Miracle-dz/UniFAR-FTUs huggingface dataset:
Partial in vivo reprogramming enables injury-free intestinal regeneration via autonomous Ptgs1 induction

Tissue regeneration after injury involves the dedifferentiation of somatic cells, a natural adaptive reprogramming process that leads to the emergence of injury-responsive cells with fetal-like characteristics in the intestinal epithelium. However, there is no direct evidence that adaptive reprogramming involves a shared molecular mechanism with direct cellular reprogramming. Here, we induced dedifferentiation of intestinal epithelial cells through forced partial reprogramming in vivo using “Yamanaka factors” (Oct4, Sox2, Klf4, and c-Myc: OSKM). The OSKM-induced dedifferentiation showed similar molecular features of intestinal regeneration, including a rapid transition from homeostatic cell types to injury-responsive-like cell types. These injury-responsive-like cells, sharing a gene signature of revival stem cells and atrophy-induced villus epithelial cells, actively assisted tissue regeneration following ionizing radiation-induced acute tissue damage. In contrast to normal intestinal regeneration, which involves epi-mesenchymal crosstalk through induction of Ptgs2 (encoding Cox2) upon injury, the OSKM expression promotes the autonomous production of prostaglandin E2 via epithelial Ptgs1 (encoding Cox1) expression. These results indicate that prostaglandin synthesis is a common mechanism for intestine epithelial regeneration but involves a different enzyme (Ptgs1 for Cox1) when partial reprogramming is directly applied to the intestinal epithelium.
Can C3 plants faithfully record the carbon isotopic composition of atmospheric carbon dioxide?

Abstract Atmospheric carbon dioxide is the raw material for the biosphere. Therefore, changes in the carbon isotopic composition of the atmosphere will influence the terrestrial δ13C signals we interpret. However, reconstructing the atmospheric δ13C value in the geologic past has proven challenging. Land plants sample the isotopic composition of CO2 during photosynthesis. We use a model of carbon isotopic fractionation during C3 photosynthesis, in combination with a meta–data set (519 measurements from 176 species), to show that the δ13C value of atmospheric CO2 can be reconstructed from the isotopic composition of plant tissue. Over a range of pCO2 (198–1300 ppmv), the δ13C value of plant tissue does not vary systematically with atmospheric carbon dioxide concentration. However, environmental factors, such as water stress, can influence the δ13C value of leaf tissue. These factors explained a relatively small portion of variation in the δ13C value of plant tissue in our data set and emerged strongly only when the carbon isotopic composition of the atmosphere was held constant. Members of the Poaceae differed in average δ13C value, but we observed no other differences correlated with plant life form (herbs, trees, shrubs). In contrast, over 90% of the variation the carbon isotopic composition of plant tissue was explained by variation in the δ13C value of the atmosphere under which it was fixed. We use a subset of our data spanning a geologically reasonable range of atmospheric δ13C values (−6.4‰ to −9.6‰) and excluding C3 Poaceae to develop an equation to reconstruct the δ13C value of atmospheric CO2 based on plant values. Reconstructing the δ13C value of atmospheric CO2 in geologic time will facilitate chemostratigraphic correlation in terrestrial sediments, calibrate pCO2 reconstructions based on soil carbonates, and offer a window into the physiology of ancient plants.
Spatio-temporal characterization of ultrashort laser beams: a tutorial

The temporal characterization of ultrafast laser pulses has become a cornerstone capability of ultrafast optics laboratories and is routine both for optimizing laser pulse duration and designing custom fields. Beyond pure temporal characterization, spatio-temporal characterization provides a more complete measurement of the spatially-varying temporal properties of a laser pulse. These so-called spatio-temporal couplings (STCs) are generally nonseparable chromatic aberrations that can be induced by very common optical elements—for example, diffraction gratings and thick lenses or prisms made from dispersive material. In this tutorial we introduce STCs and a detailed understanding of their behavior in order to have a background knowledge, but also to inform the design of characterization devices. We then overview a broad range of spatio-temporal characterization techniques with a view to mention most techniques, but also to provide greater details on a few chosen methods. The goal is to provide a reference and a comparison of various techniques for newcomers to the field. Lastly, we discuss nuances of analysis and visualization of spatio-temporal data, which is an often underappreciated and non-trivial part of ultrafast pulse characterization.
Sensitivity of the Atmospheric Water Cycle within the Habitable Zone of a Tidally Locked, Earth-like Exoplanet

Synchronously orbiting, tidally locked exoplanets with a dayside facing their star and a permanently dark nightside orbiting dim stars are prime candidates for habitability. Simulations of these planets often show the potential to maintain an Earth-like climate with a complete hydrological cycle. Here we examine the sensitivity of the atmospheric water cycle to changes in stellar flux and describe the main underlying mechanisms. In a slowly rotating, tidally locked Earth-like atmospheric model, the response to a small (about 10%) increase in stellar irradiance from a habitable zone control simulation is examined. The water cycle is enhanced in response to the increased stellar irradiance. While the evaporation increase behaves similarly to the stellar radiation increase, the day-to-night energy transport by the mean circulation is critical to the planet's precipitation changes. Increased efficiency of the energy transport in a warmer climate shapes the substellar precipitation increase. On the nightside, precipitation changes are weak as a result of the large cancellation between the increased energy transport and the increased longwave emission. The day-to-night energy transport efficiency is sensitive to the variation of the atmosphere's vertical stratification. Due to weak temperature gradients in the upper troposphere and a moist adiabat maintained in the substellar region, variations in the substellar surface temperature and specific humidity govern the increase of the planet’s stratification with warming. This suggests a scaling of the nightside’s precipitation based on the substellar surface thermodynamic changes, a sensitivity that holds over a wider range of stellar irradiance changes.
Surveying Off-Board and Extra-Vehicular Monitoring and Progress Towards Pervasive Diagnostics

We survey the state-of-the-art in offboard diagnostics for vehicles, their occupants, and environments, with particular focus on vibroacoustic approaches. We identify promising application areas including data-driven management for shared mobility and automated fleets, usage-based insurance, and vehicle,occupant, and environmental state and condition monitoring. We close by exploring the particular application of vibroacoustic monitoring to vehicle diagnostics and prognostics and propose the introduction of automated vehicle- and context-specific model selection as a means of improving algorithm performance, e.g. to enable smartphone-resident diagnostics. The described approach may serve as the first step in developing "universal diagnostics" utilizing artificial intelligence, with applicability extending beyond the automotive domain.
Effects of Dietary Supplementation of Enzyme complex on Growth Performance, Carcass Characteristics and Meat storability in Broiler Chickens

This study was conducted to investigate the effects of dietary supplementation of enzyme complex (metalloprotease and xylanase) on growth performance, carcass characteristics and meat storability of broiler chickens. The experiment utilized a 2 (basal and low spec diets) × 3 (0, 0.5 or 1 g/kg of enzyme supplementation) factorial arrangement. A total of 360 male Ross broilers were randomly assigned into the following six groups: BD-T0 (basal diet + enzyme complex 0 g/kg), BD-T1 (basal diet + enzyme complex 0.5 g/kg), BD-T2 (basal diet + enzyme complex 1 g/kg), LD-T0 (low spec diet + enzyme complex 0 g/kg), LD-T1 (low spec diet + enzyme complex 0.5 g/kg), LD-T2 (low spec diet + enzyme complex 1 g/kg). Feed and water were provided ad libitum for 42 days, during which time feed intake and body weight were measured at one-week intervals. After the feeding trial, chickens were slaughtered by exsanguination and samples were collected. Feed intake was lower in the enzyme supplemented groups than the non-supplemented groups (p<0.05), as were body weight and gain (p<0.05). Thus, the feed conversion ratio improved in the enzyme supplemented groups relative to the non-supplemented groups (p<0.05). The carcass rate and production index were also significantly improved by supplementation with enzyme complex (p<0.05). Finally, the thiobarbituric acid reactive substances (TBARS) values were lower in the enzyme supplementation groups after 6 storage days (p<0.05). In conclusion, dietary supplementation with enzyme complex including metalloprotease and xylanase improved growth performance, carcass characteristics, and storability of broiler chicken meat. 요 약 본 연구는 육계사료 내 금속단백질분해효소와 xylanase를 포함하는 복합 효소제 첨가 급여가 육계 생산성, 도체특성 및 계육 저장성에 미치는 영향을 조사하기 위하여 실시하였다. 실험 디자인은 2 (기초사료, 저영양사료) x 3 (0, 0.5, 1 g/kg 효소첨가) 요인 배치로 설계하였다. 실험동물은 ross broilers 수컷 360수를 공시하여 다음의 6개의 시험 그룹에 완전임의 배치 하였다. BD-T0(기초사료+복합효소제 0 g/kg), BD-T1(기초사료+복합효소제 0.5 g/kg), BD-T2(기초사료+복합효소제 1 g/kg), LD-T0(저영양사료+복합효소제 0 g/kg), LD-T1(저영양사료+복합효소제 0.5 g/kg), LD-T2(저영양사료+복합효소제 1 g/kg). 사 료와 물은 42일 동안 자유채식을 실시하였으며, 사료섭취량과 체중은 1주 간격으로 측정하였다. 사양시험 종료 후에 방혈로 도살하고 분석에 필요한 시료를 채취하였다. 사료 섭취량은 효소첨가 그룹이 효소 비첨가 그룹에 비해서 유의하게 감소하였 으며, 체중과 일당증체량은 효소첨가 그룹이 효소 비첨가 그룹에 비하여 유의하게 증가하였다. 따라서 사료요구율은 복합효소 첨가에 의해 유의하게 개선되었다(p<0.05). 복합효소첨가 급여에 의하여 도체율과 생산지수 또한 유의하게 개선되었다 (p<0.05). TBARS는 계육 저장 6일차에 효소첨가 그룹이 효소 비첨가 그룹보다 낮은 값을 나타내었다(p<0.05). 본 연구의 결과 를 종합해보면, 사료 내 복합효소제의 첨가 급여는 생산성과 도체성적 그리고 저장성을 유의하게 개선시켰다.
Protection against shark attack in South Africa, 1952-90

Historically, most shark attacks in South Africa have occurred off Natal, where the water is relatively warm and where there are many holiday resorts. The first shark nets were installed in 1952. This, followed by the establishment of the Natal Sharks Board and the widespread installation of shark nets in the 1960s, has reduced the incidence of shark attack considerably. Forty-four kilometres of permanently maintained nets catch an annual average of 1470 sharks and 536 other animals, which are largely dolphins, turtles and rays. The impact of netting on both the species caught and the inshore environment as a whole is not well understood and is a cause for concern. The release from the nets of live animals, including sharks, and the removal of nets during periods of highest catches may reduce such impact. Experiments with an increased mesh size are in progress. Tests of an electrical barrier as an alternative to nets have not been encouraging but are continuing. In the cooler waters to the south of Natal, where there are no shark nets, a marked increase in the number of shark attacks has taken place in recent years. There appear to be no plans to expand the netting operations into those waters.
AUSN: Approximately Uniform Quantization by Adaptively Superimposing Non-uniform Distribution for Deep Neural Networks

Quantization is essential to simplify DNN inference in edge applications. Existing uniform and non-uniform quantization methods, however, exhibit an inherent conflict between the representing range and representing resolution, and thereby result in either underutilized bit-width or significant accuracy drop. Moreover, these methods encounter three drawbacks: i) the absence of a quantitative metric for in-depth analysis of the source of the quantization errors; ii) the limited focus on the image classification tasks based on CNNs; iii) the unawareness of the real hardware and energy consumption reduced by lowering the bit-width. In this paper, we first define two quantitative metrics, i.e., the Clipping Error and rounding error, to analyze the quantization error distribution. We observe that the boundary- and rounding- errors vary significantly across layers, models and tasks. Consequently, we propose a novel quantization method to quantize the weight and activation. The key idea is to Approximate the Uniform quantization by Adaptively Superposing multiple Non-uniform quantized values, namely AUSN. AUSN is consist of a decoder-free coding scheme that efficiently exploits the bit-width to its extreme, a superposition quantization algorithm that can adapt the coding scheme to different DNN layers, models and tasks without extra hardware design effort, and a rounding scheme that can eliminate the well-known bit-width overflow and re-quantization issues. Theoretical analysis~(see Appendix A) and accuracy evaluation on various DNN models of different tasks show the effectiveness and generalization of AUSN. The synthesis~(see Appendix B) results on FPGA show $2\times$ reduction of the energy consumption, and $2\times$ to $4\times$ reduction of the hardware resource.
Variation of Hodge structure and enumerating tilings of surfaces by triangles and squares

Let $S$ be a connected closed oriented surface of genus $g$. Given a triangulation (resp. quadrangulation) of $S$, define the index of each of its vertices to be the number of edges originating from this vertex minus $6$ (resp. minus $4$). Call the set of integers recording the non-zero indices the profile of the triangulation (resp. quadrangulation). If $\kappa$ is a profile for triangulations (resp. quadrangulations) of $S$, for any $m\in \mathbb{Z}_{>0}$, denote by $\mathscr{T}(\kappa,m)$ (resp. $\mathscr{Q}(\kappa,m)$) the set of (equivalence classes of) triangulations (resp. quadrangulations) with profile $\kappa$ which contain at most $m$ triangles (resp. squares). In this paper, we will show that if $\kappa$ is a profile for triangulations (resp. for quadrangulations) of $S$ such that none of the indices in $\kappa$ is divisible by $6$ (resp. by $4$), then $\mathscr{T}(\kappa,m)\sim c_3(\kappa)m^{2g+|\kappa|-2}$ (resp. $\mathscr{Q}(\kappa,m) \sim c_4(\kappa)m^{2g+|\kappa|-2}$), where $c_3(\kappa) \in \mathbb{Q}\cdot(\sqrt{3}\pi)^{2g+|\kappa|-2}$ and $c_4(\kappa)\in \mathbb{Q}\cdot\pi^{2g+|\kappa|-2}$. The key ingredient of the proof is a result of J. Kollar on the link between the curvature of the Hogde metric on vector subbundles of a variation of Hodge structure over algebraic varieties, and Chern classes of their extensions. By the same method, we also obtain the rationality (up to some power of $\pi$) of the Masur-Veech volume of arithmetic affine submanifolds of translation surfaces that are transverse to the kernel foliation.
Asymmetries in Processes of Electron-Positron Annihilation

Processes of electron–positron annihilation into a pair of fermions were considered. Forward–backward and left–right asymmetries were studied, taking into account polarization of initial and final particles. Complete 1-loop electroweak radiative corrections were included. A wide energy range including the Z boson peak and higher energies relevant for future e + e − colliders was covered. Sensitivity of observable asymmetries to the electroweak mixing angle and fermion weak coupling was discussed.
Physico-chemical and rheological properties of prato cheese during ripening

The influence of storage temperature (6, 12 and 18°C) on texture parameters of Prato cheese were evaluated during 22 days of ripening. A reduction of firmness, gumminess and elasticity was observed; however, cohesiveness and adhesiveness increased. With the increasing temperature, firmness and gumminess reduced, whereas the elasticity, cohesiveness and adhesiveness did not change. It can be concluded that storage temperature influences the texture profile of Prato cheese which present differences in the evaluated parameters during 22 days of ripening. Keywords: Cheese ripening, hard cheese, colour, texture profile analysis.
Pelagic species diversity, biogeography, and evolution

Abstract Pelagic (open-ocean) species have enormous population sizes and broad, even global, distributions. These characteristics should damp rates of speciation in allopatric and vicariant evolutionary models since dispersal should swamp diverging populations and prevent divergence. Yet the fossil record suggests that rates of evolutionary turnover in pelagic organisms are often quite rapid, comparable to rates observed in much more highly fragmented terrestrial and shallow-marine environments. Furthermore, genetic and ecological studies increasingly suggest that species diversity is considerably higher in the pelagic realm than inferred from many morphological taxonomies. Zoogeographic evidence suggests that ranges of many pelagic groups are much more limited by their ability to maintain viable populations than by any inability to disperse past tectonic and hydrographic barriers to population exchange. Freely dispersing pelagic taxa resemble airborne spores or wind-dispersed seeds that can drift almost anywhere but complete the entire life cycle only in favorable habitats. It seems likely that vicariant and allopatric models for speciation are far less important in pelagic evolution than sympatric or parapatric speciation in which dispersal is not limiting. Nevertheless, speciation can be quite rapid and involve cladogenesis even in cases where morphological data suggest gradual species transitions. Indeed, recent paleoecological and molecular studies increasingly suggest that classic examples of “phyletic gradualism” involve multiple, cryptic speciation events. Paleoceanographic and climatic change seem to influence rates of turnover by modifying surface water masses and environmental gradients between them to create new habitats rather than by preventing dispersal. Changes in the vertical structure and seasonality of water masses may be particularly important since these can lead to changes in the depth and timing of reproduction. Long-distance dispersal may actually promote evolution by regularly carrying variants of a species across major oceanic fronts and exposing them to very different selection pressures than occur in their home range. High dispersal in pelagic taxa also implies that extinction should be difficult to achieve except though global perturbations that prevent populations from reestablishing themselves following local extinction. High rates of extinction in some pelagic groups suggests either that global perturbations are common, or that the species are much more narrowly adapted than we would infer from current taxonomies.
Lévy Flights in Steep Potential Wells: Langevin Modeling Versus Direct Response to Energy Landscapes

We investigate the non-Langevin relative of the Levy-driven Langevin random system, under an assumption that both systems share a common (asymptotic, stationary, steady-state) target pdf. The relaxation to equilibrium in the fractional Langevin-Fokker-Planck scenario results from an impact of confining conservative force fields on the random motion. A non-Langevin alternative has a built-in direct response of jump intensities to energy (potential) landscapes in which the process takes place. We revisit the problem of Levy flights in superharmonic potential wells, with a focus on the extremally steep well regime, and address the issue of its (spectral) "closeness" to the Levy jump-type process confined in a finite enclosure with impenetrable (in particular reflecting) boundaries. The pertinent random system "in a box/interval" is expected to have a fractional Laplacian with suitable boundary conditions as a legitimate motion generator. The problem is, that in contrast to amply studied Dirichlet boundary problems, a concept of reflecting boundary conditions and the path-wise implementation of the pertinent random process in the vicinity of (or sharply at) reflecting boundaries are not unequivocally settled for Levy processes. This ambiguity extends to fractional motion generators, for which nonlocal analogs of Neumann conditions are not associated with path-wise reflection scenarios at the boundary, respecting the impenetrability assumption.
Unbiased Lift-based Bidding System

Conventional bidding strategies for online display ad auction heavily relies on observed performance indicators such as clicks or conversions. A bidding strategy naively pursuing these easily observable metrics, however, fails to optimize the profitability of the advertisers. Rather, the bidding strategy that leads to the maximum revenue is a strategy pursuing the performance lift of showing ads to a specific user. Therefore, it is essential to predict the lift-effect of showing ads to each user on their target variables from observed log data. However, there is a difficulty in predicting the lift-effect, as the training data gathered by a past bidding strategy may have a strong bias towards the winning impressions. In this study, we develop Unbiased Lift-based Bidding System, which maximizes the advertisers' profit by accurately predicting the lift-effect from biased log data. Our system is the first to enable high-performing lift-based bidding strategy by theoretically alleviating the inherent bias in the log. Real-world, large-scale A/B testing successfully demonstrates the superiority and practicability of the proposed system.
Eternal inflation in light of Wheeler-DeWitt equation

The Wheeler-DeWitt equation provides the probability distribution for the curvature perturbation, the gauge invariant quantum fluctuation of the inflaton. From this, we can find a tower of power spectra which is not found in a perturbative approach. Since the power spectrum for the modes that cross the horizon contributes to the uncertainty in the classical inflaton displacement, we obtain new conditions for eternal inflation. In the presence of the patch in the higher excitations, the bound on the slow-roll parameter allowing eternal inflation is given by at most ϵ ≲ (2n+1)(H/mPl)2 with n integer indicating the quantum number labelling the excitation. For large n, the bound on ϵ is relaxed such that eternal inflation can take place with even larger value of ϵ. While the second law of thermodynamics implies that n=0 state is preferred, we cannot ignore such large n effect since the nonlinear interaction inducing transitions to the n=0 state is suppressed.
Best-First Beam Search

Abstract Decoding for many NLP tasks requires an effective heuristic algorithm for approximating exact search because the problem of searching the full output space is often intractable, or impractical in many settings. The default algorithm for this job is beam search—a pruned version of breadth-first search. Quite surprisingly, beam search often returns better results than exact inference due to beneficial search bias for NLP tasks. In this work, we show that the standard implementation of beam search can be made up to 10x faster in practice. Our method assumes that the scoring function is monotonic in the sequence length, which allows us to safely prune hypotheses that cannot be in the final set of hypotheses early on. We devise effective monotonic approximations to popular nonmonontic scoring functions, including length normalization and mutual information decoding. Lastly, we propose a memory-reduced variant of best-first beam search, which has a similar beneficial search bias in terms of downstream performance, but runs in a fraction of the time.