Miracle-dz/UniFAR-FTUs huggingface dataset:
Investigation of C- and X-band backscattering signatures of Baltic Sea ice

Backscattering signatures of various Baltic Sea ice types and open water leads were measured with the helicopter-borne C- and X-band Helsinki University of Technology scatterometer (HUTSCAT) during six ice research campaigns in 1992–1997. The measurements were conducted at incidence angles of 23° and 45°. The HUTSCAT data were assigned by video imagery into various surface type categories. The ground data provided further classification of the HUTSCAT data into different snow wetness categories (dry, moist and wet snow). Various basic statistical parameters of backscattering signature data were used to study discrimination of open water leads and various ice types. The effect of various physical parameters (e.g. polarization, frequency, snow condition) on the surface type discrimination was investigated. The results from the data analysis can be used to help the development of sea ice classification algorithms for space-borne SAR data (e.g. Radarsat and Envisat). According to the results from the maximum likelihood classification it is not possible to reliably distinguish various surface types in the SAR images only by their backscatter intensity. In general, the best ice type discrimination accuracy is achieved with C-band VH-polarization σ° at an incidence angle of 45°.
Choroidal Changes After Anti-VEGF Therapy in AMD Eyes With Different Types of Macular Neovascularization Using Swept-Source OCT Angiography

Purpose Choroidal changes before and after anti-VEGF therapy were investigated in eyes with exudative AMD to determine if there was a difference between eyes with macular neovascularization (MNV) that arises from the choroid (type 1 or 2) versus the retinal circulation (type 3). Methods Patients with treatment-naïve AMD were imaged with swept-source optical coherence tomography angiography using a 12 × 12-mm scan pattern. The mean choroidal thickness and choroidal vascularity index (CVI) were measured within 5-mm and 11-mm fovea-centered circles before, at the onset of, and after anti-VEGF therapy. Results Forty-one eyes of 37 patients were included; 24 eyes with type 1 MNV, 4 eyes with type 2 MNV, and 13 eyes with type 3 MNV. Within the 5-mm and 11-mm circles, the mean choroidal thickness and CVI measurements increased from pretreatment to the onset of exudation (P ≤ 0.03). The mean choroidal thickness and CVI measurements decreased from the onset of exudation to after treatment (P < 0.001). No significant changes in mean choroidal thickness or CVI were observed when comparing measurements before or after treatment (P ≥ 0.38). No significant differences in mean choroidal thickness or CVI measurements were observed between eyes with type 1 or 2 MNV and type 3 MNV. Conclusions In treatment-naïve AMD eyes with MNV, the choroidal thickness and vascularity increased at the onset of exudation and then decreased after anti-VEGF therapy. This finding suggests that these choroidal changes develop in response to the proangiogenic milieu before treatment and in response to treatment, regardless of the site of origin for the MNV.
Static and Dynamic Laterally Loaded Floating Piles

A previously formulated beam bending finite element of circular cross section enabled obtaining an economical solution to the three-dimensional problem of static and dynamic laterally loaded piles embedded in elastic media. The general solution is almost solely a function of the ratio of Young's modulus (E) of the pile divided by E of the soil; neither Poisson's ratio of the soil nor the mass density of the pile are important for practical application purposes. Static loading results are presented in the form of flexibility coefficients for a range of two-layer soil systems. The dynamic loading fundamental solution for a pile embedded in an elastic half space is presented in terms of the statics solution multiplied by the associated complex, frequency-dependent factors. Since this statics solution can be presented as a linear relationship between the logarithm of the flexibility coefficient and the logarithm of the Young's moduli ratio, both the statics and dynamics solutions can be approximated by a simple closed form expression.
Thyroid Diseases and Intestinal Microbiome

Abstract The human microbiome plays an integral role in health. In particular, it is important for the development, differentiation, and maturation of the immune system, 70% of which resides in the intestinal mucosa. Microbiome studies conducted to date have revealed an association between disturbances in the microbiota (dysbiosis) and various pathological disorders, including changes in host immune status. Autoimmune thyroid diseases are one of the most common organ-specific autoimmune disorders, with a worldwide prevalence higher than 5%. The predominant autoimmune thyroid diseases are Hashimoto’s thyroiditis and Grave’s disease. Several factors, such as genetic and environmental ones, have been studied. In accordance with recent studies, it is assumed that the gut microbiome might play a significant role in triggering autoimmune diseases of the thyroid gland. However, the exact etiology has not yet been elucidated. The present review aims to describe the work carried out so far regarding the role of gut microflora in the pathogenesis of autoimmune thyroid diseases and its involvement in the appearance of benign nodules and papillary thyroid cancer. It appears that future work is needed to elucidate more precisely the mechanism for gut microbiota involvement in the development of autoimmune thyroid diseases.
Targeted single‐cell RNA sequencing analysis reveals metabolic reprogramming and the ferroptosis‐resistant state in hematologic malignancies

Hematologic malignancies are the most common hematopoietic diseases and a major public health concern. However, the mechanisms underlying myeloid tumors remain unknown owing to the intricate interplay between mutations and diverse clonal evolution patterns, as evidenced by the analysis of bulk cell‐derived omics data. Several single‐cell omics techniques have been used to characterize the hierarchies and altered immune microenvironments of hematologic malignancies. The comprehensive single‐cell atlas of hematologic malignancies provides novel opportunities for personalized combinatorial targeted treatments, avoiding unwanted chemo‐toxicity. In the present study, we performed transcriptome sequencing by combining single‐cell RNA sequencing (scRNA‐seq) with a targeted oncogenic gene panel for acute myeloid leukemia, overcoming the limitations of scRNA‐seq in detecting oncogenic mutations. The distribution of oncogenic IDH1, IDH2, and KRAS mutations in each cell type was identified in the bone marrow (BM) samples of each patient. Our findings suggest that ferroptosis and metabolic reprogramming are involved in the tumorigenesis and chemotherapy resistance of oncogenic mutation‐carrying cells. Biological progression via IDH1, IDH2, and KRAS mutations arrests hematopoietic maturation. Our study findings provide a rationale for using primary BM cells for personalized treatment in clinical settings.
Break‐induced RNA–DNA hybrids (BIRDHs) in homologous recombination: friend or foe?

Double‐strand breaks (DSBs) are the most harmful DNA lesions, with a strong impact on cell proliferation and genome integrity. Depending on cell cycle stage, DSBs are preferentially repaired by non‐homologous end joining or homologous recombination (HR). In recent years, numerous reports have revealed that DSBs enhance DNA–RNA hybrid formation around the break site. We call these hybrids “break‐induced RNA–DNA hybrids” (BIRDHs) to differentiate them from sporadic R‐loops consisting of DNA–RNA hybrids and a displaced single‐strand DNA occurring co‐transcriptionally in intact DNA. Here, we review and discuss the most relevant data about BIRDHs, with a focus on two main questions raised: (i) whether BIRDHs form by de novo transcription after a DSB or by a pre‐existing nascent RNA in DNA regions undergoing transcription and (ii) whether they have a positive role in HR or are just obstacles to HR accidentally generated as an intrinsic risk of transcription. We aim to provide a comprehensive view of the exciting and yet unresolved questions about the source and impact of BIRDHs in the cell.
Retinal Capillary Nonperfusion in Preclinical Diabetic Retinopathy

Introduction: The aim of the study was to identify retinal microvascular changes using optical coherence tomography angiography (OCTA) in type 2 diabetes (T2D) patients with preclinical retinopathy identified by ultra-widefield fundus photography (UWF-FP). Methods: This is a cross-sectional observational study. All patients underwent UWF-FP 200° examinations with OPTOS California (Optos, Dunfermline, UK) and Cirrus AngioPlex® spectral-domain (SD)-OCTA 3 × 3 mm acquisitions (ZEISS, Dublin, CA, USA). The absence of visible lesions was identified using UWF-FP. Results: One hundred and ninety three eyes of individuals with T2D with no visible lesions in the fundus and identified in a screening setting were included in the study. Skeletonized vessel density (SVD), perfusion density (PD), and areas of capillary nonperfusion (CNP) values on SD-OCTA were significantly decreased when compared with healthy population (p < 0.001). SVD and CNP values of the superficial capillary plexus (SCP) were more frequently decreased (35% and 45%, respectively) than SVD values of the deep capillary plexus (DCP) (9% and 15%, respectively), demonstrating that diabetic microvascular changes occur earlier in the SCP than in the DCP. The ischemic phenotype, identified by a definite decrease in SVD or CNP in the SCP may, therefore, be identified in the preclinical stage of diabetic retinal disease. Conclusions: Retinal capillary nonperfusion detected by OCTA metrics of SVD and CNP can be identified in the central retina in eyes with T2D before development of visible lesions in the retina. Our findings confirm the relevance of OCTA to identify macular microvascular changes in the initial stages of diabetic retinopathy, allowing the identification of its ischemic phenotype very early in the disease process.
Seasonal Variation in Physicochemical Parameters of Lekki Lagoon and the Conservation of Its Ecosystem

Some physicochemical parameters like temperature, transparency, dissolved solid, suspended materials, turbidity, conductivity, pH, total alkalinity, dissolved oxygen, nitrate, phosphate and salinity of water samples collected at Lekki Lagoon from November 2010 to September 2012 were evaluated. Fifteen locations were selected for water sampling according to the activities that took place in the lagoon. Physical water quality parameters such as temperature, transparency, total dissolved solids and total suspended solid showed strong seasonal and spatial fluctuation. Parameters like conductivity, pH and total alkalinity had relatively constant values among stations though they varied seasonally. Dissolved oxygen, nitrate and phosphate values were within permissible range for fish. Higher salinity values were recorded in wet seasons than dry seasons suggesting that salinity variation at Lekki Lagoon was due to salt incursion from the adjourning Lagos Lagoon and Mahin Creek during rainy season rather than evaporation factor. Salinity range of 1.70 - 6.00 psu recorded in this study also shows that Lekki Lagoon is tending towards brackish and this may affect the ichthyofauna composition of the lagoon.
Optimum RADARSAT-1 configurations for wetlands discrimination: a case study of the Mer Bleue peat bog

This study investigated the effect of the RADARSAT-1 incidence angle on the discrimination of the wetlands, including open bog, treed bog, and marsh, in the Mer Bleue bog conservation area in Ontario, Canada. The results demonstrated that RADARSAT-1 can penetrate tall herbaceous vegetation in marsh at all incidence angles and short shrub vegetation in open bog with standing water at low incidence angles only, which reveals that RADARSAT-1 backscatter double bounce from open wetlands (marsh and bog) with standing water is related to the vegetation types. The analysis of the RADARSAT-1 synthetic aperture radar (SAR) backscatter of wetland and non-wetland land cover types confirmed that the backscatter return of each land cover type decreases as the incidence angle increases. It was also found that the separations of marsh, treed bog, and open bog without standing water do not vary significantly with increasing incidence angles. However, the incidence angle does affect the discrimination of open bog with standing water. The results from separability measures of land cover classes demonstrate that the combination of a low incidence angle (<31°) RADARSAT-1 standard beam mode image with Landsat-7 data can provide good separation for all class pairs in the study area. The combination of RADARSAT-1 standard beam mode 1 (S1) and Landsat-7 images gave better classification results than the combination of RADARSAT-1 standard beam mode 5 (S5) and Landsat-7 images: the classification accuracies (kappa indices) of various wetlands increased in the range 0.02-0.13. For optimal spatial detail, fine beam mode data are desirable because of the higher spatial resolution (~9 m). However, in terms of the discrimination and classification accuracy of wetlands, fine beam mode data are not suggested because of the high incidence angle. Therefore, it is concluded that a lower incidence angle RADARSAT-1 image (e.g., S1) is the optimal beam mode when combining with Landsat images for the discrimination and classification of wetlands.
Hepatitis E virus neutralization by porcine serum antibodies

ABSTRACT The consumption of raw or undercooked meat products poses a serious risk for human hepatitis E virus (HEV) infections. In many high-income countries, domestic pigs and wild boars represent the main animal reservoirs for HEV and are usually identified by reverse transcription-PCR and antibody enzyme-linked immunosorbent assay (ELISA). In order to characterize the humoral immune response in more detail, a cell culture-based serum neutralization assay using a culture-adapted HEV strain was established here. Measurement of neutralizing antibodies was only possible after removing the viral quasi-envelope by detergent treatment. Serum samples of 343 wild boars from Northern Germany were first analyzed for anti-HEV IgG using an in-house ELISA, resulting in 19% positive samples. Subsequently, a subset of 41 representative samples was tested with the neutralization assay, and the results correlated well with those obtained by ELISA. Not only the human HEV strain 47832c but also two porcine HEV strains were shown to be neutralized by porcine serum antibodies. Neutralizing activity was also found in samples containing both HEV-specific antibodies and HEV RNA. Testing of serum samples derived from two experimentally infected domestic pigs showed a steep increase in neutralizing activity at 24 or 51 days post infection, dependent on the used infectious dose. The developed assay can be useful for characterization of the humoral immune response after HEV infection and for assessing the efficiency of HEV vaccine candidates.
Sierra San Pedro Mártir, Baja California, cool‐season precipitation reconstructed from earlywood width of Abies concolor tree rings

Tree ring data are analyzed for a multicentury record of drought history in the Sierra San Pedro Mártir (SSPM) of Baja California, Mexico. Climatic variation in the study area is of particular interest because the SSPM is a rich biotic environment at the southern limit of the California floristic province and the southern limit of the planetary jet stream. Future shifts in the jet stream would be expected to have amplified effect on this marginal environment. The study applies linear regression to tree ring indices of earlywood‐width of Abies concolor to estimate a 353 year (1658–2010 C.E.) record of cool‐season (October–April) precipitation, P, in SSPM. Time‐nested regression models account for more than half the variance of grid point P in calibration periods of length 50–65 years. Cross‐spectral analysis indicates strong tracking of observed P by the reconstruction over a broad range of frequencies. Robustness of the reconstruction is supported by synchrony of reconstructed P with tree ring variations in other tree species from SSPM. The reconstruction emphasizes the severity of the 1950s drought in a long‐term context and the single‐year intensity of droughts in the last decade: 2007 stands out as the driest reconstructed year, with a high percentage of missing rings in A. concolor. The reconstruction identifies the early twentieth century pluvial as the wettest epoch in the last 353 years in the SSPM. High‐elevation tree species in SSPM may be especially well‐suited to sensing snowpack‐related moisture variations associated with a southerly branched jet stream and the types of weather systems active in the pluvial.
Metamorphic history of serpentinite mylonites from the Happo ultramafic complex, central Japan

Serpentinite mylonites from the Happo ultramafic complex show evidence of two stages of mylonitization at different temperature conditions. Peridotite mylonites exhibit two types of olivine – porphyroclasts and neoblasts – produced at the earlier stage. The olivine neoblasts have a stretching lineation with a fabric suggesting plastic deformation along (0 1 0) [0 0 1]. In addition to the olivine fabric, the stable association of olivine, orthopyroxene and tremolite in the peridotites that survived later serpentinization, and the Si and Na contents of tremolite, suggest that the earlier mylonitization took place at temperatures between 700 and 800 °C. Later mylonitization was associated with high‐temperature serpentinization to form serpentinite mylonites. In contrast to a common type of serpentinite in orogenic belts, the serpentinite mylonites are cohesively foliated, rich in olivine and diopside, and poor in antigorite. The diopside has low Al, Cr and Na contents typical of a retrograde origin, and the olivine has a homogeneous composition except in areas subjected to contact metamorphism at a later stage. Modal composition and mineral chemistry suggest that the serpentinite mylonites were formed by a hydration reaction of tremolite and olivine to produce diopside and antigorite under stable conditions of olivine, at temperatures between 400 and 600 °C. Later‐stage mylonitization has preferentially been superimposed on the earlier‐stage mylonite zone with a common direction of foliation. The difference in temperature between the two mylonitization stages suggests that the shear zone was episodically active during the emplacement of the Happo complex. Conditions of relatively high temperature for serpentinization at a convergent plate boundary and high permeability caused by the early mylonitization favoured the formation of the serpentinite mylonites.
Causes of death in individuals with trisomy 18 after the first year of life

Mortality in individuals with trisomy 18 has significantly decreased over the past 20 years, but there is scant literature addressing the prognosis and cause of death in individuals with trisomy 18 and survival past the first year of life (YOL). This study analyzed factors associated with mortality and cause of death in a retrospective cohort of 174 individuals with trisomy 18 and survival past the first YOL, the largest such series to date. Data were collected via retrospective survey of parents of affected individuals. Prenatal diagnosis of trisomy 18; postnatal respiratory distress; maternal age > 35 years; birthweight <2000 g; brain and spinal cord defect(s); atrial and/or ventricular septal defect(s); inability to feed orally without medical assistance; and failure to meet sitting and rolling milestones were associated with mortality in this sample. Cause of death was compared between our cohort of individuals with trisomy 18 and existing literature on those with mortality before the first YOL. Individuals with trisomy 18 with mortality after the first YOL demonstrated a predominance of infectious (n = 10/22) and postoperative (n = 6/22) contributing causes of death, in contrast to the existing literature, which shows a predominance of cardiopulmonary causes of death (e.g., cardiopulmonary arrest, pulmonary hypertension). These findings demonstrate that individuals with trisomy 18 and survival past the first YOL have unique medical needs, but further research is needed to develop clinical guidelines for this growing population.
Venovenous Versus Venoarterial Extracorporeal Membrane Oxygenation: Pediatric Acute Respiratory Distress Syndrome

Objective: This study aimed to compare the efficacy, complication, and mortality of patients who were supported by venovenous (VV) extracorporeal membrane oxygenation (ECMO) and venoarterial (VA) ECMO for pediatric acute respiratory distress syndrome (PARDS). Materials and Methods: This study is a single-center, retrospective cohort study between 2014 and 2022. We evaluated to indication of ECMO support, ECMO type, patients’ demographic features, complications, and children’s outcomes supported by ECMO for PARDS. Results: Twenty-two patients with PARDS, 12 (54%) with VV, and 10 (46%) with VA ECMO were selected. The median number of days to be intubated before ECMO cannulation was 5 (0-16) days. The distribution of intubated days before the patients underwent ECMO was as follows: 0-1 days, 7 (31.8%) patients; 2-3 days, 2 (9.1%) patients; 4-7 days, 7 (31.8%) patients; 8-14 days, 5 (22.8%) patients; >14 days, 1 (4.5%) patient. The median ECMO cannulation day after admission to the pediatric intensive care unit was 3 (range, 1-9) days in the VV ECMO patient group, whereas it was 8 (range, 0-19) days in the VA ECMO group (P = .02). Considering hospital survival, 4 (45%) patients who underwent double-lumen VV ECMO, 1 (33%) patient who underwent VV ECMO, and 3 (30%) patients who supported by VAECMO survived. There was no difference between the groups in terms of hospital discharge rates. Conclusion: The highest survival rate was found in the VV ECMO patient group established with double-lumen cannulas, similar to the literature. There was no difference in mortality between the groups whose intubation time before ECMO was 14 days or less.
Medications for Opioid Use Disorder and Mortality and Hospitalization Among People With Opioid Use-related Infections

Background: Severe skin and soft tissue infections related to injection drug use have increased in concordance with a shift to heroin and illicitly manufactured fentanyl. Opioid agonist therapy medications (methadone and buprenorphine) may improve long-term outcomes by reducing injection drug use. We aimed to examine the association of medication use with mortality among people with opioid use-related skin or soft tissue infections. Methods: An observational cohort study of Medicaid enrollees aged 18 years or older following their first documented medical encounters for opioid use-related skin or soft tissue infections during 2007–2018 in North Carolina. The exposure was documented medication use (methadone or buprenorphine claim) in the first 30 days following initial infection compared with no medication claim. Using Kaplan–Meier estimators, we examined the difference in 3-year incidence of mortality by medication use, weighted for year, age, comorbidities, and length of hospital stay. Results: In this sample, there were 13,286 people with opioid use-related skin or soft tissue infections. The median age was 37 years, 68% were women, and 78% were white. In Kaplan–Meier curves for the total study population, 12 of every 100 patients died during the first 3 years. In weighted models, for every 100 people who used medications, there were four fewer deaths over 3 years (95% confidence interval = 2, 6). Conclusion: In this study, people with opioid use-related skin and soft tissue infections had a high risk of mortality following their initial healthcare visit for infections. Methadone or buprenorphine use was associated with reductions in mortality.