Edinburgh_UCL_Health@ SMM4H'22:From Glove to Flair for handling imbalanced healthcare corpora related to Adverse Drug Events, Change in medication and self-reporting vaccination

This paper reports on the performance of Edin-burgh_UCL_Health’s models in the Social Media Mining for Health (SMM4H) 2022 shared tasks. Our team participated in the tasks related to the Identification of Adverse Drug Events (ADEs), the classification of change in medication (change-med) and the classification of selfreport of vaccination (self-vaccine). Our best performing models are based on DeepADEM-iner (with respective F1= 0.64, 0.62 and 0.39 for ADE identification), on a GloVe model trained on Twitter (with F1=0.11 for the changemed) and finally on a stack embedding including a layer of Glove embedding and two layers of Flair embedding (with F1= 0.77 for selfreport)

Majoring in Peas (Beatrice Meyers article) and Brooklyn Students Get in the Harvest (The Sun photograph)

New York Times article by Beatrice Meyers profiling the Morrisville Farm Labor Project w/two photographs and captions. Also, photograph with caption of women picking peas from The Sun, July 17, 1943 (upper left corner)

Parallel session 4 :Teaching and learning innovations

Presented Titles: Higher Education and COVID-19: Is Hybrid Teaching/Learning the Solution? [Author: Francis Arthur-Holmes] Technology-enabled Teaching and Learning in COVID-19: Implication for Professional Development in Hong Kong’s Post-secondary Colleges [Authors: Beatrice Yan-yan Dang; Hayes Hei-hang Tang; Joanna WY Yeung] Hybrid Learning: Online Learning in a Residential Environment [Authors: Ying Xiong; Jingduo Bi] Hybrid Education and Collaborative Learning: A Natural Experiment During COVID-19 [Authors: Luyao Zhang; Ying Xiong; Jiaxin Wu] Catching Teachers Off Guard from Remote Learning: An Implication of Innovative Teaching Training in Hong Kong [Authors: Derek Wai-sun Chun; Siu-ho Yau; Wai-man Chan

Diagnosis of obstructive coronary artery disease using computed tomography angiography in patients with stable chest pain depending on clinical probability and in clinically important subgroups: meta-analysis of individual patient data

OBJECTIVE: To determine whether coronary computed tomography angiography (CTA) should be performed in patients with any clinical probability of coronary artery disease (CAD), and whether the diagnostic performance differs between subgroups of patients. DESIGN: Prospectively designed meta-analysis of individual patient data from prospective diagnostic accuracy studies. DATA SOURCES: Medline, Embase, and Web of Science for published studies. Unpublished studies were identified via direct contact with participating investigators. ELIGIBILITY CRITERIA FOR SELECTING STUDIES: Prospective diagnostic accuracy studies that compared coronary CTA with coronary angiography as the reference standard, using at least a 50% diameter reduction as a cutoff value for obstructive CAD. All patients needed to have a clinical indication for coronary angiography due to suspected CAD, and both tests had to be performed in all patients. Results had to be provided using 2×2 or 3×2 cross tabulations for the comparison of CTA with coronary angiography. Primary outcomes were the positive and negative predictive values of CTA as a function of clinical pretest probability of obstructive CAD, analysed by a generalised linear mixed model; calculations were performed including and excluding non-diagnostic CTA results. The no-treat/treat threshold model was used to determine the range of appropriate pretest probabilities for CTA. The threshold model was based on obtained post-test probabilities of less than 15% in case of negative CTA and above 50% in case of positive CTA. Sex, angina pectoris type, age, and number of computed tomography detector rows were used as clinical variables to analyse the diagnostic performance in relevant subgroups. RESULTS: Individual patient data from 5332 patients from 65 prospective diagnostic accuracy studies were retrieved. For a pretest probability range of 7-67%, the treat threshold of more than 50% and the no-treat threshold of less than 15% post-test probability were obtained using CTA. At a pretest probability of 7%, the positive predictive value of CTA was 50.9% (95% confidence interval 43.3% to 57.7%) and the negative predictive value of CTA was 97.8% (96.4% to 98.7%); corresponding values at a pretest probability of 67% were 82.7% (78.3% to 86.2%) and 85.0% (80.2% to 88.9%), respectively. The overall sensitivity of CTA was 95.2% (92.6% to 96.9%) and the specificity was 79.2% (74.9% to 82.9%). CTA using more than 64 detector rows was associated with a higher empirical sensitivity than CTA using up to 64 rows (93.4% v 86.5%, P=0.002) and specificity (84.4% v 72.6%, P<0.001). The area under the receiver-operating-characteristic curve for CTA was 0.897 (0.889 to 0.906), and the diagnostic performance of CTA was slightly lower in women than in with men (area under the curve 0.874 (0.858 to 0.890) v 0.907 (0.897 to 0.916), P<0.001). The diagnostic performance of CTA was slightly lower in patients older than 75 (0.864 (0.834 to 0.894), P=0.018 v all other age groups) and was not significantly influenced by angina pectoris type (typical angina 0.895 (0.873 to 0.917), atypical angina 0.898 (0.884 to 0.913), non-anginal chest pain 0.884 (0.870 to 0.899), other chest discomfort 0.915 (0.897 to 0.934)). CONCLUSIONS: In a no-treat/treat threshold model, the diagnosis of obstructive CAD using coronary CTA in patients with stable chest pain was most accurate when the clinical pretest probability was between 7% and 67%. Performance of CTA was not influenced by the angina pectoris type and was slightly higher in men and lower in older patients. SYSTEMATIC REVIEW REGISTRATION: PROSPERO CRD42012002780

The Metabolomic-Gut-Clinical Axis of Mankai Plant-Derived Dietary Polyphenols

Background: Polyphenols are secondary metabolites produced by plants to defend themselves from environmental stressors. We explored the effect of Wolffia globosa ‘Mankai’, a novel cultivated strain of a polyphenol-rich aquatic plant, on the metabolomic-gut clinical axis in vitro, in-vivo and in a clinical trial. Methods: We used mass-spectrometry-based metabolomics methods from three laboratories to detect Mankai phenolic metabolites and examined predicted functional pathways in a Mankai artificial-gut bioreactor. Plasma and urine polyphenols were assessed among the 294 DIRECT-PLUS 18-month trial participants, comparing the effect of a polyphenol-rich green-Mediterranean diet (+1240 mg/polyphenols/day, provided by Mankai, green tea and walnuts) to a walnuts-enriched (+440 mg/polyphenols/day) Mediterranean diet and a healthy controlled diet. Results: Approximately 200 different phenolic compounds were specifically detected in the Mankai plant. The Mankai-supplemented bioreactor artificial gut displayed a significantly higher relative-abundance of 16S-rRNA bacterial gene sequences encoding for enzymes involved in phenolic compound degradation. In humans, several Mankai-related plasma and urine polyphenols were differentially elevated in the green Mediterranean group compared with the other groups (p < 0.05) after six and 18 months of intervention (e.g., urine hydroxy-phenyl-acetic-acid and urolithin-A; plasma Naringenin and 2,5-diOH-benzoic-acid). Specific polyphenols, such as urolithin-A and 4-ethylphenol, were directly involved with clinical weight-related changes. Conclusions: The Mankai new plant is rich in various unique potent polyphenols, potentially affecting the metabolomic-gut-clinical axis

An efficient method for measuring dissolved VOSCs in wastewater using GC-SCD with static headspace technique

Volatile organic sulfur compounds (VOSCs) are important sources of unpleasant odor in wastewater systems. However, the study of VOSCs is usually hindered by their complicated measurement method and highly reactive nature. In this work, a static headspace method utilising gas chromatography (GC) with a sulfur chemiluminescence detector (SCD) was developed to quantitatively analyze VOSCs in wastewater matrices. The method has low detection limits and requires no pre-concentration treatment. Three typical VOSCs, namely methanethiol (MT), dimethyl sulfide (DMS) and dimethyl disulfide (DMDS), were chosen as examples for this study. The calibration curves of all three compounds covering a wide range from 0.5 ppb to 500 ppb showed good linearity (R-2 > 0.999). The method detection limits (MDL) were 0.08, 0.12 and 0.21 ppb for MT, DMS and DMDS, respectively. The reproducibility (relative standard deviation) was approximately 2%. The recovery ratio of MT, DMS and DMDS in spiked wastewater samples were 83 +/- 4%, 103 +/- 4% and 102 +/- 3%, respectively. Sample preservation tests showed that VOSCs in wastewater samples could be preserved in vials without headspace under acidified conditions (pH similar to 1.1) for at least 24 h without significant changes

High Multiplicity Infection by HIV-1 in Men Who Have Sex with Men

Elucidating virus-host interactions responsible for HIV-1 transmission is important for advancing HIV-1 prevention strategies. To this end, single genome amplification (SGA) and sequencing of HIV-1 within the context of a model of random virus evolution has made possible for the first time an unambiguous identification of transmitted/founder viruses and a precise estimation of their numbers. Here, we applied this approach to HIV-1 env analyses in a cohort of acutely infected men who have sex with men (MSM) and found that a high proportion (10 of 28; 36%) had been productively infected by more than one virus. In subjects with multivariant transmission, the minimum number of transmitted viruses ranged from 2 to 10 with viral recombination leading to rapid and extensive genetic shuffling among virus lineages. A combined analysis of these results, together with recently published findings based on identical SGA methods in largely heterosexual (HSX) cohorts, revealed a significantly higher frequency of multivariant transmission in MSM than in HSX [19 of 50 subjects (38%) versus 34 of 175 subjects (19%); Fisher's exact p = 0.008]. To further evaluate the SGA strategy for identifying transmitted/founder viruses, we analyzed 239 overlapping 5′ and 3′ half genome or env-only sequences from plasma viral RNA (vRNA) and blood mononuclear cell DNA in an MSM subject who had a particularly well-documented virus exposure history 3–6 days before symptom onset and 14–17 days before peak plasma viremia (47,600,000 vRNA molecules/ml). All 239 sequences coalesced to a single transmitted/founder virus genome in a time frame consistent with the clinical history, and a molecular clone of this genome encoded replication competent virus in accord with model predictions. Higher multiplicity of HIV-1 infection in MSM compared with HSX is consistent with the demonstrably higher epidemiological risk of virus acquisition in MSM and could indicate a greater challenge for HIV-1 vaccines than previously recognized

Evidence-Based Umbrella Review of 162 Peripheral Biomarkers for Major Mental Disorders

The literature on non-genetic peripheral biomarkers for major mental disorders is broad, with conflicting results. An umbrella review of meta-analyses of non-genetic peripheral biomarkers for Alzheimer’s disease, autism spectrum disorder, bipolar disorder (BD), major depressive disorder, and schizophrenia, including first-episode psychosis. We included meta-analyses that compared alterations in peripheral biomarkers between participants with mental disorders to controls (i.e., between-group meta-analyses) and that assessed biomarkers after treatment (i.e., within-group meta-analyses). Evidence for association was hierarchically graded using a priori defined criteria against several biases. The Assessment of Multiple Systematic Reviews (AMSTAR) instrument was used to investigate study quality. 1161 references were screened. 110 met inclusion criteria, relating to 359 meta-analytic estimates and 733,316 measurements, on 162 different biomarkers. Only two estimates met a priori defined criteria for convincing evidence (elevated awakening cortisol levels in euthymic BD participants relative to controls and decreased pyridoxal levels in participants with schizophrenia relative to controls). Of 42 estimates which met criteria for highly suggestive evidence only five biomarker aberrations occurred in more than one disorder. Only 15 meta-analyses had a power >0.8 to detect a small effect size, and most (81.9%) meta-analyses had high heterogeneity. Although some associations met criteria for either convincing or highly suggestive evidence, overall the vast literature of peripheral biomarkers for major mental disorders is affected by bias and is underpowered. No convincing evidence supported the existence of a trans-diagnostic biomarker. Adequately powered and methodologically sound future large collaborative studies are warranted

Check on the features of potted 20-inch PMTs with 1F3 electronics prototype at Pan-Asia

The Jiangmen underground neutrino observatory (JUNO) is a neutrino project with a 20-kton liquid scintillator detector located at 700-m underground. The large 20-inch PMTs are one of the crucial components of the JUNO experiment aiming to precision neutrino measurements with better than 3% energy resolution at 1 MeV. The excellent energy resolution and a large fiducial volume provide many exciting opportunities for addressing important topics in neutrino and astro-particle physics. With the container #D at JUNO Pan-Asia PMT testing and potting station, the features of waterproof potted 20-inch PMTs were measured with JUNO 1F3 electronics prototype in waveform and charge, which are valuable for better understanding on the performance of the waterproof potted PMTs and the JUNO 1F3 electronics. In this paper, basic features of JUNO 1F3 electronics prototype run at Pan-Asia will be introduced, followed by an analysis of the waterproof potted 20-inch PMTs and a comparison with the results from commercial electronics used by the container #A and #B

In Vitro Antioxidant, Anticoagulant and Antimicrobial Activity and in Inhibition of Cancer Cell Proliferation by Xylan Extracted from Corn Cobs

Xylan is one of most abundant polymer after cellulose. However, its potential has yet to be completely recognized. Corn cobs contain a considerable reservoir of xylan. The aim of this work was to study some of the biological activities of xylan obtained from corn cobs after alkaline extraction enhanced by ultrasonication. Physical chemistry and infrared analyses showed 130 kDa heteroxylan containing mainly xylose:arabinose: galactose:glucose (5.0:1.5:2.0:1.2). Xylan obtained exhibited total antioxidant activity corresponding to 48.5 mg of ascorbic acid equivalent/g of xylan. Furthermore, xylan displayed high ferric chelating activity (70%) at 2 mg/mL. Xylan also showed anticoagulant activity in aPTT test. In antimicrobial assay, the polysaccharide significantly inhibited bacterial growth of Klebsiella pneumoniae. In a test with normal and tumor human cells, after 72 h, only HeLa tumor cell proliferation was inhibited (p < 0.05) in a dose-dependent manner by xylan, reaching saturation at around 2 mg/mL, whereas 3T3 normal cell proliferation was not affected. The results suggest that it has potential clinical applications as antioxidant, anticoagulant, antimicrobial and antiproliferative compounds