Miracle-dz/UniFAR-FTUs huggingface dataset:
Hard X-ray emission from extragalactic IRAS 12um sources: constraints on the unified AGN model and the synthesis of the X-ray background

We analyze the $2-10$~keV X-ray emission of complete samples of AGN and galaxies selected at 12$\mu$m and recently compiled by Rush, Malkan \& Spinoglio (1993). As a necessary complement we also study the IR emissivity of the largest sample of hard X--ray selected AGN (Grossan 1992). Our purposes are to probe the unified scheme of active nuclei and to evaluate the local X--ray volume emissivity of low luminosity and `hidden' AGN. We confirm that X-ray emission is basically restricted to AGN, Seyfert 1's being much more powerful emitters than Seyfert 2's. We find no signal of X-ray emission for the remaining galaxies selected at $12\mu$m, not even for those having a flat far-infrared spectrum, which would be prime candidates to host hidden AGN. Our result on the local volume emissivity of the Seyfert 1's is fully consistent with those derived from studies of the hard X--ray luminosity function. However the 95$\%$ upper limits to the local emissivity we derive for the Seyfert 2 class and for the most likely `hidden' AGN candidates, severely constrain (and in some cases exclude) models of the X--ray background based on the unified Seyfert scheme. We also find that less than $\sim20$\% of Seyfert 1-like AGN and less than $\sim 50$\% of Seyfert 2-like AGN can be `hidden' in the non-Seyfert galaxy samples assuming that the X-ray to 12$\mu$m flux ratios measured in the 12$\mu$m selected samples can be considered typical for these classes of objects. In this case, the number ratio of Seyfert 2 to Seyfert 1 galaxies ranges from 1 to 2.
The Flattened Dark Halo of Polar Ring Galaxy NGC 4650A: A Conspiracy of Shapes?

Kinematics and photometry of the polar ring galaxy NGC 4650A, including new observations of the rotation and velocity dispersion of its central stellar disk, are used to infer the presence of a dark matter halo and to measure its shape. Fits to the observed disk and polar ring rotation curves from detailed mass and photometric modeling rule out a spherical dark halo. The best fit models have halos with isodensity surfaces that are flattened to a shape between E6 and E7 (axis ratios between 0.4 and 0.3); the asymptotic equatorial speeds of these models are in excellent agreement with the I-band Tully-Fisher relation. This degree of dark halo flattening is larger than that expected from N-body collapse simulations of dissipationless dark matter. Since the kinematics and surface brightness profile of the central luminous body indicate that its light has an intrinsic axis ratio $c/a \lsim 0.4$, in NGC 4650A the radial ``conspiracy" between the dark and luminous components that leads to flat rotation curves may extend to the {\it shape} of the mass distribution as well.
Atomic data for astrophysics. II. New analytic fits for photoionization cross sections of atoms and ions

We present a complete set of analytic fits to the nonrelativistic photoionization cross sections for the ground states of atoms and ions of elements from H through Si, and S, Ar, Ca, and Fe. Near the ionization thresholds, the fits are based on the Opacity Project theoretical cross sections interpolated and smoothed over resonances. At higher energies, the fits reproduce calculated Hartree-Dirac-Slater photoionization cross sections. {copyright} {ital 1996 The American Astronomical Society. }
A Detailed Study of Molecular Clouds toward the TeV Gamma-Ray Supernova Remnant G347.3–0.5

The supernova remnant G347.3-0.5 (J1713.7-3946) is known as one of the unique SNRs that emit TeV γ-rays, as well as nonthermal X-rays. We present a detailed study of molecular gas toward this SNR obtained with the 4 m millimeter and submillimeter telescope NANTEN at an angular resolution of 2. ′6. This study has revealed that several intensity peaks and the overall distribution of the molecular gas with radial velocities from -12 to -3 km s-1 show a remarkably good correlation with the X-ray features, strongly supporting the recently derived kinematic distance around 1 kpc, as opposed to the 6 kpc previously claimed. In addition, we show that absorption of X-rays is caused by local molecular gas at softer X-ray bands. Subsequent measurements of the submillimeter J = 3-2 transition of CO made with the ASTE 10 m and CSO 10.4 m submillimeter telescopes toward three of the molecular intensity peaks have revealed higher excitation conditions, most likely higher temperatures above ~30 K, in contrast to the typical gas temperature, 10 K, in low-mass dark clouds. This temperature rise is most likely caused by enhanced heating by the high-energy events in the SNR, where possible mechanisms include heating by X-rays, γ-rays, and/or cosmic-ray protons, although we admit that additional radiative heating by young protostars embedded may be working as well. In one of the CO peaks, we have confirmed the presence of broad molecular wings of ~20 km s-1 velocity extent in the CO J = 3-2 transition. Two alternative interpretations for the wings are presented; one is shock acceleration by the blast wave, and the other is molecular outflow driven by an embedded protostar. The SNR evolution is well explained as the free expansion phase based on the distance of 1 kpc. The molecular data set should be valuable for making a further detailed comparison with the γ-ray and X-ray distributions in order to examine the cosmic-ray acceleration quantitatively.
The Absolute Proper Motion of Palomar 12: A Case for Tidal Capture from the Sagittarius Dwarf Spheroidal Galaxy

We have measured the absolute proper motion of the young globular cluster Pal 12 with respect to background galaxies, using plate material spanning a 40 yr time baseline, and measuring stars down to a magnitude V ∼ 22. The measured absolute proper motion has an uncertainty of 0.3 mas yr-1 in each coordinate. Pal 12's young age for a globular cluster led to the hypothesis that the cluster originated in the Large Magellanic Cloud (LMC) and was later captured by the Milky Way (Lin & Richer). Here we investigate this hypothesis using the complete kinematical data. We present the orbital characteristics of Pal 12 and compare them with those of the LMC and Sagittarius dwarf galaxy (Sgr). The present kinematical data suggest that, from the two parent candidates for Pal 12, Sgr presents a more plausible case for the host galaxy than the LMC. We explore this scenario in the context of the uncertainties in the orbits and using two different analyses: the direct comparison of the orbits of Pal 12 and Sgr as a function of time, and the analytical model of Sgr's tidal disruption developed by Johnston. We find that, within the present uncertainties of the observables, this scenario is viable in both methods. Moreover, both methods place this event at the same point in time. Our best estimate of the time of Pal 12's tidal capture from Sgr is ∼1.7 Gyr ago.
Association between endotypes of prematurity and pharmacological closure of patent ductus arteriosus: A systematic review and meta-analysis

Introduction Endotypes leading to very and extremely preterm birth are clustered into two groups: infection/inflammation and dysfunctional placentation. We conducted a systematic review of observational studies exploring the association between these two endotypes and the pharmacological closure of patent ductus arteriosus (PDA) induced by cyclooxygenase (COX) inhibitors. Chorioamnionitis represented the infectious-inflammatory endotype, while dysfunctional placentation proxies were hypertensive disorders of pregnancy (HDP) and small for gestational age (SGA) or intrauterine growth restriction. Methods PubMed/Medline and Embase databases were searched. The random-effects odds ratio (OR) and 95% confidence interval (CI) were calculated for each association. We included 30 studies (12,639 infants). Results Meta-analysis showed a significant association between exposure to HDP and increased rate of pharmacological closure of PDA (17 studies, OR 1.41, 95% CI 1.10–1.81, p = 0.006). In contrast, neither chorioamnionitis (13 studies, OR 0.75, 95% CI 0.47–1.18, p = 0.211) nor SGA (17 studies, OR 1.20, 95% CI 0.96–1.50, p = 0.115) were significantly associated with the response to therapy. Subgroup analyses showed that the higher response to COX inhibitors in the HDP group was significant for indomethacin (OR 1.568, 95% CI 1.147–2.141, p = 0.005) but not for ibuprofen (OR 1.107, 95% CI 0.248–4.392, p = 0.894) or for the studies using both drugs (OR 1.280, 95% CI 0.935–1.751, p = 0.124). However, meta-regression showed that this difference between the drugs was not statistically significant (p = 0.404). Discussion/Conclusion Our data suggest that the pathologic condition that triggers prematurity may alter the response to pharmacological treatment of PDA. The DA of infants exposed to HDP appears to be more responsive to COX inhibitors.
Understanding the chronic kidney disease landscape using patient representation learning from electronic health records

Understanding various subpopulations in chronic kidney disease can improve patient care and aid in developing treatments targeted to patients' needs. Due to the general slow disease progression, electronic health records, which comprise a rich source of longitudinal real-world patient-level information, offer an approach for generating insights into disease. Here we apply the open-source ConvAE framework to train an unsupervised deep learning network using a real-world kidney disease cohort consisting of 2.2 million US patients from the OPTUM EHR database. Numerical patient representations derived from ConvAE are used to derive disease subtypes, inform comorbidities and understand rare disease populations. To identify patients at high risk to develop end-stage kidney disease, we extend a validated algorithm classifying disease severity to hypothesize subpopulations of rapid chronic kidney disease progressors. We demonstrate that using a combination of data-driven methods offers a powerful exploratory approach to understand disease heterogeneity and identify high-risk patients who could be targeted for early therapeutic intervention to prevent end-stage kidney disease.
Genetically-proxied anti-diabetic drug target perturbation and risk of cancer: a Mendelian randomization analysis

Aims/hypothesis: Epidemiological studies have generated conflicting findings on the relationship between anti-diabetic medication use and cancer risk. Naturally occurring variation in genes encoding anti-diabetic drug targets can be used to investigate the effect of their pharmacological perturbation on cancer risk. Methods: We developed genetic instruments for three anti-diabetic drug targets (peroxisome proliferator activated receptor gamma, PPARG; sulfonylurea receptor 1, ABCC8; glucagon-like peptide 1 receptor, GLP1R) using summary genetic association data from a genome-wide association study (GWAS) of type 2 diabetes in 69,869 cases and 127,197 controls in the Million Veteran Program. Genetic instruments were constructed using cis-acting genome-wide significant (P<5x10-8) single-nucleotide polymorphisms (SNPs) permitted to be in weak linkage disequilibrium (r2<0.20). Summary genetic association estimates for these SNPs were obtained from GWAS consortia for the following cancers: breast (122,977 cases, 105,974 controls), colorectal (58,221 cases, 67,694 controls), prostate (79,148 cases, 61,106 controls), and overall (i.e. site-combined) cancer (27,483 cases, 372,016 controls). Inverse-variance weighted random-effects models adjusting for linkage disequilibrium were employed to estimate causal associations between genetically-proxied drug target perturbation and cancer risk. Colocalisation analysis was employed to examine robustness of findings to violations of Mendelian randomization (MR) assumptions. A Bonferroni correction was employed as a heuristic to define associations from MR analyses as "strong" and "weak" evidence. Results: In Mendelian randomization analysis, genetically-proxied PPARG perturbation was weakly associated with higher risk of prostate cancer (OR for PPARG perturbation equivalent to a 1 unit decrease in inverse-rank normal transformed HbA1c: 1.75, 95% CI 1.07-2.85, P=0.02). In histological subtype-stratified analyses, genetically-proxied PPARG perturbation was weakly associated with lower risk of ER+ breast cancer (OR 0.57, 95% CI 0.38-0.85; P=6.45 x 10-3). In colocalisation analysis however, there was little evidence of shared causal variants for type 2 diabetes liability and cancer endpoints in the PPARG locus, though these analyses were likely underpowered. There was little evidence to support associations of genetically-proxied PPARG perturbation with colorectal or overall cancer risk or genetically-proxied ABCC8 or GLP1R perturbation with risk across cancer endpoints. Conclusions/interpretation: Our drug-target MR analyses did not find consistent evidence to support an association of genetically-proxied PPARG, ABCC8 or GLP1R perturbation with breast, colorectal, prostate or overall cancer risk. Further evaluation of these drug targets using alternative molecular epidemiological approaches may help to further corroborate the findings presented in this analysis.
Emergent laparoscopic surgical intervention for perforated hemorrhagic cholecystitis with hemodynamic instability

Abstract Hemorrhagic cholecystitis is a rare diagnosis that closely mimics acute cholecystitis. Physical examination, laboratory studies and, in particular, computed tomography imaging allow for rapid diagnosis, stabilization and emergent surgical intervention. We describe our experience with three patients requiring emergent surgical intervention for hemorrhagic cholecystitis with unique clinical features including decreased platelet function due to liver cirrhosis, dual antiplatelet therapy and intraoperative finding of cholecystohepatic communication. Furthermore, we provide video recordings of two cases highlighting the severity of the disease. All presented patients were hemodynamically unstable and showed peritoneal signs on exam. Laboratory studies revealed moderate anemia and leukocytosis, while computed tomography suggested hemorrhage in the gallbladder. All patients required blood transfusions during their care and underwent laparoscopic cholecystectomy. Hemoperitoneum and gallbladder perforation were confirmed intraoperatively. Patients fully recovered without significant postoperative complications due to expedited operative management.
Efficacy and Safety of 0.1% Cyclosporine versus 2% Cyclosporine in the Treatment of Severe Vernal Keratoconjunctivitis in Children

Introduction Vernal keratoconjunctivitis (VKC) is an inflammatory condition in children that can cause severe eye complications. Treatment is based on corticosteroid therapy during flare-ups, then antihistamines and cyclosporine in calmer periods. The dosage and posology of cyclosporine are subject to debate. Methods The aim of the study is to compare the evolution in symptomatic and clinical scores, and need for topical corticosteroid treatment in a population of children with severe VKC treated with two dosages of cyclosporine treatment (0.1% and 2%). Data were compiled on inclusion then every three months from March, with a total follow-up duration of 12 months. Data concerning patient evolutions and complications were collected for the two treatment groups. Results The mean age of the 46 children was 8.8 ±2.4 years with age at onset of symptoms of 5.1 ± 0.9 years. The cohort was predominantly (65%) male. Corticosteroid dependence on inclusion was present in 52% of the children included. A significant improvement in the various symptomatic and clinical scores was observed following treatment with cyclosporine (0.1% and 2%). Use of topical corticosteroid treatment reduced from 19 drops per month on inclusion to 4 drops per month at 12 months. Safety was comparable for the two groups. Conclusion Treatments with cyclosporine 0.1% and 2% lead to a favourable evolution in clinical and symptomatic scores and reduced corticosteroid use. Cyclosporine 0.1% is an interesting alternative to the 2% dosage, particularly due to its availability and ease of handling.
The long noncoding RNA MALAT1/microRNA-598-3p axis regulates the proliferation and apoptosis of retinoblastoma cells through the PI3K/AKT pathway

Purpose This study was designed to dissect the role of long noncoding RNA metastasis-associated lung adenocarcinoma transcript 1 (MALAT1) in retinoblastoma (RB) and its underlying mechanism. Methods Gain- and loss-of-function experiments were adopted to explore the effects of MALAT1 and microRNA (miR)-598-3p on the biologic behaviors of RB cells. Reverse transcription quantitative polymerase chain reaction (RT-qPCR) was used to assess the expression of MALAT1 and miR-598-3p in Y79 and HXO-RB44 cells. The proliferation of RB cells was determined with the cell counting kit-8 (CCK-8) assay and 5-ethynyl-2’-deoxyuridine (EdU) staining. Flow cytometry was employed for the measurement of the apoptotic rate, western blotting for examination of the expression of apoptosis-related proteins (Bax and Bcl-2) and phosphoinositide 3-kinase/protein kinase-B (PI3K/AKT) pathway-related factors (PI3K, AKT, p-PI3K, and p-AKT), and the luciferase reporter assay for assessment of the interaction between MALAT1 and miR-598-3p. Results High expression of MALAT1 and low expression of miR-598-3p were noticed in Y79 and HXO-RB44 cells. MALAT1 upregulation or miR-598-3p downregulation facilitated RB cell proliferation and inhibited cell apoptosis, as evidenced by the increased proliferation rate and Bcl-2 expression, as well as diminished Bax expression and apoptotic rate, in the RB cells after transfection with pcDNA3.1-MALAT1 or miR-598-3p inhibitor. MALAT1 bound to and negatively regulated miR-598-3p. The PI3K/AKT pathway activation occurred with MALAT1 overexpression. MALAT1 promoted RB cell proliferation and repressed cell apoptosis by repressing miR-598-3p to activate the PI3K/AKT pathway. Conclusions MALAT1 repressed miR-598-3p to activate the PI3K/AKT pathway, thus facilitating cell proliferation and inhibiting cell apoptosis in RB.
RASopathy Cohort of Patients Enrolled in a Brazilian Reference Center for Rare Diseases: A Novel Familial LZTR1 Variant and Recurrent Mutations

Purpose Noonan syndrome and related disorders are genetic conditions affecting 1:1000–2000 individuals. Variants causing hyperactivation of the RAS/MAPK pathway lead to phenotypic overlap between syndromes, in addition to an increased risk of pediatric tumors. DNA sequencing methods have been optimized to provide a molecular diagnosis for clinical and genetic heterogeneity conditions. This work aimed to investigate the genetic basis in RASopathy patients through Next Generation Sequencing in a Reference Center for Rare Diseases (IFF/Fiocruz) and implement the precision medicine at a public health institute in Brazil. Patients and Methods This study comprises 26 cases with clinical suspicion of RASopathies. Sanger sequencing was used to screen variants in exons usually affected in the PTPN11 and HRAS genes for cases with clinical features of Noonan and Costello syndrome, respectively. Posteriorly, negative and new cases with clinical suspicion of RASopathy were analyzed by clinical or whole-exome sequencing. Results Molecular analysis revealed recurrent variants and a novel LZTR1 missense variant: 24 unrelated individuals with pathogenic variants [PTPN11(11), NF1(2), SOS1(2), SHOC2(2), HRAS(1), BRAF(1), LZTR (1), RAF1(1), KRAS(1), RIT1(1), a patient with co-occurrence of PTPN11 and NF1 mutations (1)]; familial cases carrying a known pathogenic variant in PTPN11 (mother-two children), and a previously undescribed paternally inherited variant in LZTR1. The comparative modeling analysis of the novel LZTR1 variant p.Pro225Leu showed local and global changes in the secondary and tertiary structures, showing a decrease of about 1% in the β-sheet content. Furthermore, evolutionary conservation indicated that Pro225 is in a highly conserved region, as observed for known dominant pathogenic variants in this protein. Conclusion Bringing precision medicine through NGS towards congenital syndromes promotes a better understanding of complex clinical and/or undiagnosed cases. The National Policy for Rare Diseases in Brazil emphasizes the importance of incorporating and optimizing diagnostic methodologies in the Unified Brazilian Health System (SUS). Therefore, this work is an important step for the NGS inclusion in diagnostic genetic routine in the public health system.
Compact stars made of fermionic dark matter

Compact stars consisting of fermions with arbitrary masses and interaction strengths are studied by solving the structure equation of general relativity, the Tolman-Oppenheimer-Volkoff equations. Scaling solutions are derived for a free and an interacting Fermi gas and tested by numerical calculations. We demonstrate that there is a unique mass-radius relation for compact stars made of free fermions which is independent of the fermion mass. For sufficiently strong interactions, the maximum stable mass of compact stars and its radius are controlled by the parameter of the interaction, both increasing linearly with the interaction strength. The mass-radius relation for compact stars made of strongly interacting fermions shows that the radius remains approximately constant for a wide range of compact star masses.
The r-Process-enriched Low-Metallicity Giant HD 115444

New high-resolution, very high signal-to-noise spectra of ultra-metal-poor (UMP) giant stars HD 115444 and HD 122563 have been gathered with the High-Resolution Echelle Spectrometer of the McDonald Observatory 2.7 m telescope. With these spectra, line identification and model atmosphere analyses have been conducted, emphasizing the neutron-capture elements. Twenty elements with Z > 30 have been identified in the spectrum of HD 115444. This star is known to have overabundances of the neutron-capture elements, but it has lacked a detailed analysis necessary to compare with nucleosynthesis predictions. The new study features a line-by-line differential abundance comparison of HD 115444 with the bright, well-studied halo giant HD 122563. For HD 115444, the overall metallicity is [Fe/H] ≃ -3.0. The abundances of the light and iron-peak elements generally show the same pattern as other UMP stars (e.g., overdeficiencies of manganese and chromium, overabundances of cobalt), but the differential analysis indicates several nucleosynthesis signatures that are unique to each star. Synthetic spectrum analyses reveal substantial overabundances of the heavier neutron-capture elements (Z ≥ 56; elements barium and beyond) in HD 115444. Thus with [Eu/Fe] ≃ +0.9, for example, HD 115444 is a moderate version of the extremely neutron-capture-rich UMP giant CS 22892-052 ([Fe/H] ≃ -3.1, [Eu/Fe] ≃ +1.7). The abundance pattern of the heavier neutron-capture elements is consistent with scaled solar system r-process-only abundances (with little contribution from the s-process). In HD 115444, [Ba/Eu] = -0.73, while in CS 22892-052 this ratio is -0.79. Thus HD 115444 becomes the second UMP r-process-rich halo giant unambiguously identified from a very detailed abundance analysis. Abundances of the lighter neutron-capture elements strontium, yttrium, and zirconium are, however, nearly identical in HD 115444 and HD 122563. Along with the heavier neutron-capture elements, the 4019 Å line of Th II has been detected in HD 115444, yielding log ε(Th) = -2.23 ± 0.07. Comparing the observed thorium abundance in HD 115444, along with CS 22892-052, with other theoretical estimates of the time-zero abundance suggests an age for both of these UMP stars of 15.6 ± 4 Gyr, consistent with previous radioactive age estimates for CS 22892-052 and other Galactic and cosmological age determinations.