Miracle-dz/UniFAR-FTUs huggingface dataset:
The Dusty Disk around VV Serpens

We have carried out observations at millimeter and centimeter wavelengths toward VV Ser using the Plateau de Bure Interferometer and the Very Large Array. This allows us to compute the SED from near infrared to centimeter wavelengths. The modeling of the full SED has provided insight into the dust properties and a more accurate value of the disk mass. The mass of dust in the disk around VV Ser is found to be about 4 × 10−5 M☉, i.e., 400 times larger than previous estimates. Moreover, the SED can only be accounted for assuming dust stratification in the vertical direction across the disk. The existence of small grains (0.25-1 μm) in the disk surface is required to explain the emission at near- and mid-infrared wavelengths. The fluxes measured at millimeter wavelengths imply that the dust grains in the midplane have grown up to very large sizes, at least to some centimeters.
Assessment of the best inoculation route for virulotyping Enterococcus cecorum strains in a chicken embryo lethality assay

ABSTRACT The study aim was to determine the best inoculation route for virulotyping Enterococcus cecorum in a chicken embryo lethality assay (ELA). Twenty-eight genetically different strains were used. Fourteen strains were isolated from cloaca swabs of broiler reproduction chickens (cloaca strains) and 14 strains from broilers with E. cecorum lesions (lesion strains). In all ELAs, 12-day incubated embryonated broiler eggs were inoculated with approximately 100 colony-forming units of E. cecorum/egg. Twenty embryos per inoculation route and strain were used in each of three experiments. In Experiment 1, four cloaca and four lesion strains were inoculated via various routes, i.e. albumen, amniotic cavity, allantoic cavity, chorioallantoic membrane, intravenous or air chamber. The albumen inoculation route showed low mortality with cloaca strains, high mortality with lesion strains and the largest difference in mortality between these groups of strains (≥60%). This route was therefore used in subsequent experiments. In Experiment 2, the same strains were used to test reproducibility, which proved to be generally good. All 28 strains were thereafter used in Experiment 3. In the three experiments, mortality caused by cloaca and lesion strains ranged from 0-25% and from 15-100%, respectively. Recovery rates, assessed in all experiments after albumen inoculation, were significantly lower from eggs inoculated with cloaca strains, compared to lesion strain-inoculated eggs (P < 0.05). However, the bacterial load of eggs with positive recovery was similar in both groups. In conclusion, the albumen inoculation route appeared to be the best to virulotype E. cecorum strains. RESEARCH HIGHLIGHTS The albumen route is the best to differentiate between E. cecorum strains. Egg albumen likely affects cloaca E. cecorum strains more than lesion strains. Based on SNPs, E. cecorum cloaca strains are clustered as well as lesions strains.
Simulating ultracold matter: horizons and slow light

This thesis explores the links between di erent ways of modelling the physical world. Finite di erence numerical simulations may be used to encode the behaviour of physical systems, allowing us to gain insight into their workings and even to predict their behaviour. Similarly, one can investigate the properties of gravitational black holes through the use of analogue black holes, physical systems which share at least some part of the physics of the astronomical objects. Concentrating on black hole analogues using Bose-Einstein condensates, I show how simulations of these systems may be greatly assisted through the use of a proper absorbing boundary condition, the Perfectly Matched Layer. Such a boundary condition allows the e cient truncation of the computational domain, both saving computational time and increasing accuracy. I then apply this technique to the simulation of the supersonic ow of a Bose-Einstein condensate through a Laval nozzle, a black hole analogue, showing that such a ow should be stable and observable in the laboratory. Moving to a related system, I investigate the optical analogue of the Iordanskii force the friction resulting from interaction between excitations in a super uid's normal component and a super uid vortex through the simulation of such a vortex in a Bose-Einstein condensate illuminated by slow light, which is light whose group velocity is on the order of metres per second. The interaction of the slow light with the vortex should produce a momentum transfer due to the optical Aharonov-Bohm e ect, exerting a force on the vortex. The coupled system of equations describing the condensate-slow light system is simulated, giving some surprising results.
Influence of GSTM1, T1 genes polymorphisms on oxidative stress and liver enzymes in rural and urban pesticides-exposed workers

Abstract Several studies discussed the relationship between the toxicity of organophosphates (OPs) and carbamates pesticides and oxidative stress which affects human health. This study aimed to evaluate the effects of pesticides on the induction of oxidative stress and hepatotoxicity. It was also focused on glutathione-S-transferase gene polymorphism in the modulation of these effects. In addition, the role of the educational level of exposed workers was studied. Acetylcholinesterase (AChE), butyrylcholinesterase (BuChE), liver enzymes, malondialdehyde (MDA), reduced glutathione (GSH), superoxide dismutase (SOD), and glutathione S transferase (GST) were estimated at 100 pesticide-exposed workers (50 urban researchers (UE) and 50 rural sprayers (RE)), and 100 matched controls (50 urban controls (UC)and 50 rural controls (RC)). AChE and BuChE were decreased in RE and UE compared to RC. Aspartate aminotransferase (AST) and alkaline phosphatase (ALP) activity were elevated in UE and UC compared to the RE and RC. Alanine aminotransferase (ALT) was elevated in UE compared to RE. MDA in RE and UE showed elevation compared to RC. There was a significant reduction in the levels of GSH, GST, and GPx in UE compared to RE and RC. The most sensitive pesticide-induced hepatotoxicity group were exposed workers with the GSTT1 genotype. Within these workers, ALT and ALP were significantly correlated with MDA and inversely correlated with AChE and BuChE, while AST was inversely correlated with AChE and BuChE only in UE. Conclusion: GST gene polymorphisms appeared to have a significant role in workers’ susceptibility to hepatotoxic effects due to occupational exposure to pesticides; GSTT1 was the most sensitive genotype.
The Subaru/XMM-Newton Deep Survey (SXDS). IV. Evolution of Lyα Emitters from z = 3.1 to 5.7 in the 1 deg2 Field: Luminosity Functions and AGN

We present luminosity functions (LFs) and various properties of Lyα emitters (LAEs) at z = 3.1, 3.7, and 5.7, in a 1 deg2 sky of the Subaru/XMM–Newton Deep Survey (SXDS) Field. We obtain a photometric sample of 858 LAE candidates based on deep Subaru Suprime-Cam imaging data and a spectroscopic sample of 84 confirmed LAEs from Subaru FOCAS and VLT VIMOS spectroscopy in a survey volume of ~106 Mpc3 with a limiting Lyα luminosity of ~3 × 1042 ergs s−1. We derive the LFs of the Lyα and UV continuum (≃1500 Å) for each redshift, taking into account the statistical error and the field-to-field variation. We find that the apparent Lyα LF shows no significant evolution between z = 3.1 and 5.7 within factors of 1.8 and 2.7 in L* and φ*, respectively. On the other hand, the UV LF of LAEs increases from z = 3.1 to 5.7, indicating that galaxies with Lyα emission are more common at earlier epochs. We identify six LAEs with AGN activities from our spectra combined with VLA, Spitzer, and XMM-Newton data. Among the photometrically selected LAEs at z = 3.1 and 3.7, only ≃1% show AGN activities, while the brightest LAEs with log L(Ly α) ≳ 43.4–43.6 ergs s−1 appear to always host AGNs. Our LAEs are bluer in UV-continuum color than dropout galaxies, suggesting lower extinction and/or younger stellar populations. Our stacking analyses provide upper limits to the radio luminosity and the fHe II/fLyα line fraction and constrain the hidden star formation (+low-luminosity AGN) and the primordial population in LAEs.
Thermal Properties of Materials from Ab Initio Quasi-Harmonic Phonons

Computer simulations allow for the investigation of many materials properties and processes that are not easily accessible in the laboratory. This is particularly true in the Earth sciences, where the relevant pressures and temperatures may be so extreme that no experimental techniques can operate at those conditions. Computer modeling is often the only source of information on the properties of materials that, combined with indirect evidence (such as seismic data), allows one to discriminate among competing planetary models. Many computer simulations are performed using effective inter-atomic potentials tailored to reproduce some experimentally observed properties of the materials being investigated. The remoteness of the physically interesting conditions from those achievable in the laboratory, as well as the huge variety of different atomic coordination and local chemical state occurring in the Earth interior, make the dependability of semi-empirical potentials questionable. First-principles techniques based on density-functional theory (DFT) (Hohenberg and Kohn 1964; Kohn and Sham 1965) are much more predictive, not being biased by any prior experimental input, and have demonstrated a considerable accuracy in a wide class of materials and variety of external conditions. The importance of thermal effects in the range of phenomena interesting to the Earth sciences makes a proper account of atomic motion essential. Traditionally, this is achieved using molecular dynamics techniques which have been successfully combined with DFT in the first-principles molecular dynamics technique of Car and Parrinello (1985). Well below the melting temperature, the numerical efficiency of molecular dynamics is limited by the lack of ergodicity, which would require
A QUASAR CATALOG WITH SIMULTANEOUS UV, OPTICAL, AND X-RAY OBSERVATIONS BY SWIFT

We have compiled a catalog of optically selected quasars with simultaneous observations in UV/optical and X-ray bands by the Swift Gamma-ray Burst Explorer. Objects in this catalog are identified by matching the Swift pointings with the Sloan Digital Sky Survey Data Release 5 quasar catalog. The final catalog contains 843 objects, among which 637 have both Ultraviolet Optical Telescope (UVOT) and X-Ray Telescope (XRT) observations and 354 of which are detected by both instruments. The overall X-ray detection rate is ∼60% which rises to ∼85% among sources with at least 10 ks of XRT exposure time. We construct the time-averaged spectral energy distribution (SED) for each of the 354 quasars using UVOT photometric measurements and XRT spectra. From model fits to these SEDs, we find that the big blue bump contributes about ∼0.3 dex to the quasar luminosity. We re-visit the αox–L2500 Å relation by selecting a clean sample with only Type 1 radio-quiet quasars; the dispersion of this relation is reduced by at least 15% compared with studies that use non-simultaneous UV/optical and X-ray data. We only found a weak correlation between Lbol/LEdd and αUV. We do not find significant correlations between αx and αox, αox and αUV, and αx and log L(0.3–10 keV). The correlations between αUV and αx, αox and αx, αox and αUV, Lbol/LEdd and αx, and Lbol/LEdd and αox are stronger among low-redshift quasars, indicating that these correlations are likely driven by the changes of SED shape with accretion state.
A RETROSPECTIVE ANALYSIS OF MORBIDITY AND MORTALITY IN CAPTIVE BLUE-CROWNED LAUGHING THRUSHES (PTERORHINUS COURTOISI): 1998–2018

Abstract: The blue-crowned laughingthrush (BCLT) (Pterorhinus courtoisi) is a species of critically endangered passerine that is part of a Global Species Management Plan and experiences high mortality rates in some collections. Complete necropsy and medical records from 15 European institutions that housed BCLT between 1998 and 2018 were assessed to evaluate morbidity and mortality in the captive population. Medical records for 407 BCLT were received; a total of 191 morbidity events were recorded from 111 individual BCLT. The most common cause of morbidity was coccidial disease, including systemic isosporosis (30.4%, n = 58). Age was a significant factor contributing to mortality, with 53% of deaths occurring between 0 and 14 d old and 78% by 1 yr of age. The most common cause of death was trauma (22.8%, n = 31), followed by systemic isosporosis (22%, n = 30). Of the 343 deceased birds for which records were provided, 50.4% had a necropsy performed and 40.5% had histopathology carried out postmortem. Based on these findings, BCLT should be managed carefully to mitigate risk of trauma, and screening for isosporosis should be performed. Institutions should carry out standardized necropsies and histopathology on every BCLT that dies in their collection to elucidate the etiology of disease in this critically endangered species.
Population Characteristics of Brook Trout in Idaho Streams and Alpine Lakes

Abstract In western North America, nonnative brook trout (Salvelinus fontinalis) frequently threaten native salmonids via competition and hybridization, so fisheries managers often implement eradication programs for conservation purposes. In conjunction with such programs, managers often construct population models to evaluate the effects of different management strategies designed to control the undesirable population, but such models require demographic data (e.g., age, growth, sex ratios, and survival), which are lacking for western brook trout populations. Brook trout were sampled from 12 alpine lakes and two streams in Idaho, with total length varying from 80 to 380 mm and age varying from 1 to 11 yrs. Across all waters, the von Bertalanffy growth parameters L∞ varied from 231 to 490 mm (mean = 345 mm) and K varied from 0.15 to 0.76 (mean = 0.37). Survival estimates, constructed from age-length keys, were corrected for streams with mark-recapture data; for alpine lakes, corrections were made via gill net selectivity data. Survival varied from 0.30 to 0.56 (mean = 0.45), and except for one waterbody, estimates were minimally affected by correcting for capture efficiency. The proportion of the population that was male varied from 0.34 to 0.75 (mean = 0.53). Our results indicate that brook trout population vital rates in Idaho were similar to those observed in their native range, and were surprisingly similar between alpine lake and stream environments.
NEAR-INFRARED EXTINCTION DUE TO COOL SUPERNOVA DUST IN CASSIOPEIA A

We present the results of extinction measurements toward the main ejecta shell of the Cassiopeia A supernova (SN) remnant using the flux ratios between the two near-infrared (NIR) [Fe ii] lines at 1.26 and 1.64 μm. We find a clear correlation between the NIR extinction ( E ( J − H ) ? > ) and the radial velocity of ejecta knots, showing that redshifted knots are systematically more obscured than blueshifted ones. This internal “self-extinction” strongly indicates that a large amount of SN dust resides inside and around the main ejecta shell. At one location in the southern part of the shell, we measure E ( J − H ) ? > by the SN dust of 0.23 ± 0.05 mag. By analyzing the spectral energy distribution of thermal dust emission at that location, we show that there are warm (∼100 K) and cool (∼40 K) SN dust components and that the latter is responsible for the observed E ( J − H ) ? > . We investigate the possible grain species and size of each component and find that the warm SN dust needs to be silicate grains such as MgSiO3, Mg2SiO4, and SiO2, whereas the cool dust could be either small (≲0.01 μm) Fe or large (≳0.1 μm) Si grains. We suggest that the warm and cool dust components in Cassiopeia A represent grain species produced in diffuse SN ejecta and in dense ejecta clumps, respectively.
YERSINIA PSEUDOTUBERCULOSIS INFECTION IN LIONS (PANTHERA LEO) AT A ZOOLOGICAL PARK

Abstract: Two co-housed 17-yr-old male lions (Panthera leo) and one 15-yr-old female lion in an adjacent enclosure developed acute lethargy, depression, anorexia, and ataxia at a zoological park in central North Carolina, United States. One of the male lions and the female lion were found dead 5 and 4 d after the onset of clinical signs, respectively. The other male lion recovered without any clinical treatment. A third male lion housed with the female lion never developed clinical signs. Postmortem examination, microscopic evaluation, and bacterial culture of the liver from both deceased lions confirmed systemic Yersinia pseudotuberculosis infection. Susceptibility testing revealed resistance to amoxicillin–clavulanic acid and cefazolin. To investigate the extent of the outbreak, qualitative real-time polymerase chain reaction (PCR) for Y. pseudotuberculosis was performed on feces and substrate from 15 enclosures housing nondomestic felids and canids, resulting in a positive sample from one enclosure housing four asymptomatic lions. This enclosure was adjacent to housing of the deceased female lion. Enrofloxacin was administered to all animals in the vicinity at doses of 5 mg/kg in nondomestic felids and 10 mg/kg in nondomestic canids, orally q24h for 14 d. Repeated fecal PCR performed 1 wk after completing the antibiotic treatment protocol found no positive samples. The source of the infection was not identified despite PCR testing of environmental samples from all enclosures in the vicinity, the remains of a prey item fed out prior to the outbreak, and a single dead rodent found on grounds. No further clinical cases have occurred within the following year.
THE GALFA-Hi SURVEY: DATA RELEASE 1

We present the Galactic Arecibo L-Band Feed Array H i (GALFA-H i) survey and its first full data release (DR1). GALFA-H i is a high-resolution (∼4′), large-area (13,000 deg2), high spectral resolution (0.18 km s-1), and wide band (−700 km s−1 < vLSR < +700 km s-1) survey of the Galactic interstellar medium in the 21 cm line hyperfine transition of neutral hydrogen conducted at Arecibo Observatory. Typical noise levels are 80 mK rms in an integrated 1 km s-1 channel. GALFA-H i is a dramatic step forward in high-resolution, large-area Galactic H i surveys, and we compare GALFA-H i to past, present, and future Galactic H i surveys. We describe in detail new techniques we have developed to reduce these data in the presence of fixed pattern noise, gain variation, and inconsistent beam shapes, and we show how we have largely mitigated these effects. We present our first full data release, covering 7520 deg2 of sky and representing 3046 hr of integration time, and discuss the details of these data.
Promoting Entry and Efficiency via Reserve Prices

: Reserve prices are used by sellers to modify the allocation induced by standard auctions. The existing literature has shown that, if the number of bidders is ﬁxed, a reserve price can be used to increase expected revenues. This comes at the expense of efﬁciency when the auctioned good goes unsold. Instead, when the number of bidders is not ﬁxed, a reserve price may discourage entry. The reduction in the number of bidders caused by the reserve price in this situation is detrimental for both revenues and efﬁciency. This work shows that a different conclusion may emerge when potential entrants arrive sequentially and face the risk of incurring losses conditional on winning the object on sale. In fact, we show that reserve prices may lead to more entry and raise the efﬁciency. Applications characterized by the presence of an incumbent who is better informed about some common characteristics of the object for sale may yield the type of features that are needed for our different conclusion to hold.
Artificial intelligence and radiomics: fundamentals, applications, and challenges in immunotherapy

Immunotherapy offers the potential for durable clinical benefit but calls into question the association between tumor size and outcome that currently forms the basis for imaging-guided treatment. Artificial intelligence (AI) and radiomics allow for discovery of novel patterns in medical images that can increase radiology’s role in management of patients with cancer, although methodological issues in the literature limit its clinical application. Using keywords related to immunotherapy and radiomics, we performed a literature review of MEDLINE, CENTRAL, and Embase from database inception through February 2022. We removed all duplicates, non-English language reports, abstracts, reviews, editorials, perspectives, case reports, book chapters, and non-relevant studies. From the remaining articles, the following information was extracted: publication information, sample size, primary tumor site, imaging modality, primary and secondary study objectives, data collection strategy (retrospective vs prospective, single center vs multicenter), radiomic signature validation strategy, signature performance, and metrics for calculation of a Radiomics Quality Score (RQS). We identified 351 studies, of which 87 were unique reports relevant to our research question. The median (IQR) of cohort sizes was 101 (57–180). Primary stated goals for radiomics model development were prognostication (n=29, 33.3%), treatment response prediction (n=24, 27.6%), and characterization of tumor phenotype (n=14, 16.1%) or immune environment (n=13, 14.9%). Most studies were retrospective (n=75, 86.2%) and recruited patients from a single center (n=57, 65.5%). For studies with available information on model testing, most (n=54, 65.9%) used a validation set or better. Performance metrics were generally highest for radiomics signatures predicting treatment response or tumor phenotype, as opposed to immune environment and overall prognosis. Out of a possible maximum of 36 points, the median (IQR) of RQS was 12 (10–16). While a rapidly increasing number of promising results offer proof of concept that AI and radiomics could drive precision medicine approaches for a wide range of indications, standardizing the data collection as well as optimizing the methodological quality and rigor are necessary before these results can be translated into clinical practice.
A VARIABLE MID-INFRARED SYNCHROTRON BREAK ASSOCIATED WITH THE COMPACT JET IN GX 339–4

Many X-ray binaries remain undetected in the mid-infrared, a regime where emission from their compact jets is likely to dominate. Here, we report the detection of the black hole binary GX 339–4 with the Wide-field Infrared Survey Explorer (WISE) during a very bright, hard accretion state in 2010. Combined with a rich contemporaneous multiwavelength data set, clear spectral curvature is found in the infrared, associated with the peak flux density expected from the compact jet. An optically thin slope of ∼ −0.7 and a jet radiative power of >6 × 1035 erg s−1 (d/8 kpc)2 are measured. A ∼24 hr WISE light curve shows dramatic variations in mid-infrared spectral slope on timescales at least as short as the satellite orbital period ∼95 minutes. There is also significant change during one pair of observations spaced by only 11 s. These variations imply that the spectral break associated with the transition from self-absorbed to optically thin jet synchrotron radiation must be varying across the full wavelength range of ∼3–22 μm that WISE is sensitive to, and more. Based on four-band simultaneous mid-infrared detections, the break is constrained to frequencies of ≈4.6+3.5− 2.0 × 1013 Hz in at least two epochs of observation, consistent with a magnetic field B ≈ 1.5(± 0.8) × 104 G assuming a single-zone synchrotron emission region. The observed variability implies that either B or the size of the acceleration zone above the jet base is being modulated by factors of ∼10 on relatively short timescales.