Miracle-dz/UniFAR-FTUs huggingface dataset:
Text mining in long-term care: Exploring the usefulness of artificial intelligence in a nursing home setting

Objectives In nursing homes, narrative data are collected to evaluate quality of care as perceived by residents or their family members. This results in a large amount of textual data. However, as the volume of data increases, it becomes beyond the capability of humans to analyze it. This study aims to explore the usefulness of text mining approaches regarding narrative data gathered in a nursing home setting. Design Exploratory study showing a variety of text mining approaches. Setting and participants Data has been collected as part of the project ‘Connecting Conversations’: assessing experienced quality of care by conducting individual interviews with residents of nursing homes (n = 39), family members (n = 37) and care professionals (n = 49). Methods Several pre-processing steps were applied. A variety of text mining analyses were conducted: individual word frequencies, bigram frequencies, a correlation analysis and a sentiment analysis. A survey was conducted to establish a sentiment analysis model tailored to text collected in long-term care for older adults. Results Residents, family members and care professionals uttered respectively 285, 362 and 549 words per interview. Word frequency analysis showed that words that occurred most frequently in the interviews are often positive. Despite some differences in word usage, correlation analysis displayed that similar words are used by all three groups to describe quality of care. Most interviews displayed a neutral sentiment. Care professionals expressed a more diverse sentiment compared to residents and family members. A topic clustering analysis showed a total of 12 topics including ‘relations’ and ‘care environment’. Conclusions and implications This study demonstrates the usefulness of text mining to extend our knowledge regarding quality of care in a nursing home setting. With the rise of textual (narrative) data, text mining can lead to valuable new insights for long-term care for older adults.
The association between fecal microbiota, age and endoparasitism in adult alpacas

Endoparasitism is a major cause of morbidity and mortality in alpacas (Lama pacos), with growing emergence of anthelmintic resistance. The purpose of the study was to correlate nematode worm burden and selected host phenotypic characteristics, such as age and weight, with the composition of the intestinal microbiota of adult alpacas. Fecal samples were collected per rectum from 102 healthy adult (2.1–11.2 years) alpacas at 3 separate timepoints (pre- and post-treatment with 8.8 mg/kg oral Levamisole HCL, and 4.6 months later) at a single farm. The profile of the fecal bacterial microbiota was characterized using 16S amplicon sequencing. Serial clinical exams and fecal egg counts were compared using related-samples analyses. The fecal microbiota of identically managed, healthy alpacas was characterized by a high level of temporal stability, as both α and β-diversity significantly correlated between sampling timepoints. Pairwise β-diversity between samples collected at each timepoint was low, ranging from 0.16–0.21 UniFrac distance units. The intensity of strongylid nematode infection (including Haemonchus, Ostertagia, Trichostrongylus) was only significantly correlated with microbiota composition in samples collected 14 days after treatment with levamisole. Analysis of similarity revealed no clustering of microbiota from anthelmintic responders or non-responders. Alpaca age explained the largest proportion of fecal microbiota variation and was the only consistently significant predictor of fecal microbiota taxonomic composition, by impacting the ratio of relative Bacteroidetes and Firmicutes abundance. Firmicutes, mostly Clostridiales, was the most abundant taxon across all collections.
“Hidden gains”? Measuring the impact of mindfulness-based interventions for people with mild traumatic brain injury: a scoping review

ABSTRACT Background Mindfulness-based interventions can support recovery from mild traumatic brain injury (mTBI). Although measurement is a key determinant of outcomes, there is no comprehensive assessment of measurement approaches used to capture outcomes of these programs. Here, we review the domains targeted, measurement techniques used, and domains and techniques most affected by mindfulness-based interventions for mTBI. Methods We conducted a scoping review. After screening and full-text review, we included 29 articles and extracted data related to measurement domains, techniques, and results. Results We identified 8 outcome domains, each with multiple subdomains. The most common domains were cognitive symptoms and general health/quality of life. No quantitative studies directly assessed sleep, physical-function, or pain-catastrophizing. Self-report was the most common measurement technique, followed by performance-based methods. Coping, somatic symptoms, emotional symptoms, stress response, and domains of cognition (particularly attention) were the most frequently improved domains. Qualitative results described benefits across all domains and suggested novel areas of benefit. Biomarkers did not reflect significant change. Conclusions Mindfulness-based interventions for mTBI impact a range of clinical domains and are best captured with a combination of measurement approaches. Using qualitative methods and expanding the breadth of outcomes may help capture underexplored effects of mindfulness-based interventions for mTBI.
A review of noma cases in a tertiary hospital located in a conflict endemic region in Nigeria

ABSTRACT Noma, a neglected tropical disease (NTD), is a preventable oro-facial gangrenous infection causing destruction of oro-facial tissues if untreated. This descriptive study was conducted in North-Eastern Nigeria which has witnessed armed insurgency increasing risk of noma. Data was obtained from patients’ records at a tertiary hospital after a dental educational outreach using radio and visits to the hospital's ante/postnatal clinics. Data analysis was conducted at 95% confidence interval with p≤ 0.05 considered significant. Records of 49 patients were retrieved but 31 (63.3%) were utilised due to poor documentation. Age ranged from 2–63 years. Children (0–16 years) and Adults (17–59 years) were 67.7% and 25.8% respectively. Males were 13 (41.9%) and females, 18 (58.1%). Poor oral hygiene and malnutrition were common findings. Stage (WHO Staging System) 2 (51.6%) and 4 (22.6%) were the most common presentation. Successfully managed and referred cases were 51.6% and 48.4% respectively. Successful management was associated with early stages of noma (p = <0.001). Children were most vulnerable. Outreaches using radio and education to pregnant women and nursing mothers can boost early presentation and better outcomes. Attention to case documentation and inclusion of noma into the WHO list of NTDs are recommended.
Does pulmonary rehabilitation address treatable traits? A systematic review

Background There is growing interest in a “treatable traits” approach to pulmonary rehabilitation in chronic airways disease. The frequency with which pulmonary rehabilitation programmes address treatable traits is unknown. Methods Randomised controlled trials of pulmonary rehabilitation compared to usual care in patients with stable chronic airways disease were included. The components of pulmonary rehabilitation delivered were extracted and mapped to treatable traits in pulmonary, extrapulmonary and behavioural/lifestyle domains. Meta-analysis was used to evaluate the impact of addressing >1 treatable trait on exercise capacity and health-related quality of life (HRQoL). Results 116 trials were included (6893 participants). Almost all pulmonary rehabilitation programmes addressed deconditioning (97% of trials). The most commonly addressed extrapulmonary traits were nutritional status (obesity and cachexia, 18% each) and mood disturbance (anxiety and depression, 10% each). Behavioural/lifestyle traits most frequently addressed were nonadherence (46%), poor inhalation technique (24%) and poor family/social support (19%). Exercise capacity and HRQoL outcomes did not differ between studies that addressed deconditioning alone and those that targeted additional traits, but heterogeneity was high. Conclusion Aside from deconditioning, treatable traits are infrequently addressed in existing trials of pulmonary rehabilitation. The potential of the treatable traits approach to improve pulmonary rehabilitation outcomes remains to be explored. Deconditioning is commonly targeted in pulmonary rehabilitation, but other treatable traits are infrequently addressed. The potential of the treatable traits approach to improve pulmonary rehabilitation outcomes remains to be explored. https://bit.ly/3xVYeGe
ASSESSMENT OF SERUM IRISIN IN OVERWEIGHT AND OBESE PATIENT WITH POLYCYSTIC OVARY SYNDROME

Background and Objective: Polycystic ovary syndrome (PCOS) is the most common endocrine disorder affecting 10–15 % of women in reproductive age. The objective was to evaluate the effect of irisin in the etiology of obese patient with PCOS. Study Design and Methods: The study design its a case control study. This study involved fifty obese ladies (50) with confirmed diagnosis of PCOS. The second group served as control group and included forty apparently normal (non-polycystic ovary) obese ladies (40). The following main parameters were measured: Fasting serum levels of total Cholesterol, triglyceride, high density lipoprotein-cholesterol, low density lipoprotein– cholesterol, glycohaemoglobin (HbA1c%), Insulin , Testosterone, FSH, serum LH and Irisin. Results: The median serum Irisin was significantly higher among PCOS cases (119.1 ng/ml) compared to healthy controls (74.7 ng/ml). The median serum FSH was significantly higher among PCOS cases (6.52 ng/ml ) compared to controls (4.72 ng/ml). Serum LH was obviously higher among PCOS cases (6.88 ng/ml) compared to controls (6.08 ng/ml). The mean pulse rate, blood WBC count and serum VLDL were significantly higher (71.6/min, 8.3 mg/dl and 22.5 mg/dl respectively) in cases with PCOS compared to controls (67.5/min, 7.2 mg/dl and 18.5 mg/dl respectively). Conversely, the serum HDL was significantly lower among PCOS cases (43.8 mg/dl) compared to controls (48.4 mg/dl), serum testosterone showed statistically non-significant differences. Conclusion: Data of the present study showed that serum Irisin was significantly higher among PCOS cases. These findings suggest important role of irisin as a biomarker for PCOS and an important factor in the development of PCOS.
Mechanical Complications of Sophysa SM8 Shunt in Adult Hydrocephalus: A Monocentric Experience

BACKGROUND: Sophysa SM8 is widely used by neurosurgeons in France. Published studies report shunt malfunction rates in adults between 18% and 29%. However, these studies included multiple valve types and thus entailed a serious confounding factor. OBJECTIVE: To ascertain the incidence the Sophysa SM8 cerebrospinal fluid (CSF) shunt malfunctions in adults. METHODS: We present a retrospective series of adult patients who underwent CSF shunt placement between 2000 and 2013 with Sophysa SM8. RESULTS: In total, 599 patients (329 males and 270 females) were included. The mean age at surgery was 64.15 years (19-90) (SD 16.17; median 68.0). The causes of hydrocephalus were normal pressure hydrocephalus (49%), traumatic hemorrhages (26.5%), tumors (15.7%), cerebral aqueduct stenoses (3%), and arachnoid cysts (2%). The mean follow-up was 3.9 years (0-16) (SD 4.10; median 3 years). The rate of complications was 22.04% (132 of 599). Most frequent causes of complications were disconnection (25%), migration (12.9%), overdrainage (9.1%), and proximal obstruction (6.8%). In 17 cases (12.9%), no failure was diagnosed during revision. Seven infections (5.3%) were reported. The mean delay for the first revision was 1.70 years (0-13.93) (SD 2.67, median 0.35). The risk of shunt failure was 36% at 10 years. Seventeen percent of revisions occurred during the first year after shunt placement. CONCLUSION: Disconnections are a very frequent complication of Sophysa SM8 valve. They are related to the 2-connector system of this valve. Based on these results, we recommend using 1-piece valves.
Using Physiological Laboratory Tests and Neuromuscular Functions to Predict Extreme Ultratriathlon Performance

ABSTRACT Purpose: This study aims to investigate the relationship between split disciplines and overall extreme ultra-triathlon (EUT) performance and verify the relationship among physiological and neuromuscular measurements with both fractional and total EUT performance while checking which variables could predict partial and overall EUT race time. Methods: Eleven volunteers (37 ± 6 years; 176.9 ± 6.1 cm; 77.9 ± 10.9 kg) performed two maximal graded tests (cycling and running) for physiological measurements and muscle strength/power tests to assess neuromuscular functions. Results: The correlation of swimming split times to predict overall EUT race times was lower than for cycling and running split times (r 2 = 0.005; p > .05; r 2 = 0.949; p < .001 and r 2 = 0.925; p < .001, respectively). VO2peak obtained during running test (VO2peakrun) and VT power output assessed during cycling test (VTPO) were the highest predictors of cycling performance (r 2 = 0.92; p = .017), whereas VO2peakrun and peakpower output in the cycling test (PPO) were the highest predictors of running performance (r 2 = 0.94; p = .008). Conclusion: VO2peakrun and VTPO, associated to jump height assessed during countermovement jump (CMJ) test were the highest correlated variables to predict total EUT performance (r 2 = 0.99; p = .007). In practical terms, coaches should include the assessment of VO2peakrun, VTPO, and CMJ to evaluate the athletes’ status and monitor their performance throughout the season. Future studies should test how the improvement of these variables would affect EUT performance during official races.
An integrative bioinformatics pipeline shows that honeybee‐associated microbiomes are driven primarily by pollen composition

The microbiomes associated with bee nests influence colony health through various mechanisms, although it is not yet clear how honeybee congeners differ in microbiome assembly processes, in particular the degrees to which floral visitations and the environment contribute to different aspects of diversity. We used DNA metabarcoding to sequence bacterial 16S rRNA from honey and stored pollen from nests of 4 honeybee species (Apis cerana, A. dorsata, A. florea, and A. laboriosa) sampled throughout Yunnan, China, a global biodiversity hotspot. We developed a computational pipeline integrating multiple databases for quantifying key facets of diversity, including compositional, taxonomic, phylogenetic, and functional ones. Further, we assessed candidate drivers of observed microbiome dissimilarity, particularly differences in floral visitations, habitat disturbance, and other key environmental variables. Analyses revealed that microbiome alpha diversity was broadly equivalent across the study sites and between bee species, apart from functional diversity which was very low in nests of the reclusive A. laboriosa. Turnover in microbiome composition across Yunnan was driven predominantly by pollen composition. Human disturbance negatively impacted both compositional and phylogenetic alpha diversity of nest microbiomes, but did not correlate with microbial turnover. We herein make progress in understanding microbiome diversity associated with key pollinators in a biodiversity hotspot, and provide a model for the use of a comprehensive informatics framework in assessing pattern and drivers of diversity, which enables the inclusion of explanatory variables both subtly and fundamentally different and enables elucidation of emergent or unexpected drivers.
Surgical Planning and Simulation of Endonasal Endoscopic Surgery for Pituitary Adenoma With Cavernous Sinus Invasion

BACKGROUND: Transsphenoidal endoscopic endonasal surgery (EES) provides effective treatment for patients with lesions of the sella turcica. The endoscopic technique requires different instrumentation, which depends on the gross anatomy of the nasal cavity. The treatment of lateral lesions is more challenging in EES. OBJECTIVE: To evaluate the effect of preoperative simulation using multiple anatomic landmarks. METHODS: Pre- and postoperative tumor volumes were analyzed in 33 patients with nonfunctioning pituitary adenomas who underwent EES (Knosp grades 3 and 4). The surgical working angle and space were three-dimensionally simulated at the plane of the anterior/posterior surgical field (tuberculum sellae/posterior clinoid process) using multiple anatomic landmarks of high-resolution computed tomography scans, such as nasal piriform aperture (proximal surgical corridor), and the width of bilateral vidian canals or lamina perpendicularis of palatine bone (distal surgical corridor). Receiver operating characteristic curves for the removed tumor volume were used to determine the cutoff value for the simulated working angle and space. RESULTS: Simulated working space at the plane of tuberculum sellae using piriform aperture and lamina perpendicularis of palatine bone was associated with the removed tumor volume in the cavernous sinus. Patients with a larger working space (≥42.7 mm) significantly showed a higher removed tumor volume (P = .023). There was no relationship between other parameters and the removed tumor volume. CONCLUSION: A new method to predict the surgical field for cavernous sinus lesions around sella turcica was successfully established. Further studies are needed to define and expand applications of this simulation method.
Adaptive Discontinuous Galerkin Finite Element Methods for a Diffuse Interface Model of Biological Growth

This PhD dissertation concentrates on the development and application of adaptive Discontinuous Galerkin Finite Element (DG-FE) methods for the numerical solution of a Cahn-Hilliard-type diffuse interface model for biological growth. Models of this type have become popular for studying cancerous tumor progression in vivo. The work in this dissertation advances the state-of-the-art in the following ways: To our knowledge the work here contains the first primitive-variable, completely discontinuous numerical implementations of a 2D scheme for the Cahn-Hilliard equation as well as a diffuse interface model of cancer growth. We provide numerical evidence that the schemes above are convergent, with the optimal order. The efficiency of the numerical algorithms depends largely on the implementation of fast solvers for the systems of equations resulting from the DG-FE discretizations. We have developed such capabilities based on multigrid and sparse direct solver techniques. We demonstrate proof-of-concept regarding the implementation of a practical spatially adaptive meshing algorithm for the numerical schemes just mentioned and the effective use of a very simple, but powerful, marking strategy based on an inverse estimate. We demonstrate proof-of-concept for a novel simplified diffuse interface model of tumor growth. This model is essentially the Cahn-Hilliard equation with an added source term that is specialized for the context of cancerous tumor progression. We devise and analyze a mixed DG-FE scheme of convex splitting (CS) type for the Cahn-Hilliard equation in any space dimension. Specifically, we prove that our scheme is unconditionally energy stable and unconditionally uniquely
Differentiation of equine mesenchymal stem cells into cells of osteochondral lineage: potential for osteochondral tissue engineering

Damage to the hyaline cartilage of the joint surface and osteochondral fractures are key factors leading to the development of osteoarthritis in racehorses, representing a significant cause of racehorse retirement. To tissue-engineer an osteochondral unit that is suitable for joint repair, incorporation of a zone of calcified cartilage should be considered so as to mimic its in vivo counterpart. To date, equine mesenchymal stem cells (eMSCs) have been reported to have multilineage differentiation potential. Yet the generation of a zone of calcified cartilage using eMSCs has not been reported. This work is an initial attempt to generate a zone of calcified cartilage using eMSCs as the single source of cells and collagen as the scaffolding material. Main advantages of using eMSCs over equine deep zone chondrocytes for the generation of a zone of calcified cartilage include no donor site morbidity and their ease of expansion in culture. Initially, we fabricated cartilage-like tissues and bone-like tissues in vitro by differentiating eMSCs toward chondrogenic and osteogenic lineages for 21 d, respectively. We then aggregated the cartilage-like and bone-like tissues together with a layer of undifferentiated eMSCs-collagen gel in between to generate a 3-layer osteochondral unit. A zone of calcified cartilage was found between the cartilage-like and bone-like layers after a 14-day culture in chondrogenic differentiation medium. These results provide a solution toward tissue engineering of equine osteochondral units with interfacial zone without using chondrocytes harvested from the deep zone of healthy articular cartilage, and contribute to the future development of osteochondral tissue engineering strategies for human cartilage injuries in the long run.
Current Drive operation in a In-blanket ICRF Ring Array

The currently predicted Current Drive (CD)efficiency in a tokamak reactor plasma is χ CD ≤ 50 kA/MW for all auxiliary systems (NBCD, ICCD, ECCD). This would imply a relatively low reactor Q = P electric / P auxiliary and an extremely high power density (>10 MW/m 2 ) at the plasma boundary, if injected through the vacuum vessel ports or by in-port launchers. In a previous paper the concept of an Ion Cyclotron Ring Array (RA) of many elements, integrated in the reactor blanket first wall was proposed. An analysis of this RA operating in steady state Fast Wave Current Drive (FW CD) with all elements individually controlled in magnitude and phase is presented in this paper. For CD operation the RA is operated at low frequency (f ≈ 20MHz) so as to avoid the otherwise overwhelming RF power absorption by ions and α-particles. It is shown that the RA would feature a very directive radiation spectrum, a low power density operation (avoiding the drawbacks associated with high AC and DC potentials) and a potentially high flexibility of operation.
Genomic inbreeding and runs of homozygosity analysis of indigenous cattle populations in southern China

Runs of homozygosity (ROH) are continuous homozygous segments from the common ancestor of parents. Evaluating ROH pattern can help to understand inbreeding level and genetic basis of important traits. In this study, three representative cattle populations including Leiqiong cattle (LQC), Lufeng cattle (LFC) and Hainan cattle (HNC) were genotyped using the Illumina BovineHD SNPs array (770K) to assess ROH pattern at genome wide level. Totally, we identified 26,537 ROH with an average of 153 ROH per individual. The sizes of ROH ranged from 0.5 to 53.26Mb, and the average length was 1.03Mb. The average of FROH ranged from 0.10 (LQC) to 0.15 (HNC). Moreover, we identified 34 ROH islands (with frequency > 0.5) across genome. Based on these regions, we observed several breed-specific candidate genes related to adaptive traits. Several common genes related to immunity (TMEM173, MZB1 and SIL1), and heat stress (DNAJC18) were identified in all three populations. Three genes related to immunity (UGP2), development (PURA) and reproduction (VPS54) were detected in both HNC and LQC. Notably, we identified several breed-specific genes related to sperm development (BRDT and SPAG6) and heat stress (TAF7) in HNC, and immunity (CDC23 and NME5) and development (WNT87) in LFC. Our findings provided valuable insights into understanding the genomic homozygosity pattern and promoting the conservation of genetic resources of Chinese indigenous cattle.