Miracle-dz/UniFAR-FTUs huggingface dataset:
Urine Exosomal bkv-miR-B1-5p and BK Virus Nephropathy in Kidney Transplant Recipients

Abstract Background Urine exosomal bkv-miR-B1-5p is associated with BK virus (BKV) nephropathy (BKVN); however, its posttransplantation changes and predictability for BKVN have not been determined in kidney transplant recipients (KTRs). Methods Urine exosomal bkv-miR-B1-5p and urine and plasma BKV DNA were measured at 2 weeks and 3, 6, and 12 months posttransplant in 83 KTRs stratified into biopsy-proven or presumptive BKVN, BKV viruria, and no evidence of BKV reactivation. Joint model, multivariable Cox model and receiver operating characteristic curve (ROC) were used to investigate the association of each assay with the following events: a composite of biopsy-proven or presumptive BKVN, and biopsy-proven BKVN. Results Urine exosomal bkv-miR-B1-5p and urine and plasma BKV DNA showed similar posttransplant time-course changes. Joint models incorporating serial values demonstrated significant associations of all assays with the events, and Cox analyses using single time point values at 2 weeks posttransplant showed that only urine exosomal bkv-miR-B1-5p was significantly associated with the events, although it did not outperform urine BKV DNA in ROC analyses. Conclusions Urine exosomal bkv-miR-B1-5p was associated with BKVN as were urine and plasma BKV DNA loads on serial follow-up, and might have potential as a predictive marker for BKVN during the early posttransplant period. Clinical Trials Registration Clinical Research Information Service (https://cris.nih.go.kr/cris/), KCT0001010.
Estimation of the stress-strength reliability for the inverse Weibull distribution under adaptive type-II progressive hybrid censoring

In this article, we compare the maximum likelihood estimate (MLE) and the maximum product of spacing estimate (MPSE) of a stress-strength reliability model, θ = P(Y < X), under adaptive progressive type-II progressive hybrid censoring, when X and Y are independent random variables taken from the inverse Weibull distribution (IWD) with the same shape parameter and different scale parameters. The performance of both estimators is compared, through a comprehensive computer simulation based on two criteria, namely bias and mean squared error (MSE). To demonstrate the effectiveness of our proposed methods, we used two examples of real-life data based on Breakdown Times of an Insulated Fluid by (Nelson, 2003) and Head and Neck Cancer Data by (Efron, 1988). It is concluded that the MPSE method outperformed the MLE method in terms of bias and MSE values.
Convergence of Einstein Yang-Mills systems

In this paper, we prove a convergence theorem for sequences of Einstein Yang-Mills systems on U(1)-bundles over closed n-manifolds with some bounds for volumes, diameters, L-norms of bundle curvatures and L n 2 -norms of curvature tensors. This result is a generalization of earlier compactness theorems for Einstein manifolds.
SMA OBSERVATIONS OF GOODS 850−11 AND GOODS 850−13: FIRST EXAMPLES OF MULTIPLE SUBMILLIMETER SOURCES RESOLVED BY AN INTERFEROMETER

We carried out extremely sensitive Submillimeter Array (SMA) 340 GHz continuum imaging on two submillimeter galaxies (SMGs): GOODS 850−11 and GOODS 850−13. The observations reach sub-mJy rms sensitivities and, interestingly, resolve both sources into multiple, physically unrelated SMGs. GOODS 850−11 is resolved into two sources at different redshifts. GOODS 850−13 is resolved into three sources, two with different spectroscopic redshifts and one only with a photometric redshift. All the SMA sources have fluxes in the 3–5 mJy range and all are detected at 1.4 GHz. Three of them are detected by Chandra, and one is a previously unknown X-ray SMG. This is the first time that single-dish SMGs are resolved into multiple unrelated sources and also the first time that the SMA has discovered new SMGs. Our results show that identifications of SMGs at any wavelengths other than the submillimeter itself can be misleading, since such identifications usually only pick up one of the real counterparts. Using simulations that mimic our SCUBA and SMA observations, we find that the number of triple systems detected in our SMA survey is much higher than that expected from the current best-determined number counts. We tentatively attribute this to clustering. We also predict that ALMA will find ∼1/3 of >5 mJy 850 μm SCUBA sources to be multiple systems. Based on our SMA observations and simulations, we suggest that large samples of existing SMGs should be imaged with sensitive interferometric observations, even if the SMGs were previously thought to be securely identified.
Retinal Vascular Plexuses Are Unequally Affected in Canine Inherited Retinal Degenerations

Purpose To characterize the progression of vascular changes that occur in each retinal plexus, in three canine models of inherited retinal degeneration. Methods In this retrospective cohort study, we examined the retinal imaging records of 44 dogs from a research colony that had undergone optical coherence tomography angiography (OCTA) imaging. Animals enrolled included crd2/NPHP5 and xlpra2/RPGR mutant dogs imaged at different stages of photoreceptor loss, as well as RHOT4R/+ dogs after acute light-induced rod degeneration. Also included were normal controls imaged at similar ages. OCT angiograms of the superficial vascular plexus combined with the intermediate capillary plexus (SVP + ICP), and the deep capillary plexus (DCP) were analyzed using the AngioTool software to calculate vessel density and other vascular parameters. Results A reduction in vessel density was seen over time in both the SVP + ICP and DCP in all mutant dogs but was more pronounced in the DCP. Scans were subclassified based on outer nuclear layer (ONL) thinning compared to age-matched normal controls. When ONL loss was 0% to 50%, vessel density in the DCP was significantly lower than in age-matched controls. In all cases, when ONL loss exceeded 87.5%, vessel density in the SVP + ICP was significantly reduced as well. In the acute light-induced rod degeneration model, the vascular regression changes were observed mainly in the DCP. Conclusions Vessel density reduction in dogs undergoing retinal degeneration is first detected by OCTA in the DCP, and only at later stages in the SVP + ICP.
Time reversal symmetry breaking superconductivity in topological materials

Fascinating phenomena have been known to arise from the Dirac theory of relativistic quantum mechanics, which describes high energy particles having linear dispersion relations. Electrons in solids usually have non-relativistic dispersion relations but their quantum excitations can mimic relativistic effects. In topological insulators, electrons have both a linear dispersion relation, the Dirac behavior, on the surface and a non-relativistic energy dispersion in the bulk. Topological phases of matter have attracted much interest, particularly broken-symmetry phases in topological insulator materials. Here, we report by Nb doping that the topological insulator Bi2Se3 can be turned into a bulk type-II superconductor while the Dirac surface dispersion in the normal state is preserved. A macroscopic magnetic ordering appears below the superconducting critical temperature of 3.2 K indicating a spontaneous spin rotation symmetry breaking of the Nb magnetic moments. Even though such a magnetic order may appear at the edge of the superconductor, it is mediated by superconductivity and presents a novel phase of matter which gives rise to a zero-field Hall effect.
Ion detection in the photoionization of a Rb Bose–Einstein condensate

In this paper [1] , figure 5(a) should be exchanged with 5(b). The caption remains correct as presented. In addition, on pages 5 and 6 all references to figure 5(a) should be replaced by references to figure 5(b). Reference [1] Viteau M, Radogostowicz J, Chotia A, Bason M G, Malossi N, Fuso F, Ciampini D, Morsch O, Ryabtsev I I and Arimondo E 2010 J. Phys. B: At. Mol. Opt. Phys. 43 155301
Upregulation of ATF4-LAMP3 Axis by ORF45 Facilitates Lytic Replication of Kaposi’s Sarcoma-Associated Herpesvirus

The lytic replication of Kaposi’s sarcoma-associated herpesvirus (KSHV) reprograms cellular transcription and translation to generate viral proteins and virion particles. Here, we show that the mediator of ER stress ATF4 and the expression of the downstream gene LAMP3 are upregulated by ORF45 during lytic replication. ABSTRACT Kaposi’s sarcoma-associated herpesvirus (KSHV) is a γ-oncogenic herpesvirus, and both lytic and latent infections play important roles in its pathogenesis and tumorigenic properties. Multiple cellular pathways and diverse mediators are hijacked by viral proteins and are used to support KSHV lytic replication. In previous studies, we revealed that KSHV ORF45 promoted KSHV transcription and translation by inducing sustained p90 ribosomal S6 kinase (RSK) activation and the phosphorylation of its substrates c-Fos and eIF4B. However, the cellular mediators required for lytic replication remain largely unknown. Here, we reveal that ORF45 activates eIF2α phosphorylation and ATF4 translation and then upregulates the expression of lysosome-associated membrane protein 3 (LAMP3) in an ATF4-dependent manner during KSHV lytic replication. Consequently, LAMP3 promotes Akt and ERK activation and then facilitates lytic gene expression and virion production. Furthermore, ATF4 enhances lytic replication through LAMP3, and LAMP3 acts in an ATF4-independent manner. Our findings suggest that the ATF4-LAMP3 axis is upregulated by ORF45 through ER stress activation during the KSHV lytic life cycle and, in turn, facilitates optimal lytic replication. IMPORTANCE The lytic replication of Kaposi’s sarcoma-associated herpesvirus (KSHV) reprograms cellular transcription and translation to generate viral proteins and virion particles. Here, we show that the mediator of ER stress ATF4 and the expression of the downstream gene LAMP3 are upregulated by ORF45 during lytic replication. Consequently, increased LAMP3 expression activates Akt and ERK and promotes lytic replication. Although several UPR transcription factors are able to promote KSHV lytic replication, the proviral effect of ATF4 on lytic replication is attenuated by LAMP3 silencing, whereas the effect of LAMP3 does not directly require ATF4 expression, indicating that LAMP3 primarily exerts effects on KSHV lytic replication downstream of ATF4 and ER stress. Taken together, our findings suggest that the ORF45-upregulated ATF4-LAMP3 axis plays an essential role in KSHV lytic replication.
Spin-phonon and magnetostriction phenomena in CaMn7O12 helimagnet probed by Raman spectroscopy

In this letter, we investigated the temperature-dependent Raman spectra of CaMn7O12 helimagnet from room temperature down to 10 K. The temperature dependence of the Raman mode parameters shows remarkable anomalies for both antiferromagnetic and incommensurate transitions that this compound undergoes at low temperatures. The anomalies observed at the magnetic ordering transition indicate a spin-phonon coupling at higher-temperature magnetic transition in this material, while a magnetostriction effect at the lower-temperature magnetic transition.
Comparison of comorbidities of stroke collected in administrative data, surveys, clinical trials and cohort studies.

BACKGROUND Administrative data are used extensively for research purposes, but there remains limited information on the quality of these data for identifying comorbidities related to stroke. OBJECTIVE To compare the prevalence of comorbidities of stroke identified using International Classification Diseases, Australian Modification (ICD-10-AM) or Anatomical Therapeutic Chemical codes, with those from (i) self-reported data and (ii) published studies. METHOD The cohort included patients with stroke or transient ischaemic attack admitted to hospitals (2012-2016; Victoria and Queensland) in the Australian Stroke Clinical Registry (N = 26,111). Data were linked with hospital and pharmaceutical datasets to ascertain comorbidities using published algorithms. The sensitivity, specificity, and positive predictive value of these comorbidities were compared with survey responses from 623 patients (reference standard). An indirect comparison was also performed with clinical data from published stroke studies. RESULTS The sensitivity of hospital ICD-10-AM data was poor for most comorbidities, except for diabetes (93.0%). Specificity was excellent for all comorbidities (87-96%), except for hypertension (70.5%). Compared to published stroke studies (3 clinical trials and 1 incidence study), the prevalence of diabetes and atrial fibrillation in our cohort was similar using ICD-10-AM codes, but lower for dyslipidaemia and anxiety/depression. Whereas in the pharmaceutical dispensing data, the sensitivity was excellent for dyslipidaemia (94%) and modest for anxiety/depression (77%). In the pharmaceutical data, specificity was modest for hypertension (78%) and anxiety or depression (76%), but specificity was poor for dyslipidaemia (19%) and heart disease (46%). CONCLUSION Variation was observed in the reporting of comorbidities of stroke in administrative data, and consideration of multiple sources of data may be necessary for research. Further work is needed to improve coding and clinical documentation for reporting of comorbidities in administrative data.
NEAR-INFRARED COUNTERPARTS OF CHANDRA X-RAY SOURCES TOWARD THE GALACTIC CENTER

The Chandra X-ray Observatory has now discovered nearly 10,000 X-ray point sources in the 2° × 0. °8 region around the Galactic Center. The sources are likely to be a population of accreting binaries in the Galactic Center, but little else is known of their nature. We obtained JHKs imaging of the 17′ × 17′ region around Sgr A*, an area containing 4339 of these X-ray sources, with the ISPI camera on the Cerro Tololo Inter-American Observatory (CTIO) 4 m telescope. We cross-correlate the Chandra and ISPI catalogs to find potential IR counterparts to the X-ray sources. The extreme IR source crowding in the field means that it is not possible to establish the authenticity of the matches with astrometry and photometry alone. We find 2137 IR/X-ray astrometrically matched sources: statistically, we estimate that our catalog contains 289 ± 13 true matches to soft X-ray sources and 154 ± 39 matches to hard X-ray sources. However, the fraction of true counterparts to candidate counterparts for hard sources is just 11%, compared to 60% for soft sources, making hard source NIR matches particularly challenging for spectroscopic follow-up. We calculate a color–magnitude diagram (CMD) for the matches to hard X-ray sources, and find regions where significant numbers of the IR matches are real. We use their CMD positions to place limits on the absolute Ks-band magnitudes of the potential NIR counterparts to hard X-ray sources. We find regions of the counterpart CMD with 9 ± 3 likely Wolf-Rayet/supergiant binaries (with four spectroscopically confirmed in the literature) as well as 44 ± 13 candidates that could consist of either main-sequence high mass X-ray binaries or red giants with an accreting compact companion. In order to aid spectroscopic follow-up, we sort the candidate counterpart catalog on the basis of IR and X-ray properties to determine which source characteristics increase the probability of a true match. We find a set of 98 IR matches to hard X-ray sources with reddenings consistent with GC distances which have a 45% probability of being true counterparts.
Effective slip in pressure-driven flow past super-hydrophobic stripes

A super-hydrophobic array of grooves containing trapped gas (stripes) has the potential to greatly reduce drag and enhance mixing phenomena in microfluidic devices. Recent work has focused on idealized cases of stick-perfect slip stripes. Here, we analyse the experimentally more relevant situation of a pressure-driven flow past striped slip-stick surfaces with arbitrary local slip at the gas sectors. We derive approximate formulas for maximal (longitudinal) and minimal (transverse) directional effective slip lengths that are in a good agreement with the exact numerical solution for any surface slip fraction. By representing eigenvalues of the slip length tensor, we obtain the effective slip for any orientation of stripes with respect to the mean flow. Our results imply that flow past stripes is controlled by the ratio of the local slip length to texture size. In the case of a large (compared to the texture period) slip at the gas areas, surface anisotropy leads to a tensorial effective slip, by attaining the values predicted earlier for a perfect local slip. Both effective slip lengths and anisotropy of the flow decrease when local slip becomes of the order of texture period. In the case of a small slip, we predict simple surface-averaged isotropic flows (independent of orientation).
Higher-Tc Superconducting Phase in Sr2RuO4 Induced by In-Plane Uniaxial Pressure

We revealed that the superconducting transition temperature Tc of the multi-component superconductor Sr2RuO4 is enhanced to 3.3 K under in-plane uniaxial pressure that reduces the tetragonal crystal symmetry. This result suggests that new superconducting phases with a one-component order parameter are induced. We have also clarified the inplane pressure direction dependence of the emergence of this higher-Tc superconducting phase: pressure along the [100] direction is more favorable than pressure along the [110] direction. This result is probably closely related to the direct shortening of the in-plane Ru-O bond length along the pressure direction and the approach of the gamma Fermi surface to the van Hove singularity under the pressure parallel to the [100] direction.
Global expansion of sustainable irrigation limited by water storage

Significance Expansion of sustainable irrigation (i.e., using sustainable water resources to irrigate water-limited croplands) can increase food production, while neither depleting water stocks nor encroaching upon nature. Yet, there is a mismatch in timing of water availability and of irrigation needs in many geographies, necessitating temporary water storage. We quantify global volumes of water that requires temporary storage to be leveraged for an expansion of sustainable irrigation and discuss options to provide that storage. While dammed reservoirs are crucial for today’s irrigation, dams alone will not suffice to fully leverage sustainable water resources in the future and while creating major impacts on nature and people. This highlights the urgent need for alternative solutions to water storage and demand side approaches to food security.
Relating ‘to her Human Side’: a Grounded Theory analysis of cosmetologists’ and aestheticians’ relationships with clients in Black American beauty salons to inform sexual health interventions

Abstract Due to the elevated incidence of HIV among Black American women, effective sexual health interventions are needed. To explore beauty salons as settings for such interventions, we examined Black American women stylists’ experiences discussing sex-related topics with Black American women clients. Constructivist Grounded Theory methodology guided data collection and analysis. Individual intensive interviews were conducted in 2019 with 16 Black women cosmetologists and/or aestheticians who served Black women in Southern California. Analyses generated grounded theory which we refer to as Relating ‘to her Human Side’: Black American cosmetologist-client relationship building model. The model highlights the importance of three sets of practices: 1) playing different roles to appeal to clients’ varying wants and needs, 2) creating a comfortable atmosphere, and 3) establishing a judgement-free zone. Stylists put clients at ease and consequently, clients shared stories regarding sex and relationships freely. Stylists’ actions built trusting relationships with clients, thus crafting beauty salons as atmospheres favourable for sex-related conversations and potential sexual health interventions.
Cradle for the newborn Monochamus saltuarius: Microbial associates to ward off entomopathogens and disarm plant defense

The Japanese pine sawyer, Monochamus saltuarius, as a beetle vector of Bursaphelenchus xylophilus (pine wood nematode), is an economically important forest pest in Eurasia. To feed on the phloem and xylem of conifers, M. saltuarius needs to overcome various stress factors, including coping with entomopathogenic bacteria and also various plant secondary compounds (PSCs). As an important adaptation strategy to colonize host trees, M. saltuarius deposit eggs in oviposition pits to shield their progeny. These pits harbor bacterial communities that are involved in the host adaptation of M. saltuarius to the conifers. However, the composition, origin, and functions of these oviposition pit bacteria are rarely understood. In this study, we investigated the bacterial community associated with M. saltuarius oviposition pits and their ability to degrade PSCs. Results showed that the bacterial community structure of M. saltuarius oviposition pits significantly differed from that of uninfected phloem. Also, the oviposition pit bacteria were predicted to be enriched in PSC degradation pathways. The microbial community also harbored a lethal strain of Serratia, which was significantly inhibited. Meanwhile, metatranscriptome analysis indicated that genes involved in PSCs degradation were expressed complementarily among the microbial communities of oviposition pits and secretions. In vitro degradation showed that bacteria cultured from oviposition pits degraded more monoterpenes and flavonoids than bacteria cultured from uninfected phloem isolates. Disinfection of oviposition pits increased the mortality of newly hatched larvae and resulted in a significant decrease in body weight in the early stages. Overall, our results reveal that M. saltuarius construct oviposition pits that harbor a diverse microbial community, with stronger PSCs degradation abilities and a low abundance of entomopathogenic bacteria, resulting in the increased fitness of newly hatched larvae.
What are We Asking Patients to Do? A Critical Ethical Review of the Limits of Patient Self-Advocacy in the Oncology Setting

Increasing emphasis on patient self-management, including having patients advocate for their needs and priorities, is generally a good thing, but it is not always wanted or attainable by patients. The aim of this critical ethical review is to deepen the current discourse in patient self-advocacy by exposing various situations in which patients struggle to self-advocate. Using examples from oncology patient populations, we disambiguate different notions of self-advocacy and then present limits to the more demanding varieties (i.e., health-related, trust-based, and psychological); we argue that these limits create ethical dilemmas with respect to whether it is always desirable to encourage patients to self-advocate. We conclude that self-advocacy can be both under and overrated with respect to how much it benefits the patient with cancer, with many instances being indeterminate. Ultimately, providers must understand the patient's perspective relative to the challenges they are experiencing and work with them to meet their needs.