Miracle-dz/UniFAR-FTUs huggingface dataset:
Mapping the Potential Distribution of Ticks in the Western Kanto Region, Japan: Predictions Based on Land-Use, Climate, and Wildlife

Simple Summary Recently, the risk of tick-borne diseases (TBD) has drawn increasing attention from a public health perspective. Information about where ticks are distributed is important for the prevention of TBDs. In this study, we used the MaxEnt model to predict the potential distribution of six major tick species out of 16 tick species collected in the Kanto region, the central part of Japan, based on land-use, climate, and wildlife distribution, and to investigate the factors that contribute to each distribution of ticks. The distribution of raccoons contributed to the distribution of five tick species, and forest connectivity was a strong contributor to the distribution of all species. Abstract Background: Tick distributions have changed rapidly with changes in human activity, land-use patterns, climate, and wildlife distributions over the last few decades. Methods: To estimate potential distributions of ticks, we conducted a tick survey at 134 locations in western Kanto, Japan. We estimated the potential distributions of six tick species (Amblyomma testudinarium Koch, 1844; Haemaphysalis flava Neumann, 1897; Haemaphysalis kitaokai Hoogstraal, 1969; Haemaphysalis longicornis Neumann, 1901; Haemaphysalis megaspinosa Saito, 1969; and Ixodes ovatus Neumann, 1899) using MaxEnt modeling based on climate patterns, land-use patterns, and the distributions of five common wildlife species: sika deer (Cervus nippon Temminck, 1838), wild boar (Sus scrofa Linnaeus, 1758), raccoon (Procyon lotor Linnaeus, 1758), Japanese raccoon dog (Nyctereutes procyonoides Gray, 1834), and masked palm civet (Paguma larvata C.E.H. Smith, 1827)). Results: We collected 24,546 individuals of four genera and 16 tick species. Our models indicated that forest connectivity contributed to the distributions of six tick species and that raccoon distribution contributed to five tick species. Other than that, sika deer distribution contributed to H. kitaokai, and wild boar distribution, bamboo forest, and warm winter climate contributed specifically to A. testudinarium. Conclusions: Based on these results, the dispersal of some tick species toward residential areas and expanded distributions can be explained by the distribution of raccoons and by forest connectivity.
Electronic Textiles for Autonomous Location Awareness

The mature textile industry coupled with our familiarity and comfort level with fabrics and the possibility of seamless integration of electronic components such as sensors, processors, and power sources in the fabric opens up a new dimension of computing. The electronic textile presents a suitable substrate over which numerous applications can be developed. Location awareness is one such application that can reap the benefits of e-textiles such that it can be widely deployed at a reasonable cost for assisting visually impaired people or to provide nav-igational help during emergency situations. This thesis describes an autonomous, wearable location awareness system that will determine a user's location within a building given a map of that building. The thesis examines the issues, constraints, and challenges concerning the design of such a system. The two-part location awareness algorithm computes the location and orientation within a room as well as determines the user's movement between rooms. The efficacy of the proposed system is demonstrated with a wearable prototype. Acknowledgements My most sincere thanks goes to Dr. Mark Jones, my advisor, for his support and confidence in me. His encouraging words and guidance made this research work possible. His advice on academics and career has been indispensable. I regard him as the most intelligent man I have ever met. My extreme thanks also goes to Dr. Tom Martin for his patience bearing with my non-electrical background. I credit all my electrical engineering knowledge to him. His enthusiasm , guidance and suggestions helped me meander through my research work. I would also like to thank Dr. Peter Athanas for his willingness to serve on my thesis committee. expression: " Oh My God! You are from C.S. " They all have motivated and helped me throughout my research. I would like to thank David Lehn for extending a helping hand in need and helping me explore the Linux world. iv I would also like to thank my friends at VT: who made my stay here comfortable and enjoyable. Finally, I would like to thank my parents, brother and sister-in-law for their persistent support, faith and endless love. They have always been there whenever I needed them. I would not have been successful without their wishes and blessings.
Axillary Recurrence in Breast Cancer Patients After Negative Sentinel Lymph Node Biopsy: Retrospective Cohort Study From Riyadh, Saudi Arabia

Breast cancer (BC) is among the most prevalent cancers globally. For minimally invasive axillary staging in early breast cancer, sentinel lymph node biopsy (SLNB) is commonly regarded as the gold standard. Historically, axillary lymph node dissection (ALND) was used as a staging procedure, but the less morbid SLNB has now replaced it. This retrospective cohort study, undertaken with patients at King Saud University Medical City in Riyadh, Saudi Arabia, evaluates mid-term follow-up data on axillary recurrences and outcomes for breast cancer patients with negative SLNB. The results indicate that the five-year risk of developing regional recurrence following negative SLNB is 0% in breast cancer patients. The low relapse rate further contributes to the evidence base suggesting the efficacy of SLNB and the higher morbidity associated with ALND. Future researchers should conduct a nationwide and long-term follow-up study to offer additional insights into the efficacy of SLNB.
Resiliency, Stress, and Culture Shock: Findings from a Global Health Service Partnership Educator Cohort

Background: Global health field assignments for medical and nursing professionals include a wide variety of opportunities. Many placements often involve individuals practicing in settings very different from their home environments, relying on their professional experience to help bridge cultural and clinical divides. Objectives: There is limited information about the individual factors that might lead to successful longer-term global health experiences in non-disaster settings. In this paper, we report on one cohort of health professionals’ experiences of culture shock, stress, and resiliency as volunteers within the Global Health Service Partnership (GHSP), a public-private collaboration between Seed Global Health, the US Peace Corps, and the US Presidents Plan for Emergency Aids Relief (PEPFAR) that placed American medical and nursing educators in five African countries facing a shortage of health professionals. Methods: Using the tools of Project PRIME (Psychosocial Response to International Medical Electives) as a basis, we created the GHSP Educator Support Survey to measure resiliency, stress, and culture shock levels in a cohort of GHSP volunteers during their year of service. Findings: In our sample, participants were likely to experience lower levels of resiliency during initial quarters of global health placements compared to later timepoints. However, they were likely to experience similar stress and culture shock levels across quarters. Levels of preparedness and resources available, and medical needs in the community where the volunteer was placed played a role in the levels of resiliency, stress, and culture shock reported throughout the year. Conclusion: The GHSP Educator Support Survey represented a novel attempt to evaluate the longitudinal mental well-being of medical and nursing volunteers engaged in intense, long-term global health placements in high acuity, low resource clinical and teaching settings. Our findings highlight the need for additional research in this critical area of global health.
The Utilization of Phone Communication with Patient Companions During a Pandemic

Involvement of companions is a critical aspect of patient-centered care. This retrospective cross-sectional study examined patients who were asked, by utilizing electronic medical record (EMR) preset questions (SmartPhrase template), if they wanted another individual called during the assessment and plan portion of an ophthalmology visit. Of 518 patients, 14.5% wanted another individual called. New patients as well as those who needed procedural or surgical intervention were more likely to want a companion called. Adoption of a SmartPhrase template within clinical workflow may be a feasible and effective method to increase communication with companions of physically unaccompanied patients and promote patient-centered care.
Autism and the Right to a Hypersensitivity-Friendly Workspace

Abstract Many individuals on the autism spectrum are hypersensitive to certain sensory stimuli. For this group, as well as for non-autistic individuals with sensory processing disorders, being exposed to e.g. fluorescent lights, perfume odours, and various sounds and noises can be real torment. In this article, I consider the normative implications of such offence for the design of office spaces, which is a topic that has not received any attention from philosophers. After identifying different ways in which the senses of hypersensitive workers might be protected within these spaces, I show that many of such accommodations can be made at reasonable cost, before arguing that doing so ought to be a legal requirement.
Me-Doped Ti–Me Intermetallic Thin Films Used for Dry Biopotential Electrodes: A Comparative Case Study

In a new era for digital health, dry electrodes for biopotential measurement enable the monitoring of essential vital functions outside of specialized healthcare centers. In this paper, a new type of nanostructured titanium-based thin film is proposed, revealing improved biopotential sensing performance and overcoming several of the limitations of conventional gel-based electrodes such as reusability, durability, biocompatibility, and comfort. The thin films were deposited on stainless steel (SS) discs and polyurethane (PU) substrates to be used as dry electrodes, for non-invasive monitoring of body surface biopotentials. Four different Ti–Me (Me = Al, Cu, Ag, or Au) metallic binary systems were prepared by magnetron sputtering. The morphology of the resulting Ti–Me systems was found to be dependent on the chemical composition of the films, specifically on the type and amount of Me. The existence of crystalline intermetallic phases or glassy amorphous structures also revealed a strong influence on the morphological features developed by the different systems. The electrodes were tested in an in-vivo study on 20 volunteers during sports activity, allowing study of the application-specific characteristics of the dry electrodes, based on Ti–Me intermetallic thin films, and evaluation of the impact of the electrode–skin impedance on biopotential sensing. The electrode–skin impedance results support the reusability and the high degree of reliability of the Ti–Me dry electrodes. The Ti–Al films revealed the least performance as biopotential electrodes, while the Ti–Au system provided excellent results very close to the Ag/AgCl reference electrodes.
2.6.1 The Schedule as Independent Variable (SAIV) Process for Acquisition of Software‐Intensive Systems

Many system acquisitions do not achieve on‐time delivery because of delays in software development. This paper presents a highly successful approach for on‐time delivery of software‐intensive systems: the Schedule As Independent Variable (SAIV) process. The SAIV process involves prioritization of desired features; scoping a Core Capability of top‐priority features easily achievable within the available schedule; architecting for ease of dropping or adding borderline‐priority features; monitoring progress with respect to plans; and adding or dropping borderline‐priority features to meet the schedule target. The paper summarizes experiences and discusses critical success factors in applying the SAIV acquisition process across a range from small in‐house e‐services projects to very large Government systems of systems.
Identification of Novel Regulatory Regions Induced by Intrauterine Growth Restriction in Rat Islets.

Intrauterine growth restriction (IUGR) leads to development of type 2 diabetes in adulthood and the permanent alterations in gene expression implicate an epigenetic mechanism. Using a rat model of IUGR, we performed TrueSeq-HELP Tagging to assess the association of DNA methylation changes and gene dysregulation in islets. We identified 511 differentially methylated regions (DMRs) and 4377 significantly altered single CpG sites. Integrating the methylome and our published transcriptome datasets resulted in the identification of pathways critical for islet function. The identified DMRs were enriched with transcription factor binding motifs, such as Elk1, Etv1, Foxa1, Foxa2, Pax7, Stat3, Hnf1, and AR. In silico analysis of 3D chromosomal interactions using human pancreas and islet Hi-C datasets identified interactions between 14 highly conserved DMRs and 35 genes with significant expression changes at an early age, many of which persisted in adult islets. In adult islets, there were far more interactions between DMRs and genes with significant expression changes identified with Hi-C and most of them were critical to islet metabolism and insulin secretion. The methylome was integrated with our published genome-wide histone modification datasets from IUGR islets resulting in further characterization of important regulatory regions of the genome altered by IUGR containing both significant changes in DNA methylation and specific histone marks. In summary we identified novel regulatory regions in islets after exposure to IUGR suggesting that epigenetic changes at key transcription factor binding motifs and other gene regulatory regions may contribute to gene dysregulation and an abnormal islet phenotype in IUGR rats.
Proteomic profiling of carbonic anhydrase CA3 in skeletal muscle

ABSTRACT Introduction Carbonic anhydrase (CA) is a key enzyme that mediates the reversible hydration of carbon dioxide. Skeletal muscles contain high levels of the cytosolic isoform CA3. This enzyme has antioxidative function and plays a crucial role in the maintenance of intracellular pH homeostasis. Areas covered Since elevated levels of serum CA3, often in combination with other muscle-specific proteins, are routinely used as a marker of general muscle damage, it was of interest to examine recent analyses of this enzyme carried out by modern proteomics. This review summarizes the mass spectrometry-based identification and evaluation of CA3 in normal, adapting, dystrophic, and aging skeletal muscle tissues. Expert opinion The mass spectrometric characterization of CA3 confirmed this enzyme as a highly useful marker of both physiological and pathophysiological alterations in skeletal muscles. Cytosolic CA3 is clearly enriched in slow-twitching type I fibers, which makes it an ideal marker for studying fiber type shifting and muscle adaptations. Importantly, neuromuscular diseases feature distinct alterations in CA3 in skeletal muscle tissues versus biofluids, such as serum. Characteristic changes of CA3 in age-related muscle wasting and dystrophinopathy established this enzyme as a suitable biomarker candidate for differential diagnosis and monitoring of disease progression and therapeutic impact.
Sociability as a personality trait in animals: methods, causes and consequences

Within animal populations there is variation among individuals in their tendency to be social, where more sociable individuals associate more with other individuals. Consistent inter‐individual variation in ‘sociability’ is considered one of the major axes of personality variation in animals along with aggressiveness, activity, exploration and boldness. Not only is variation in sociability important in terms of animal personalities, but it holds particular significance for, and can be informed by, two other topics of major interest: social networks and collective behaviour. Further, knowledge of what generates inter‐individual variation in social behaviour also holds applied implications, such as understanding disorders of social behaviour in humans. In turn, research using non‐human animals in the genetics, neuroscience and physiology of these disorders can inform our understanding of sociability. For the first time, this review brings together insights across these areas of research, across animal taxa from primates to invertebrates, and across studies from both the laboratory and field. We show there are mixed results in whether and how sociability correlates with other major behavioural traits. Whether and in what direction these correlations are observed may differ with individual traits such as sex and body condition, as well as ecological conditions. A large body of evidence provides the proximate mechanisms for why individuals vary in their social tendency. Evidence exists for the importance of genes and their expression, chemical messengers, social interactions and the environment in determining an individual's social tendency, although the specifics vary with species and other variables such as age, and interactions amongst these proximate factors. Less well understood is how evolution can maintain consistent variation in social tendencies within populations. Shifts in the benefits and costs of social tendencies over time, as well as the social niche hypothesis, are currently the best supported theories for how variation in sociability can evolve and be maintained in populations. Increased exposure to infectious diseases is the best documented cost of a greater social tendency, and benefits include greater access to socially transmitted information. We also highlight that direct evidence for more sociable individuals being safer from predators is lacking. Variation in sociability is likely to have broad ecological consequences, but beyond its importance in the spread of infectious diseases, direct evidence is limited to a few examples related to dispersal and invasive species biology. Overall, our knowledge of inter‐individual variation in sociability is highly skewed towards the proximate mechanisms. Our review also demonstrates, however, that considering research from social networks and collective behaviour greatly enriches our understanding of sociability, highlighting the need for greater integration of these approaches into future animal personality research to address the imbalance in our understanding of sociability as a personality trait.
Oral streptococci expressing pneumococci-like cross-reactive capsule types can affect WHO recommended pneumococcal carriage procedure.

BACKGROUND Carriage studies are fundamental to assess the effects of pneumococcal vaccines. Since a large proportion of oral streptococci carry homologs of pneumococcal genes, nonculture-based detection and serotyping of upper respiratory tract (URT) samples can be problematic. Herein, we investigated if culture-free molecular methods could differentiate pneumococci from oral streptococci carried by adults in URT. METHODS Paired nasopharyngeal (NP) and oropharyngeal (OP) samples were collected from 100 older adults twice a month for one year. Extracts from the combined NP+OP samples (n=2400) were subjected to lytA real-time PCR. Positive samples were subjected to pure culture isolation followed by species confirmation using multiple approaches. Multibead assay and whole-genome sequencing were used for serotyping. RESULTS lytA-PCR was positive in 301 combined NP+OP extracts, 20 of which grew probable pneumococcal-like colonies based on colony morphology and biochemical tests. Multiple approaches confirmed that four isolates were S. pneumoniae, three were S. psuedopneumoniae, and thirteen were S. mitis. Eight nonpneumococcal strains carried pneumococcus-like cps loci (size: ~18 to 25 kb) that showed >70% of nucleotide identity with their pneumococcal counterparts. While investigating the antigenic profile, we found some S. mitis strains (P066 and P107) reacted with both serotype-specific polyclonal (Type 39 and FS17b) and monoclonal (Hyp10AG1 and Hyp17FM1) antisera, whereas some strains (P063 and P074) reacted only with polyclonal antisera (Type 5 and FS35a). CONCLUSION The extensive capsular overlap suggests that pneumococcal vaccines could reduce carriage of oral streptococci expressing cross-reactive capsules. Further, direct use of culture-free PCR-based methods in URT samples has limited usefulness for carriage studies.
Joint Inference of Migration and Reassortment Patterns for Viruses with Segmented Genomes

Abstract The structured coalescent allows inferring migration patterns between viral subpopulations from genetic sequence data. However, these analyses typically assume that no genetic recombination process impacted the sequence evolution of pathogens. For segmented viruses, such as influenza, that can undergo reassortment this assumption is broken. Reassortment reshuffles the segments of different parent lineages upon a coinfection event, which means that the shared history of viruses has to be represented by a network instead of a tree. Therefore, full genome analyses of such viruses are complex or even impossible. Although this problem has been addressed for unstructured populations, it is still impossible to account for population structure, such as induced by different host populations, whereas also accounting for reassortment. We address this by extending the structured coalescent to account for reassortment and present a framework for investigating possible ties between reassortment and migration (host jump) events. This method can accurately estimate subpopulation dependent effective populations sizes, reassortment, and migration rates from simulated data. Additionally, we apply the new model to avian influenza A/H5N1 sequences, sampled from two avian host types, Anseriformes and Galliformes. We contrast our results with a structured coalescent without reassortment inference, which assumes independently evolving segments. This reveals that taking into account segment reassortment and using sequencing data from several viral segments for joint phylodynamic inference leads to different estimates for effective population sizes, migration, and clock rates. This new model is implemented as the Structured Coalescent with Reassortment package for BEAST 2.5 and is available at https://github.com/jugne/SCORE.