Miracle-dz/UniFAR-FTUs huggingface dataset:
Modelling the MYC-driven normal-to-tumour switch in breast cancer

ABSTRACT The potent MYC oncoprotein is deregulated in many human cancers, including breast carcinoma, and is associated with aggressive disease. To understand the mechanisms and vulnerabilities of MYC-driven breast cancer, we have generated an in vivo model that mimics human disease in response to MYC deregulation. MCF10A cells ectopically expressing a common breast cancer mutation in the phosphoinositide 3 kinase pathway (PIK3CAH1047R) led to the development of organised acinar structures in mice. Expressing both PIK3CAH1047R and deregulated MYC led to the development of invasive ductal carcinoma. Therefore, the deregulation of MYC expression in this setting creates a MYC-dependent normal-to-tumour switch that can be measured in vivo. These MYC-driven tumours exhibit classic hallmarks of human breast cancer at both the pathological and molecular level. Moreover, tumour growth is dependent upon sustained deregulated MYC expression, further demonstrating addiction to this potent oncogene and regulator of gene transcription. We therefore provide a MYC-dependent model of breast cancer, which can be used to assay in vivo tumour signalling pathways, proliferation and transformation from normal breast acini to invasive breast carcinoma. We anticipate that this novel MYC-driven transformation model will be a useful research tool to better understand the oncogenic function of MYC and for the identification of therapeutic vulnerabilities. Summary: We present a MYC-driven transformation model of breast cancer that recapitulates the disease in vivo and which can be used to identify MYC-dependent cancer vulnerabilities.
Host-Vector-Parasite Relationship Among Inhabitants Of The Anambra River Basin Irrigation Project Area

A questionnaire survey was employed to identify the sources of contact with parasites and disease vectors among people living in the Anambra River Basin Irrigation Project Area. The survey indicated that more than half of the inhabitants of this area go to farm. While in the farm disease vectors such as mosquitoes, biting midges, snails and tsetse flies are usually encountered. In addition, the lack of proper sewage disposal common among the communities exacerbates the situation. Water from various sources such as rivers, ponds, streams, as well as rainwater are used for many purposes. Common disease symptoms such as diarrhoea, abdominal pain, blood in sputum, body nodules, blood in stool, coughing, itching, headache, fever, haematuria were commonly recorded. Positive relationships were observed between the presence of some vectors and the corresponding disease symptoms.
Spatial heterogeneity of the mantle wedge structure and interplate coupling in the NE Japan forearc region

We performed 3‐D seismic tomography in the forearc region of the northeastern Japan subduction zone using both onshore and offshore seismic station data. We obtained the Vp, Vs, and Vp/Vs structures around the plate boundary with high spatial resolution. The position of the plate boundary as defined by relocated hypocenters coincides with the sharp velocity boundary between the oceanic crust and the mantle wedge. The mantle wedge above the coseismic slip area of the 1978 and 2005 off‐Miyagi interplate earthquakes (M > 7) is characterized by high Vp and Vs, but low Vp/Vs. Off Fukushima, however, where large earthquakes rarely occur, we found a high Vp/Vs anomaly at the tip of the mantle wedge. The spatial distribution of serpentinized mantle wedge limits the spatial extent of the strongly coupled area on the plate boundary, and thus can explain the difference in seismic activity between the off‐Miyagi and off‐Fukushima regions.
A Fire Perimeter Expansion Algorithm-Based on Huygens Wavelet Propagation

To model the spread of the perimeter of a wildfire, the perimeter can be regarded as a continuous curve, or more simply as a discrete number of points, which approximate the curve. Each point on the perimeter can be regarded as a point source which expands as a small ellipse. The parameters of each ellipse depend on the local fuel type, slope and meteorological conditions and the time step. According to Huygens' principle, the envelope of these ellipses describes the new perimeter. With discontinuous terrain and fuel, the perimeter may become complex, developing concavities and surrounding areas of low rate of spread. An algorithm which defines this envelope has been developed as part of the National Bushfire Model (a real-time computer application for personal computers).
Early response mechanisms of perennial ryegrass (Lolium perenne) to phosphorus deficiency

Background and Aims Improving phosphorus (P) nutrient efficiency in Lolium perenne (perennial ryegrass) is likely to result in considerable economic and ecological benefits. To date, research into the molecular and biochemical response of perennial ryegrass to P deficiency has been limited, particularly in relation to the early response mechanisms. This study aimed to identify molecular mechanisms activated in response to the initial stages of P deficiency. Methods A barley microarray was successfully used to study gene expression in perennial ryegrass and this was complemented with gas chromatography-mass spectrometry metabolic profiling to obtain an overview of the plant response to early stages of P deficiency. Key Results After 24 h of P deficiency, internal phosphate concentrations were reduced and significant alterations were detected in the metabolome and transcriptome of two perennial ryegrass genotypes. Results indicated a replacement of phospholipids with sulfolipids and the utilization of glycolytic bypasses in response to P deficiency in perennial ryegrass. Conclusions The transcriptome and metabolome of perennial ryegrass undergo changes in response to reductions in P supply after 24 h.
Hyperspectral multiple approach fusion for the long-range detection of low observable objects: MUF2

Highly efficient target detection algorithms in hyperspectral remote sensing technology, particularly for the long range detection of very low observable objects which exhibit extremely small detection cross sections, are in great demand. This is more so for a near or real time application. This paper is concerned with global anomaly detections (GAD), and conventional methods to achieve better detection using multiple approach fusion (MAF), which fuses detection outputs from various detectors using either logical operators, or, via a model based estimation of the joint detection statistics from all detectors, is found to be not good enough. This work emphasises the need to integrate a more comprehensive background modelling into the GAD to develop a robust anomaly detector (AD). Then, the detection output from this detector is fused with other detectors via MAF for a further improvement of detection performance. The MUF2 algorithm is formulated exactly using this 2-level fusion mechanism, in which mixture modelling and spectral unmixing fusion have been employed. The significance of background modelling in GAD has been highlighted in this work using real data. The result has shown a factor of 2-5 reduction in detection performance when a very small amount of target pixels (~0.1%) is misclassified as background. This is because anomalies are defined with reference to a model of the background, and subsequently two new background classification techniques have been proposed in this work. The effectiveness of the MUF2 has been assessed using three representative data sets which contain various different types of targets, ranging from vehicles to small plates embedded in backgrounds with various degrees of homogeneity. The performance of MUF2 has been shown to be more superior than the conventional GAD frequently in orders of magnitude, regardless of the background homogeneity and target types. The current version of the MUF2 is run under Matlab and it takes ~2 minutes to process a 20K pixel imagery. This work forms part of the research programme supported by the EMRS DTC established by the UK MOD.
Disturbances to the tundra and forest tundra environment of the western Arctic

The more important physical disturbances to the tundra environment are discussed with examples. Thermokarst subsidence, not thermal erosion, is shown to be the dominant result of man-induced disturbances, such as those caused by the bulldozing of seismic lines and firebreaks. It is shown that a clear distinction between thermokarst subsidence and thermal erosion is necessary, if the causes of the disturbances are to be prevented and minimized, or the results treated. The typical surface disturbance to the tundra results in a deepening of the active layer. Therefore, foreknowledge of the effect of a disturbance on deepening the active layer, together with information on the ice content of the permafrost affected, makes it possible to predict the amount of thermokarst subsidence likely to take place. Three practical examples of three types of ground disturbance are given: a fire near Inuvik, N.W. T. ; a patch of vegetation trampled and killed by a dog at Garry Island, N.W. T. ; and seepage down a walking trail .
Antimicrobial Efficacy of a Novel Eucalyptus Oil, Chlorhexidine Digluconate and Isopropyl Alcohol Biocide Formulation

Effective surface disinfection is a fundamental infection control strategy within healthcare. This study assessed the antimicrobial efficacy of novel biocide formulations comprising 5% and 2% eucalyptus oil (EO) combined with 2% chlorhexidine digluconate (CHG) and 70% isopropyl alcohol (IPA) contained within a wipe. The efficacy of this novel antimicrobial formulation to remove and eliminate methicillin-resistant Staphylococcus aureus (MRSA), Escherichia coli and Candida albicans from steel surfaces was investigated. Adpression studies of pre-contaminated wipes were also utilised to assess their potential to induce cross-contamination between hard surfaces. Furthermore, the bactericidal nature of the EO-formulation was established in addition to time-kill. The EO-containing formulations demonstrated bactericidal antimicrobial efficacy against all microorganisms and did not induce surface cross-contamination. There was no significant difference (p < 0.05) between the 5% and 2% EO formulations in their ability to remove microorganisms from steel surfaces, however both significantly (p < 0.05) removed more than the control formulations. Microbial biofilms were eliminated within 10 min (p < 0.05) when exposed to the EO formulations. Our novel EO-formulation demonstrated rapid antimicrobial efficacy for potential disinfection and elimination of microbial biofilms from hard surfaces and may therefore be a useful adjunct to current infection control strategies currently employed within healthcare facilities.
Cross-sectional surveillance study to phenotype lorry drivers’ sedentary behaviours, physical activity and cardio-metabolic health

Objectives Elevated risk factors for a number of chronic diseases have been identified in lorry drivers. Unhealthy lifestyle behaviours such as a lack of physical activity (PA) and high levels of sedentary behaviour (sitting) likely contribute to this elevated risk. This study behaviourally phenotyped UK lorry drivers’ sedentary and non-sedentary behaviours during workdays and non-workdays and examined markers of drivers cardio-metabolic health. Setting A transport company from the East Midlands, UK. Participants A sample of 159 male heavy goods vehicle drivers (91% white European; (median (range)) age: 50 (24, 67) years) completed the health assessments. 87 (age: 50.0 (25.0, 65.0); body mass index (BMI): 27.7 (19.6, 43.4) kg/m2) provided objective information on sedentary and non-sedentary time. Outcomes Participants self-reported their sociodemographic information. Primary outcomes: sedentary behaviour and PA, assessed over 7 days using an activPAL3 inclinometer. Cardio-metabolic markers included: blood pressure (BP), heart rate, waist circumference (WC), hip circumference, body composition and fasted capillary blood glucose, triglycerides, high-density lipopreotein cholesterol, low-density lipoprotein cholesterol (LDL-C) and total cholesterol (TC) levels. These cardio-metabolic markers were treated as secondary outcomes. Results Lorry drivers presented an unhealthy cardio-metabolic health profile (median (IQR) systolic BP: 129 (108.5, 164) mm Hg; diastolic BP: 81 (63, 104) mm Hg; BMI: 29 (20, 47) kg/m2; WC: 102 (77.5, 146.5) cm; LDL-C: 3 (1, 6) mmol/L; TC: 4.9 (3, 7.5) mmol/L). 84% were overweight or obese, 43% had type 2 diabetes or prediabetes and 34% had the metabolic syndrome. The subsample of lorry drivers with objective postural data (n=87) accumulated 13 hours/day and 8 hours/day of sedentary behaviour on workdays and non-workdays (p<0.001), respectively. On average, drivers accrued 12 min/day on workdays and 6 min/day on non-workdays of moderate-to-vigorous PA (MVPA). Conclusion Lorry drivers demonstrate a high-risk cardio-metabolic profile and are highly sedentary and physically inactive. Interventions to reduce sitting and increase MVPA during breaks and leisure time to improve cardio-metabolic health are urgently needed. Educational programmes to raise awareness about diet and exercise are recommended.
Monitoring the TOPEX Microwave Radiometer with GPS: Stability of columnar water vapor measurements

Using data from terrestrial global positioning system (GPS) receivers, we describe an anomalous drift in columnar water vapor measurements from the TOPEX microwave radiometer (TMR). Based on their long‐occupation histories and proximity to open‐water TOPEX/POSEIDON (T/P) ground tracks, we identified four geodetic‐quality GPS stations that are suitable for calibrating the TMR. We constructed time series at each site based on the differences of instantaneous vertical wet tropospheric path delay (PDwet) derived independently from GPS and TMR data at T/P overflight times. The ensemble results span 1992–1997 and suggest that the TMR measurements of PDwet are gradually drifting lower. Our nominal estimate of the drift is −1.2 ± 0.4 mm yr−1 (one standard error). Accounting for this would increase the estimated rate of change in global mean sea level from T/P by the same amount.
NPP-16/Nup50 Function and CDK-1 Inactivation Are Associated with Anoxia-induced Prophase Arrest in Caenorhabditis elegans

Cellular and genetic analysis supports the notion that NPP-16/NUP50 and CDK-1 function to reversibly arrest prophase blastomeres in Caenorhabditis elegans embryos exposed to anoxia. The anoxia-induced shift of cells from an actively dividing state to an arrested state reveals a previously uncharacterized prophase checkpoint in the C. elegans embryo.
The Association of Mid-Regional Pro-Adrenomedullin and Mid-Regional Pro-Atrial Natriuretic Peptide with Mortality in an Incident Dialysis Cohort

High levels of the plasma peptides mid-regional pro-adrenomedullin (MR-proADM) and mid-regional pro-atrial natriuretic peptide (MR-proANP) are associated with clinical outcomes in the general population. Data in patients with chronic kidney disease are sparse. We therefore investigated the association of MR-proANP and MR-proADM levels with all-cause and cardiovascular (CV) mortality, CV events and peripheral arterial disease in 201 incident dialysis patients of the INVOR-Study prospectively followed for a period of up to more than 7 years. The overall mortality rate was 43%, thereof 43% due to CV events. Both baseline MR-proANP and MR-proADM were associated with higher risk of all-cause (HR = 1.44, p = 0.001 and HR = 1.32, p = 0.002, respectively) and CV mortality (HR = 1.75, p<0.001 and HR = 1.41, p = 0.007, respectively) after adjustment for age, sex, previous CV events, diabetes mellitus and time-dependent type of renal replacement therapy. We then stratified patients in high risk (both peptides in the upper tertile), intermediate risk (only one of the two peptides in the upper tertile) and low risk (none in the upper tertile). Although demographic, clinical and laboratory variables were similar among the intermediate and high risk group, to be with both parameters in the upper tertile was associated with a 3-fold higher risk for all-cause (HR = 2.87, p<0.001) and CV mortality (HR = 3.58, p = 0.001). In summary, among incident dialysis patients MR-proANP and MR-proADM were shown to be associated with all-cause and CV mortality, with the highest risk when both parameters were in the upper tertiles.
Depression and anxiety in prostate cancer: a systematic review and meta-analysis of prevalence rates

Objectives To systematically review the literature pertaining to the prevalence of depression and anxiety in patients with prostate cancer as a function of treatment stage. Design Systematic review and meta-analysis. Participants 4494 patients with prostate cancer from primary research investigations. Primary outcome measure The prevalence of clinical depression and anxiety in patients with prostate cancer as a function of treatment stage. Results We identified 27 full journal articles that met the inclusion criteria for entry into the meta-analysis resulting in a pooled sample size of 4494 patients. The meta-analysis of prevalence rates identified pretreatment, on-treatment and post-treatment depression prevalences of 17.27% (95% CI 15.06% to 19.72%), 14.70% (95% CI 11.92% to 17.99%) and 18.44% (95% CI 15.18% to 22.22%), respectively. Pretreatment, on-treatment and post-treatment anxiety prevalences were 27.04% (95% CI 24.26% to 30.01%), 15.09% (95% CI 12.15% to 18.60%) and 18.49% (95% CI 13.81% to 24.31%), respectively. Conclusions Our findings suggest that the prevalence of depression and anxiety in men with prostate cancer, across the treatment spectrum, is relatively high. In light of the growing emphasis placed on cancer survivorship, we consider that further research within this area is warranted to ensure that psychological distress in patients with prostate cancer is not underdiagnosed and undertreated.
Infrasound from convective storms: An experimental test of electrical source mechanisms

We performed an experiment to test the suggestion that the infrasound radiated by certain severe storms is caused by lightning. During the 1972 storm season we recorded at Boulder, Colorado, the rate and arrival direction of both VLF atmospherics and infrasound from severe thunderstorms in the midwestern United States. If infrasound were caused by lightning, we should have observed a good agreement in direction and time between the radio and acoustic emissions of lightning, within observational uncertainty. Fewer than half of the infrasound events showed such agreement with electromagnetic emissions. Those agreements can be attributed to noncausal coincidence. We argue that the correlation should be much higher if the infrasound emissions were caused by lightning. Some detailed case studies illustrate the differing phenomenologies of the emissions; for example, they show that the infrasound is probably emitted during an earlier stage of storm growth than that usually associated with lightning.
Cancer cells educate natural killer cells to a metastasis-promoting cell state

Chan et al. show that natural killer (NK) cells can be reprogrammed by breast cancer cells to promote metastasis. Reprogramming can be blocked by targeting NK cell inhibitory receptors TIGIT or KLRG1 or inhibiting DNA methyltransferases, which suggests new approaches to prevent or treat metastasis.
Simulating Turbidity Removal at a River Bank Filtration Site in India Using SCS-CN Approach

AbstractUse of the Soil Conservation Service curve number (SCS-CN) approach is very popular among hydrologists. Despite this, its applications in water quality modeling have been very limited. For the first time, the present work explores the potential of the SCS-CN approach in water quality modeling of the river bank filtration process using a theoretical framework. The approach relates the curve number (CN) with the filtration/kinetic coefficient and the input applied to the system. The approach is tested for its effectiveness using the field data collected at the river bank filtration site at Haridwar, India. The CN is found to be dependent on travel time between source water and the abstraction well in addition to the influent concentration. For very low or very high values of influent concentration, the curve number exhibits an asymptotic variation approaching 100 and 0, respectively. Using the data on source water quality and the travel time, it is possible to compute the curve number and, subsequen.
Spatial Patterns of Soil Development, Methane Oxidation, and Methanotrophic Diversity along a Receding Glacier Forefield, Southeast Greenland

Abstract Increasing global annual temperature leads to massive loss of ice cover worldwide. Consequently, glaciers retreat and ice-covered areas become exposed. We report on a study from the Mittivakkat Gletscher forefield in Southeast Greenland with special focus on methanotrophy in relation to exposure time to the atmosphere. The Mittivakkat Gletscher has receded since the end of the Little Ice Age (LIA; about AD 1850) and has left behind a series of deposits of decreasing age concurrently with its recession. Soil samples from this chronosequence were examined in order to elucidate main soil variables, as well as the activity and community structure of methanotrophs, a group of microorganisms involved in regulation of atmospheric methane. Soil variables revealed poor soil development, and incubation experiments showed methane consumption rates of 2.14 nmol CH4 day−1 gsoil−1 at 22 °C and 1.24 nmol CH4 day−1 gsoil−1 at 10 °C in the LIA terminal moraine. Methane consumption was not detected in younger samples, despite the presence of high-affinity methanotrophs in all samples. This was indicated by successful amplification of partial pmoA genes, which code for a subunit of a key enzyme involved in methane oxidation. In addition, the results of the diversity study show that the diversity of the methanotrophic community at the younger, recently deglaciated site P5 is poorer than the diversity of the community retrieved from the LIA moraine. We put forward the hypothesis that aerobic methanotrophs were at very low abundance and diversity during glaciation probably due to anoxia at the ice-sediment interface and that colonization after deglaciation is not completed yet. More detailed studies are required to explain the causes of discrepancy between activity and presence of high-affinity methanotrophs and its relation to the transit from ice-covered probably anoxic to ice-free oxic conditions.
Aperiodic recurrence of geologically recorded tsunamis during the past 5500 years in eastern Hokkaido, Japan

Along Hokkaido's Pacific coast near the town of Kiritappu, sandy deposits in a muddy lagoon and on a nearby beach‐ridge plain provide evidence for 15 tsunamis between 200 and 6000 years ago. Additional sand beds at the lagoon probably represent the historical tsunamis of A.D. 1843 and 1894. We observed the sequences of sandy deposits in continuous slices 2 to 4 m deep. Some of the deposits consist of just a single sand bed, whereas others contain multiple units of sand, muddy sand (or sandy mud), and mud caps including plant detritus. We also found at the lagoon a 17th century tsunami deposit that thickens and thins regardless of elevation or distance inland. We bracketed the ages of most of the inferred tsunamis by radiocarbon dating of detritus, mainly seeds and leaves at the lagoon and charcoal at the beach‐ridge plain, from pretsunami and posttsunami beds. Tsunami dates computed from the bracketing ages commonly have uncertainties spanning 2 to 4 centuries. Within these uncertainties, the inferred sequence of 15 prehistoric tsunamis at the lagoon, beginning almost 6000 years ago, can be matched tsunami by tsunami with the inferred history at the beach‐ridge plain, 15 km away. The sand sheet extents suggest that most of these tsunamis were larger than any generated at Hokkaido in the last 200 years. The intervals between these inferred outsized tsunamis average nearly 400 years but range widely from about 100 to about 800 years.