Miracle-dz/UniFAR-FTUs huggingface dataset:
Mesothelial fusion mediates chorioallantoic membrane formation

In amniotic vertebrates (birds, reptiles and mammals), an extraembryonic structure called the chorioallantoic membrane (CAM) functions as respiratory organ for embryonic development. The CAM is derived from fusion between two pre-existing membranes, the allantois, a hindgut diverticulum and a reservoir for metabolic waste, and the chorion which marks the embryo's external boundary. Modified CAM in eutherian mammals, including humans, gives rise to chorioallantoic placenta. Despite its importance, little is known about cellular and molecular mechanisms mediating CAM formation and maturation. In this work, using the avian model, we focused on the early phase of CAM morphogenesis when the allantois and chorion meet and initiate fusion. We report here that chicken chorioallantoic fusion takes place when the allantois reaches the size of 2.5–3.0 mm in diameter and in about 6 hours between E3.75 and E4. Electron microscopy and immunofluorescence analyses suggested that before fusion, in both the allantois and chorion, an epithelial-shaped mesothelial layer is present, which dissolves after fusion, presumably by undergoing epithelial–mesenchymal transition. The fusion process per se, however, is independent of allantoic growth, circulation, or its connection to the developing mesonephros. Mesoderm cells derived from the allantois and chorion can intermingle post-fusion, and chorionic ectoderm cells exhibit a specialized sub-apical intercellular interface, possibly to facilitate infiltration of allantois-derived vascular progenitors into the chorionic ectoderm territory for optimal oxygen transport. Finally, we investigated chorioallantoic fusion-like process in primates, with limited numbers of archived human and fresh macaque samples. We summarize the similarities and differences of CAM formation among different amniote groups and propose that mesothelial epithelial–mesenchymal transition mediates chorioallantoic fusion in most amniotic vertebrates. Further study is needed to clarify tissue morphogenesis leading to chorioallantoic fusion in primates. Elucidating molecular mechanisms regulating mesothelial integrity and epithelial-mesenchymal transition will also help understand mesothelial diseases in the adult, including mesothelioma, ovarian cancer and fibrosis. This article is part of the theme issue ‘Extraembryonic tissues: exploring concepts, definitions and functions across the animal kingdom’.
Global optimization in inverse problems: A comparison of Kriging and radial basis functions

We study global optimization (GOP) in the framework of non-linear inverse problems with a unique solution. These problems are in general ill-posed. Evaluation of the objective function is often expensive, as it implies the solution of a non-trivial forward problem. The ill-posedness of these problems calls for regularization while the high evaluation cost of the objective function can be addressed with response surface techniques. The global optimization using Radial Basis Function (RBF) as presented by Gutmann (2001) is a response surface global optimization technique with regularizing aspects. Alternatively, several publications put forward global optimization using a probabilistic approach based upon Kriging as an efficient technique for non-linear multi modal objective functions, thereby providing a credible stopping rule (Jones2001). After comparing both concepts, we argue that in case of non-linear inverse problems an adaptation of the RBF algorithm seems to be the most promising approach.
How two extraembryonic epithelia became one: serosa and amnion features and functions of Drosophila's amnioserosa

The conservation of gene networks that specify and differentiate distinct tissues has long been a subject of great interest to evolutionary developmental biologists, but the question of how pre-existing tissue-specific developmental trajectories merge is rarely asked. During the radiation of flies, two extraembryonic epithelia, known as serosa and amnion, evolved into one, called amnioserosa. This unique extraembryonic epithelium is found in fly species of the group Schizophora, including the genetic model organism Drosophila melanogaster, and has been studied in depth. Close relatives of this group develop a serosa and a rudimentary amnion. The scuttle fly Megaselia abdita has emerged as an excellent model organism to study this extraembryonic tissue organization. In this review, development and functions of the extraembryonic tissue complements of Drosophila and Megaselia are compared. It is concluded that the amnioserosa combines cells, genetic pathway components and functions that were previously associated either with serosa development or amnion development. The composite developmental trajectory of the amnioserosa raises the question of whether merging tissue-specific gene networks is a common evolutionary process. This article is part of the theme issue ‘Extraembryonic tissues: exploring concepts, definitions and functions across the animal kingdom’.
The mouse allantois: new insights at the embryonic–extraembryonic interface

During the early development of Placentalia, a distinctive projection emerges at the posterior embryonic–extraembryonic interface of the conceptus; its fingerlike shape presages maturation into the placental umbilical cord, whose major role is to shuttle fetal blood to and from the chorion for exchange with the mother during pregnancy. Until recently, the biology of the cord's vital vascular anlage, called the body stalk/allantois in humans and simply the allantois in rodents, has been largely unknown. Here, new insights into the development of the mouse allantois are featured, from its origin and mechanism of arterial patterning through its union with the chorion. Key to generating the allantois and its critical functions are the primitive streak and visceral endoderm, which together are sufficient to create the entire fetal–placental connection. Their newly discovered roles at the embryonic–extraembryonic interface challenge conventional wisdom, including the physical limits of the primitive streak, its function as sole purveyor of mesoderm in the mouse, potency of visceral endoderm, and the putative role of the allantois in the germ line. With this working model of allantois development, understanding a plethora of hitherto poorly understood orphan diseases in humans is now within reach. This article is part of the theme issue ‘Extraembryonic tissues: exploring concepts, definitions and functions across the animal kingdom’.
North Carolina LGBTQ Domestic Violence Response Initiative: Building Capacity to Provide Safe, Affirming Services

Intimate partner violence (IPV) is as prevalent or more so as reported by lesbian, gay, bisexual, transgender, and queer (LGBTQ) individuals compared with non-LGBTQ individuals. Yet largely due to prior harmful and nonaffirming experiences with service providers, they are reluctant to seek services from domestic violence service providers (DVSP). These factors, combined with the reality that those who do seek services may not be provided with safe, affirming, and effective responses, exacerbate the impact of IPV on LGBTQ health and recovery. The North Carolina (NC) LGBTQ Domestic Violence Response Initiative (NC Initiative) was developed to increase DVSP capacity to serve LGBTQ survivors. This article describes the first four phases of the Initiative’s development: (1) formative focus group research with DVSPs statewide, identifying agencies’ interest in improving their responses to LGBTQ survivors; (2) Initiative launch, including funding and identification of partners; (3) development of capacity assessment tools; and (4) review of baseline capacity assessment findings. The development of tools, specifically designed to assess capacity of DVSPs to serve LGBTQ survivors, is a unique contribution as no tools existed to do so. The common capacity-building needs and data-informed recommendations identified provide a starting point for agencies expanding into LGBTQ-focused work, who may not have the benefit of grant funding, tools, or evaluators to assist. Our findings, lessons learned, and tools may be used by agencies to evaluate and inform their own practices, thereby creating safer, more affirming agencies that are capable provide effective care to meet unique needs of LGBTQ survivors.
Diphoton excess in phenomenological spin-2 resonance scenarios

We provide a possible explanation of a 750 GeV diphoton excess recently reported by both the ATLAS and CMS collaborations in the context of phenomenological spin-2 resonance scenarios, where the independent effective couplings of the resonance with gluons, quarks and photons are considered. We find a parameter region where the excess can be accounted for without conflicting with dijet constraints. We also show that the kinematical distributions might help to determine the couplings to gluons and quarks.
Neglected impacts of patient decision-making associated with genetic testing

Abstract We highlight non-health-related impacts associated with genetic testing (GT) and knowing one’s genetic status so that health technology assessment (HTA) analysts and HTA audiences may more appropriately consider the pros and cons of GT. Whereas health-related impacts of GT (e.g., increased healthy behaviors and avoidance of harms of unnecessary treatment) are frequently assessed in HTA, some non-health-related impacts are less often considered and are more difficult to measure. This presents a challenge for accurately assessing whether a genetic test should be funded. In health systems where HTA understandably places emphasis on measurable clinical outcomes, there is a risk of creating a GT culture that is pro-testing without sufficient recognition of the burdens of GT. There is also a risk of not funding a genetic test that provides little clinical benefit but nonetheless may be seen by some as autonomy enhancing. The recent development of expanded HTA frameworks that include ethics analyses helps to address this gap in the evidence and bring awareness to non-health-related impacts of GT. The HTA analyst should be aware of these impacts, choose appropriate frameworks for assessing genetic tests, and use methods for evaluating impacts. A new reporting tool presented here may assist in such evaluations.
VLT observations of the two Fermi pulsars PSR J1357-6429 and PSR J1048-5832

Optical observations of pulsars are crucial to study the neutron star properties, from the structure and composition of the interior, to the properties and geometry of the magnetosphere. Historically, X and gamma-ray observations have paved the way to the pulsar optical identifications. The launch of Fermi opened new perspectives in the optical-to-gamma-ray studies of neutron stars, with the detection of more than 80 pulsars. Here, we aim to search for optical emission from two Fermi pulsars which are interesting targets on the basis of their spin-down age, energetics, and distance: PSR J1357-6429and PSR J1048-5832. The two pulsars and their pulsar wind nebulae (PWNe) are also detected in X-rays by Chandra and XMM. No deep optical observations of these two pulsars have been reported so far. We used multi-band optical images (V,R,I) taken with the VLT and available in the European Southern Observatory (ESO) archive to search for, or put tight constraints to, their optical emission. We re-assessed the positions of the two pulsars from the analyses of all the available Chandra observations and the comparison with the published radio coordinates. For PSR J1357-6429, this yielded a tentative proper motion mu=0.17+/-0.055 "/yr (70+/-15 deg position angle). We did not detect candidate counterparts to PSR J1357-6429 and PSR J1048-5832 down to V~27 and ~27.6, respectively, although for the former we found a possible evidence for a faint, unresolved object at the Chandra position. Our limits imply an efficiency in converting spin-down power into optical luminosity <7x10^{-7} and <6x10^{-6}, respectively, possibly close to that of the Vela pulsar.
First results of Coherent Ionospheric Doppler Receiver measurements over Egypt

This paper presents the first results of total electron content (TEC) measurements over Egypt taken by UHF/VHF receivers. Such ionospheric measurements over the Middle East and north Africa have been previously unable to the scientific community but are now available for ionospheric studies. In particular, these receivers are well situated to study the northern peak of the equatorial anomaly. This initial study examines the behavior of the equatorial anomaly during a weak magnetic storm of 12 July 2008. The response of the northern equatorial anomaly crest is examined during the storm time, using the TEC measurements from the Coherent Ionospheric Doppler Receivers (CIDR) at Helwan, Egypt (29.8641°N, 31.3172°E). Particular attention is shown to diurnal changes in the crest structure and its response to the minor magnetic storm.
The fast molecular outflow in the Seyfert galaxy IC 5063 as seen by ALMA

We use high-resolution (0.5 arcsec) CO(2−1) observations performed with the Atacama Large Millimetre/submillimetre Array to trace the kinematics of the molecular gas in the Seyfert 2 galaxy IC 5063. The data reveal that the kinematics of the gas is very complex. A fast outflow of molecular gas extends along the entire radio jet (∼1 kpc), with the highest outflow velocities about 0.5 kpc from the nucleus, at the location of the brighter hot spot in the western lobe. The ALMA data show that a massive, fast outflow with velocities up to 650 km s −1 of cold molecular gas is present, in addition to the outflow detected earlier in warm H2 ,H i and ionized gas. All phases of the gas outflow show similar kinematics. IC 5063 appears to be one of the best examples of the multi-phase nature of AGN-driven outflows. Both the central AGN and the radio jet could energetically drive the outflow, however, the characteristics of the outflowing gas point to the radio jet being the main driver. This is an important result because IC 5063, although one of the most powerful Seyfert galaxies, is a relatively weak radio source (P1.4 GHz = 3 × 10 23 WH z −1 ). All the observed characteristics can be described by a scenario of a radio plasma jet expanding into a clumpy medium, interacting directly with the clouds and inflating a cocoon that drives a lateral outflow into the interstellar medium. This model is consistent with results obtained by recent simulations. A stronger, direct interaction between the jet and a gas cloud is present at the location of the brighter western lobe. This interaction may also be responsible for the asymmetry in the radio brightness of the two lobes. Even assuming the most conservative values for the conversion factor CO-to-H2, we find that the mass of the outflowing gas is between 1. 9a nd 4.8 × 10 7 M� , of which between 0.5
Spectroscopic identification of a redshift 1.55 supernova host galaxy from the Subaru Deep Field Supernova Survey

Context: The Subaru Deep Field (SDF) Supernova Survey discovered 10 Type Ia supernovae (SNe Ia) in the redshift range 1.5<z<2.0, as determined solely from photometric redshifts of the host galaxies. However, photometric redshifts might be biased, and the SN sample could be contaminated by active galactic nuclei (AGNs). Aims: We aim to obtain the first robust redshift measurement and classification of a z > 1.5 SDF SN Ia host galaxy candidate Methods: We use the X-shooter (U-to-K-band) spectrograph on the Very Large Telescope to allow the detection of different emission lines in a wide spectral range. Results: We measure a spectroscopic redshift of 1.54563 +/- 0.00027 of hSDF0705.25, consistent with its photometric redshift of 1.552 +/- 0.018. From the strong emission-line spectrum we rule out AGN activity, thereby confirming the optical transient as a SN. The host galaxy follows the fundamental metallicity relation defined in Mannucci et al. (2010, 2011) showing that the properties of this high-redshift SN Ia host galaxy is similar to other field galaxies. Conclusions: Spectroscopic confirmation of additional SDF SN hosts would be required to confirm the cosmic SN rate evolution measured in the SDF.
Quantum corrections to N=2 Chern-Simons theories with flavor and their AdS4 duals

We add fundamental flavors to N=2 Chern-Simons-matter theories living on M2 branes probing a Calabi-Yau four-fold singularity. This is dual, in the 't Hooft limit described by IIA string theory, to the introduction of supersymmetric D6 branes wrapping AdS4 and a 3-cycle of the internal manifold. The resulting Chern-Simons theories remain conformally invariant, corresponding to the fact that the D6 branes lift to pure geometry in M-theory. The determination of the moduli space relies crucially on the 1-loop contributions to charges and OPE's of monopole operators in these field theories. The general picture is determined for non-chiral and chiral flavors, and is illustrated in several examples.
Evaluating strong measurement noise in data series with simulated annealing method

Many stochastic time series can be described by a Langevin equation composed of a deterministic and a stochastic dynamical part. Such a stochastic process can be reconstructed by means of a recently introduced nonparametric method, thus increasing the predictability, i.e. knowledge of the macroscopic drift and the microscopic diffusion functions. If the measurement of a stochastic process is affected by additional strong measurement noise, the reconstruction process cannot be applied. Here, we present a method for the reconstruction of stochastic processes in the presence of strong measurement noise, based on a suitably parametrized ansatz. At the core of the process is the minimization of the functional distance between terms containing the conditional moments taken from measurement data, and the corresponding ansatz functions. It is shown that a minimization of the distance by means of a simulated annealing procedure yields better results than a previously used Levenberg-Marquardt algorithm, which permits a rapid and reliable reconstruction of the stochastic process.
Oscillating Casimir force of trapped Bose gas in electromagnetic field

In this study, we consider motion of the massive and charged Bose gas trapped in electric and magnetic fields between two parallel plates in the $x-y$ plane that are separated by a distance $d$ in the $z$ direction. We derive analytical expression of the grand canonical potential of the quantum particles by using of Ketterle and van Druten approximation. By evaluating canonical potential, we obtain Casimir potential and force at the Bose-Einstein condensation temperature $T_{c}$. We also show that Casimir force oscillates depends on distance $d$ for fixed parameters.
Agglomerative percolation on the Bethe lattice and the triangular cactus

Agglomerative percolation (AP) on the Bethe lattice and the triangular cactus is studied to establish the exact mean-field theory for AP. Using the self-consistent simulation method based on the exact self-consistent equations, the order parameter P∞ and the average cluster size S are measured. From the measured P∞ and S, the critical exponents βk and γk for k = 2 and 3 are evaluated. Here, βk and γk are the critical exponents for P∞ and S when the growth of clusters spontaneously breaks the Zk symmetry of the k-partite graph. The obtained values are β2 = 1.79(3), γ2 = 0.88(1), β3 = 1.35(5) and γ3 = 0.94(2). By comparing these exponents with those for ordinary percolation (β∞ = 1 and γ∞ = 1), we also find β∞ < β3 < β2 and γ∞ > γ3 > γ2. These results quantitatively verify the conjecture that the AP model belongs to a new universality class if the Zk symmetry is broken spontaneously, and the new universality class depends on k.
Empirical likelihood based inference under complex sampling designs

The approach proposed gives design-consistent estimators of parameters which are solutions of estimating equations (e.g. averages, totals, quantiles, correlation, (non)linear regression parameters). It can be used to construct confidence intervals without variance estimates. These confidence intervals are not based on the normality of the point estimator. Linearisation, re-sampling (jackknife or bootstrap) or joint-inclusion probabilities are not necessary, even when the parameter of interest is not linear. This approach gives consistent confidence intervals even when the sampling distribution is skewed (e.g. with domains or with outlying values), or when linearisation gives biased variance estimates. The proposed approach can be used to estimate generalised regression parameters (e.g. logistic regression) and to test if they are significant, under a design-based approach. The auxiliary information is naturally taken into account, without the need of a calibration distance function. The empirical likelihood approach is a design-based approach. A super-population model is not necessary. The empirical likelihood approach proposed is different from the pseudoempirical likelihood approach
Direct Comparison of Distant Optical Lattice Clocks at the 10-16 Uncertainty

Fiber-based remote comparison of 87Sr lattice clocks in 24 km distant laboratories is demonstrated. The instability of the comparison reaches 5×10-16 over an averaging time of 1000 s, which is two orders of magnitude shorter than that of conventional satellite links and is limited by the instabilities of the optical clocks. By correcting the systematic shifts that are predominated by the differential gravitational redshift, the residual fractional difference is found to be (1.0±7.3)×10-16, confirming the coincidence between the two clocks. The accurate and speedy comparison of distant optical clocks paves the way for a future optical redefinition of the second.
NY Serpentis: SU UMa-Type Nova in the Period Gap with Diversity of Normal Outbursts

We present photometric study of NY Ser, an in-the-gap SU UMa-type nova, in 2002 and 2013. We determined the duration of the superoutburst and the mean superhump period to be 18 d and 0.10458 d, respectively. We detected in 2013 that NY Ser showed two distinct states separated by the superoutburst. A state of rather infrequent normal outbursts lasted at least 44 d before the superoutburst and a state of frequent outbursts started immediately after the superoutburst and lasted at least for 34 d. Unlike a typical SU UMa star with bimodal distribution of the outbursts duration, NY Ser displayed a diversity of normal outbursts. In the state of infrequent outbursts, we detected a wide ~12 d outburst accompanied by 0.098 d orbital modulation but without superhumps ever established in NY Ser. We classified this as the "wide normal outburst". The orbital period dominated both in quiescence and during normal outbursts in this state. In the state of the most frequent normal outbursts, the 0.10465 d positive superhumps dominated and co-existed with the orbital modulation. In 2002 we detected the normal outburst of "intermediate" 5-6 d duration that was also accompanied by orbital modulations.