Miracle-dz/UniFAR-FTUs huggingface dataset:
Associations of Dietary Patterns and Metabolic-Hormone Profiles with Breast Cancer Risk: A Case-Control Study

Breast cancer is the most diagnosed cancer in women worldwide. Studies regarding complex breast cancer aetiology are limited and the results are inconclusive. We investigated the associations between dietary patterns (DPs), metabolic-hormone profiles (M-HPs), and breast cancer risk. This case-control study involved 420 women aged 40–79 years from north-eastern Poland, including 190 newly-diagnosed breast cancer cases. The serum concentration of lipid components, glucose, and hormones (oestradiol, progesterone, testosterone, prolactin, cortisol, insulin) was marked in 129 post-menopausal women (82 controls, 47 cases). The food frequency consumption was collected using a validated 62-item food frequency questionnaire. A posteriori DPs or M-HPs were derived with a Principal Component Analysis (PCA). Three DPs: ‘Non-Healthy’, ‘Prudent’, and ‘Margarine and Sweetened Dairy’ and two M-HPs: ‘Metabolic-Syndrome’ and ‘High-Hormone’ were identified. The ‘Polish-adapted Mediterranean Diet’ (‘Polish-aMED’) score was calculated. The risk of breast cancer risk was three-times higher (odds ratio (OR): 2.90; 95% confidence interval (95% Cl): 1.62–5.21; p < 0.001) in the upper tertile of the ‘Non-Healthy’ pattern (reference: bottom tertile) and five-times higher (OR: 5.34; 95% Cl: 1.84–15.48; p < 0.01) in the upper tertile of the ‘High-Hormone’ profile (reference: bottom tertile). There was a positive association of ‘Metabolic-Syndrome’ profile and an inverse association of ‘Polish-aMED’ score with the risk of breast cancer, which disappeared after adjustment for confounders. No significant association between ‘Prudent’ or ‘Margarine and Sweetened Dairy’ DPs and cancer risk was revealed. Concluding, a pro-healthy diet is insufficient to reduce the risk of breast cancer in peri- and postmenopausal women. The findings highlight the harmful effect of the ‘High-Hormone’ profile and the ‘Non-Healthy’ dietary pattern on breast cancer risk. In breast cancer prevention, special attention should be paid to decreasing the adherence to the ‘Non-Healthy’ pattern by reducing the consumption of highly processed food and foods with a high content of sugar and animal fat. There is also a need to monitor the concentration of multiple sex hormones in the context of breast cancer risk.
Predicting the defensive performance of individual players in one vs. one soccer games

The aim of this study was to use technical skill and physical performance and coaches’ rankings to predict the defensive performance of junior soccer players. Twenty-one male players (mean age 17.2 years, SD = 1.1) were recruited from the Londrina Junior Team Football Academy in Brazil. Data were collected during regular training sessions. After participants had warmed up, players were asked to either dribble the ball or sprint through five custom circuits that varied in average curvature (0–1.37 radians.m-1). In addition, four coaches were asked to rank the players from best to worst in defensive ability. Dribbling, sprinting, and coaches’ rankings were then compared with defending performance as assessed in the one vs. one competitions (N = 1090 paired-trials: 40–65 trials per individual), in which they acted as defender or attacker in turn. When defending, the objective was to steal the ball or prevent the attacker from running around them with the ball into a scoring zone. Testing occurred over three days. Overall, dribbling performance (r = 0.56; P = 0.008) and coaches’ ranking (r = 0.59; P = 0.004) were significantly related to defensive ability; sprinting performance was not (r = 0.20; P = 0.38). Though dribbling performance and coaches’ ranking each explained 30% and 37% of the variance in defensive performance, respectively, the two predictors were not related (r = 0.27; P = 0.23), so combined these traits explained more than half the variance in defensive performance. In conclusion, the current study demonstrates that including only one metric of closed-skill performance—dribbling speed—doubles the ability of coaches to identify their best defensive players in one vs. one scenarios.
Semantic anomaly detection in school-aged children during natural sentence reading – A study of fixation-related brain potentials

In this study, we investigated the effects of context-related semantic anomalies on the fixation-related brain potentials of 12-13-year-old Finnish children in grade 6 during sentence reading. The detection of such anomalies is typically reflected in the N400 event-related potential. We also examined whether the representation invoked by the sentence context extends to the orthographic representation level by replacing the final words of the sentence with an anomalous word neighbour of a plausible word. The eye-movement results show that the anomalous word neighbours of plausible words cause similar first-fixation and gaze duration reactions, as do other anomalous words. Similarly, we observed frontal negativity in the fixation-related potential of the unrelated anomalous words and in the anomalous word neighbours. This frontal negativity was larger in both anomalous conditions than in the response elicited by the plausible condition. We thus show that the brain successfully uses context to separate anomalous words from plausible words on a single letter level during free reading. From the P600 response of the scalp waveform, we observed that the P600 was delayed in the anomalous word neighbour condition. We performed group-level decomposition on the data with ICA (independent component analysis) and analysed the time course and source structure of the decomposed data. This analysis of decomposed brain signals not only confirmed the delay of the P600 response but also revealed that the frontal negativity concealed s more typical and separate N400 response, which was similarly delayed in the anomalous word neighbour condition, as was the P600 response. Source analysis of these independent components implicated the right frontal eye field as the cortical source for the frontal negativity and the middle temporal and parietal regions as cortical sources for the components resembling the N400 and P600 responses. We interpret the delays present in N400 and P600 responses to anomalous word neighbours to reflect competition with the representation of the plausible word just one letter different.
A high-throughput, whole cell assay to identify compounds active against carbapenem-resistant Klebsiella pneumoniae

Enteric Gram-negative rods (GNR), which are frequent causes of community-acquired and nosocomial infections, are increasingly resistant to the antibiotics in our current armamentarium. One solution to this medical dilemma is the development of novel classes of antimicrobial compounds. Here we report the development of a robust, whole cell-based, high-throughput metabolic assay that detects compounds with activity against carbapenem-resistant Klebsiella pneumoniae. We have used this assay to screen approximately 8,000 fungal extracts and 50,000 synthetic compounds with the goal of identifying extracts and compounds active against a highly resistant strain of Klebsiella pneumoniae. The primary screen identified 43 active fungal extracts and 144 active synthetic compounds. Patulin, a known fungal metabolite and inhibitor of bacterial quorum sensing and alanine racemase, was identified as the active component in the most potent fungal extracts. We did not study patulin further due to previously published evidence of toxicity. Three synthetic compounds termed O06, C17, and N08 were chosen for further study. Compound O06 did not have significant antibacterial activity but rather interfered with sugar metabolism, while compound C17 had only moderate activity against GNRs. Compound N08 was active against several resistant GNRs and showed minimal toxicity to mammalian cells. Preliminary studies suggested that it interferes with protein expression. However, its direct application may be limited by susceptibility to efflux and a tendency to form aggregates in aqueous media. Rapid screening of 58,000 test samples with identification of several compounds that act on CR-K. pneumoniae demonstrates the utility of this screen for the discovery of drugs active against this highly resistant GNR.
Voxel segmentation-based 3D building detection algorithm for airborne LIDAR data

Among traditional Light Detection And Ranging (LIDAR) data representations such as raster grid, triangulated irregular network, point clouds and octree, the explicit 3D nature of voxel-based representation makes it a promising alternative. Despite the benefit of voxel-based representation, voxel-based algorithms have rarely been used for building detection. In this paper, a voxel segmentation-based 3D building detection algorithm is developed for separating building and nonbuilding voxels. The proposed algorithm first voxelizes the LIDAR point cloud into a grayscale voxel structure in which the grayscale of the voxel corresponds to the quantized mean intensity of the LIDAR points within the voxel. The voxelized dataset is segmented into multiple 3D-connected regions depending on the connectivity and grayscale similarity among voxels. The 3D-connected regions corresponding to the building roof and facade are detected sequentially according to characteristics such as their area, density, elevation difference and location. The obtained results for the detected buildings are evaluated by the LIDAR data provided by working group III/4 of ISPRS, which demonstrate a high rate of success. Average completeness, correctness, quality, and kappa coefficient indexes values of 90.0%, 96.0%, 88.1% and 88.7%, respectively, are obtained for buildings.
Diversity of Chroogomphus (Gomphidiaceae, Boletales) in Europe, and typification of C. rutilus

In this study, eight species of Chroogomphus are recognized from Europe: C. britannicus, C. aff. filiformis 1, C. fulmineus, C. cf. helveticus, C. mediterraneus, C. cf. purpurascens, C. rutilus, and C. subfulmineus. Different candidates for the application of the name C. rutilus are evaluated and the best fit to the description is selected; lecto- and epitypes are chosen to fix the name. Chroogomphus fulmineus and C. mediterraneus are also epitypified and a new species, C. subfulmineus, is described. The infrageneric classification is revised and a new subgenus Siccigomphus and three new sections, Confusi, Filiformes, and Fulminei are introduced. The former sections Chroogomphus and Floccigomphus are elevated to subgeneric level. Comparison of the ITS regions (nuc rDNA ITS1-5.8S-ITS2) of all species studied shows that there is a minimum interspecific difference of 1.5 %, with the exception of the two species belonging to sect. Fulminei which differ by a minimum of 0.9 %. Ecological specimen data indicate that species of Chroogomphus form basidiomes under members of Pinaceae, with a general preference for species of Pinus. Five European species have been recorded under Picea, while Abies and Larix have also been recorded as tree associates, although the detailed nutritional relationships of the genus, involving other suilloid fungi in particular, have yet to be fully clarified.
High preoperative plasma vasohibin‐1 concentration predicts better prognosis in patients with non–small cell lung carcinoma

Vasohibin‐1 (VASH1) is an angiogenesis inhibitor synthesized and secreted by endothelial cells, whose expression is induced by angiogenic stimuli such as vascular endothelial growth factor. We have previously demonstrated that VASH1 is immunohistochemically evident in endothelial cells in the tumor microenvironment of patients with non–small cell lung cancer (NSCLC) and is positively correlated with that of vascular endothelial growth factor in cancer cells. Here, we determined the preoperative plasma concentration of VASH1 in patients with NSCLC and evaluated the association between the preoperative VASH1 levels and certain outcomes.
Knowledge on birth preparedness and complication readiness among expecting couples in rural Tanzania: Differences by sex cross-sectional study

Background Inadequate knowledge of birth preparedness and complication readiness (BPCR) among expecting couples delays timely access to maternal emergency services. The aim of this study was to assess knowledge on birth preparedness and complication readiness and how men and women differ" among expecting couples in a rural setting of Rukwa Region, Tanzania. Methods A community-based cross-sectional study targeting pregnant women and their partners was performed from June 2017 to October 2017. A total of 546 couples were sampled using three-stage probability sampling techniques and then interviewed using a structured questionnaire. The mean score difference was sought using independent t-test. Multiple linear regressions were performed to determine the predictors of knowledge. Results There was a significant difference in mean knowledge scores between pregnant women (M = 5.58, SD = 4.591) and male partners (M = 4.37, SD = 4.285); t (1085) = -4.525; p<0.001. Among women, BPCR levels were positively influenced by age (β = 0.236; p<0.01), having ever heard about birth preparedness (β = 0.176;p<0.001), being of Mambwe ethnicity (β = 0.187; p<0.001), living near a health center rather than a dispensary (β = 0.101;p<0.05) and having had a prior preterm delivery (β = 0.086;p<0.05). Access to media through radio ownership negatively influenced BPCR levels among both women (β-.119; p<0.01) and men (β = -0.168; p<0.0001). Among men, the BPCR knowledge was only positively influenced by having ever heard about birth preparedness (β = 0.169;p<0.001), age at marriage (β = -0.103; p<0.05), and having completed either primary (β = 0.157;p<0.001) or secondary education (β = 0.131;p<0.01). Conclusion Some important predictors of knowledge were revealed among women and men, but overall knowledge about birth preparedness and complication readiness was low. This study demonstrates inadequate knowledge and understanding at the community level about key elements of birth preparedness and complication readiness. In order to improve access to life-saving care for women and neonates, there is a pressing need for innovative community strategies to increase knowledge about birth preparedness and complication readiness. Such strategies are essential in order to reduce maternal and neonatal mortality in rural Tanzania.
A quantitative approach to assess the risk of skin sensitization from hair dye ingredients : A case study using p-phenylenediamine (PPD)

Methode om een veilige limiet voor allergie door haarverf vast te stellen Het gebruik van haarverf is in principe veilig. Wel bevat dit product stoffen die bij sommige mensen allergische reacties kunnen veroorzaken, zoals jeuk, roodheid en zwellingen van de huid. Zo reageert een klein percentage (0,2 tot 1 procent) van de consumenten op de stof p-phenylenediamine (PPD) in permanente haarverf. Haarverf-allergie kan in sommige gevallen ernstig zijn. Het RIVM heeft daarom geprobeerd te bepalen bij welke concentratie het gebruik van PPD niet meer zal leiden tot allergische reacties bij consumenten. Uit het onderzoek bleek dat het niet mogelijk was om deze veilige limiet te berekenen aangezien gegevens over de mate waarin de consument per verfbeurt aan PPD wordt blootgesteld ontbreken. De veiligheid van haarverf wordt gereguleerd in de Europese Cosmetica verordening. PPD is een belangrijk bestanddeel van haarverf om grijs haar goed te kunnen kleuren, maar is ook een erkend allergeen. PPD mag tot een maximum concentratie van 2 procent worden toegevoegd aan haarverf. Deze wettelijke limiet voorkomt echter niet dat sommige mensen een allergische reactie krijgen na gebruik van haarverf. Om een veilige limiet te kunnen bepalen is het nodig om de concentratie waarbij de stof de allergie veroorzaakt, de effectconcentratie, te weten. Er zijn voldoende gegevens over PPD beschikbaar om deze concentratie te bepalen. Daarnaast is het belangrijk om te bepalen in welke mate een consument wordt blootgesteld aan PPD bij het gebruik van haarverf. Als de hoeveelheid waaraan de consument blootstaat hoger is dan de effectconcentratie, kan een allergie ontstaan. Er zijn echter onvoldoende gegevens beschikbaar om de consumentenblootstelling met voldoende zekerheid vast te stellen. Een van de redenen is dat de verf na een tijdje wordt uitgewassen en het onbekend is hoeveel PPD er in deze periode wordt opgenomen
The study of degradation mechanisms of glyco-engineered plant produced anti-rabies monoclonal antibodies E559 and 62-71-3

Rabies is an ancient and neglected zoonotic disease caused by the rabies virus, a neurotropic RNA virus that belongs to the Rhabdoviridae family, genus Lyssavirus. It remains an important public health problem as there are cost and health concerns imposed by the current human post exposure prophylaxis therapy. The use of monoclonal antibodies (mAbs) is therefore an attractive alternative. Rabies mostly affects people that reside in resource-limited areas where there are occasional failures in the cold-chain. These environmental changes may upset the stability of the mAbs. This study focused on mAbs 62-71-3 and E559; their structures, responses to freeze/thaw (F/T) and exposure to reactive oxygen species were therefore studied with the aid of a wide range of biophysical and in silico techniques in order to elucidate their stability and identify aggregation prone regions. E559 was found to be less stable than 62-71-3. The complementarity determining regions (CDR) contributed the most to its instability, more specifically: peptides 99EIWD102 and 92ATSPYT97 found in CDR3, Trp33 found in CDR1 and the oxidised Met34. The constant region “158SWNSGALTGHTFPAVL175” was also flagged by the special aggregation propensity (SAP) tool and F/T experiments to be highly prone to aggregation. The E559 peptides “4LQESGSVL11 from the heavy chain and 4LTQSPSSL11 from the light chain, were also highly affected by F/T. These residues may serve as good candidates for mutation, in the aim to bring forward more stable therapeutic antibodies, thus paving a way to a more safe and efficacious antibody-based cocktail treatment against rabies.
Intergenerational differences in social support for the community‐living elderly in Beijing, China

The combination of the rapid process of social‐economic development, urbanization, and population ageing brings many challenges for care providers and quality of life of the community‐living elderly in Beijing, China. This research aims to understand the intergenerational differences of social support for the elderly in the socio‐cultural context of Beijing.
Red blood cell phenotype fidelity following glycerol cryopreservation optimized for research purposes

Intact red blood cells (RBCs) are required for phenotypic analyses. In order to allow separation (time and location) between subject encounter and sample analysis, we developed a research-specific RBC cryopreservation protocol and assessed its impact on data fidelity for key biochemical and physiological assays. RBCs drawn from healthy volunteers were aliquotted for immediate analysis or following glycerol-based cryopreservation, thawing, and deglycerolization. RBC phenotype was assessed by (1) scanning electron microscopy (SEM) imaging and standard morphometric RBC indices, (2) osmotic fragility, (3) deformability, (4) endothelial adhesion, (5) oxygen (O2) affinity, (6) ability to regulate hypoxic vasodilation, (7) nitric oxide (NO) content, (8) metabolomic phenotyping (at steady state, tracing with [1,2,3-13C3]glucose ± oxidative challenge with superoxide thermal source; SOTS-1), as well as in vivo quantification (following human to mouse RBC xenotransfusion) of (9) blood oxygenation content mapping and flow dynamics (velocity and adhesion). Our revised glycerolization protocol (40% v/v final) resulted in >98.5% RBC recovery following freezing (-80°C) and thawing (37°C), with no difference compared to the standard reported method (40% w/v final). Full deglycerolization (>99.9% glycerol removal) of 40% v/v final samples resulted in total cumulative lysis of ~8%, compared to ~12–15% with the standard method. The post cryopreservation/deglycerolization RBC phenotype was indistinguishable from that for fresh RBCs with regard to physical RBC parameters (morphology, volume, and density), osmotic fragility, deformability, endothelial adhesivity, O2 affinity, vasoregulation, metabolomics, and flow dynamics. These results indicate that RBC cryopreservation/deglycerolization in 40% v/v glycerol final does not significantly impact RBC phenotype (compared to fresh cells).
Gluconeogenesis using glycerol as a substrate in bloodstream-form Trypanosoma brucei

Bloodstream form African trypanosomes are thought to rely exclusively upon glycolysis, using glucose as a substrate, for ATP production. Indeed, the pathway has long been considered a potential therapeutic target to tackle the devastating and neglected tropical diseases caused by these parasites. However, plasma membrane glucose and glycerol transporters are both expressed by trypanosomes and these parasites can infiltrate tissues that contain glycerol. Here, we show that bloodstream form trypanosomes can use glycerol for gluconeogenesis and for ATP production, particularly when deprived of glucose following hexose transporter depletion. We demonstrate that Trypanosoma brucei hexose transporters 1 and 2 (THT1 and THT2) are localized to the plasma membrane and that knockdown of THT1 expression leads to a growth defect that is more severe when THT2 is also knocked down. These data are consistent with THT1 and THT2 being the primary routes of glucose supply for the production of ATP by glycolysis. However, supplementation of the growth medium with glycerol substantially rescued the growth defect caused by THT1 and THT2 knockdown. Metabolomic analyses with heavy-isotope labelled glycerol demonstrated that trypanosomes take up glycerol and use it to synthesize intermediates of gluconeogenesis, including fructose 1,6-bisphosphate and hexose 6-phosphates, which feed the pentose phosphate pathway and variant surface glycoprotein biosynthesis. We used Cas9-mediated gene knockout to demonstrate a gluconeogenesis-specific, but fructose-1,6-bisphosphatase (Tb927.9.8720)-independent activity, converting fructose 1,6-bisphosphate into fructose 6-phosphate. In addition, we observed increased flux through the tricarboxylic acid cycle and the succinate shunt. Thus, contrary to prior thinking, gluconeogenesis can operate in bloodstream form T. brucei. This pathway, using glycerol as a physiological substrate, may be required in mammalian host tissues.