Miracle-dz/UniFAR-FTUs huggingface dataset:
Anatomical phenotyping and staging of brain tumours.

Unlike other tumors, the anatomical extent of brain tumors is not objectified and quantified through staging. Staging systems are based on understanding the anatomical sequence of tumor progression and its relationship to histopathological dedifferentiation and survival. The aim of this study was to describe the spatiotemporal phenotype of the most frequent brain tumor entities, to assess the association of anatomical tumor features with survival probability and to develop a staging system for WHO grade 2 and 3 gliomas and glioblastoma. Anatomical phenotyping was performed on a consecutive cohort of 1000 patients with first diagnosis of a primary or secondary brain tumor. Tumor probability in different topographic, phylogenetic and ontogenetic parcellation units was assessed on preoperative MRI through normalization of the relative tumor prevalence to the relative volume of the respective structure. We analyzed the spatiotemporal tumor dynamics by cross-referencing preoperative against preceding and subsequent MRIs of the respective patient. The association between anatomical phenotype and outcome defined prognostically critical anatomical tumor features at diagnosis. Based on a hypothesized sequence of anatomical tumor progression, we developed a three-level staging system for WHO grade 2 and 3 gliomas and glioblastoma. This staging system was validated internally in the original cohort and externally in an independent cohort of 300 consecutive patients. While primary central nervous system lymphoma showed highest probability along white matter tracts, metastases enriched along terminal arterial flow areas. Neuroepithelial tumors mapped along all sectors of the ventriculocortical axis, while adjacent units were spared, consistent with a transpallial behavior within phylo-ontogenetic radial units. Their topographic pattern correlated with morphogenetic processes of convergence and divergence of radial units during phylo- and ontogenesis. While a ventriculofugal growth dominated in neuroepithelial tumors, a gradual deviation from this neuroepithelial spatiotemporal behavior was found with progressive histopathological dedifferentiation. The proposed three-level staging system for WHO grade 2 and 3 gliomas and glioblastoma correlated with the degree of histological dedifferentiation and proved accurate in terms of survival upon both internal and external validation. In conclusion, this study identified specific spatiotemporal phenotypes in brain tumors through topographic probability and growth pattern assessment. The association of anatomical tumor features with survival defined critical steps in the anatomical sequence of neuroepithelial tumor progression, based on which a staging system for WHO grade 2 and 3 gliomas and glioblastoma was developed and validated.
Hidden threat in familial Mediterranean fever : subclinical 1 inflammation , oxidative stress and their relationship with vitamin D 2 status

Hidden threat in familial Mediterranean fever: subclinical 1 inflammation, oxidative stress and their relationship with vitamin D 2 status 3 Background/aim: Vitamin D levels have been investigated in children with familial 4 Mediterranean fever (FMF), but the relationship between vitamin D status and 5 inflammation/oxidative stress indicators could not be clearly demonstrated. This study 6 aimed to investigate the relationship between subclinical inflammation/oxidative stress 7 and vitamin D status in children with FMF during an attack-free period. 8
Antarctic coastal polynya response to climate change

Sensitivity of sea ice formation and dense shelf water production to perturbations of air temperature, precipitation, and wind stress in an important Antarctic coastal polynya system is investigated. Shelf water formation in the Mertz Glacier Polynya is a major source of Adelie Land Bottom Water. Coupled ocean and sea ice model simulations for 1996–1999 span a transitional period of the system: The 1996–1997 strong polynya state is characterized by high sea ice growth and export, ocean to atmosphere heat flux, shelf water density, and rate of dense water export; in the 1998–1999 weak polynya state all these quantities are greatly reduced. The 1990s interannual variability in air temperature and precipitation is of similar magnitude to future increases as projected for the Southern Ocean by the IPCC assessment. We model the polynya with perturbed climate change forcing and find that the system shows a reduction in shelf water export in both the strong/weak modes. Overall, the dense water export is reduced by 40% for a 2°C surface warming, and by 33% for a 20 cm a−1 precipitation increase. In the weak polynya state that is more likely in future climate, shelf water export is reduced by 81% for the warming and by 65% for the freshening. The reduction in dense shelf water export implies a corresponding reduction in Antarctic Bottom Water formation.
Obesity, type 2 diabetes, and impaired insulin-stimulated blood flow: role of skeletal muscle NO synthase and endothelin-1.

Increased endothelin-1 (ET-1) and reduced endothelial nitric oxide phosphorylation (peNOS) are hypothesized to reduce insulin-stimulated blood flow in type 2 diabetes (T2D), but studies examining these links in humans are limited. We sought to assess basal and insulin-stimulated endothelial signaling proteins (ET-1 and peNOS) in skeletal muscle from T2D patients. Ten obese T2D [glucose disposal rate (GDR): 6.6 ± 1.6 mg·kg lean body mass (LBM)-1·min-1] and 11 lean insulin-sensitive subjects (Lean GDR: 12.9 ± 1.2 mg·kg LBM-1·min-1) underwent a hyperinsulinemic-euglycemic clamp with vastus lateralis biopsies taken before and 60 min into the clamp. Basal biopsies were also taken in 11 medication-naïve, obese, non-T2D subjects. ET-1, peNOS (Ser1177), and eNOS protein and mRNA were measured from skeletal muscle samples containing native microvessels. Femoral artery blood flow was assessed by duplex Doppler ultrasound. Insulin-stimulated blood flow was reduced in obese T2D (Lean: +50.7 ± 6.5% baseline, T2D: +20.8 ± 5.2% baseline, P < 0.05). peNOS/eNOS content was higher in Lean under basal conditions and, although not increased by insulin, remained higher in Lean during the insulin clamp than in obese T2D (P < 0.05). ET-1 mRNA and peptide were 2.25 ± 0.50- and 1.52 ± 0.11-fold higher in obese T2D compared with Lean at baseline, and ET-1 peptide remained 2.02 ± 1.9-fold elevated in obese T2D after insulin infusion (P < 0.05) but did not increase with insulin in either group (P > 0.05). Obese non-T2D subjects tended to also display elevated basal ET-1 (P = 0.06). In summary, higher basal skeletal muscle expression of ET-1 and reduced peNOS/eNOS may contribute to a reduced insulin-stimulated leg blood flow response in obese T2D patients. NEW & NOTEWORTHY Although impairments in endothelial signaling are hypothesized to reduce insulin-stimulated blood flow in type 2 diabetes (T2D), human studies examining these links are limited. We provide the first measures of nitric oxide synthase and endothelin-1 expression from skeletal muscle tissue containing native microvessels in individuals with and without T2D before and during insulin stimulation. Higher basal skeletal muscle expression of endothelin-1 and reduced endothelial nitric oxide phosphorylation (peNOS)/eNOS may contribute to reduced insulin-stimulated blood flow in obese T2D patients.
Spin-Polarized Electrons in Monolayer MoS$_2$

The optical susceptibility is a local, minimally-invasive and spin-selective probe of the ground state of a two-dimensional electron gas. We apply this probe to a gated monolayer of MoS$_2$. We demonstrate that the electrons are spin polarized. Of the four available bands, only two are occupied. These two bands have the same spin but different valley quantum numbers. We argue that strong Coulomb interactions are a key aspect of this spontaneous symmetry breaking. The Bohr radius is so small that even electrons located far apart in phase space interact, facilitating exchange couplings to align the spins.
Older Adults’ Experiences With Using Wearable Devices: Qualitative Systematic Review and Meta-synthesis

Background: Older adults may use wearable devices for various reasons, ranging from monitoring clinically relevant health metrics or detecting falls to monitoring physical activity. Little is known about how this population engages with wearable devices, and no qualitative synthesis exists to describe their shared experiences with long-term use. Objective: This study aims to synthesize qualitative studies of user experience after a multi-day trial with a wearable device to understand user experience and the factors that contribute to the acceptance and use of wearable devices. Methods: We conducted a systematic search in CINAHL, APA PsycINFO, PubMed, and Embase (2015-2020; English) with fixed search terms relating to older adults and wearable devices. A meta-synthesis methodology was used. We extracted themes from primary studies, identified key concepts, and applied reciprocal and refutational translation techniques; findings were synthesized into third-order interpretations, and finally, a “line-of-argument” was developed. Our overall goal was theory development, higher-level abstraction, and generalizability for making this group of qualitative findings more accessible. Results: In total, we reviewed 20 papers; 2 evaluated fall detection devices, 1 tested an ankle-worn step counter, and the remaining 17 tested activity trackers. The duration of wearing ranged from 3 days to 24 months. The views of 349 participants (age: range 51-94 years) were synthesized. Four key concepts were identified and outlined: motivation for device use, user characteristics (openness to engage and functional ability), integration into daily life, and device features. Motivation for device use is intrinsic and extrinsic, encompassing many aspects of the user experience, and appears to be as, if not more, important than the actual device features. To overcome usability barriers, an older adult must be motivated by the useful purpose of the device. A device that serves its intended purpose adds value to the user’s life. The user’s needs and the support structure around the device—aspects that are often overlooked—seem to play a crucial role in long-term adoption. Our “line-of-argument” model describes how motivation, ease of use, and device purpose determine whether a device is perceived to add value to the user’s life, which subsequently predicts whether the device will be integrated into the user’s life. Conclusions: The added value of a wearable device is the resulting balance of motivators (or lack thereof), device features (and their accuracy), ease of use, device purpose, and user experience. The added value contributes to the successful integration of the JMIR Mhealth Uhealth 2021 | vol. 9 | iss. 6 | e23832 | p. 1 https://mhealth.jmir. org/2021/6/e23832 (page number not for citation purposes) Moore et al JMIR MHEALTH AND UHEALTH
Quantifying the Influence of Atlantic Heat on Barents Sea Ice Variability and Retreat

AbstractThe recent Arctic winter sea ice retreat is most pronounced in the Barents Sea. Using available observations of the Atlantic inflow to the Barents Sea and results from a regional ice–ocean model the authors assess and quantify the role of inflowing heat anomalies on sea ice variability. The interannual variability and longer-term decrease in sea ice area reflect the variability of the Atlantic inflow, both in observations and model simulations. During the last decade (1998–2008) the reduction in annual (July–June) sea ice area was 218 × 103 km2, or close to 50%. This reduction has occurred concurrent with an increase in observed Atlantic heat transport due to both strengthening and warming of the inflow. Modeled interannual variations in sea ice area between 1948 and 2007 are associated with anomalous heat transport (r = −0.63) with a 70 × 103 km2 decrease per 10 TW input of heat. Based on the simulated ocean heat budget it is found that the heat transport into the western Barents Sea sets the bou.
Middle triassic megafossil plants and trace fossils from Tank Gully, Canterbury, New Zealand

Abstract Coal measures conformably underlying marine rocks of Ladinian age in Tank Gully have yielded a diverse assemblage of fossil plants. The presence of Dicroidium and Johnstonia leaves and corystosperm fructifications, supported by other remains (Neocalamites, Cladophlebis, Lobifolia and Sphenobaiera), indicate correlation of the flora with the Dicroidium odontopteroides zone of Late Anisian to Ladinian age. Several taxonomic changes are proposed. The ginkgoalean affinities of “Phoenicopsis” elongatus seem more remote than ever, so it is transferred to the non-committal genus Desmiophyllum. A re-organization of palaeophyllalean form-genera and of the species of Ginkgophylopsis is proposed to include remains formerly referred to Chiropteris. Glosso-pteridalean affinities are suggested for the redefined species of Linguifolium and their likely seeds, Carpolithus mackayi. The following new combinations are proposed: Desmiophyllum elongatum (Morris), Ginkgophytopsis cuneala (Carruthers), G. lacerata (Arb.
Socioeconomic status and survival after an invasive breast cancer diagnosis

Women who live in geographic areas with high poverty rates and low levels of education experience poorer survival after a breast cancer diagnosis than women who live in communities with indicators of high socioeconomic status (SES). However, very few studies have examined individual‐level SES in relation to breast cancer survival or have assessed the contextual role of community‐level SES independent of individual‐level SES.
Exploring the influence of temporal factors on age differences in working memory dual task costs.

Working memory is defined by many as the system that allows us to simultaneously store information over brief time periods while engaging in other information processing activities. In a previous study (Rhodes, Jaroslawska et al. (2019) Journal of Experimental Psychology: General, 148, 1204-1227. ) we found that retention of serially presented letters was disrupted by the introduction of an arithmetic processing task during a 10 second delay period. Importantly, the magnitude of this dual task disruption increased with age from 18 to 81. The demands of each task were adjusted prior to dual task so that age differences did not reflect baseline differences in single task performance. Motivated by these findings, theories of working memory, and additional analyses of processing reaction times from this previous experiment, we report two experiments, using the same tasks and adjustment procedure, attempting to modulate the magnitude of age differences in dual task effects via manipulations focused on time for encoding to-be-remembered material. Providing a delay prior to processing activities, to facilitate switching between the two tasks, did not modulate age differences. Neither did separating the to-be-remembered material temporally, to allow for the creation of more distinct representations. These findings provide two replications of our initial finding and suggest that age differences in working memory dual tasking are not due to limitations in the speed of encoding. (PsycInfo Database Record (c) 2021 APA, all rights reserved).
Vigilance. Evolution and definition for caregivers of family members with Alzheimer's disease.

The language of caregiving relies heavily on terms that are frequently negative such as caregiver stress and burden, but these are not universally accepted phenomenon. The purpose of this article is to report on the development of caregiver vigilance and to suggest it offers both neutral terminology and a means to include caregivers' perceptions of their supervisory role. The concept of vigilance emerged from a qualitative study of caregivers of family members with Alzheimer's disease. Vigilance is defined as the caregivers' continual oversight of their care recipients' activities. The five key components of vigilance were watchful supervision, protective intervening, anticipating, always on duty, and being there. Vigilant caregivers saw themselves as "on duty" even when they were not "doing things. " The findings of this study support caregivers' perceptions of 24-hour-a-day responsibility. Nurses need to realize that caregiver vigilance is not necessarily diminished when professional caregivers intervene or institutionalization occurs. Debriefing caregivers about their unique family caregiving knowledge and incorporating it into caregiving is a key strategy for nurses to use to build caregiver trust and reduce their vigilance time.
Characteristics of multiple‐year nitrous oxide emissions from conventional vegetable fields in southeastern China

[1] The annual and interannual characteristics of nitrous oxide (N2O) emissions from conventional vegetable fields are poorly understood. We carried out 4 year measurements of N2O fluxes from a conventional vegetable cultivation area in the Yangtze River delta. Under fertilized conditions subject to farming practices, approximately 86% of the annual total N2O release occurred following fertilization events. The direct emission factors (EFd) of the 12 individual vegetable seasons investigated ranged from 0.06 to 14.20%, with a mean of 3.09% and a coefficient of variation (CV) of 142%. The annual EFd varied from 0.59 to 4.98%, with a mean of 2.88% and an interannual CV of 74%. The mean value is much larger than the latest default value (1.00%) of the Intergovernmental Panel on Climate Change. Occasional application of lagoon-stored manure slurry coupled with other nitrogen fertilizers, or basal nitrogen addition immediately followed by heavy rainfall, accounted for a substantial portion of the large EFds observed in warm seasons. The large CVs suggest that the emission factors obtained from short-term observations that poorly represent seasonality and/or interannual variability will inevitably yield large uncertainties in inventory estimation. The results of this study indicate that conventional vegetable fields associated with intensive nitrogen addition, as well as occasional applications of manure slurry, may substantially account for regional N2O emissions. However, this conclusion needs to be further confirmed through studies at multiple field sites. Moreover, further experimental studies are needed to test the mitigation options suggested by this study for N2O emissions from open vegetable fields.
Variation in the Plasma Membrane Monoamine Transporter (PMAT) (Encoded by SLC29A4) and Organic Cation Transporter 1 (OCT1) (Encoded by SLC22A1) and Gastrointestinal Intolerance to Metformin in Type 2 Diabetes: An IMI DIRECT Study

OBJECTIVE Gastrointestinal adverse effects occur in 20–30% of patients with metformin-treated type 2 diabetes, leading to premature discontinuation in 5–10% of the cases. Gastrointestinal intolerance may reflect localized high concentrations of metformin in the gut. We hypothesized that reduced transport of metformin via the plasma membrane monoamine transporter (PMAT) and organic cation transporter 1 (OCT1) could increase the risk of severe gastrointestinal adverse effects. RESEARCH DESIGN AND METHODS The study included 286 severe metformin-intolerant and 1,128 metformin-tolerant individuals from the IMI DIRECT (Innovative Medicines Initiative: DIabetes REsearCh on patient straTification) consortium. We assessed the association of patient characteristics, concomitant medication, and the burden of mutations in the SLC29A4 and SLC22A1 genes on odds of intolerance. RESULTS Women (P < 0.001) and older people (P < 0.001) were more likely to develop metformin intolerance. Concomitant use of transporter-inhibiting drugs increased the odds of intolerance (odds ratio [OR] 1.72, P < 0.001). In an adjusted logistic regression model, the G allele at rs3889348 (SLC29A4) was associated with gastrointestinal intolerance (OR 1.34, P = 0.005). rs3889348 is the top cis-expression quantitative trait locus for SLC29A4 in gut tissue where carriers of the G allele had reduced expression. Homozygous carriers of the G allele treated with transporter-inhibiting drugs had more than three times higher odds of intolerance compared with carriers of no G allele and not treated with inhibiting drugs (OR 3.23, P < 0.001). Use of a genetic risk score derived from rs3889348 and SLC22A1 variants found that the odds of intolerance were more than twice as high in individuals who carry three or more risk alleles compared with those carrying none (OR 2.15, P = 0.01). CONCLUSIONS These results suggest that intestinal metformin transporters and concomitant medications play an important role in the gastrointestinal adverse effects of metformin.
Bias in ground-water data caused by well-bore flow in long-screen wells

The results of a field experiment comparing water-quality constitutents, specific conductance, geophysical measurements, and well-bore hydraulics in two long-screen wells and adjacent vertical clusters of short-screen wells show bias in ground-water data caused by well-bore flow in long-screen wells. The well screen acts as a conduit for vertical flow because it connects zones of different head and transmissivity, even in a relatively homogeneous, unconfined, sand and gravel aquifer where such zones are almost indistinguishable. Flow in the well bore redistributes water and solutes in the aquifer adjacent to the well, increasing the risk of bias in water-quality samples, failure of plume detection, and cross-contamination of the aquifer. At one site, downward flow from a contaminated zone redistributes solutes over the entire length of the long-screen well. At another site, downward flow from a contaminated zone redistributes solutes over the entire length of the long-screen well. At another site, upward flow from an uncontaminated zone masks the presence of a road salt plume. Borehole induction logs, conducted in a fully penetrating short-screen well, can provide a profile of solutes in the aquifer that is not attainable in long-screen wells. In this study, the induction-log profiles show close correlation with data frommore » analyses of water-quality samples from the short-screen wells; however, both of these data sets differ markedly from the biased water-quality samples from the long-screen wells. Therefore, use of induction logs in fully cased wells for plume detection and accurate placement of short-screen wells is a viable alternative to use of long screen wells for water-quality sampling. « less