Miracle-dz/UniFAR-FTUs huggingface dataset:
Respiratory Motion Prediction with Empirical Mode Decomposition-Based Random Vector Functional Link

The precise prediction of tumor motion for radiotherapy has proven challenging due to the non-stationary nature of respiration-induced motion, frequently accompanied by unpredictable irregularities. Despite the availability of numerous prediction methods for respiratory motion prediction, the prediction errors they generate often suffer from large prediction horizons, intra-trace variabilities, and irregularities. To overcome these challenges, we have employed a hybrid method, which combines empirical mode decomposition (EMD) and random vector functional link (RVFL), referred to as EMD-RVFL. In the initial stage, EMD is used to decompose respiratory motion into interpretable intrinsic mode functions (IMFs) and residue. Subsequently, the RVFL network is trained for each obtained IMF and residue. Finally, the prediction results of all the IMFs and residue are summed up to obtain the final predicted output. We validated this proposed method on the benchmark datasets of 304 respiratory motion traces obtained from 31 patients for various prediction lengths, which are equivalent to the latencies of radiotherapy systems. In direct comparison with existing prediction techniques, our hybrid architecture consistently delivers a robust and highly accurate prediction performance. This proof-of-concept study indicates that the proposed approach is feasible and has the potential to improve the accuracy and effectiveness of radiotherapy treatment.
Interactive Basinwide Model for Instream Flow and Aquatic Habitat Assessment

Quantification of sufficient or minimum flows needed to sustain the aquatic habitat is necessary for satisfactory resolution of water use conflicts and planning of water allocation strategies. The Instream Flow Group (IFG) of the U.S. Fish and Wildlife Service has developed a methodology to gage the quantity of suitable habitat in a stream. Application of this methodology has been limited because conventional flow models are inadequate to simulate the detailed hydraulic information needed. Currently, evaluation of aquatic habitats requires extensive field work foreach reach studied. There is no methodology for extending results to other reaches with dissimilar drainage areas. A basin flow model was developed which provides the hydraulic information needed to evaluate the aquatic habitat of all streams within a hydrologically homogeneous basin. The model uses hydraulic geometry relations to compute average flow parameter values for unmeasured streams. The variability of reach average conditions with respect to basinwide average conditions for similar drainage area streams was investigated and adjustment factors were developed defining the range of possible parameter values. Information on the local variations of depth and velocity through riffles and pools is needed to evaluate aquatic habitats. This information is obtained from probability distribution models developed from field data collected on the Sangamon and South Fork Sangamon River Basins. Stream habitat suitability calculations using the basin flow model with the IFG methodology are illustrated. Singh, Krishan P., Broeren, Sally McConkey, and King, Robin B. INTERACTIVE BASINWIDE MODEL FOR INSTREAM FLOW AND AQUATIC HABITAT ASSESSMENT--Project Completion Report to the Division of Water Resources, Illinois Department of Transportation, August 1986, Champaign, Illinois, 101 p. KEYWORDS--instream flow/ aquatic habitats/ stream fisheries/ channel morphology/ physical models/ simulation/ habitat suitability/ incremental methodology
Seroprevalence of pathogenic Leptospira serogroups in asymptomatic domestic dogs and cats: systematic review and meta-analysis

Leptospirosis is a neglected zoonotic disease transmitted by contact with the urine of animals infected with pathogenic species of the bacteria Leptospira or by contact with environments contaminated with the bacteria. Domestic dogs and cats may act as reservoirs or as sentinels of environmental contamination with leptospires, posing a public health concern. There is a great diversity of leptospires, and one common way to classify them is into serogroups that provide some information on the host species they are associated with. The aims of this study were: (1) to quantitatively summarize the overall prevalence and serogroup-specific prevalence of antibodies against pathogenic leptospires in asymptomatic dogs and cats and (2) to identify environmental and host characteristics that may affect the prevalence. Three electronic databases and the reference lists of eligible articles were screened, for epidemiological studies conducted between the years 2012–2022. We estimated overall and serogroup-specific prevalence using three-level meta-analysis models and assessed potential sources of heterogeneity by moderator analysis and meta-regression. Eighty-four studies met the inclusion criteria (dog studies 66.7%, cat studies 26.2%, and both species 7.1%). There were significant differences between dogs and cats in the overall prevalence model (P < 0.001), but not in the serogroup-specific model (P>0.05). In dogs, the prevalence of Leptospira interrogans serogroup Canicola was significantly higher than the other pathogenic serogroups (P < 0.001), while in cats there were no significant differences among serogroups (P = 0.373). Moderator analysis showed that the prevalence of L. kirschneri serogroup Grippotyphosa was significantly higher in stray/sheltered dogs than in domiciled dogs (P = 0.028). These results suggest that pathogenic serogroups associated with small mammals are circulating among asymptomatic pets and should be taken into account in the transmission cycle of leptospires, as well as in the standard MAT panel for diagnosis in dogs and cats. It also highlights the importance of including both dogs and cats as potential reservoirs when conducting eco-epidemiological studies in different geographical and ecological areas.
Orofacial Manifestation of Systemic Sclerosis: A Cross-Sectional Study and Future Prospects of Oral Capillaroscopy

Background and objectives: oral alterations in Systemic Sclerosis (SSc) patients are widespread and include microstomia, periodontitis, telangiectasias, mandibular resorption, bone lesions, and xerostomia. This cross-sectional study aims to evaluate the differences between SSc patients (cases) and healthy subjects (controls) regarding oral manifestations, quality of life (QoL), and microcirculation alterations. Methods: plaque index (PCR), periodontal index (PSR), DMFT, salivary flow rate, and buccal opening were measured by expert clinicians. S-HAQ test, the Self-Rating Anxiety State (SAS), the Self-Rating Depression Scale (SDS), and the WHOQOL-BREF test were administered to patients to evaluate their QoL. Microvascular alterations were assessed by oral videocapillaroscopy, performed on gingival and labial mucosa. A statistical analysis was conducted to find significant differences between healthy people and SSc patients. Results: 59 patients were enrolled in this study. Standard salivary flow is significantly more frequent in controls, while xerostomia, reduced flow, microstomia, lip retraction, and periodontitis are significantly more frequent in the cases. Gingival capillaroscopy showed differences concerning loop visibility, thickening of the gum, tortuosity of gingival loops, and reduced gingival density. Labial capillaroscopy demonstrates that visibility of the labial loops, the labial ectasias, and the tortuosity of the loops are significantly associated with the presence of scleroderma. Hand and facial deformities, hypomobility of the tongue, cheeks, lips, microstomia, and xerostomia significantly compromised the quality of life of SSc patients, which was significantly worse among them. Moreover, oral videocapillaroscopy could be a proper diagnostic method to detect oral microcirculation alterations. SSc patients often present ectasias, rarefaction of the reticulum, microhemorrhages, and megacapillaries, which negatively impact their oral health. Conclusions: periodontitis, reduced salivary flow, and microstomia could be considered SSc oral manifestations. Joint deformities, facial appearance, and comorbidities significantly reduce the QoL of SSc patients compared to healthy subjects. Oral videocapillaroscopy could be an innovative and reliable technique to detect oral microcirculation anomalies.
Dynamic storage: a potential metric of inter‐basin differences in storage properties

The potential for dynamic storage to serve as a metric of basin behaviour was assessed using data from five drainage basins with headwaters on the thick sand and gravel deposits of the Oak Ridges Moraine in southern Ontario, Canada. Dynamic storage was directly correlated with the ratio of variability of δ2H in streamflow relative to that in precipitation. This ratio has previously been shown to be inversely related to basin mean transit time (MTT), suggesting an inverse relationship between dynamic storage and MTT for the study basins. Dynamic storage was also directly correlated with interannual variability in stream runoff, baseflow and baseflow:runoff ratio, implying that basins with smaller dynamic storage have less interannual variability in their streamflow regimes. These preliminary results suggest that dynamic storage may serve as a readily derived and useful metric of basin behaviour for inter‐basin comparisons. Copyright © 2016 John Wiley & Sons, Ltd.
Dual-polarization RF channelizer based on microcombs

We report a dual-polarization radio frequency (RF) channelizer based on microcombs. With the tailored mismatch between the FSRs of the active and passive MRRs, wideband RF spectra can be channelized into multiple segments featuring digital compatible bandwidths via the Vernier effect. Due to the use of dual polarization states, the number of channelized spectral segments, and thus the RF instantaneous bandwidth (with a certain spectral resolution), can be doubled. In our experiments, we used 20 microcomb lines with 49 GHz FSR to achieve 20 channels for each polarization, with high RF spectra slicing resolutions at 144 MHz (TE) and 163 MHz (TM), respectively; achieving an instantaneous RF operation bandwidth of 3.1 GHz (TE) and 2.2 GHz (TM). Our approach paves the path towards monolithically integrated photonic RF receivers (the key components active and passive MRRs are all fabricated on the same platform) with reduced complexity, size, and unprecedented performance, which is important for wide RF applications with digital compatible signal detection.
The Influencce of Work Discipline and Incentives on Employee Performance at PT. Energi Cipta Utama

This research was conducted with the aim of determining the influence of work discipline and incentives on employee performance at PT Energi Cipta Utama. The population in this study is all employees at PT Energi Cipta Utama consisting of supervisors, finance, admin, cashiers, operators and cleaning services at PT Energi Cipta Utama. In 2022, there will be 100 employees and all of them will be sampled using the census method in determining the sample. The results of multiple linear regression analysis show that work discipline and incentives have a positive and significant effect on employee performance. Work discipline at PT Energi Cipta Utama can be said to be good. This requires providing repeated and clear information to all employees, especially new employees regarding regulations and sanctions if they violate the regulations that have been implemented. Incentives, there needs to be an increase and evaluation of goods and supporting facilities that need to be renewed or added units so that employee work is not hampered.
A New Field Protocol for Determination of Forest Structure, Biodiversity and Heath Status by Means of GPS Tools: A Case Study from Gaza Forest

This article describes the application of GPS, image processing analysis and statistical tools for determination of forest structure and biodiversity. The idea is based on determination of forest area using GPS tools, then taking representative plots “samples” about 5% - 10% of the forest and counting the tree species in each plot (sample). This process enables the estimation of species population in each plot. The sum of all species population enables the calculation of relative density of each species. Multiplying species population with plot number of the forest enables the calculations of total species population in the forest. Calculating the relative density enables the determination of dominant, co-dominant, suppressed and flour structure of the forest. To determine the age of the forest, we apply our method on determining the diameter of trees and grouping them to four groups, this enables the estimation of dominant age within single species. From these data, we can estimate the age of the forest. This field protocol is easy and applicable and provides good results in estimating structure, age and biodiversity in the forest.
IgG4 autoantibodies and autoantigens in the context of IgG4-autoimmune disease and IgG4-related disease

Immunoglobulins are an essential part of the humoral immune response. IgG4 antibodies are the least prevalent subclass and have unique structural and functional properties. In this review, we discuss IgG4 class switch and B cell production. We review the importance of IgG4 antibodies in the context of allergic responses, helminth infections and malignancy. We discuss their anti-inflammatory and tolerogenic effects in allergen-specific immunotherapy, and ability to evade the immune system in parasitic infection and tumour cells. We then focus on the role of IgG4 autoantibodies and autoantigens in IgG4-autoimmune diseases and IgG4-related disease, highlighting important parallels and differences between them. In IgG4-autoimmune diseases, pathogenesis is based on a direct role of IgG4 antibodies binding to self-antigens and disturbing homeostasis. In IgG4-related disease, where affected organs are infiltrated with IgG4-expressing plasma cells, IgG4 antibodies may also directly target a number of self-antigens or be overexpressed as an epiphenomenon of the disease. These antigen-driven processes require critical T and B cell interaction. Lastly, we explore the current gaps in our knowledge and how these may be addressed.
Coaching parents to conduct trial-based functional analysis via telehealth

The procedure of trial-based functional analysis implemented by parents has the potential to determine the purpose of problematic behaviors. A telehealth strategy may be less expensive, it takes less time, and provides more families with access to treatments. As a result, it could be a good alternative for families as poor access to resources and knowledge may worsen problem behaviors. Objectives. The purpose of this study was to evaluate the ability of mothers to conduct a trial-based functional analysis at home, with training and coaching via telehealth. Methods. Three mothers aged between 32 and 54 and their children between 18 and 26 years participated in the study. The study employed a multiple baseline design across behaviors to examine the effectiveness of behavioral skill training and coaching through telehealth on the accurate use of trial-based functional analysis conditions by mothers of children with developmental disabilities. Results. Results showed that mother participants conducted each condition of trial-based functional analysis with 100% accuracy. Moreover, the mothers had positive opinions regarding the study. Conclusion. In conclusion, this study provided support for parent involvement in the assessment of their children with developmental disabilities.
Correlates of Unmet Need for Modern Contraception Among Reproductive-Aged Women Involved in New York City Criminal Legal Systems

Introduction: The population of women involved in criminal legal systems (WICL), a majority of whom are reproductive-aged, has risen steadily in the United States. They contend with numerous barriers to sexual and reproductive health services resulting in high rates of unmet need for contraception and unintended pregnancy. Materials and Methods: This study included 132 non-pregnancy seeking reproductive-aged WICL enrolled in the baseline assessment of the HIV prevention intervention, “Women on the Road to Health” (WORTH). A multivariate generalized linear logistic regression model with robust estimation examined effects of past 6-month intimate partner violence (IPV; sexual and physical/injurious), past 3-month substance use (binge drinking, cannabis, other illegal drug use), and lifetime mental health diagnoses (anxiety, depression, bipolar disorder) on women's unmet need for modern contraception, adjusting for significant demographic and socioeconomic factors. Results: Women who were younger in age (odds ratio [OR]: 0.74; 95% confidence interval [CI]: 0.63–0.88) and reporting lifetime diagnoses of anxiety disorders (OR: 13.64; 95% CI: 2.71–68.34) were significantly more likely to meet the criteria for unmet need for modern contraception. Women with a regular gynecologist (OR: 0.11; 95% CI: 0.01–0.86) reporting lifetime diagnoses of bipolar disorder and past 6-month sexual IPV histories (OR: 0.04; 95% CI: 0.002–0.86) were significantly less likely to meet the criteria for unmet need for modern contraception. Conclusions: Distinct mental health diagnoses and experiences of IPV may uniquely impact unmet need for modern contraception among WICL. These findings emphasize the need for a more nuanced comprehension of these relationships to deliver comprehensive and holistic health services that address the intersecting needs of this population. Trial registration: ClinicalTrials.gov NCT01784809. Registered 6 February 2013.
Brian 2: an intuitive and efficient neural simulator

To be maximally useful for neuroscience research, neural simulators must make it possible to define original models. This is especially important because a computational experiment might not only need descriptions of neurons and synapses, but also models of interactions with the environment (e.g. muscles), or the environment itself. To preserve high performance when defining new models, current simulators offer two options: low-level programming, or mark-up languages (and other domain specific languages). The first option requires time and expertise, is prone to errors, and contributes to problems with reproducibility and replicability. The second option has limited scope, since it can only describe the range of neural models covered by the ontology. Other aspects of a computational experiment, such as the stimulation protocol, cannot be expressed within this framework. “Brian” 2 is a complete rewrite of Brian that addresses this issue by using runtime code generation with a procedural equation-oriented approach. Brian 2 enables scientists to write code that is particularly simple and concise, closely matching the way they conceptualise their models, while the technique of runtime code generation automatically transforms high level descriptions of models into efficient low level code tailored to different hardware (e.g. CPU or GPU). We illustrate it with several challenging examples: a plastic model of the pyloric network of crustaceans, a closed-loop sensorimotor model, programmatic exploration of a neuron model, and an auditory model with real-time input from a microphone.
Membrane distillation of wastewater: comparison of model and real organics.

Fouling behaviour in membrane distillation (MD) processes plays a crucial role in determining their widespread acceptability. Most studies have primarily focused on model organic foulants, such as humic acid (HA) and sodium alginate (SA). This study investigates the fouling of a polytetrafluoroethylene membrane in a direct contact MD (DCMD) using model organics (i.e., HA and SA) and real wastewater. The results indicated that the flux decline (5-60%) was only observed during the initial phase of the operation with model organic foulants. In contrast, real wastewater caused a gradual decline in flux throughout the experiment in both the concentrate (40%) and continuous (90%) modes. The study also found significant differences in the fouling layer morphology, composition, and hydrophobicity between the model organic foulants and real wastewater. Fourier transform infrared spectroscopy findings demonstrated that the fouling layer formed by real wastewater varied significantly from model organics, which primarily comprised of protein-like and polysaccharide-like functional groups. Finally, liquid chromatography-organic carbon detection revealed that the fouling layer of the MD membrane with real wastewater was composed of 40.7% hydrophobic and 59.3% hydrophilic organics. This study suggests that model organics may not accurately reflect real wastewater fouling.
Living on the edge—Genomic and ecological delineation of cryptic lineages in the high‐elevation specialist Erebia nivalis

Cold‐adapted species at high elevations may be especially impacted by global warming since they may be limited in their capacity to adapt to changing conditions or may be prevented from shifting their distributions upwards if no suitable habitats are available. The latter may be true for Erebia nivalis, a high‐elevation specialist that mainly occurs in the Austrian Alps and on few mountaintops in Switzerland, where its taxonomic and conservation status remains unclear. We aimed to clarify the relationships among geographically isolated populations of E. nivalis using whole‐genome resequencing data to reconstruct population connectivity and phylogenetic relationships. We inferred current and historical effective population sizes and combined these with tests for ecological differentiation based on available occurrence data to re‐evaluate the conservation status of E. nivalis. Our results confirm that Swiss and Austrian E. nivalis should be considered different evolutionarily significant units for conservation purposes, as they are marked by moderate genomic differentiation, distinct demographic histories and a difference in the abiotic conditions of their habitats. In both Austria and Switzerland, we found rapid uphill range shifts over the last decades, little population connectivity, low current effective population sizes and low genetic diversity. The above, combined with the low dispersal capacity of this 2‐year lifecycle species and its need to overwinter under snow, which is rapidly retreating from several regions of the Alps, leads us to suggest that the status of E. nivalis should be updated to ‘Vulnerable’ or ‘Endangered’ in the European, Swiss and Austrian Red Lists.
Circulating microRNA Panel for Prediction of Recurrence and Survival in Early-Stage Lung Adenocarcinoma

Early-stage lung adenocarcinoma (LUAD) patients remain at substantial risk for recurrence and disease-related death, highlighting the unmet need of biomarkers for the assessment and identification of those in an early stage who would likely benefit from adjuvant chemotherapy. To identify circulating miRNAs useful for predicting recurrence in early-stage LUAD, we performed miRNA microarray analysis with pools of pretreatment plasma samples from patients with stage I LUAD who developed recurrence or remained recurrence-free during the follow-up period. Subsequent validation in 85 patients with stage I LUAD resulted in the development of a circulating miRNA panel comprising miR-23a-3p, miR-320c, and miR-125b-5p and yielding an area under the curve (AUC) of 0.776 in predicting recurrence. Furthermore, the three-miRNA panel yielded an AUC of 0.804, with a sensitivity of 45.8% at 95% specificity in the independent test set of 57 stage I and II LUAD patients. The miRNA panel score was a significant and independent factor for predicting disease-free survival (p < 0.001, hazard ratio [HR] = 1.64, 95% confidence interval [CI] = 1.51–4.22) and overall survival (p = 0.001, HR = 1.51, 95% CI = 1.17–1.94). This circulating miRNA panel is a useful noninvasive tool to stratify early-stage LUAD patients and determine an appropriate treatment plan with maximal efficacy.