital in Hyderabad. We conducted three focus group discussions with healthcare providers including doctors, nurses, and healthcare administrators (n = 22) who implemented the FAST-M intervention. The Consolidated Framework for Implementation Research was used as a guiding framework for data collection and analysis. The data were analyzed using a thematic analysis approach and deductive methods.

Results

Five overarching themes emerged: (I) FAST-M intervention and its significance including HCPs believing in the advantages of using the intervention to improve clinical practices; (II) Influence of outer and inner settings including non-availability of resources in the facility for sepsis care; (III) HCPs perceptions about sustainability, which were positive (IV) Integration into the clinical setting including HCPs views on the existing gaps, for example, shortage of HCPs and communication gaps, and their recommendations to improve these; and (V) Outcomes of the intervention including improved clinical processes and outcomes using the FAST-M intervention. Significant improvement in patient monitoring and FAST-M bundle completion within an hour of diagnosis of sepsis was reported by the HCPs.

Conclusions

The healthcare providers’ views were positive about the intervention, its outcomes, and long-term sustainability. The qualitative data provided findings on the acceptability of the overall implementation processes to support subsequent scaling up of the intervention.
MTSviewer: A database to visualize mitochondrial targeting sequences, cleavage sites, and mutations on protein structures
Authors: Bayne Andrew N. , Dong Jing , Amiri Saeid , Farhan Sali M. K. , Trempe Jean-François
Published: April 2023

Mitochondrial dysfunction is implicated in a wide array of human diseases ranging from neurodegenerative disorders to cardiovascular defects. The coordinated localization and import of proteins into mitochondria are essential processes that ensure mitochondrial homeostasis. The localization and import of most mitochondrial proteins are driven by N-terminal mitochondrial targeting sequences (MTS’s), which interact with import machinery and are removed by the mitochondrial processing peptidase (MPP). The recent discovery of internal MTS’s—those which are distributed throughout a protein and act as import regulators or secondary MPP cleavage sites–has expanded the role of both MTS’s and MPP beyond conventional N-terminal regulatory pathways. Still, the global mutational landscape of MTS’s remains poorly characterized, both from genetic and structural perspectives. To this end, we have integrated a variety of tools into one harmonized R/Shiny database called MTSviewer (https://neurobioinfo.github.io/MTSvieweR/), which combines MTS predictions, cleavage sites, genetic variants, pathogenicity predictions, and N-terminomics data with structural visualization using AlphaFold models of human and yeast mitochondrial proteomes. Using MTSviewer, we profiled all MTS-containing proteins across human and yeast mitochondrial proteomes and provide multiple case studies to highlight the utility of this database.