Miracle-dz/UniFAR-FTUs huggingface dataset:
Determination of Lipid Oxidation in Edible Oils by near Infrared Spectroscopy

The relationship between near infrared (NIR) second derivative spectra and lipid oxidation was investigated to develop a method for the determination of lipid oxidation in edible oils by NIR spectroscopy, using peroxide value (POV) as the index of oxidation. Although several absorption peaks were found in the difference second derivative spectra of oxidised edible oils, the intensity of the peak at 2084 nm only was highly correlated to POV. In the spectra of purified hydroperoxides of methyl oleate and methyl linoleate, the intensity of the peak at 2084 nm was also highly correlated with POV, which demonstrates that the absorption is due to hydroperoxide. In addition, this peak shifted and weakened after reduction of hydroperoxide to hydroxide, which shows the absorption is specific for the hydroperoxyl group. These results suggest that 2084 nm is the key wavelength for lipid peroxide and can be used for the determination of lipid oxidation in edible oils.
Porcine colonoids and enteroids keep the memory of their origin during regeneration.

The development of alternative in vitro culture methods has increased in the last decade as three-dimensional organoids of various tissues, including those of the small and large intestines. Due to their multicellular composition, organoids offer advantages over traditionally used immortalized or primary cell lines. However, organoids must be accurate models of their tissues of origin. This study compared gene expression profiles with respect to markers of specific cell-types (stem-cells, enterocytes, goblet and enteroendocrine cells) and barrier maturation (tight junctions) of colonoid and enteroid cultures with their tissues of origin, and colonoids with enteroids. Colonoids derived from three healthy pigs formed multi-lobed structures with a monolayer of cells similar to the crypt structures in colonic tissue. Colonoid and enteroid gene expression signatures were more similar to those found for the tissues of their origin than to each other. However, relative to their derived tissues, organoids had increased gene expression levels of stem-cell markers Sox9 and Lgr5 encoding Sex determining region Y-box 9 and leucine-rich repeat-containing G-protein coupled rector 5, respectively. In contrast, expression levels of Occl and Zo1 encoding occludin and zonula occludens 1 respectively, were decreased. Expression levels of the cell lineage markers Atoh1, Cga and Muc2 encoding atonal homolog 1, chromogranin A and mucin 2 respectively, were decreased in colonoids, while Sglt1 and Apn encoding sodium-glucose transporter 1 and aminopeptidase A respectively, were decreased in enteroids. These results indicate colonoid and enteroid cultures were predominantly comprised of undifferentiated cell-types with decreased barrier maturation relative to their tissues of origin.
Distributed LMMSE Estimation for Large-Scale Systems Based on Local Information

This article studies the distributed linear minimum mean square error (LMMSE) estimation problem for large-scale systems with local information (LSLI). Large-scale systems are composed of numerous subsystems. Each subsystem only transmits information to its neighbors. Thus, only the local information is available to each subsystem. This implies that the information available to different subsystems is different. Using local information to design an LMMSE estimator, the gains of the estimator must satisfy the sparse structure constraint, which makes the estimator design challenging and complicates the boundedness analysis of the estimation error covariance (EEC). In this article, a framework of the distributed LMMSE estimation for LSLI is established. The gains of the LMMSE estimator are effectively constructed by solving linear matrix equations. A gradient descent algorithm is exploited to design the gains of the LMMSE estimator numerically. Sufficient conditions are derived to ensure the boundedness of the EEC. Also, a gradient-based search algorithm is developed to verify whether the sufficient conditions hold or not. Finally, an example is used to illustrate the effectiveness of the proposed results.
Impact of humate substances and Bacillus subtilis PB6 on thyroid activity and histomorphometry, iron profile and blood haematology of quail.

The purpose of this study was to assess the effects of dietary humate substances (HS) and CloSTAT (Bacillus subtilis PB6) on the thyroid activity and histology, iron profile, blood haematology and performance of growing Japanese quail. A total of 216 unsexed 7-day-old quail chicks were randomly assigned to six groups. The first group was fed a basal diet (BD) without any additives (control); the 2nd group received BD plus 0.05% CloSTAT, the 3rd and 4th groups were given BD plus 0.4% and 0.8% HS, respectively; and the 5th and 6th groups were administered BD plus CloSTAT + 0.4% HS and BD plus CloSTAT + 0.8% HS, respectively. The results showed that the growth performance was improved with the addition of CloSTAT alone or in combination with 0.4% HS compared with the control. Haematological parameters, iron level and transferrin saturation % were significantly (p < 0.001) increased by feeding HS compared with the control group. Serum thyroxin and triiodothyronine levels were significantly (p = 0.001) increased by adding CloSTAT relative to the control. Supplementation of 0.8% HS caused deterioration in histomorphometry parameters of the thyroid gland, but these parameters were improved in response to CloSTAT compared with the control. In conclusion, dietary B. subtilis PB6 as CloSTAT or CloSTAT + 0.4% HS supplementation may be efficacious in enhancing the growth performance and boosting the thyroid activity of growing Japanese quail. Moreover, the addition of 0.4% or 0.8% HS to quail diets boosted their iron profile and haematological parameters.
Deepfakes: Awareness, Concerns, and Platform Accountability

A 61 question survey was used to examine issues around "deepfake" technology. In total, 319 respondents answered questions around awareness, concerns, and the responsibility of online platforms around deepfakes. Awareness of deepfakes varies by intensity and type of social media use. Concerns about deepfakes are pronounced, but not uniform. A regression model examines the factors impacting the perceived responsibility of online platforms to regulate deepfakes. General concerns and the impacts people believe deepfakes will make are significant. However, the more humorous aspects of deepfakes and a perception of individual responsibility negatively impact the perceived need for platforms to address the risks of deepfakes. There is little confidence in the ability of technology to solve the problem of deepfakes, but this does not reduce the desire for online platforms to implement a deepfake identification technology. This research has implications for users of social media, social media platforms, technology developers, and broader society.
Evaluation of HIV-1 Latency Reversal and Antibody-Dependent Viral Clearance by Quantification of Singly Spliced HIV-1 vpu/env mRNA

HIV-1 persists in individuals on antiretroviral therapy (ART) due to the long-lived cellular reservoirs that contain dormant viruses. Recent discoveries of HIV-1-specific broadly neutralizing antibodies (bNabs) targeting HIV-1 Env protein rekindled the interest in antibody-mediated elimination of latent HIV-1. ABSTRACT The latent reservoir of HIV-1 is a major barrier for viral eradication. Potent HIV-1 broadly neutralizing antibodies (bNabs) have been used to prevent and treat HIV-1 infections in animal models and clinical trials. Combination of bNabs and latency-reversing agents (LRAs) is considered a promising approach for HIV-1 eradication. PCR-based assays that can rapidly and specifically measure singly spliced HIV-1 vpu/env mRNA are needed to evaluate the induction of the viral envelope production at the transcription level and bNab-mediated reservoir clearance. Here, we reported a PCR-based method to accurately quantify the production of intracellular HIV-1 vpu/env mRNA. With the vpu/env assay, we determined the LRA combinations that could effectively induce vpu/env mRNA production in CD4+ T cells from antiretroviral therapy (ART)-treated individuals. None of the tested LRAs were effective alone. A comparison between the quantitative viral outgrowth assay (Q-VOA) and the vpu/env assay showed that vpu/env mRNA production was closely associated with the reactivation of replication-competent HIV-1, suggesting that vpu/env mRNA was mainly produced by intact viruses. Finally, antibody-mediated killing in HIV-1-infected humanized mice demonstrated that the vpu/env assay could be used to measure the reduction of infected cells in tissues and was more accurate than the commonly used gag-based PCR assay, which measures unspliced viral genomic RNA. In conclusion, the vpu/env assay allows convenient and accurate assessment of HIV-1 latency reversal and bNab-mediated therapeutic strategies. IMPORTANCE HIV-1 persists in individuals on antiretroviral therapy (ART) due to the long-lived cellular reservoirs that contain dormant viruses. Recent discoveries of HIV-1-specific broadly neutralizing antibodies (bNabs) targeting HIV-1 Env protein rekindled the interest in antibody-mediated elimination of latent HIV-1. Latency-reversing agents (LRAs) together with HIV-1 bNabs is a possible strategy to clear residual viral reservoirs, which makes the evaluation of HIV-1 Env expression upon LRA treatment critical. We developed a PCR-based assay to quantify the production of intracellular HIV-1 vpu/env mRNA. Using patient CD4+ T cells, we found that induction of HIV-1 vpu/env mRNA required a combination of different LRAs. Using in vitro, ex vivo, and humanized mouse models, we showed that the vpu/env assay could be used to measure antibody efficacy in clearing HIV-1 infection. These results suggest that the vpu/env assay can accurately evaluate HIV-1 reactivation and bNab-based therapeutic interventions.
A review of the maternal iron and folic acid supplementation programme in Nepal: Achievements and challenges

Abstract In the late 1990s, an estimated 75% of pregnant women in Nepal were anaemic. Although iron and folic acid (IFA) supplements were available free of charge, coverage among pregnant women was very low. In response, the Government of Nepal launched the Iron Intensification Programme (IIP) in 2003 to improve the coverage of IFA supplementation and anthelminthic treatment during pregnancy, as well as promote the utilization of antenatal care. This review examined how the IIP programme contributed to Nepal's success in increasing the consumption of IFA supplements during pregnancy. Nepal's cadre of Female Community Health Volunteers were engaged in the IIP to support the community‐based distribution of IFA supplements to pregnant women and complement IFA distribution through health facilities and outreach services. As a result, the country achieved a fourfold increase in the proportion of women who took IFA supplements during pregnancy between 2001 and 2016 (from 23% to 91%) and a 12‐fold increase in the proportion who took IFA supplements for at least 90 days during pregnancy (from 6% to 71%). The increase in coverage of IFA supplements accompanied an increase in the coverage of antenatal care during the same period. By 2016, the prevalence of anaemia in pregnant women decreased to 46%, highlighting the need to tackle other causes of anaemia and improve haemoglobin concentration before pregnancy, while maintaining the successful efforts to reach pregnant women with IFA supplements at the community level.
Influence of agricultural management on soil organic carbon: A compendium and assessment of Canadian studies

To fulfill commitments under the Kyoto Protocol, Canada is required to provide verifiable estimates and uncertainties for soil organic carbon (SOC) stocks, and for changes in those stocks over time. Estimates and uncertainties for agricultural soils can be derived from long-term studies that have measured differences in SOC between different management practices. We compiled published data from long-term studies in Canada to assess the effect of agricultural management on SOC. A total of 62 studies were compiled, in which the difference in SOC was determined for conversion from native land to cropland, and for different tillage, crop rotation and fertilizer management practices. There was a loss of 24 ± 6% of the SOC after native land was converted to agricultural land. No-till (NT) increased the storage of SOC in western Canada by 2.9 ± 1.3 Mg ha-1; however, in eastern Canada conversion to NT did not increase SOC. In general, the potential to store SOC when NT was adopted decreased with increasing backgr.
Differentially-expressed mRNAs, microRNAs and long noncoding RNAs in intervertebral disc degeneration identified by RNA-sequencing

ABSTRACT The underlying molecular mechanisms of intervertebral disc degeneration (IDD) remain unclear. This study aimed to identify the crucial molecules and explore the function of noncoding RNAs and related pathways in IDD. We randomly selected three samples each from an IDD and a spinal cord injury group (control) for RNA-sequencing. We identified 463 differentially-expressed long noncoding RNAs (lncRNAs), 47 differentially-expressed microRNAs (miRNAs), and 1,334 differentially-expressed mRNAs in IDD. Three hundred fifty-eight lncRNAs as cis-regulators could potentially target 865 genes. Protein–protein interaction (PPI) network analysis confirmed that IL-6, VEGFA, IGF1, MMP9, CXCL8, FGF2, IL1B, CCND1, ITGAM, PTPRC, FOS and PTGS2 were hub genes. We built a competing endogenous RNA (ceRNA) network and identified lncRNA XIST–hsa-miR-4775–PLA2G7 and lncRNA XIST–hsa-miR-424-5p–AMOT/TGFBR3 ceRNA axes. Quantitative real-time PCR (qRT-PCR) was implemented in 15 IDD samples and 15 controls to validate differentially-expressed genes in ceRNA axes. From the ceRNA network, gene ontology (GO) enrichment analysis indicated that noncoding RNAs were associated with several biological processes, including extracellular matrix organization, extracellular structure organization, leukocyte migration, and mesenchyme development. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis revealed that noncoding RNAs were associated with several pathways including the AGE-RAGE signaling pathway, PI3K-Akt signaling pathway, axon guidance, and osteoclast differentiation. These results indicate that some specific noncoding RNAs and ceRNA axes may be vital during the development of IDD, and may have potential as alternative diagnostic biomarkers as well as novel therapeutic strategies for IDD. Graphical Abstract
Two Weekly Sessions of High-Intensity Interval Training Improve Metabolic Syndrome and Hypertriglyceridemic Waist Phenotype in Older Adults: A Randomized Controlled Trial.

Background: Exercise training provides physiological benefits for maintaining good health. A common exercise strategy is high-intensity interval training (HIIT). HIIT may alleviate metabolic syndrome (MetS) and hypertriglyceridemic waist (HTGW) phenotype, but remains largely unstudied in ageing participants. The aim of this research was to investigate the impact of 2 weekly HIIT sessions on MetS markers and HTGW-related factors in older adults. Methods: In this randomized controlled trial, 140 older men and women were randomized into two groups, the experimental group (EG), and the control group (CG). The EG performed 2 weekly sessions of HIIT during 12 weeks. HIIT sessions consisted of 40 min treadmill running/walking: a 10 min warm-up at 50%-60% of maximum heart rate (HRmax), followed by 10 sets of 1 min bouts at 85%-90% of HRmax interspersed with 1 min walking at self-selected pace (totaling 20 min), and 10 min cool-down walking at self-selected pace. The CG did not perform any type of intense exercise during the intervention period. Results: Participants in the EG of both sexes decreased MetS, HTGW, blood pressure, cholesterol, and glycemia (P < 0.05). After training, the number of hypertensive men decreased by 100% and women by 70%. There was a 75% reduction in women with diabetes, a 100% reduction in MetS indicators and over 80% reduction in HTGW in participants of both sexes. Conclusion: Two weekly sessions of HIIT proved to be feasible and effective to induce clinically relevant improvements in MetS and HTGW indicators.
Physical activity and health-related quality of life in men and women with hip and/or knee osteoarthritis before and after a supported self-management programme – a prospective observational study

Abstract Purpose To study differences between men and women in physical activity (PA) and health-related quality of life (HRQoL) before and after participating in a supported osteoarthritis (OA) self-management programme. Materials and methods A prospective observational study using data from a Swedish National Quality Register. Patients recorded between 2008 and 2013 with hip and/or knee OA with data at baseline, at 3 and 12 months follow-up (n = 7628) were included. Outcome measures were patient-reported PA and HRQoL (EQ-5D-3L). Results A greater proportion of men (p = 0.002) changed to being physically active ≥150 min/week at 3 months follow-up. The proportion of women being physically active ≥150 min/week was larger than for men at baseline (p = 0.003) and at follow-up at 12 months (p = 0.035). Women reported lower HRQoL than men at baseline (p < 0.001), at follow-up at 3 (p < 0.001) and 12 months (p = 0.010). There were no differences between men and women in change in HRQoL at 3 (p = 0.629) and 12 months (p = 0.577) follow-up. Conclusions This study showed differences between men and women in PA and HRQoL before and after participating in a supported OA self-management programme. These differences should be considered when supporting PA and HRQoL. Implications for rehabilitation Men with hip and/or knee osteoarthritis (OA) might need more support during rehabilitation in order to maintain or even increase physical activity (PA) in the long run. Women with hip and/or knee OA might need more support during rehabilitation in order to maintain or even increase health-related quality of life (HRQoL) in the long run. Booster sessions might be suggested in order to enable both men and women with hip and/or knee OA to sustain improvements in PA and HRQoL after participating in a supported OA self-management programme.
Searching the PDF Haystack: Automated Knowledge Discovery in Scanned EHR Documents

Abstract Background Clinicians express concern that they may be unaware of important information contained in voluminous scanned and other outside documents contained in electronic health records (EHRs). An example is “unrecognized EHR risk factor information,” defined as risk factors for heritable cancer that exist within a patient's EHR but are not known by current treating providers. In a related study using manual EHR chart review, we found that half of the women whose EHR contained risk factor information meet criteria for further genetic risk evaluation for heritable forms of breast and ovarian cancer. They were not referred for genetic counseling. Objectives The purpose of this study was to compare the use of automated methods (optical character recognition with natural language processing) versus human review in their ability to identify risk factors for heritable breast and ovarian cancer within EHR scanned documents. Methods We evaluated the accuracy of the chart review by comparing our criterion standard (physician chart review) versus an automated method involving Amazon's Textract service (Amazon.com, Seattle, Washington, United States), a clinical language annotation modeling and processing toolkit (CLAMP) (Center for Computational Biomedicine at The University of Texas Health Science, Houston, Texas, United States), and a custom-written Java application. Results We found that automated methods identified most cancer risk factor information that would otherwise require clinician manual review and therefore is at risk of being missed. Conclusion The use of automated methods for identification of heritable risk factors within EHRs may provide an accurate yet rapid review of patients' past medical histories. These methods could be further strengthened via improved analysis of handwritten notes, tables, and colloquial phrases.
Reducing the Impact of Confounding Factors on Skin Cancer Classification via Image Segmentation: Technical Model Study

Background Studies have shown that artificial intelligence achieves similar or better performance than dermatologists in specific dermoscopic image classification tasks. However, artificial intelligence is susceptible to the influence of confounding factors within images (eg, skin markings), which can lead to false diagnoses of cancerous skin lesions. Image segmentation can remove lesion-adjacent confounding factors but greatly change the image representation. Objective The aim of this study was to compare the performance of 2 image classification workflows where images were either segmented or left unprocessed before the subsequent training and evaluation of a binary skin lesion classifier. Methods Separate binary skin lesion classifiers (nevus vs melanoma) were trained and evaluated on segmented and unsegmented dermoscopic images. For a more informative result, separate classifiers were trained on 2 distinct training data sets (human against machine [HAM] and International Skin Imaging Collaboration [ISIC]). Each training run was repeated 5 times. The mean performance of the 5 runs was evaluated on a multi-source test set (n=688) consisting of a holdout and an external component. Results Our findings showed that when trained on HAM, the segmented classifiers showed a higher overall balanced accuracy (75.6% [SD 1.1%]) than the unsegmented classifiers (66.7% [SD 3.2%]), which was significant in 4 out of 5 runs (P<.001). The overall balanced accuracy was numerically higher for the unsegmented ISIC classifiers (78.3% [SD 1.8%]) than for the segmented ISIC classifiers (77.4% [SD 1.5%]), which was significantly different in 1 out of 5 runs (P=.004). Conclusions Image segmentation does not result in overall performance decrease but it causes the beneficial removal of lesion-adjacent confounding factors. Thus, it is a viable option to address the negative impact that confounding factors have on deep learning models in dermatology. However, the segmentation step might introduce new pitfalls, which require further investigations.