Miracle-dz/UniFAR-FTUs huggingface dataset:
Glio‐ and neuro‐protection by prosaposin is mediated by orphan G‐protein coupled receptors GPR37L1 and GPR37

Discovery of neuroprotective pathways is one of the major priorities for neuroscience. Astrocytes are natural neuroprotectors and it is likely that brain resilience can be enhanced by mobilizing their protective potential. Among G‐protein coupled receptors expressed by astrocytes, two highly related receptors, GPR37L1 and GPR37, are of particular interest. Previous studies suggested that these receptors are activated by a peptide Saposin C and its neuroactive fragments (prosaptide TX14(A)), which were demonstrated to be neuroprotective in various animal models by several groups. However, pairing of Saposin C or prosaptides with GPR37L1/GPR37 has been challenged and presently GPR37L1/GPR37 have regained their orphan status. Here, we demonstrate that in their natural habitat, astrocytes, these receptors mediate a range of effects of TX14(A), including protection from oxidative stress. The Saposin C/GPR37L1/GPR37 pathway is also involved in the neuroprotective effect of astrocytes on neurons subjected to oxidative stress. The action of TX14(A) is at least partially mediated by Gi‐proteins and the cAMP‐PKA axis. On the other hand, when recombinant GPR37L1 or GPR37 are expressed in HEK293 cells, they are not functional and do not respond to TX14(A), which explains unsuccessful attempts to confirm the ligand‐receptor pairing. Therefore, this study identifies GPR37L1/GPR37 as the receptors for TX14(A), and, by extension of Saposin C, and paves the way for the development of neuroprotective therapeutics acting via these receptors.
PhotoShape

Existing online 3D shape repositories contain thousands of 3D models but lack photorealistic appearance. We present an approach to automatically assign high-quality, realistic appearance models to large scale 3D shape collections. The key idea is to jointly leverage three types of online data - shape collections, material collections, and photo collections, using the photos as reference to guide assignment of materials to shapes. By generating a large number of synthetic renderings, we train a convolutional neural network to classify materials in real photos, and employ 3D-2D alignment techniques to transfer materials to different parts of each shape model. Our system produces photorealistic, relightable, 3D shapes (PhotoShapes).
Bifidobacterial Dominance of the Gut in Early Life and Acquisition of Antimicrobial Resistance

Infants are vulnerable to an array of infectious diseases, and as the gut microbiome may serve as a reservoir of AMR for pathogens, reducing the levels of AMR in infants is important to infant health. This study demonstrates that high levels of Bifidobacterium are associated with reduced levels of AMR in early life and suggests that probiotic interventions to increase infant Bifidobacterium levels have the potential to reduce AMR in infants. However, this effect is not sustained at year 2 of age in Bangladeshi infants, underscoring the need for more detailed studies of the biogeography and timing of infant AMR acquisition. ABSTRACT Bifidobacterium species are important commensals capable of dominating the infant gut microbiome, in part by producing acids that suppress growth of other taxa. Bifidobacterium species are less prone to possessing antimicrobial resistance (AMR) genes (ARGs) than other taxa that may colonize infants. Given that AMR is a growing public health crisis and ARGs are present in the gut microbiome of humans from early life, this study examines the correlation between a Bifidobacterium-dominated infant gut microbiome and AMR levels, measured by a culture-independent metagenomic approach both in early life and as infants become toddlers. In general, Bifidobacterium dominance is associated with a significant reduction in AMR in a Bangladeshi cohort, both in the number of acquired AMR genes present and in the abundance of AMR genes. However, by year 2, Bangladeshi infants had no significant differences in AMR related to their early-life Bifidobacterium levels. A generalized linear model including all infants in a previously published Swedish cohort found a significant negative association between log-transformed total AMR and Bifidobacterium levels, thus confirming the relationship between Bifidobacterium levels and AMR. In both cohorts, there was no change between early-life and later-life AMR abundance in high-Bifidobacterium infants but a significant reduction in AMR abundance in low-Bifidobacterium infants. These results support the hypothesis that early Bifidobacterium dominance of the infant gut microbiome may help reduce colonization by taxa containing ARGs. IMPORTANCE Infants are vulnerable to an array of infectious diseases, and as the gut microbiome may serve as a reservoir of AMR for pathogens, reducing the levels of AMR in infants is important to infant health. This study demonstrates that high levels of Bifidobacterium are associated with reduced levels of AMR in early life and suggests that probiotic interventions to increase infant Bifidobacterium levels have the potential to reduce AMR in infants. However, this effect is not sustained at year 2 of age in Bangladeshi infants, underscoring the need for more detailed studies of the biogeography and timing of infant AMR acquisition.
The ApolloScape Open Dataset for Autonomous Driving and Its Application

Autonomous driving has attracted tremendous attention especially in the past few years. The key techniques for a self-driving car include solving tasks like 3D map construction, self-localization, parsing the driving road and understanding objects, which enable vehicles to reason and act. However, large scale data set for training and system evaluation is still a bottleneck for developing robust perception models. In this paper, we present the ApolloScape dataset [1] and its applications for autonomous driving. Compared with existing public datasets from real scenes, e.g., KITTI [2] or Cityscapes [3] , ApolloScape contains much large and richer labelling including holistic semantic dense point cloud for each site, stereo, per-pixel semantic labelling, lanemark labelling, instance segmentation, 3D car instance, high accurate location for every frame in various driving videos from multiple sites, cities and daytimes. For each task, it contains at lease 15x larger amount of images than SOTA datasets. To label such a complete dataset, we develop various tools and algorithms specified for each task to accelerate the labelling process, such as joint 3D-2D segment labeling, active labelling in videos etc. Depend on ApolloScape, we are able to develop algorithms jointly consider the learning and inference of multiple tasks. In this paper, we provide a sensor fusion scheme integrating camera videos, consumer-grade motion sensors (GPS/IMU), and a 3D semantic map in order to achieve robust self-localization and semantic segmentation for autonomous driving. We show that practically, sensor fusion and joint learning of multiple tasks are beneficial to achieve a more robust and accurate system. We expect our dataset and proposed relevant algorithms can support and motivate researchers for further development of multi-sensor fusion and multi-task learning in the field of computer vision.
Surrogate Data Method Requires End-Matched Segmentation of Electroencephalographic Signals to Estimate Non-linearity

The aim of the study is to clarify the impact of the strong cyclic signal component on the results of surrogate data method in the case of resting electroencephalographic (EEG) signals. In addition, the impact of segment length is analyzed. Different non-linear measures (fractality, complexity, etc.) of neural signals have been demonstrated to be useful to infer the non-linearity of brain functioning from EEG. The surrogate data method is often applied to test whether or not the non-linear structure can be captured from the data. In addition, a growing number of studies are using surrogate data method to determine the statistical threshold of connectivity values in network analysis. Current study focuses on the conventional segmentation of EEG signals, which could lead to false results of surrogate data method. More specifically, the necessity to use end-matched segments that contain an integer number of dominant frequency periods is studied. EEG recordings from 80 healthy volunteers during eyes-closed resting state were analyzed using multivariate surrogate data method. The artificial surrogate data were generated by shuffling the phase spectra of original signals. The null hypothesis that time series were generated by a linear process was rejected by statistically comparing the non-linear statistics calculated for original and surrogate data sets. Five discriminating statistics were used as non-linear estimators: Higuchi fractal dimension (HFD), Katz fractal dimension (KFD), Lempel-Ziv complexity (LZC), sample entropy (SampEn) and synchronization likelihood (SL). The results indicate that the number of segments evaluated as non-linear differs in the case of various non-linear measures and changes with the segment length. The main conclusion is that the dependence on the deviation of the segment length from full periods of dominant EEG frequency has non-monotonic character and causes misleading results in the evaluation of non-linearity. Therefore, in the case of the signals with non-monotonic spectrum and strong dominant frequency, the correct use of surrogate data method requires the signal length comprising of full periods of the spectrum dominant frequency. The study is important to understand the influence of incorrect selection of EEG signal segment length for surrogate data method to estimate non-linearity.
Random Occlusion-recovery for Person Re-identification

As a basic task of multi-camera surveillance system, person re-identification aims to re-identify a query pedestrian observed from non-overlapping cameras or across different time with a single camera. Recently, Deep learning based person re-identification models have achieved great success in many benchmarks. However, these supervised models require a large amount of labeled image data and the process of manual labeling spends much manpower and time. In this study, we introduce a method to automatically synthesize labeled person images and adopt them to increase the sample number for per identity in datasets. Specifically, we use the block rectangles to occlude the random parts of the persons in the images. Then, a generative adversarial network (GAN) model is proposed to use paired occlusion and original images to synthesize the de-occluded images that similar but not identical to the original images. Afterwards, we annotate the de-occluded images with the same labels of their corresponding raw image and use them to augment the training samples. We use the augmented datasets to train baseline model. The experiment results on Market-1501 and CUHK03 datasets show that the effectiveness of the proposed method.
Peg3 Deficiency Results in Sexually Dimorphic Losses and Gains in the Normal Repertoire of Placental Hormones

Hormones from the fetally derived placenta signal to the mother throughout pregnancy to ensure optimal fetal growth and prepare the mother for her new role in nurturing her offspring. Through evolution, placental hormones have under gone remarkable diversification and species-specific expansions thought to be due to constant rebalancing of resource allocation between mother and offspring. Genomic imprinting, an epigenetic process in which parental germlines silence genes in the offspring, is thought to be the physical embodiment of a second conflicting interest, between the male and female mammal. Several genes silenced by paternal imprints normally function to limit the placental endocrine lineages of the mouse placenta. We hypothesized that paternal imprinting has adapted to overcome the rapid evolution of placental hormone gene families by directly regulating the lineages that express these hormones rather than individual hormones. This predicts the existence of genes maternally silenced in the offspring counteracting the influence of the paternal imprint. Here we report on the consequences of loss of function of Paternally expressed gene 3 (Peg3), on placental endocrine lineages. Mutant male placenta displayed a marked loss of the spongiotrophoblast, a key endocrine lineage of the placenta, and the glycogen cell lineage alongside reduced stores of placental glycogen and changes in expression of the normal repertoire of placental hormones. Peg3 is known to transcriptionally repress placental hormone genes. Peg3 consequently both positively and negatively regulates placental hormones through two independent and opposing mechanisms. Female placenta showed moderate response to loss of Peg3 with minor alterations to the junctional zone lineages and few changes in gene expression. These data highlight the important fact that female placenta compensate for the loss of Peg3 better than male placenta. This work lends further support to our novel hypothesis that the parental genomes are competing over the endocrine function of the mouse placenta and further suggests that a conflict between males and females begins in utero.
Cryptococcal Meningitis Diagnostics and Screening in the Era of Point-of-Care Laboratory Testing

Over the past ten years, standard diagnostics for cryptococcal meningitis in HIV-infected persons have evolved from culture to India ink to detection of cryptococcal antigen (CrAg), with the recent development and distribution of a point-of-care lateral flow assay. This assay is highly sensitive and specific in cerebrospinal fluid (CSF), but is also sensitive in the blood to detect CrAg prior to meningitis symptoms. ABSTRACT Over the past ten years, standard diagnostics for cryptococcal meningitis in HIV-infected persons have evolved from culture to India ink to detection of cryptococcal antigen (CrAg), with the recent development and distribution of a point-of-care lateral flow assay. This assay is highly sensitive and specific in cerebrospinal fluid (CSF), but is also sensitive in the blood to detect CrAg prior to meningitis symptoms. CrAg screening of HIV-infected persons in the blood prior to development of fulminant meningitis and preemptive treatment for CrAg-positive persons are recommended by the World Health Organization and many national HIV guidelines. Thus, CrAg testing is occurring more widely, especially in resource-limited laboratory settings. CrAg titer predicts meningitis and death and could be used in the future to customize therapy according to burden of infection.
Retracted: Experimentally investigated the asparagus (Asparagus officinalis L.) drying with flat‐plate collector under the natural convection indirect solar dryer

The above article, published online on 21 February 2018 in Wiley Online Library (wileyonlinelibrary.com), has been retracted by agreement between the authors, the journal Editor in Chief, Y. Martin Lo, and Wiley Periodicals, Inc. The retraction has been agreed at the authors’ request due to unattributed overlap between this article and the following article published in the Journal of Mechanical Engineering and Sciences, “Analysis of ginger drying inside a natural convection indirect solar dryer: An experimental study” by S. K. Sansaniwal and M. Kumar, Volume 9, pp. 1671–1685.
Methane Emissions from Natural Gas Production Sites in the United States: Data Synthesis and National Estimate.

We used site-level methane (CH4) emissions data from over 1000 natural gas (NG) production sites in eight basins, including 92 new site-level CH4 measurements in the Uinta, northeastern Marcellus, and Denver-Julesburg basins, to investigate CH4 emissions characteristics and develop a new national CH4 emission estimate for the NG production sector. The distribution of site-level emissions is highly skewed, with the top 5% of sites accounting for 50% of cumulative emissions. High emitting sites are predominantly also high producing (>10 Mcfd). However, low NG production sites emit a larger fraction of their CH4 production. When combined with activity data, we predict that this creates substantial variability in the basin-level CH4 emissions which, as a fraction of basin-level CH4 production, range from 0.90% for the Appalachian and Greater Green River to >4.5% in the San Juan and San Joaquin. This suggests that much of the basin-level differences in production-normalized CH4 emissions reported by aircraft studies can be explained by differences in site size and distribution of site-level production rates. We estimate that NG production sites emit total CH4 emissions of 830 Mg/h (95% CI: 530-1200), 63% of which come from the sites producing <100 Mcfd that account for only 10% of total NG production. Our total CH4 emissions estimate is 2.3 times higher than the U.S. Environmental Protection Agency's estimate and likely attributable to the disproportionate influence of high emitting sites.
Is There an Optimal Wound Closure Technique for Major Posterior Spine Surgery? A Systematic Review

Study Design: Systematic review. Objectives: In patients undergoing posterior spinal fusion: (1) What are the types and risks of wound complications in major (≥3 levels) surgery, and does the risk vary by number of levels fused? (2) What types of fascial closure result in the fewest wound complications? (3) What subcutaneous closure technique is more effective in preventing wound complications for obese patients (body mass index >30 kg/m2)? (4) What type of skin closure results in the fewest wound complications? (5) What type of dressing results in the fewest wound complications? Methods: Electronic databases and reference lists of key articles were searched from January 1, 2000 to December 4, 2017 to identify studies meeting inclusion criteria. Results: Six lower quality retrospective studies (evidence level III) met the inclusion criteria. The risk of wound complications in patients with ≥3 level posterior spine fusion ranges from 1.5% to 3.7% depending on the definition of wound complications. Skin closure with sutures resulted in fewer wound infections compared with staples (0.0% vs 8.0%, P = .023). We were unable to demonstrate an association between the number of levels fused and infection risk. Wound infections, primarily superficial, occurred less frequently with Silverlon dressing versus routine dressing. Conclusions: We were unable to determine if infection risk changed with increasing number of levels fused. There is a lack of evidence for optimal wound closure technique in posterior spine surgery. Several questions still remain unanswered, such as the optimal fascial closure technique or the optimal subcutaneous closure technique in obese patients.
Effect of organizational citizenship behavior on family-centered care: Mediating role of multiple commitment

Family-centered care is one the most important indicators of high-quality care. The organizational citizenship behavior and commitment can enhance the quality of healthcare. This study aimed to investigate the effect of the organizational citizenship behavior on family-centered care considering the mediating role of multiple commitment. This descriptive study was conducted on 237 nurses working in pediatric and infant units of hospitals in Tehran city, Iran. The subjects were selected using the convenience sampling method. Data collection was performed using the Organizational Citizenship Behavior Scale, Perceived Family-Centered Care Staff Questionnaire, Affective Commitment Scale, and Commitment to the Supervisor Scale. The SPSS v.22 and SEM-PLS v.2 software were used for data analysis. Results were extracted in the form of a standard model and fitted for indices pertaining to the measurement and structural models. Accordingly, the organizational citizenship behavior had a direct effect on family-centered care (β = 0.19, t = 2.39). Moreover, multiple commitment including commitment to the leader and commitment to the organization had indirect weak and moderate effects on the relationship between the organizational citizenship behavior and family-centered care, respectively. An inverse association was reported between commitment to the leader and family-centered care. Furthermore, the organizational citizenship behavior predicted family-centered care by 70% considering the mediating role of multiple commitment. Therefore, family-centered care as an indicator of high-quality care can be improved through enhancing the organizational citizenship behavior and organizational commitment among Iranian nurses working in pediatric wards.
Working Memory Impairment Across Psychotic disorders.

BACKGROUND Working memory (WM) has been a central focus of cognitive neuroscience research because WM is a resource that is involved in many different cognitive operations. The goal of this study was to evaluate the clinical utility of WM paradigms developed in the basic cognitive neuroscience literature, including methods designed to estimate storage capacity without contamination by lapses of attention. METHODS A total of 61 people with schizophrenia, 49 with schizoaffective disorder, 47 with bipolar disorder with psychosis, and 59 healthy volunteers were recruited. Participants received multiple WM tasks, including two versions each of a multiple Change Detection paradigm, a visual Change Localization paradigm, and a Running Span task. RESULTS Healthy volunteers performed better than the combined patient group on the visual Change Localization and running span measures. The multiple Change Detection tasks provided mixed evidence about WM capacity reduction in the patient groups, but a mathematical model of performance suggested that the patient groups differed from controls in their rate of attention lapsing. The 3 patient groups performed similarly on the WM tasks. Capacity estimates from the Change Detection and Localization tasks showed significant correlations with functional capacity and functional outcome. CONCLUSIONS The patient groups generally performed in a similarly impaired fashion across tasks, suggesting that WM impairment and attention lapsing are general features of psychotic disorders. Capacity estimates from the Change Localization and Detection tasks were related to functional capacity and outcome, suggesting that these methods may be useful in a clinical context.
Mitochondrial inner membrane protein, Mic60/mitofilin in mammalian organ protection

The identification of the mitochondrial contact site and cristae organizing system (MICOS) in the inner mitochondrial membrane shed light on the intricate components necessary for mitochondria to form their signature cristae in which many protein complexes including the electron transport chain are localized. Mic60/mitofilin has been described as the core component for the assembly and maintenance of MICOS, thus controlling cristae morphology, protein transport, mitochondrial DNA transcription, as well as connecting the inner and outer mitochondrial membranes. Although Mic60 homologs are present in many species, mammalian Mic60 is only recently gaining attention as a critical player in several organ systems and diseases with mitochondrial‐defect origins. In this review, we summarize what is currently known about the ever‐expanding role of Mic60 in mammals, and highlight some new studies pushing the field of mitochondrial cristae organization towards potentially new and exciting therapies targeting this protein.