Miracle-dz/UniFAR-FTUs huggingface dataset:
The diversity of ice algal communities on the Greenland Ice Sheet as revealed by oligotyping

The Arctic is being disproportionally affected by climate change compared with other geographic locations, and is currently experiencing unprecedented melt rates. The Greenland Ice Sheet (GrIS) can be regarded as the largest supraglacial ecosystem on Earth, and ice algae are the dominant primary producers on bare ice surfaces throughout the course of a melt season. Ice-algal-derived pigments cause a darkening of the ice surface, which in turn decreases albedo and increases melt rates. The important role of ice algae in changing melt rates has only recently been recognized, and we currently know little about their community compositions and functions. Here, we present the first analysis of ice algal communities across a 100 km transect on the GrIS by high-throughput sequencing and subsequent oligotyping of the most abundant taxa. Our data reveal an extremely low algal diversity with Ancylonema nordenskiöldii and a Mesotaenium species being by far the dominant taxa at all sites. We employed an oligotyping approach and revealed a hidden diversity not detectable by conventional clustering of operational taxonomic units and taxonomic classification. Oligotypes of the dominant taxa exhibit a site-specific distribution, which may be linked to differences in temperatures and subsequently the extent of the melting. Our results help to better understand the distribution patterns of ice algal communities that play a crucial role in the GrIS ecosystem.
Absorption, Distribution, Metabolism, and Excretion of the Oral Prostaglandin D2 Receptor 2 Antagonist Fevipiprant (QAW039) in Healthy Volunteers and In Vitro

Fevipiprant is a novel oral prostaglandin D2 receptor 2 (DP2; also known as CRTh2) antagonist, which is currently in development for the treatment of severe asthma and atopic dermatitis. We investigated the absorption, distribution, metabolism, and excretion properties of fevipiprant in healthy subjects after a single 200-mg oral dose of [14C]-radiolabeled fevipiprant. Fevipiprant and metabolites were analyzed by liquid chromatography coupled to tandem mass spectrometry and radioactivity measurements, and mechanistic in vitro studies were performed to investigate clearance pathways and covalent plasma protein binding. Biotransformation of fevipiprant involved predominantly an inactive acyl glucuronide (AG) metabolite, which was detected in plasma and excreta, representing 28% of excreted drug-related material. The AG metabolite was found to covalently bind to human plasma proteins, likely albumin; however, in vitro covalent binding to liver protein was negligible. Excretion was predominantly as unchanged fevipiprant in urine and feces, indicating clearance by renal and possibly biliary excretion. Fevipiprant was found to be a substrate of transporters organic anion transporter 3 (OAT3; renal uptake), multidrug resistance gene 1 (MDR1; possible biliary excretion), and organic anion-transporting polypeptide 1B3 (OATP1B3; hepatic uptake). Elimination of fevipiprant occurs via glucuronidation by several uridine 5′-diphospho glucuronosyltransferase (UGT) enzymes as well as direct excretion. These parallel elimination pathways result in a low risk of major drug-drug interactions or pharmacogenetic/ethnic variability for this compound.
Identification and Validation of Reference Genes for Seashore Paspalum Response to Abiotic Stresses

Seashore paspalum (Paspalum vaginatum) is among the most salt- and cadmium-tolerant warm-season perennial grass species widely used as turf or forage. The objective of this study was to select stable reference genes for quantitative real-time polymerase chain reaction (qRT-PCR) analysis of seashore paspalum in response to four abiotic stresses. The stability of 12 potential reference genes was evaluated by four programs (geNorm, NormFinder, BestKeeper, and RefFinder). U2AF combined with glyceraldehyde-3-phosphate dehydrogenase (GAPDH) showed stable expression in Cd-treated leaves and cold-treated roots. U2AF and FBOX were the most stable reference genes in Cd-treated roots and cold-treated leaves. In Polyethylene Glycol (PEG)- or salt-treated roots, the reference gene U2AF paired with either ACT or CYP were stable. SAND and CACS exhibited the most stability in salt-treated leaves, and combining UPL, PP2A, and EF1a was most suitable for PEG-treated leaves. The stability of U2AF and instability of UPL and TUB was validated by analyzing the expression levels of four target genes (MT2a, VP1, PIP1, and Cor413), and were shown to be capable of detecting subtle changes in expression levels of the target genes in seashore paspalum. This study demonstrated that FBOX, U2AF, and PP2A could be used in future molecular studies that aim to understand the mechanisms of abiotic stress tolerance in seashore paspalum.
SEISMIC PERFORMANCE AND SMART HEALTH MONITORING OF CONCRETE WITH RECYCLED AGGREGATE Part I: Smart Health Monitoring of Concrete with Recycled Aggregate

Concrete is one of the most widely used artificial materials in construction, and the consumption of cement and concrete is maintained at a rapid rate of increase. According to the statistics from Europe Cement Society, the world's cement production is about 10 million tons in 1900, but it increased to 6,400 million tons in 1998. Concrete is a composite material, consisting of aggregates and paste. Paste is a continuous phase matrix, in which granular aggregates are embedded. To produce the granular aggregates in concrete, not only a lot of natural resource of stone materials are needed, but also the ecological environment is adversely impacted. On the other hand, when concrete structures reach the limit of their service life, a large amount of old constructions need to be dismantled in addition to natural disasters’ destructive effects, leading to a plenty of waste concrete. As a sort of waste produced by demolishing old buildings, waste concrete will result in serious environment pollution and vast resource extravagance if it is not reutilized or recycled. To protect environment and maintain sustainable development in construction, the technology of recycled concrete is becoming one of the demanding research fields. The frame construction using recycled aggregate concrete (RAC) has been commonly considered in engineering practice, and their ability to resist earthquake loading is important. However, little or no research on seismic performance of the RAC structures has been explored. The objectives of the proposed study are two-fold: (1) to evaluate the seismic performance of RAC structures, and (2) to assess condition and detect damage in RAC using embedded smart piezoelectric sensors/actuators. A combined experimental, theoretical and numerical approach will be considered to evaluate the seismic performance of RAC and develop the condition assessment and damage detection strategy using smart materials. 17.
Learning probabilistic representation of shape recognition from volumetric grid

Since a camera only gets an observation of partial surface of an object, the recognition of the whole object from this single-view observation is imcomplete. To address this problem, we establish probability representation of surface shape recognition based on 3D data. For a number of objects, multiple Convolutional Neural Network (CNN) stuctures are used to extract local shape features and to fit probility representation. In experiments, computation effect of different network structures are compared and the feasibility of fitting probability representation using convolution neural network is verified. In most cases, recognition probability is very accurate.
Estimating Ground Level and Canopy Top Elevation With Airborne Microwave Profiling Radar

This paper presents the estimation of the ground elevation and canopy top elevation from the data collected by an airborne frequency-modulated continuous waveform profiling radar, Tomoradar. The estimated ground and canopy top elevations are critical for the derivation of reference information for the satellite-borne microwave radar data and the modeling of interaction between microwave radar signal and foliage. The methods of estimating the ground elevation and canopy top elevation from profiling radar are introduced, and the accuracy was evaluated via digital terrain model and Velodyne VLP-16 LiDAR integrated with the Tomoradar. To our knowledge, the ranging radar and the LiDAR data were simultaneously collected for the first time. The evaluation proved that the root-mean-square error (RMSE) of ground level estimation of the developed profiling radar can reach up to 0.33 m. When comparing the estimated canopy top peak elevation between the profile radar data and the LiDAR data, it was found that the side lobes of Tomoradar antenna system may produce undesired canopy backscatters when the size of the canopy gap is comparable to the footprint size of the main lobe, resulting in a higher canopy top elevation measurement from Tomoradar than that from LiDAR. The RMSE of the estimated canopy top peak elevation between two data sets was 0.32 m in the best case and 0.852 m on average. Moreover, the RMSE of point-to-point comparing the entire canopy tops elevation estimated from the data of two active remote sensing systems is 0.799 m after excluding the outliers.
Effect of the Learning Climate of Residency Programs on Faculty’s Teaching Performance as Evaluated by Residents

Background To understand teaching performance of individual faculty, the climate in which residents’ learning takes place, the learning climate, may be important. There is emerging evidence that specific climates do predict specific outcomes. Until now, the effect of learning climate on the performance of the individual faculty who actually do the teaching was unknown. Objectives This study: (i) tested the hypothesis that a positive learning climate was associated with better teaching performance of individual faculty as evaluated by residents, and (ii) explored which dimensions of learning climate were associated with faculty’s teaching performance. Methods and Materials We conducted two cross-sectional questionnaire surveys amongst residents from 45 residency training programs and multiple specialties in 17 hospitals in the Netherlands. Residents evaluated the teaching performance of individual faculty using the robust System for Evaluating Teaching Qualities (SETQ) and evaluated the learning climate of residency programs using the Dutch Residency Educational Climate Test (D-RECT). The validated D-RECT questionnaire consisted of 11 subscales of learning climate. Main outcome measure was faculty’s overall teaching (SETQ) score. We used multivariable adjusted linear mixed models to estimate the separate associations of overall learning climate and each of its subscales with faculty’s teaching performance. Results In total 451 residents completed 3569 SETQ evaluations of 502 faculty. Residents also evaluated the learning climate of 45 residency programs in 17 hospitals in the Netherlands. Overall learning climate was positively associated with faculty’s teaching performance (regression coefficient 0.54, 95% confidence interval: 0.37 to 0.71; P<0.001). Three out of 11 learning climate subscales were substantially associated with better teaching performance: ‘coaching and assessment’, ‘work is adapted to residents’ competence’, and ‘formal education’. Conclusions Individual faculty’s teaching performance evaluations are positively affected by better learning climate of residency programs.
Surface morphology of the marine parasite Haplozoon axiothellae Siebert (Dinoflagellata)

The genus Haplozoon contains a group of intestinal parasites of marine worms with a bizarre cellular organization. Although the phylogenetic relationship of these parasites to other eukaryotes was once controversial, a few studies using light and transmission electron microscopy (TEM) and small subunit rDNA confirmed that they are aberrant dinoflagellates. Microscopical studies also suggested that haplozoans possessed a number of surface features that remained to be characterized. We have conducted a fine-scale examination of the surface of Haplozoon axiothellae Siebert, a parasite of the maldanid polychaete Axiothella rubrocincta, collected from two sites in the northeastern Pacific Ocean. Our findings indicated that the parasites are covered with a theca of barbs and small polygonal plates and possess a longitudinal row of ventral pores that resemble a kinety. Most surprisingly, we provide evidence that the entire organism is bounded by a single, continuous membrane, suggesting that haplozoans are not really multicellular but a syncytium compartmentalized by sheets of alveoli. We also demonstrated distinct clusters of unusual concave bodies over the surface of roughly half of the parasites observed. Septum-like junctions between individuals, distinctive threads reminiscent of pili, and their size ranges suggest that the concave bodies might be unusual episymbionts.
TECHNICAL NOTE CRIMINALISTICS

Two multiplex polymerase chain reaction (PCR) systems (Midiplex and Miniplex) were developed for the amplification of the mitochondrial DNA (mtDNA) control region, and the efficiencies of the multiplexes for amplifying degraded DNA were validated using old skeletal remains. The Midiplex system consisted of two multiplex PCRs to amplify six overlapping amplicons ranging in length from 227 to 267 bp. The Miniplex system consisted of three multiplex PCRs to amplify 10 overlapping short amplicons ranging in length from 142 to 185 bp. Most mtDNA control region sequences of several 60-year-old and 400–500-year-old skeletal remains were successfully obtained using both PCR systems and consistent with those previously obtained by monoplex amplification. The multiplex system consisting of smaller amplicons is effective for mtDNA sequence analyses of ancient and forensic degraded samples, saving time, cost, and the amount of DNA sample consumed during analysis.
Characteristics of intermittent smokers and their association with quit intentions in a sample of heavy-drinking HIV-infected men who have sex with men

ABSTRACT Intermittent smokers (ITS) have increased health risks compared with non-smokers (NS). Cigarette smoking remains prevalent among men who have sex with men (MSM) and persons living with HIV (PLWH), yet most studies in PLWH do not discriminate between daily smokers (DS) and ITS. In this study, the characteristics and quit intentions of ITS and DS are compared in a sample of heavy-drinking HIV-infected MSM. Of the 185 participants enrolled, 49.2% reported having smoked cigarettes in the past month; among those, 50.5% were DS, and 49.5% were ITS. Compared with DS, ITS were significantly more likely to be White and to have a college degree or higher. DS reported significantly higher average number of drinks per week compared with both ITS and NS. Compared with DS, ITS were significantly more likely to report future quit intentions (i.e., within 6 months or more) compared to no intentions at all; DS were more likely to report immediate quit intentions (i.e., within 30 days) compared to future quit intentions. Among heavy-drinking MSM living with HIV, intermittent smoking was associated with being White, college educated, and having future quit intentions. Considering that smoking in ITS may be less driven by nicotine dependence, tailored approaches to smoking cessation may be needed. Specifically, it may be important for interventions for ITS to address social and situational cues to smoke, including the influence of heavy alcohol use on smoking behaviors, and to provide information regarding the adverse health effects of even low-level smoking.
Learning Discriminative Representations from RGB-D Video Data

Recently, the low-cost Microsoft Kinect sensor, which can capture real-time high-resolution RGB and depth visual information, has attracted increasing attentions for a wide range of applications in computer vision. Existing techniques extract hand-tuned features from the RGB and the depth data separately and heuristically fuse them, which would not fully exploit the complementarity of both data sources. In this paper, we introduce an adaptive learning methodology to automatically extract (holistic) spatio-temporal features, simultaneously fusing the RGB and depth information, from RGB-D video data for visual recognition tasks. We address this as an optimization problem using our proposed restricted graph-based genetic programming (RGGP) approach, in which a group of primitive 3D operators are first randomly assembled as graph-based combinations and then evolved generation by generation by evaluating on a set of RGB-D video samples. Finally the best-performed combination is selected as the (near-)optimal representation for a pre-defined task. The proposed method is systematically evaluated on a new hand gesture dataset, SKIG, that we collected ourselves and the public MSR Daily Activity 3D dataset, respectively. Extensive experimental results show that our approach leads to significant advantages compared with state-of-the-art hand-crafted and machine-learned features.
Two-Dimensional Raman Correlation Spectroscopy Study of Poly[(R)-3-hydroxybutyrate-co-(R)-3-hydroxyhexanoate] Copolymers

Two-dimensional correlation analysis was applied to the time-dependent evolution of Raman spectra during the isothermal crystallization of bioplastic, poly[(R)-3-hydroxybutyrate-co-(R)-3-hydroxyhexanoate] or PHBHx copolymer. Simultaneous Raman measurement of both carbonyl stretching and low-frequency crystalline lattice mode regions made it possible to carry out the highly informative hetero-mode correlation analysis. The crystallization process of PHBHx involves: (1) the early nucleation stage; (2) the primary growth of well-ordered crystals of PHBHx; and (3) the secondary crystal growth phase. The latter stage probably occurs in the inter-lamellar region, with an accompanying reduction of the amorphous component, which occurs most dominantly during the primary crystal growth. The development of a fully formed lamellar structure comprising the 21 helices occurs after the primary growth of crystals. In the later stage, secondary inter lamellar space crystallization occurs after the full formation of packed helices comprising the lamellae.
Problematising risk in stroke rehabilitation

Abstract Purpose: Following stroke, re-engagement in personally valued activities requires some experience of risk. Risk, therefore, must be seen as having positive as well as negative aspects in rehabilitation. Our aim was to identify the dominant understanding of risk in stroke rehabilitation and the assumptions underpinning these understandings, determine how these understandings affect research and practise, and if necessary, propose alternate ways to conceptualise risk in research and practise. Method: Alvesson and Sandberg’s method of problematisation was used. We began with a historical overview of stroke rehabilitation, and proceeded through five steps undertaken in an iterative fashion: literature search and selection; data extraction; syntheses across texts; identification of assumptions informing the literature and; generation of alternatives. Results: Discussion of risk in stroke rehabilitation is largely implicit. However, two prominent conceptualisations of risk underpin both knowledge development and clinical practise: the risk to the individual stroke survivor of remaining dependent in activities of daily living and the risk that the health care system will be overwhelmed by the costs of providing stroke rehabilitation. Conclusions: Conceptualisation of risk in stroke rehabilitation, while implicit, drives both research and practise in ways that reinforce a focus on impairment and a generic, decontextualised approach to rehabilitation. Implications for rehabilitation Much of stroke rehabilitation practise and research seems to centre implicitly on two risks: risk to the patient of remaining dependent in ADL and risk to the health care system of bankruptcy due to the provision of stroke rehabilitation. The implicit focus on ADL dependence limits the ability of clinicians and researchers to address other goals supportive of a good life following stroke. The implicit focus on financial risk to the health care system may limit access to rehabilitation for people who have experienced either milder or more severe stroke. Viewing individuals affected by stroke as possessing a range of independence and diverse personally valued activities that exist within a network of relations offers wider possibilities for action in rehabilitation.
PARP-1–Targeted Radiotherapy in Mouse Models of Glioblastoma

The DNA repair enzyme poly(ADP-ribose) polymerase 1 (PARP-1) is overexpressed in glioblastoma, with overall low expression in healthy brain tissue. Paired with the availability of specific small molecule inhibitors, PARP-1 is a near-ideal target to develop novel radiotherapeutics to induce DNA damage and apoptosis in cancer cells, while sparing healthy brain tissue. Methods: We synthesized an 131I-labeled PARP-1 therapeutic and investigated its pharmacology in vitro and in vivo. A subcutaneous tumor model was used to quantify retention times and therapeutic efficacy. A potential clinical scenario, intratumoral convection-enhanced delivery, was mimicked using an orthotopic glioblastoma model combined with an implanted osmotic pump system to study local administration of 131I-PARPi (PARPi is PARP inhibitor). Results: 131I-PARPi is a 1(2H)-phthalazinone, similar in structure to the Food and Drug Administration–approved PARP inhibitor AZD-2281. In vitro studies have shown that 131I-PARPi and AZD-2281 share similar pharmacologic profiles. 131I-PARPi delivered 134.1 cGy/MBq intratumoral injected activity. Doses to nontarget tissues, including liver and kidney, were significantly lower. Radiation damage and cell death in treated tumors were shown by p53 activation in U87-MG cells transfected with a p53-bioluminescent reporter. Treated mice showed significantly longer survival than mice receiving vehicle (29 vs. 22 d, P < 0.005) in a subcutaneous model. Convection-enhanced delivery demonstrated efficient retention of 131I-PARPi in orthotopic brain tumors, while quickly clearing from healthy brain tissue. Conclusion: Our results demonstrate 131I-PARPi’s high potential as a therapeutic and highlight PARP’s relevance as a target for radionuclide therapy. Radiation plays an integral role in brain tumor therapy, and radiolabeled PARP therapeutics could ultimately lead to improvements in the standard of care.
Causal Action: A Fundamental Constraint on Perception and Inference About Body Movements

The human body navigates the environment via locomotory movements that leverage gravity and limb biomechanics to propel the body in a particular direction. This process creates a causal link between limb movements and whole-body translation. However, it is unknown whether humans use this causal relation as a constraint in perception and inference with body movements. In the present study, participants rated actions of other individuals as more natural when limb movements (as a cause) occurred before body displacements (as an effect) than when limb movements temporally lagged behind body displacements. This causal expectation for human body movements not only affected perceptual impressions regarding the naturalness of observed actions but also guided the interpretation of motion cues within a more generalized causal context. We interpret these results within a framework of causality as evidence that the constraint of causal action plays an important role in perception and inference with body movements.