Miracle-dz/UniFAR-FTUs huggingface dataset:
Procedural cave generation

Procedural content generation is becoming an increasingly popular research area as a means of algorithmically generating scene content for virtual environments. The automated generation of such content avoids the manual labour typically associated with creating scene content, and is extremely useful in application areas such as computer graphics, virtual reality, movie production and video games. While virtual 3D caves are commonly featured in these virtual environment applications, procedural cave generation is not an area that has received much attention among the research community to date. The research in this thesis investigated and developed an approach to automating the process of generating visually believable 3D cave models. To generate 3D cave structures with diverse characteristics, the use of different noise functions with different parameters was examined. This thesis presents experimental results showing the relationship between these factors and their influences on the resulting cave structure. Furthermore, the construction of an efficient spatial data structure had to be developed as part of the cave generation process. This research proposed a unique bottom-up voxel-based octree building approach that was specifically designed for the purposes of constructing the cave structure. In order to be able to render the resulting 3D cave model in real-time, a polygonal mesh of the interior cave walls was obtained from the data stored in the octree. To increase the realism of the cave model, a polygonal mesh smoothing technique was used. However, the naïve smoothing technique caused cracks to appear at certain sections of the cave walls. An effective solution to patch the cracks was subsequently developed to produce a smooth crack-free mesh. In addition, the procedural simulation of two common cave features, namely stalactites and stalagmites, was explored. The generation of these cave characteristics was seamlessly added to the procedural cave creation process. The end result is a procedural approach capable of generating visually believable cave models automatically on a computer, and being able to render the resulting model in realtime.
Leveraging family-based assets for Black men who have sex with men in House Ball Communities: Protocol for a cluster randomized controlled trial

Black men who have sex with men (MSM) continue to have the highest incidence of new human immunodeficiency virus (HIV) diagnoses in the United States but are least likely to be engaged in care or to be virally suppressed. Many Black MSM face multiple stigmas, but some have found refuge in the House Ball Community (HBC)—a national network of Black lesbian, gay, bisexual, and transgender kinship commitments that provide care-giving, affirmation, and survival skills-building for its members. We propose to modify a skills-building and HIV prevention best-evidence, group-level intervention for HIV- negative Black MSM (Many Men Many Voices) into a family-based intervention to focus on asset-building for both HIV-negative and HIV-positive Black MSM within HBC families. The adapted intervention will be re-branded as Our Family Our Voices (OFOV). We proposed a mixed-methods study to test the feasibility and preliminary efficacy of OFOV adapted for HIV status-neutral use with HBC families. First, we will develop the intervention protocol using the ADAPT-ITT model for modifying behavioral interventions. Then, we will conduct a cluster randomized controlled trial with six HBC families in New York City. Families will be randomized to the OFOV intervention or waitlist control arm. Primary outcomes will be HIV testing, HIV pre-exposure prophylaxis use, currently in HIV care and on HIV treatment. Secondary outcomes will be the number of family-based assets, resilience, number of sexual partners, and relative frequency of condomless anal intercourse. The results of the formative research, including the pilot trial, will contribute to the evidence-base regarding the development of HIV status-neutral interventions that respond to the diversity and complexities of HBC families and that recognize the importance of asset-building for facilitating HBC resilience to stigma as a part of the United States’ domestic policy objective of ending the HIV epidemic by 2030.
Impact of IODM and ENSO on the East Asian Monsoon: Simulations through NCAR Community Atmospheric Model

The normal Indian Ocean is characterized by warmer waters over the eastern region and cooler waters over the western region. Changes in sea surface temperature (SST) over the western and eastern Indian Ocean give birth to a phenomenon now referred to as the Indian Ocean Dipole Mode (IODM). The positive phase of this mode is characterized by positive SST anomalies over the western Indian Ocean and negative anomalies over the southeastern Indian Ocean, while the negative phase is characterized by a reversed SST anomaly pattern. On the other hand, the normal Pacific Ocean has warm (cool) waters over the western (eastern) parts. Positive (negative) SST anomalies over the central/eastern (western) Pacific Ocean characterize the E1 Nino phenomenon. The reverse situation leads to the La Nina phenomenon. The coupled ocean-atmosphere phenomenon over the Pacific is referred to as the E1 Nino Southern Oscillation (ENSO) phenomenon. In this study the impact of IODM and ENSO on the East Asian monsoon variability has been studied using observational data and using the Community Atmospheric Model (CAM) of the National Center for Atmospheric Research (NCAR). Five sets of model experiments were performed with anomalous SST patterns associated with IODM/ENSO superimposed on the climatological SSTs. The empirical and dynamic approaches reveal that it takes about 3-4 seasons fur the peak IODM mode to influence the summer monsoon activity over East Asia. On the other hand, the impact of ENSO on the East Asian monsoon could occur simultaneously. Further, the negative (positive) phase of IODM and E1 Nino (La Nina) over the Pacific enhances (suppresses) monsoon activity over the Korea-Japan Sector. Alternatively, IODM appears to have no significant impact on monsoon variability over China. However, El Nino (La Nina) suppresses (enhances) monsoon activity over China. While the IODM appears to influence the North Pacific subtropical high, ENSO appears to influence the Aleutian low over the northwest Pacific. Thus, the moisture supply towards East Asia from the Pacific is determined by the strengthening/weakening of the subtropical high and the Aleutian low.
Examining the meaning and methodological characteristics of the systematized review label: A scoping review protocol

Introduction A large portion of published evidence syntheses (ES) do not conform to established standards. There is a growing number of reviews labeled as a “systematized review”, but authors do not always identify specific methodological adaptations or specify the biases these may introduce. Objective The objective of this scoping review is to identify which methodological attributes common to evidence syntheses (ES) are implemented or referenced in published systematized reviews. It also aims to 1) identify and collate, where available, the reasons authors characterize their study as a systematized review 2) determine whether any justifications provided were based on resource constraints or research goals, and 3) describe common characteristics of systematized reviews. Inclusion criteria All articles that are titled as a systematized review, attempt a collocation and synthesis of existing literature, and include some methodology for their review process, will be included. Materials and methods A title search will be conducted for the terms “systematized” or “systematised” in proximity to the term “review” in a selection of scholarly sources that offer broad coverage of literature in many disciplines: Google Scholar, Lens, Web of Science Core Collection (Web of Science platform), Scopus (Elsevier platform), MEDLINE (Ovid platform). Screening and data extraction will be done in duplicate. Screening will be conducted in Covidence. Data extraction will be done in Google sheets. Data extraction elements will include common methodological characteristics relating to various steps of the evidence synthesis process. Descriptive, aggregate statistics, and categorization of reasons for selecting the systematized review type are the primary planned analysis for this review. Data availability This is a registered report protocol. The data collected in this research project will be made available in the Borealis repository (https://borealisdata.ca/) upon finalization of the study.
Quantifying the escalating impact of paramedic transported emergency department visits for opioid-related conditions in Ontario, Canada: A population-based cohort study

Introduction While overdoses comprise the majority of opioid research, the comprehensive impact of the opioid crisis on emergency departments (EDs) and paramedic services has not been reported. We examined temporal changes in population-adjusted incidence rates of ED visits and paramedic transports due to opioid-related conditions. Materials and methods We conducted a population-based cohort study of all ED visits in the National Ambulatory Care Reporting System from January 1, 2009 to December 31, 2019 in Ontario, Canada. We included all patients with a primary diagnosis naming opioids as the underlying cause for the visit, without any other drugs or substances. We clustered geographic regions using Local Health Integration Network boundaries. Descriptive statistics, incidence rate ratios (IRR) and 95% confidence intervals (CIs) were calculated to analyze population-adjusted temporal changes. Results Overall, 86,403 ED visits were included in our study. Incidence of opioid-related ED visits increased by 165% in the study timeframe, with paramedic transported patients increasing by 429%. Per 100,000 residents, annual ED visits increased from 40.4 to 97.2, and paramedic transported patients from 12.1 to 67.9. The proportion of opioid-related ED visits transported by paramedics increased from 35.0% to 69.9%. The medical acuity of opioid-related ED visits increased throughout the years (IRR 6.8. 95% CI 5.9–7.7), though the proportion of discharges remained constant (~75%). The largest increases in ED visits and paramedic transports were concentrated to urbanized regions. Discussion Opioid-related ED visits and paramedic transports increased substantially between 2009 and 2019. The proportion of ED visits transported by paramedics doubled. Our findings could provide valuable support to health stakeholders in implementing timely strategies aimed at safely reducing opioid-related ED visits. The increased use of paramedics followed by high rates of ED discharge calls for exploration of alternative care models within paramedic systems, such as direct transport to specialized substance abuse centres.
Trip generation model development for Albany

This paper discusses two trip generation models: a trip production model and a trip attraction model. The trip production model estimates the number of home based trips to and from zones where trip makers reside. The trip attraction model estimates the number of home based trips to and from each zone at the non-home end of the trip as well as the number of nonhome based trips. In this study, these two models are based on the trip rates for individual sample households having the particular characteristics. Households and trips information were retrieved from the Australian Bureau of Statistics Census 2006, the Perth Strategic Transport Evaluation Model (presently calibrated to 2001) and the Perth and Regions Travel Surveys 2001 - 2005, since there were no suitable and available model output and survey data source in Albany. Multiple linear regressions are applied in analysing influential variables in these two models.
Structure characteristics of mutation sites in two waxy alleles from Yunnan waxy maize (Zea mays L. var. certaina Kulesh) landraces

A large number of waxy maize landraces are distributed in Yunnan and surrounding areas, and abundant waxy alleles of different types are distributed in these landraces. The identification of waxy alleles is helpful to the protection and utilization of these waxy landraces. This study introduced structure characteristics of waxy genes from two specific landraces of Yunnan, Zinuoyumi and Myanmar Four-Row Wax. Zinuoyumi has two waxy alleles wx-Cin4 and wx-Cin4-2; Myanmar Four-Row Wax has three waxy alleles wx-D10, wx-Reina and wx-D11. The wx-Cin4-2 and wx-D11 are two types of waxy alleles first reported in this study. The wx-Cin4-2 has two mutation sites, deletion of 30 bp in exon 10, insertion of a 1,267 bp non-long terminal repeat (non-LTR) retrotransposon Cin4 in intron 10, and 13 bp extra sequence were found at 5’ end of the Cin4; the mutation site of wx-D11 is a 1,082 bp deletion from exons 11 to 14 of the waxy gene and is replaced with a 72 bp filler sequence. This study enriched the type of waxy allele from Yunnan waxy maize landraces and further discussed the molecular basis for the formation of mutation sites of wx-Cin4-2 and wx-D11.
Increasing phosphorus rate alters microbial dynamics and soil available P in a Lixisol of Zimbabwe

Soil phosphorus (P) deficiency is a major challenge to food security in most parts of sub-Saharan Africa, including Zimbabwe, where farmers largely depend on local organic nutrient resources as fertilizer in the production of crops. Soil microorganisms can contribute to synchronous availability of soil P to plants through regulating immobilization and mineralization cycles of soil P pools but their activity may be influenced by antecedent soil P, P fertilizer application regimes and P uptake by plants. Using soils collected from plots where Crotalaria juncea (high quality), Calliandra calothyrsus (medium quality), cattle manure (variable quality), maize stover and Pinus patula sawdust (both low quality) were applied at the rate of 4 t C ha-1 with 16 kg P ha-1 at the start of every season over 16 seasons. A pot study was conducted to evaluate the influence of increasing inorganic P fertilizer rates (26 and 36 kg P ha-1) on soil microbial dynamics, soil P pools, and maize P uptake. Results indicated that nineteen (19) fungal and forty-two (42) bacterial colonies were identified over the study period. Fungi dominated bacteria on day one, with Aspergillus niger showing a 30–98% abundance that depends on organic resource quality. Overall, microbial diversity peaked activity characterized succession on day 29, which coincided with a significant (P<0.05) increase in P availability. Increasing P rate to 26 kg P ha-1 amplified the microbial diverse peak activity under medium-high quality resources while under the control the peak emerged earlier on day 15. Mucor and Bacillus had peak abundances on day 43 and 57, respectively, across treatments regardless of P rates. Treatment and P rate had a significant (P<0.01) effect on microbial P. Bacteria were more responsive to added P than fungi. Increasing P to 36 kg P ha-1 also stimulated an earlier microbial diverse peak activity under maize stover on day 15. Addition of P alone, without supplying complementary nutrients such as N, did not have a positive effect on maize P uptake. Farmers need to co-apply medium-high quality organic resources with high fertilizer P rates to increase microbial diversity, plant available P and maize growth on sandy soils (Lixisols). Our results suggest that there is a need to reconsider existing P fertilizer recommendations, currently pegged at between 26 and 30 kg P ha-1, for maize production on sandy soils as well as develop new fertilizer formulations to intensify crop production in Zimbabwe.
Systematic review of hearing loss in dental professionals

Abstract Background Hearing loss leads to increased irritability and disengagement in social activities and conversations, which may impact quality of life. Dental professionals are at risk of developing hearing loss through daily exposure to noise from a wide range of equipment that produces significantly high decibels and noise frequencies. Aims The aim of this systematic review was to investigate the risk of hearing loss in dental professionals, including dentists, dental specialists, dental hygienists and dental assistants. Methods This review was conducted following the Cochrane Handbook for Systematic Reviews. PubMed, Scopus, Embase, Cochrane, Science Direct, Google Scholar and ProQuest were searched up to March 2023. Seventeen of 416 studies met the inclusion criteria. Quality assessment was performed according to the Newcastle–Ottawa Scale for cohort and case–control studies, and a modified version of this tool for cross-sectional studies. Results The majority of included studies (82%) found a positive association with hearing loss for dentists and dental specialists, with years of clinical experience identified as a prominent risk factor. Dental hygienists and dental assistants were less commonly reported in the literature. Difference between the left and right ears was found in 71% of studies, with the left ear more affected in both dentists and dental assistants due to proximity to the noise-inducing equipment. Conclusions Dental professionals are at risk of hearing loss in their workplace, especially linked to years of clinical experience, which highlights the need for prevention and appropriate ear-protective devices.
Macroscopic modeling of the growth and substrate consumption of wild type and genetically modified Pichia pastoris

Pichia pastoris is a popular yeast platform to generate several industrially relevant products which have applications in a wide range of sectors. The complexities in the processes due to the addition of a foreign gene are not widely explored. Since these complexities can be dependent on the strain characteristics, promoter, and type of protein produced, it is vital to investigate the growth and substrate consumption patterns of the host to facilitate customized process optimization. In this study, the growth rates of P. pastoris GS115 wild type (WT) and genetically modified (GM) strains grown on glycerol and methanol in batch cultivation mode were estimated and the model providing the best representation of the true growth kinetics based on substrate consumption was identified. It was observed that the growth of P. pastoris exhibits Haldane kinetics on glycerol rather than the most commonly used Monod kinetics due to the inability of the latter to describe growth inhibition at high concentrations of glycerol. Whereas, the cardinal parameter model, a newly proposed model for this application, was found to be the best fitting to describe the growth of P. pastoris on methanol due to its ability to describe methanol toxicity. Interestingly, the findings from this study concluded that in both substrates, the genetically engineered strain exhibited a higher growth rate compared to the WT strain. Such an observation has not been established yet in other published works, indicating an opportunity to further optimize the carbon source feeding strategies when the host is grown in fed‐batch mode.
Optimizing the internal phase reference to shape the output of a multimode optical fiber

Pre-shaping light to achieve desired amplitude distributions at the tip of a multimode fiber (MMF) has emerged as a powerful method allowing a wide range of imaging techniques to be implemented at the distal facet. Such techniques rely on measuring the transmission matrix of the optically turbid waveguide which scrambles the coherent input light into an effectively random speckle pattern. Typically, this is done by measuring the interferogram between the output speckle and a reference beam. In recent years, an optical setup where the reference beam passes through the MMF has become an attractive configuration because of the high interferometric stability of the common optical path. However, the merits and drawbacks of an internal reference beam remain controversial. The measurement of the transmission matrix is known to depend on the choice of internal reference and has been reported to result in “blind spots” due to phase singularities of the reference beam. Here, we describe how the focussing efficiency of the calibration can be increased by several percent by optimising the choice of internal reference beam.
Effect of coarse woody debris manipulation on soricid and herpetofaunal communities in upland pine stands of the southeastern coastal plain.

The majority of studies investigating the importance of coarse woody debris (CWD) to forest- floor vertebrates have taken place in the Pacific Northwest and southern Appalachian Mountains, while comparative studies in the southeastern Coastal Plain are lacking. My study was a continuation of a long-term project investigating the importance of CWD as a habitat component for shrew and herpetofaunal communities within managed pine stands in the southeastern Coastal Plain. Results suggest that addition of CWD can increase abundance of southeastern and southern short-tailed shrews. However, downed wood does not appear to be a critical habitat component for amphibians and reptiles. Rising petroleum costs and advances in wood utilization technology have resulted in an emerging biofuels market with potential to decrease CWD volumes left in forests following timber harvests. Therefore, forest managers must understand the value of CWD as an ecosystem component to maintain economically productive forests while conserving biological diversity.
Loss of Panx1 function in zebrafish alters motor behavior in a lab‐on‐chip model of Parkinson's disease

Pannexin 1 (Panx1) forms ATP‐permeable membrane channels that play roles in purinergic signaling in the nervous system. A link between Panx1 activity and neurodegenerative disorders including Parkinson's disease (PD) has been suggested, but experimental evidence is limited. Here, a zebrafish model of PD was produced by exposing panx1a+/+ and panx1a−/− zebrafish larvae to 6‐hydroxydopamine (6‐OHDA). Electrical stimulation in a microfluidic chip and quantitative real‐time‐qPCR of zebrafish larvae tested the role of Panx1 in both pathological and normal conditions. After 72‐h treatment with 6‐OHDA, the electric‐induced locomotor activity of 5 days post fertilization (5dpf) panx1a+/+ larvae were reduced, while the stimulus did not affect locomotor activity of age‐matched panx1a−/− larvae. A RT‐qPCR analysis showed an increase in the expression of genes that are functionally related to dopaminergic signaling, like the tyrosine hydroxylase (th2) and the leucine‐rich repeat kinase 2 (lrrk2). Extending the 6‐OHDA treatment duration to 120 h caused a significant reduction in the locomotor response of 7dpf panx1a−/− larvae compared to the untreated panx1a−/− group. The RT‐qPCR data showed a reduced expression of dopaminergic signaling genes in both genotypes. It was concluded that the absence of Panx1a channels compromised dopaminergic signaling in 6‐OHDA‐treated zebrafish larvae and that the increase in the expression of dopaminergic genes was transient, most likely due to a compensatory upregulation. We propose that zebrafish Panx1a models offer opportunities to shed light on PD's physiological and molecular basis. Panx1a might play a role on the progression of PD, and therefore deserves further investigation.