Miracle-dz/UniFAR-FTUs huggingface dataset:
Improving MAE against CCE under Label Noise

Label noise is inherent in many deep learning tasks when the training set becomes large. A typical approach to tackle noisy labels is using robust loss functions. Categorical cross entropy (CCE) is a successful loss function in many applications. However, CCE is also notorious for ﬁt-ting samples with corrupted labels easily. In contrast, mean absolute error (MAE) is noise-tolerant theoretically, but it generally works much worse than CCE in practice. In this work, we have three main points. First, to explain why MAE generally performs much worse than CCE, we introduce a new understanding of them fundamentally by exposing their intrinsic sample weighting schemes from the perspective of every sample’s gradient magnitude with respect to logit vector. Consequently, we ﬁnd that MAE’s differentiation degree over training examples is too small so that informative ones cannot contribute enough against the non-informative during training. Therefore, MAE generally underﬁts training data when noise rate is high. Second, based on our ﬁnding, we pro-pose an improved MAE (IMAE), which inherits MAE’s good noise-robustness. Moreover, the differentiation degree over training data points is controllable so that IMAE addresses the under-ﬁtting problem of MAE. Third, the effectiveness of IMAE against CCE and MAE is evaluated empirically with extensive experiments, which focus on image classiﬁcation under synthetic corrupted labels and video retrieval under real noisy labels.
Tethering soluble meprin α in an enzyme complex to the cell surface affects IBD‐associated genes

Biologic activity of proteases is mainly characterized by the substrate specificity, tissue distribution, and cellular localization. The human metalloproteases meprin α and meprin β share 41% sequence identity and exhibit a similar cleavage specificity with a preference for negatively charged amino acids. However, shedding of meprin α by furin on the secretory pathway makes it a secreted enzyme in comparison with the membrane‐bound meprin β. In this study, we identified human meprin α and meprin β as forming covalently linked membrane‐tethered heterodimers in the early endoplasmic reticulum, thereby preventing furin‐mediated secretion of meprin α. Within this newly formed enzyme complex, meprin α was able to be activated on the cell surface and detected by cleavage of a novel specific fluorogenic peptide substrate. However, the known meprin β substrates amyloid precursor protein and CD99 were not shed by membrane‐tethered meprin α. On the other hand, being linked to meprin α, activation of or substrate cleavage by meprin β on the cell surface was not altered. Interestingly, proteolytic activity of both proteases was increased in the heteromeric complex, indicating an increased proteolytic potential at the plasma membrane. Because meprins are susceptibility genes for inflammatory bowel disease (IBD), and to investigate the physiologic impact of the enzyme complex, we performed transcriptome analyses of intestinal mucosa from meprin‐knockout mice. Comparison of the transcriptional gene analysis data with gene analyses of IBD patients revealed that different gene subsets were dysregulated if meprin α was expressed alone or in the enzyme complex, demonstrating the physiologic and pathophysiological relevance of the meprin heterodimer formation. —Peters, F. , Scharfenberg, F. , Colmorgen, C. , Armbrust, F. , Wiehert, R. , Arnold, P., Potempa, B. , Potempa, J., Pietrzik, C. U. , Häsler, R. , Rosenstiel, P., Becker‐Pauly, C. Tethering soluble meprin α in an enzyme complex to the cell surface affects IBD‐associated genes. FASEB J. 33, 7490–7504 (2019). www.fasebj. org
A Large-Scale Multi-Length Headline Corpus for Analyzing Length-Constrained Headline Generation Model Evaluation

Browsing news articles on multiple devices is now possible. The lengths of news article headlines have precise upper bounds, dictated by the size of the display of the relevant device or interface. Therefore, controlling the length of headlines is essential when applying the task of headline generation to news production. However, because there is no corpus of headlines of multiple lengths for a given article, previous research on controlling output length in headline generation has not discussed whether the system outputs could be adequately evaluated without multiple references of different lengths. In this paper, we introduce two corpora, which are Japanese News Corpus (JNC) and JApanese MUlti-Length Headline Corpus (JAMUL), to confirm the validity of previous evaluation settings. The JNC provides common supervision data for headline generation. The JAMUL is a large-scale evaluation dataset for headlines of three different lengths composed by professional editors. We report new findings on these corpora; for example, although the longest length reference summary can appropriately evaluate the existing methods controlling output length, this evaluation setting has several problems.
Functional and Mechanistic Interrogation of BET Bromodomain Degraders for the Treatment of Metastatic Castration-resistant Prostate Cancer

Purpose: The bromodomain and extraterminal (BET)-containing proteins (BRD2/3/4) are essential epigenetic coregulators for prostate cancer growth. BRD inhibitors have shown promise for treatment of metastatic castration-resistant prostate cancer (mCRPC), and have been shown to function even in the context of resistance to next-generation AR-targeted therapies such as enzalutamide and abiraterone. Their clinical translation, however, has been limited by off-target effects, toxicity, and rapid resistance. Experimental Design: We have developed a series of molecules that target BET bromodomain proteins through their proteasomal degradation, improving efficacy and specificity of standard inhibitors. We tested their efficacy by utilizing prostate cancer cell lines and patient-derived xenografts, as well as several techniques including RNA-sequencing, mass spectroscopic proteomics, and lipidomics. Results: BET degraders function in vitro and in vivo to suppress prostate cancer growth. These drugs preferentially affect AR-positive prostate cancer cells (22Rv1, LNCaP, VCaP) over AR-negative cells (PC3 and DU145), and proteomic and genomic mechanistic studies confirm disruption of oncogenic AR and MYC signaling at lower concentrations than BET inhibitors. We also identified increases in polyunsaturated fatty acids (PUFA) and thioredoxin-interacting protein (TXNIP) as potential pharmacodynamics biomarkers for targeting BET proteins. Conclusions: Compounds inducing the pharmacologic degradation of BET proteins effectively target the major oncogenic drivers of prostate cancer, and ultimately present a potential advance in the treatment of mCRPC. In particular, our compound dBET-3, is most suited for further clinical development.
Relation between winds and jets in radio-loud AGN

We have investigated the relation between the two modes of outflow (wind and jet) in radio-loud active galactic nuclei (AGN). For this study we have carried out a systematic and homogeneous analysis of XMM-Newton spectra of a sample of 16 suitable radio-loud Seyfert-1 AGN. The ionised winds in these AGN are parameterised through high-resolution X-ray spectroscopy and photoionisation modelling. We discover a significant inverse correlation between the column density NH of the ionised wind and the radio-loudness parameter R of the jet. We explored different possible explanations for this NH-R relation and find that ionisation, inclination, and luminosity effects are unlikely to be responsible for the observed relation. We argue that the NH-R relation is rather a manifestation of the magnetic driving mechanism of the wind from the accretion disc. Change in the magnetic field configuration from toroidal to poloidal, powering either the wind or the jet mode of the outflow, is the most feasible explanation for the observed decline in the wind NH as the radio jet becomes stronger. Our findings provide evidence for a wind-jet bimodality in radio-loud AGN and shine new light on the link between these two modes of outflow. This has far-reaching consequences for the accretion disc structure and the wind ejection mechanism.
Jacobi-Maupertuis Randers-Finsler metric for curved spaces and the gravitational magnetoelectric effect

In this paper we return to the subject of Jacobi metrics for timelike and null geodsics in stationary spactimes, correcting some previous misconceptions. We show that not only null geodesics, but also timelike geodesics are governed by a Jacobi-Maupertuis type variational principle and a Randers-Finsler metric for which we give explicit formulae. The cases of the Taub-NUT and Kerr spacetimes are discussed in detail. Finally we show how our Jacobi-Maupertuis Randers-Finsler metric may be expressed in terms of the effective medium describing the behaviour of Maxwell's equations in the curved spacetime. In particular, we see in very concrete terms how the magnetolectric susceptibility enters the Jacobi-Maupertuis-Randers-Finsler function.
Influence of marine kaolin mortar mixed with effective microorganism on external heat transfer

Marine kaolin can be found easily at the coastal regions in Malaysia. During infrastructure works, huge quantities were excavated and is treated as unsuitable soil material (USM). This study offers a value-added solution to convert marine kaolin into supplementary cementitious material (SCM) through thermal activation. 10% replacement of Ordinary Portland Cement is incorporated together with Effective Microorganism (EM) into the mortar mix. The usage of EM between 5% and 25% with interval of 5% were manipulated to enhance the properties of the mortar mix. The intention of incorporating both marine kaolin and EM as mortar mix was to observe the significant effects on heat transfer. As a result, the surface temperature of the mortar mix was reduced up to 8% and the thermal conductivity shows appropriate insulating materials.
Reversed Dynamo at Small Scales and Large Magnetic Prandtl Number

We show that at large magnetic Prandtl numbers, the Lorentz force does work on the flow at small scales and drives fluid motions, whose energy is dissipated viscously. This situation is the opposite of that in a normal dynamo, where the flow does work against the Lorentz force. We compute the spectral conversion rates between kinetic and magnetic energies for several magnetic Prandtl numbers and show that normal (forward) dynamo action occurs on large scales over a progressively narrower range of wavenumbers as the magnetic Prandtl number is increased. At higher wavenumbers, reversed dynamo action occurs, i.e., magnetic energy is converted back into kinetic energy at small scales. We demonstrate this in both direct numerical simulations forced by volume stirring and in large eddy simulations (LESs) of solar convectively driven small-scale dynamos. Low-density plasmas such as stellar coronae tend to have large magnetic Prandtl numbers, i.e., the viscosity is large compared with the magnetic diffusivity. The regime in which viscous dissipation dominates over resistive dissipation for large magnetic Prandtl numbers was also previously found in LESs of the solar corona, i.e., our findings are a more fundamental property of MHD that is not just restricted to dynamos. Viscous energy dissipation is a consequence of positive Lorentz force work, which may partly correspond to particle acceleration in close-to-collisionless plasmas. This is, however, not modeled in the MHD approximation employed. By contrast, resistive energy dissipation on current sheets is expected to be unimportant in stellar coronae.
Assessment of biodegradation in ancient archaeological wood from the Middle Cemetery at Abydos, Egypt

Abydos is a large, complex archaeological site located approximately 500 km south of Cairo in Upper Egypt. The site has served as a cemetery for thousands of years and is where most of the Early Dynastic royal tombs are located. North Abydos includes the Middle Cemetery and the North Cemetery, which are separated from each other by a wadi. The Middle Cemetery was the burial ground for important Sixth Dynasty (2407–2260 BC) officials and over time for thousands of elite and non-elite individuals as well. Excavations at the core area of the Old Kingdom mortuary landscape have revealed many culturally important wooden objects but these are often found with extensive deterioration that can compromise their preservation. The objectives of this study were to characterize the biodegradation that has taken place in excavated wooden objects, elucidate the type of wood degradation present, obtain information on soil properties at the site and identify fungi currently associated with the wood and soils. Light and scanning electron microscopy studies were used to observe the micromorphological characteristics of the wood, and culturing on different media was done to isolate fungi. Identification of the fungi was done by examining morphological characteristics and extracting rDNA from pure cultures and sequencing the ITS region. Wooden objects, made from Cedrus, Juniperus and Acacia as well as several unidentified hardwoods, were found with extensive degradation and were exceedingly fragile. Termite damage was evident and frass from the subterranean termites along with sand particles were present in most woods. Evidence of soft rot attack was found in sections of wood that remained. Fungi isolated from wood and soils were identified as species of Aspergillus, Chaetomium, Cladosporium, Fusarium, Penicillium, Stemphylium Talaromyces and Trichoderma. Results provide important information on the current condition of the wood and gives insights to the identity of the fungi in wood and soils at the site. These results provide needed information to help develop conservation plans to preserve these degraded and fragile wooden objects.
Effect of Physics Practical on Students’ Attitude and Performance in Bauchi Educational Zone

The study investigated the Effects of Physics Practical on Secondary School Students’ Attitude and Performance in Bauchi Educational Zone, Nigeria. In a bid to achieve the objectives of the study four research questions were raised and five hypotheses were postulated. The study adopted quasi-experimental research design. Specifically, the pre-test posttest control group design. The study population consisted of ten thousand two hundred and eighty SSII physics students. The sample of the study was made up of one hundred and Forty SSII physics students. Stratified random sampling technique was used for the study. The research instruments used for the study were Physics Students Laboratory Practical Performance Test (PSLPPT) and Physics Students Laboratory Attitude Rating Scale (PSLARS). The reliability of the instruments was determined using Cronbach alpha coefficient. The reliabilities stood at 0.76 for PSLPPT and 0.98 for PSLARS. Data were analysed using descriptive and inferential statistics and t-test. The results obtained showed that: Students have positive attitude toward physics laboratory practical, laboratory practical enhanced students’ performance in physics. The findings also revealed that there is a significant difference between the performance of students exposed to laboratory practical and those not exposed to, both male and female students were at the same level of performance in physics after exposure to laboratory practical. It was then recommended among others that teachers should put more efforts in teaching students the practical aspect of physics as this would made the students to have positive attitude and have better performance in physics.
A spatially dynamic network underlies the generation of inspiratory behaviors

Significance Breathing is a vital rhythmic behavior that originates from neural networks within the brainstem. It is hypothesized that the breathing rhythm is generated by spatially distinct networks localized to discrete kernels or compartments. Here, we provide evidence that the functional boundaries of these compartments expand and contract dynamically based on behavioral or physiological demands. The ability of these rhythmic networks to change in size may allow the breathing rhythm to be very reliable, yet flexible enough to accommodate the large repertoire of mammalian behaviors that must be integrated with breathing. The ability of neuronal networks to reconfigure is a key property underlying behavioral flexibility. Networks with recurrent topology are particularly prone to reconfiguration through changes in synaptic and intrinsic properties. Here, we explore spatial reconfiguration in the reticular networks of the medulla that generate breathing. Combined results from in vitro and in vivo approaches demonstrate that the network architecture underlying generation of the inspiratory phase of breathing is not static but can be spatially redistributed by shifts in the balance of excitatory and inhibitory network influences. These shifts in excitation/inhibition allow the size of the active network to expand and contract along a rostrocaudal medullary column during behavioral or metabolic challenges to breathing, such as changes in sensory feedback, sighing, and gasping. We postulate that the ability of this rhythm-generating network to spatially reconfigure contributes to the remarkable robustness and flexibility of breathing.
CREG1 stimulates brown adipocyte formation and ameliorates diet‐induced obesity in mice

Increased formation of brown and beige adipocytes is critical for adaptive thermogenesis to maintain homeothermy in cold or to circumvent diet‐induced obesity (DIO). Cellular repressor of adenovirus early region 1A‐stimulated genes 1 (CREG1) exhibits the ability to stimulate brown adipogenesis, including the induction of uncoupling protein 1 (UCP1), in vitro. Thus, we aimed to clarify whether CREG1 promotes brown adipocyte formation and inhibits DIO at the whole‐animal level. In mouse brown adipose tissue (BAT), CREG1 expression was markedly increased in cold but was decreased under thermoneutrality, suggesting CREG1 involvement in BAT thermogenesis. Moreover, in BAT and white adipose tissue, expression of UCP1 and fibroblast growth factor‐21 and browning were both significantly higher in adipocyte P2‐Cregl‐transgenic (Tg) mice than in wild‐type (WT) littermates. Following stimulation with a β3‐adrenergic agonist, energy consumption was elevated in the Tg mice, which showed increased resistance to DIO and improvement of obesity‐associated complications including fatty liver relative to WT mice. The CREG1 stimulatory effect on brown adipogenesis was confirmed in Tg‐BAT primary cultures. It was also found that CREG1 binds to retinoid X receptor α, which interacts with thyroid hormone receptor for brown adipogenesis. Our findings demonstrate that CREG1 stimulates brown adipocyte formation and browning, ameliorating obesity and its related pathology in vivo. —Hashimoto, M. , Kusudo, T. , Takeuchi, T. , Kataoka, N. , Mukai, T. , Yamashita, H. CREG1 stimulates brown adipocyte formation and ameliorates diet‐induced obesity in mice. FASEB J. 33, 8069–8082 (2019). www.fasebj. org
Determinants for progression from asymptomatic infection to symptomatic visceral leishmaniasis: A cohort study

Background Asymptomatic Leishmania donovani infections outnumber clinical presentations, however the predictors for development of active disease are not well known. We aimed to identify serological, immunological and genetic markers for progression from L. donovani infection to clinical Visceral Leishmaniasis (VL). Methods We enrolled all residents >2 years of age in 27 VL endemic villages in Bihar (India). Blood samples collected on filter paper on two occasions 6–12 months apart, were tested for antibodies against L. donovani with rK39-ELISA and DAT. Sero converters, (negative for both tests in the first round but positive on either of the two during the second round) and controls (negative on both tests on both occasions) were followed for three years. At the start of follow-up venous blood was collected for the following tests: DAT, rK39- ELISA, Quantiferon assay, SNP/HLA genotyping and L.donovani specific quantitative PCR. Results Among 1,606 subjects enrolled,17 (8/476 seroconverters and 9/1,130 controls) developed VL (OR 3.1; 95% CI 1.1–8.3). High DAT and rK39 ELISA antibody titers as well as positive qPCR were strongly and significantly associated with progression from seroconversion to VL with odds ratios of 19.1, 30.3 and 20.9 respectively. Most VL cases arose early (median 5 months) during follow-up. Conclusion We confirmed the strong association between high DAT and/or rK39 titers and progression to disease among asymptomatic subjects and identified qPCR as an additional predictor. Low predictive values do not warrant prophylactic treatment but as most progressed to VL early during follow-up, careful oberservation of these subjects for at least 6 months is indicated.
Additional hemoperfusion is associated with improved overall survival and self-reported sleep disturbance in patients on hemodialysis

Introduction: Patients with maintenance hemodialysis have experienced long-standing sleep disturbance. In this study, we attempted to explore whether long-term hemoperfusion could improve sleep and increase the overall survival in hemodialysis patients. Methods: A total of 158 patients, who underwent routine hemodialysis, were assessed in this study. These patients were computer-matched into two groups, with one group including 80 patients with absolute hemodialysis and the other consisting of 78 cases with hemodialysis in combination with hemoperfusion. Hemoperfusion was performed 1–2 times biweekly, with each session lasting 2 h. Self-reported sleep disturbance was evaluated before and after the observational time (2-year period); sleep quality was measured using the Pittsburgh Sleep Quality Index. Findings: Using multivariate regression analyses, we found sleep duration was associated with age, diabetes, low income, pruritus, hyperphosphatemia, hypercalcemia, high parathyroid hormone, and hemoglobin (P < 0.001). The overall survival rate of the hemodialysis in combination with hemoperfusion group was significantly higher than that of the absolute hemodialysis group (P < 0.05) after adjusting for sex, age, and diabetes. A 2-year hemoperfusion therapy was associated with improved sleep disturbance and sleep efficiency; this was accompanied by an increase in nocturnal melatonin levels. Furthermore, there was a significant difference in the first hospitalization between the hemodialysis and hemodialysis in combination with hemoperfusion groups (P < 0.01). Discussion: Our results indicated that hemoperfusion in combination with hemodialysis is associated with an increase in the overall survival and improved sleep disorders in hemodialysis patients.