Miracle-dz/UniFAR-FTUs huggingface dataset:
Estimation of Contrast Sensitivity From Fixational Eye Movements.

Purpose Even during steady fixation, people make small eye movements such as microsaccades, whose rate is altered by presentation of salient stimuli. Our goal was to develop a practical method for objectively and robustly estimating contrast sensitivity from microsaccade rates in a diverse population. Methods Participants, recruited to cover a range of contrast sensitivities, were visually normal (n = 19), amblyopic (n = 10), or had cataract (n = 9). Monocular contrast sensitivity was estimated behaviorally while binocular eye movements were recorded during interleaved passive trials. A probabilistic inference approach was used to establish the likelihood of observed microsaccade rates given the presence or absence of a salient stimulus. Contrast sensitivity was estimated from a function fitted to the scaled log-likelihood ratio of the observed microsaccades in the presence or absence of a salient stimulus across a range of contrasts. Results Microsaccade rate signature shapes were heterogeneous; nevertheless, estimates of contrast sensitivity could be obtained in all participants. Microsaccade-estimated contrast sensitivity was unbiased compared to behavioral estimates (1.2% mean), with which they were strongly correlated (Spearman's ρ 0.74, P < 0.001, median absolute difference 7.6%). Measurement precision of microsaccade-based contrast sensitivity estimates was worse than that of behavioral estimates, requiring more than 20 times as many presentations to equate precision. Conclusions Microsaccade rate signatures are heterogeneous in shape when measured across populations with a broad range of contrast sensitivities. Contrast sensitivity can be robustly estimated from rate signatures by probabilistic inference, but more stimulus presentations are currently required to achieve similarly precise estimates to behavioral techniques.
Bidirectional Retrieval Made Simple

This paper provides a very simple yet effective character-level architecture for learning bidirectional retrieval models. Aligning multimodal content is particularly challenging considering the difficulty in finding semantic correspondence between images and descriptions. We introduce an efficient character-level inception module, designed to learn textual semantic embeddings by convolving raw characters in distinct granularity levels. Our approach is capable of explicitly encoding hierarchical information from distinct base-level representations (e.g., characters, words, and sentences) into a shared multimodal space, where it maps the semantic correspondence between images and descriptions via a contrastive pairwise loss function that minimizes order-violations. Models generated by our approach are far more robust to input noise than state-of-the-art strategies based on word-embeddings. Despite being conceptually much simpler and requiring fewer parameters, our models outperform the state-of-the-art approaches by 4.8% in the task of description retrieval and 2.7% (absolute R@1 values) in the task of image retrieval in the popular MS COCO retrieval dataset. We also show that our models present solid performance for text classification, specially in multilingual and noisy domains.
Active components of mantis eggs and their immunomodulatory effect in a mouse model

Tenodera angustipennis is an Asian praying mantis, whose crude extracts have long been used for the prevention and treatment of bacterial and viral diseases. Despite significant progress in obtaining biomaterials from praying mantis, antiherpetic activity of T. angustipennis eggs is not well defined. In this study, we characterized the crude extracts from T. angustipennis eggs using high performance liquid chromatography (HPLC), gas chromatography (GC), and gas chromatography-mass spectrometry (GC/MS) methods. Inhibition of cell proliferation by mantis egg extracts and isolated components was investigated on lymphocytes in a MTT assay. Furthermore, the effects of egg extracts against the herpes simplex virus type 1 (HSV-1) strain KOS (HSV-1 KOS) were evaluated in a mouse model. The HPLC and GC/MS results showed that the extracts are mainly composed of stearic acid monoterpenes, octadecanoic acid, hexadecanoic acid, and propionic acid. Investigation on the immunomodulatory effects of the extracted components following infection of mice with HSV-1 KOS virus showed an increase in serum interferon-gamma level (26.01 ± 5.21 vs. 18.67 ± 3.23 pg/mL, respectively) and interleukin-10 level (106.64 ± 4.13 vs. 48.04 ± 3.12 pg/mL, respectively) in test and control groups (for both p < 0.05). It indicates that the mantis egg components have shifted the cytokines induction to the anti-inflammatory arm and probably truncated inflammation caused by HSV-1 KOS virus. Our findings can be considered as an early attempt to reveal the comprehensive biological properties of T. angustipennis eggs as new anti-inflammatory components in future pharmaceutical investigations.
mHealth Supportive Care Intervention for Parents of Children With Acute Lymphoblastic Leukemia: Quasi-Experimental Pre- and Postdesign Study

Background Acute lymphoblastic leukemia (ALL) is the most common childhood malignancy. Caring for children with ALL is challenging for parents. A mobile health (mHealth) supportive care intervention was developed to meet parents’ needs. Objective This study aims to evaluate the potential effectiveness of this mHealth supportive care intervention on emotional distress, social support, care burden, uncertainty in illness, quality of life, and knowledge. Methods We conducted a quasi-experimental pre- and postdesign study from June 2015 to January 2016. In total, 101 parents were enrolled in the study, with 50 in the observation group and 51 in the intervention group. Parents in the observation group received the standard health education and were observed for 3 months. Parents in the intervention group received the mHealth supportive care intervention, in addition to the standard health education. The intervention consisted of 2 parts—an Android smartphone app “Care Assistant (CA)” and a WeChat Official Account. The CA with 8 modules (Personal Information, Treatment Tracking, Family Care, Financial and Social Assistance, Knowledge Center, Self- Assessment Questionnaires, Interactive Platform, and Reminders) was the main intervention tool, whereas the WeChat Official Account was supplementary to update information and realize interaction between parents and health care providers. Data of parents’ social support, anxiety, depression, care burden, uncertainty in illness, quality of life, their existing knowledge of ALL and care, and knowledge need were collected before and after the 3-month study period in both groups. For the intervention group, parents’ experience of receiving the intervention was also collected through individual interviews. Results Overall, 43 parents in the observation group and 49 in the intervention group completed the study. Results found that the intervention reduced parents’ anxiety (Dint(Post-Pre)=−7.0 [SD 13.1], Dobs(Post-Pre)=−0.4 [SD 15.8], t90=−2.200, P=. 03) and uncertainty in illness (Dint(Post-Pre)=−25.0 [SD 8.2], Dobs(Post-Pre)=−19.8 [SD 10.1], t90=−2.761, P=. 01), improved parents’ social function (Dint(Post-Pre)=9.0 [SD 32.8], Dobs(Post-Pre)=−7.5 [SD 30.3], t90=2.494, P=. 01), increased parents’ knowledge of ALL and care (Dint(Post-Pre)=28.4 [SD 12.4], Dobs(Post-Pre)=17.2 [SD 11.9], t90=4.407, P<. 001), and decreased their need for knowledge (Dint(Post-Pre)=−9.9 [SD 11.6], Dobs(Post-Pre)=−1.9 [SD 6.4], t90=−4.112, P<. 001). Qualitative results showed that parents were satisfied with the intervention and their role in the caregiving process. Conclusions The mHealth intervention in supporting parents of children with ALL is effective. This study is informative for other future studies on providing mHealth supportive care for parents of children with cancer.
Mycobacterium tuberculosis Requires Regulation of ESX-5 Secretion for Virulence in Irgm1-Deficient Mice

The Mycobacterium tuberculosis type VII secretion system ESX-5, which has been implicated in virulence, is activated at the transcriptional level by the phosphate starvation-responsive Pst/SenX3-RegX3 signal transduction system. Deletion of pstA1, which encodes a Pst phosphate transporter component, causes constitutive activation of the response regulator RegX3, hypersecretion of ESX-5 substrates and attenuation in the mouse infection model. ABSTRACT The Mycobacterium tuberculosis type VII secretion system ESX-5, which has been implicated in virulence, is activated at the transcriptional level by the phosphate starvation-responsive Pst/SenX3-RegX3 signal transduction system. Deletion of pstA1, which encodes a Pst phosphate transporter component, causes constitutive activation of the response regulator RegX3, hypersecretion of ESX-5 substrates and attenuation in the mouse infection model. We hypothesized that constitutive activation of ESX-5 secretion causes attenuation of the ΔpstA1 mutant. To test this, we uncoupled ESX-5 from regulation by RegX3. Using electrophoretic mobility shift assays, we defined a RegX3 binding site in the esx-5 locus. Deletion or mutation of the RegX3 binding site reversed hypersecretion of the ESX-5 substrate EsxN by the ΔpstA1 mutant and abrogated induction of EsxN secretion in response to phosphate limitation by wild-type M. tuberculosis. The esx-5 RegX3 binding site deletion (ΔBS) also suppressed attenuation of the ΔpstA1 mutant in Irgm1−/− mice. These data suggest that constitutive ESX-5 secretion sensitizes M. tuberculosis to an immune response that still occurs in Irgm1−/− mice. However, the ΔpstA1 ΔBS mutant remained attenuated in both NOS2−/− and C57BL/6 mice, suggesting that factors other than ESX-5 secretion also contribute to attenuation of the ΔpstA1 mutant. In addition, a ΔpstA1 ΔesxN mutant lacking the hypersecreted ESX-5 substrate EsxN remained attenuated in Irgm1−/− mice, suggesting that ESX-5 substrates other than EsxN cause increased susceptibility to host immunity. Our data indicate that while M. tuberculosis requires ESX-5 for virulence, it tightly controls secretion of ESX-5 substrates to avoid elimination by host immune responses.
Computational Assessment of Facial Expression Production in ASD Children

In this paper, a computational approach is proposed and put into practice to assess the capability of children having had diagnosed Autism Spectrum Disorders (ASD) to produce facial expressions. The proposed approach is based on computer vision components working on sequence of images acquired by an off-the-shelf camera in unconstrained conditions. Action unit intensities are estimated by analyzing local appearance and then both temporal and geometrical relationships, learned by Convolutional Neural Networks, are exploited to regularize gathered estimates. To cope with stereotyped movements and to highlight even subtle voluntary movements of facial muscles, a personalized and contextual statistical modeling of non-emotional face is formulated and used as a reference. Experimental results demonstrate how the proposed pipeline can improve the analysis of facial expressions produced by ASD children. A comparison of system’s outputs with the evaluations performed by psychologists, on the same group of ASD children, makes evident how the performed quantitative analysis of children’s abilities helps to go beyond the traditional qualitative ASD assessment/diagnosis protocols, whose outcomes are affected by human limitations in observing and understanding multi-cues behaviors such as facial expressions.
Mapping Mangrove Forests of Dongzhaigang Nature Reserve in China Using Landsat 8 and Radarsat-2 Polarimetric SAR Data

Mangrove forests are distributed in intertidal regions that act as a “natural barrier” to the coast. They have enormous ecological, economic, and social value. However, the world’s mangrove forests are declining under immense pressure from anthropogenic and natural disturbances. Accurate information regarding mangrove forests is essential for their protection and restoration. The main objective of this study was to develop a method to improve the classification of mangrove forests using C-band quad-pol Synthetic Aperture Radar (SAR) data (Radarsat-2) and optical data (Landsat 8), and to analyze the spectral and backscattering signatures of mangrove forests. We used a support vector machine (SVM) classification method to classify the land use in Hainan Dongzhaigang National Nature Reserve (HDNNR). The results showed that the overall accuracy using only optical information was 83.5%. Classification accuracy was improved to a varying extent by the addition of different radar data. The highest overall accuracy was 95.0% based on a combination of SAR and optical data. The area of mangrove forest in the reserve was found to be 1981.7 ha, as determined from the group with the highest classification accuracy. Combining optical data with SAR data could improve the classification accuracy and be significant for mangrove forest conservation.
Tactile Stimulation Improves Sensorimotor Rhythm-Based BCI Performance in Stroke Patients

Objective: Brain-computer interface (BCI) decoding accuracy plays a crucial role in practical applications. With accurate feedback, BCI-based therapy determines beneficial neural plasticity in stroke patients. In this study, we aimed at improving sensorimotor rhythm (SMR) based BCI performance by integrating motor tasks with tactile stimulation. Methods: Eleven stroke patients were recruited for three experimental conditions, i.e., motor attempt (MA) condition, tactile stimulation (TS) condition, and tactile stimulation-assisted motor attempt (TS-MA) condition. TS was delivered to the paretic hand wrist during both task and idle states using a vibrator. Results: We observed that the TS-MA condition achieved greater motor-related cortical activation (MRCA) in the alpha–beta band when compared with both TS and MA conditions. Consequently, online BCI decoding accuracies between task and idle states were significantly improved from 74.5% in the MA condition to 85.1% in the TS-MA condition ($p< 0.001$), whereas the accuracy in the TS condition was 54.6% (approaching to the chance level of 50%). Conclusion: This finding demonstrates that sensory afferent input from peripheral nerves benefits the neural process of sensorimotor cortex in stroke patients. With appropriate sensory stimulation, MRCA is enhanced and corresponding brain patterns are more discriminative. Significance: This novel SMR-BCI paradigm shows great promise to facilitate the practical application of BCI-based stroke rehabilitation.
Impact of a Healthy Dietary Pattern on Gut Microbiota and Systemic Inflammation in Humans

Gut microbiota have recently been suggested to play a part in low-grade systemic inflammation, which is considered a key risk factor for cardiometabolic disorders. Diet is known to affect gut microbiota; however, the effects of diet and dietary components on gut microbiota and inflammation are not fully understood. In the present review, we summarize recent research on human dietary intervention studies, investigating the effects of healthy diets or dietary components on gut microbiota and systemic inflammation. We included 18 studies that reported how different dietary components altered gut microbiota composition, short-chain fatty acid levels, and/or inflammatory markers. However, the heterogeneity among the intervention studies makes it difficult to conclude whether diets or dietary components affect gut microbiota homeostasis and inflammation. More appropriately designed studies are needed to better understand the effects of diet on the gut microbiota, systemic inflammation, and risk of cardiometabolic disorders.
The Use of Glycomacropeptide in Patients with Phenylketonuria: A Systematic Review and Meta-Analysis

In phenylketonuria (PKU), synthetic protein derived from L-amino acids (AAs) is essential in a low-phenylalanine (Phe) diet. Glycomacropeptide (GMP), an intact protein, is very low in Phe in its native form. It has been modified and adapted for PKU to provide an alternative protein source through supplementation with rate-limiting amino acids (GMP-AAs), although it still contains residual Phe. This review aims to systematically evaluate published intervention studies on the use of GMP-AAs in PKU by considering its impact on blood Phe control (primary aim) and changes in tyrosine control, nutritional biomarkers, and patient acceptability or palatability (secondary aims). Four electronic databases were searched for articles published from 2007 to June 2018. Of the 274 studies identified, only eight were included. Bias risk was assessed and a quality appraisal of the body of evidence was completed. A meta-analysis was performed with two studies with adequate comparable methodology which showed no differences between GMP-AAs and AAs for any of the interventions analysed. This work underlines the scarcity and nature of studies with GMP-AAs interventions. All were short-term with small sample sizes. There is a need for better-designed studies to provide the best evidence-based recommendations.
A Time Series of Water Column Distributions and Sinking Particle Flux of Pseudo-Nitzschia and Domoic Acid in the Santa Barbara Basin, California

Water column bulk Pseudo-nitzschia abundance and the dissolved and particulate domoic acid (DA) concentrations were measured in the Santa Barbara Basin (SBB), California from 2009–2013 and compared to bulk Pseudo-nitzschia cell abundance and DA concentrations and fluxes in sediment traps moored at 147 m and 509 m. Pseudo-nitzschia abundance throughout the study period was spatially and temporally heterogeneous (<200 cells L−1 to 3.8 × 106 cells L−1, avg. 2 × 105 ± 5 × 105 cells L−1) and did not correspond with upwelling conditions or the total DA (tDA) concentration, which was also spatially and temporally diverse (<1.3 ng L−1 to 2.2 × 105 ng L−1, avg. 7.8 × 103 ± 2.2 × 104 ng L−1). We hypothesize that the toxicity is likely driven in part by specific Pseudo-nitzschia species as well as bloom stage. Dissolved (dDA) and particulate (pDA) DA were significantly and positively correlated (p < 0.01) and both comprised major components of the total DA pool (pDA = 57 ± 35%, and dDA = 42 ± 35%) with substantial water column concentrations (>1000 cells L−1 and tDA = 200 ng L−1) measured as deep as 150 m. Our results highlight that dDA should not be ignored when examining bloom toxicity. Although water column abundance and pDA concentrations were poorly correlated with sediment trap Pseudo-nitzschia abundance and fluxes, DA toxicity is likely associated with senescent blooms that rapidly sink to the seafloor, adding another potential source of DA to benthic organisms.
Risk of Depression and Suicidality among Diabetic Patients: A Systematic Review and Meta-Analysis

The purpose of this study is to conduct a systematic review and meta-analysis to evaluate the risk of depression and suicidality among diabetic patients. Methods: Medline, PubMed, EMBASE, Cochrane library, and Psych INFO were searched for studies published from 2008 onwards. Meta-analysis was conducted to estimate the pooled effect size. Sources of heterogeneity were investigated by subgroup analysis and meta-regression. Results: In total, 5750 articles were identified and of those, 17 studies on suicidality and 36 on depression were included in this study. Our analysis suggests a positive relationship between diabetes and depression (cohort studies odds ratio (OR) 1.49, 95% confidence interval (CI): 1.36–1.64 and cross-sectional studies OR 2.04, 95% CI, 1.73–2.42). Pooled OR values for suicidal ideation, attempted suicide, and completed suicide were 1.89 (95% CI: 1.36–2.63), 1.45 (95% CI: 1.07–1.96), and 1.85 (95% CI: 0.97–3.52), respectively. All findings were statistically significant except for completed suicide. Conclusions: The increased risk of depression and suicidality in diabetic patients highlights the importance of integrating the evaluation and treatment of depression with diabetes management in primary healthcare settings. Further research in this area is needed.
A LysM Domain Intervenes in Sequential Protein-Protein and Protein-Peptidoglycan Interactions Important for Spore Coat Assembly in Bacillus subtilis

Bacillus subtilis spores are encased in a multiprotein coat that surrounds an underlying peptidoglycan layer, the cortex. How the connection between the two layers is enforced is not well established. Here, we elucidate the role of the peptidoglycan-binding LysM domain, present in two proteins, SafA and SpoVID, that govern the localization of additional proteins to the coat. We found that SafALysM is a protein-protein interaction module during the early stages of coat assembly and a cortex-binding module at late stages in morphogenesis, with the cortex-binding function promoting a tight connection between the cortex and the coat. In contrast, SpoVIDLysM functions only as a protein-protein interaction domain that targets SpoVID to the spore surface at the onset of coat assembly. ABSTRACT At a late stage in spore development in Bacillus subtilis, the mother cell directs synthesis of a layer of peptidoglycan known as the cortex between the two forespore membranes, as well as the assembly of a protective protein coat at the surface of the forespore outer membrane. SafA, the key determinant of inner coat assembly, is first recruited to the surface of the developing spore and then encases the spore under the control of the morphogenetic protein SpoVID. SafA has a LysM peptidoglycan-binding domain, SafALysM, and localizes to the cortex-coat interface in mature spores. SafALysM is followed by a region, A, required for an interaction with SpoVID and encasement. We now show that residues D10 and N30 in SafALysM, while involved in the interaction with peptidoglycan, are also required for the interaction with SpoVID and encasement. We further show that single alanine substitutions on residues S11, L12, and I39 of SafALysM that strongly impair binding to purified cortex peptidoglycan affect a later stage in the localization of SafA that is also dependent on the activity of SpoVE, a transglycosylase required for cortex formation. The assembly of SafA thus involves sequential protein-protein and protein-peptidoglycan interactions, mediated by the LysM domain, which are required first for encasement then for the final localization of the protein in mature spores. IMPORTANCE Bacillus subtilis spores are encased in a multiprotein coat that surrounds an underlying peptidoglycan layer, the cortex. How the connection between the two layers is enforced is not well established. Here, we elucidate the role of the peptidoglycan-binding LysM domain, present in two proteins, SafA and SpoVID, that govern the localization of additional proteins to the coat. We found that SafALysM is a protein-protein interaction module during the early stages of coat assembly and a cortex-binding module at late stages in morphogenesis, with the cortex-binding function promoting a tight connection between the cortex and the coat. In contrast, SpoVIDLysM functions only as a protein-protein interaction domain that targets SpoVID to the spore surface at the onset of coat assembly.