bluuebunny/crossref_metadata_2025 huggingface dataset:
Biomarker Prioritisation and Power Estimation Using Ensemble Gene Regulatory Network Inference
Authors: Aziz Furqan , Acharjee Animesh , Williams John A. , Russ Dominic , Bravo-Merodio Laura , Gkoutos Georgios V.
Published: October 2020

Inferring the topology of a gene regulatory network (GRN) from gene expression data is a challenging but important undertaking for gaining a better understanding of gene regulation. Key challenges include working with noisy data and dealing with a higher number of genes than samples. Although a number of different methods have been proposed to infer the structure of a GRN, there are large discrepancies among the different inference algorithms they adopt, rendering their meaningful comparison challenging. In this study, we used two methods, namely the MIDER (Mutual Information Distance and Entropy Reduction) and the PLSNET (Partial least square based feature selection) methods, to infer the structure of a GRN directly from data and computationally validated our results. Both methods were applied to different gene expression datasets resulting from inflammatory bowel disease (IBD), pancreatic ductal adenocarcinoma (PDAC), and acute myeloid leukaemia (AML) studies. For each case, gene regulators were successfully identified. For example, for the case of the IBD dataset, the UGT1A family genes were identified as key regulators while upon analysing the PDAC dataset, the SULF1 and THBS2 genes were depicted. We further demonstrate that an ensemble-based approach, that combines the output of the MIDER and PLSNET algorithms, can infer the structure of a GRN from data with higher accuracy. We have also estimated the number of the samples required for potential future validation studies. Here, we presented our proposed analysis framework that caters not only to candidate regulator genes prediction for potential validation experiments but also an estimation of the number of samples required for these experiments.
Circulatory Rejuvenated EPCs Derived from PAOD Patients Treated by CD34+ Cells and Hyperbaric Oxygen Therapy Salvaged the Nude Mouse Limb against Critical Ischemia
Authors: Chen Yin-Chia , Sheu Jiunn-Jye , Chiang John Y. , Shao Pei-Lin , Wu Shun-Cheng , Sung Pei-Hsun , Li Yi-Chen , Chen Yi-Ling , Huang Tien-Hung , Chen Kuan-Hung , Yip Hon-Kan
Published: October 2020

This study tested whether circulatory endothelial progenitor cells (EPCs) derived from peripheral arterial occlusive disease (PAOD) patients after receiving combined autologous CD34+ cell and hyperbaric oxygen (HBO) therapy (defined as rejuvenated EPCs) would salvage nude mouse limbs against critical limb ischemia (CLI). Adult-male nude mice (n = 40) were equally categorized into group 1 (sham-operated control), group 2 (CLI), group 3 (CLI-EPCs (6 × 105) derived from PAOD patient’s circulatory blood prior to CD34+ cell and HBO treatment (EPCPr-T) by intramuscular injection at 3 h after CLI induction) and group 4 (CLI-EPCs (6 × 105) derived from PAOD patient’s circulatory blood after CD34+ cell and HBO treatment (EPCAf-T) by the identical injection method). By 2, 7 and 14 days after the CLI procedure, the ischemic to normal blood flow (INBF) ratio was highest in group 1, lowest in group 2 and significantly lower in group 4 than in group 3 (p < 0.0001). The protein levels of endothelial functional integrity (CD31/von Willebrand factor (vWF)/endothelial nitric-oxide synthase (eNOS)) expressed a similar pattern to that of INBF. In contrast, apoptotic/mitochondrial-damaged (mitochondrial-Bax/caspase-3/PARP/cytosolic-cytochrome-C) biomarkers and fibrosis (Smad3/TGF-ß) exhibited an opposite pattern, whereas the protein expressions of anti-fibrosis (Smad1/5 and BMP-2) and mitochondrial integrity (mitochondrial-cytochrome-C) showed an identical pattern of INBF (all p < 0.0001). The protein expressions of angiogenesis biomarkers (VEGF/SDF-1α/HIF-1α) were progressively increased from groups 1 to 3 (all p < 0.0010). The number of small vessels and endothelial cell surface markers (CD31+/vWF+) in the CLI area displayed an identical pattern of INBF (all p < 0.0001). CLI automatic amputation was higher in group 2 than in other groups (all p < 0.001). In conclusion, EPCs from HBO-C34+ cell therapy significantly restored the blood flow and salvaged the CLI in nude mice.
The Transient Receptor Potential Melastatin 7 (TRPM7) Inhibitors Suppress Seizure-Induced Neuron Death by Inhibiting Zinc Neurotoxicity
Authors: Jeong Jeong Hyun , Lee Song Hee , Kho A Ra , Hong Dae Ki , Kang Dong Hyeon , Kang Beom Seok , Park Min Kyu , Choi Bo Young , Choi Hui Chul , Lim Man-Sup , Suh Sang Won
Published: October 2020

Transient receptor potential melastatin 7 (TRPM7) is an ion channel that mediates monovalent cations out of cells, as well as the entry of divalent cations, such as zinc, magnesium, and calcium, into the cell. It has been reported that inhibitors of TRPM7 are neuroprotective in various neurological diseases. Previous studies in our lab suggested that seizure-induced neuronal death may be caused by the excessive release of vesicular zinc and the subsequent accumulation of zinc in the neurons. However, no studies have evaluated the effects of carvacrol and 2-aminoethoxydiphenyl borate (2-APB), both inhibitors of TRPM7, on the accumulation of intracellular zinc in dying neurons following seizure. Here, we investigated the therapeutic efficacy of carvacrol and 2-APB against pilocarpine-induced seizure. Carvacrol (50 mg/kg) was injected once per day for 3 or 7 days after seizure. 2-APB (2 mg/kg) was also injected once per day for 3 days after seizure. We found that inhibitors of TRPM7 reduced seizure-induced TRPM7 overexpression, intracellular zinc accumulation, and reactive oxygen species production. Moreover, there was a suppression of oxidative stress, glial activation, and the blood–brain barrier breakdown. In addition, inhibitors of TRPM7 remarkably decreased apoptotic neuron death following seizure. Taken together, the present study demonstrates that TRPM7-mediated zinc translocation is involved in neuron death after seizure. The present study suggests that inhibitors of TRPM7 may have high therapeutic potential to reduce seizure-induced neuron death.
CD90 Is Dispensable for White and Beige/Brown Adipocyte Differentiation
Authors: Dahlhaus Meike , Roos Julian , Engel Daniel , Tews Daniel , Halbgebauer Daniel , Funcke Jan-Bernd , Kiener Sophie , Schuler Patrick J. , Döscher Johannes , Hoffmann Thomas K. , Zinngrebe Julia , Rojewski Markus , Schrezenmeier Hubert , Debatin Klaus-Michael , Wabitsch Martin , Fischer-Posovszky Pamela
Published: October 2020

Brown adipose tissue (BAT) is a thermogenic organ in rodents and humans. In mice, the transplantation of BAT has been successfully used to combat obesity and its comorbidities. While such beneficial properties of BAT are now evident, the developmental and cellular origins of brown, beige, and white adipocytes have remained only poorly understood, especially in humans. We recently discovered that CD90 is highly expressed in stromal cells isolated from human white adipose tissue (WAT) compared to BAT. Here, we studied whether CD90 interferes with brown or white adipogenesis or white adipocyte beiging. We applied flow cytometric sorting of human adipose tissue stromal cells (ASCs), a CRISPR/Cas9 knockout strategy in the human Simpson-Golabi-Behmel syndrome (SGBS) adipocyte model system, as well as a siRNA approach in human approaches supports the hypothesis that CD90 affects brown or white adipogenesis or white adipocyte beiging in humans. Taken together, our findings call the conclusions drawn from previous studies, which claimed a central role of CD90 in adipocyte differentiation, into question.
Parametrizing the Spatial Dependence of 1H NMR Chemical Shifts in π-Stacked Molecular Fragments
Authors: Czernek Jiří , Brus Jiří
Published: October 2020

Most recently a renewed interest in several areas has arisen in factors governing the 1H NMR chemical shift (1H CS) of protons in aromatic systems. Therefore, it is important to describe how 1H CS values are affected by π-stacking intermolecular interactions. The parametrization of radial and angular dependences of the 1H CS is proposed, which is based on conventional gauge-independent atomic orbital (GIAO) calculations of explicit molecular fragments. Such a parametrization is exemplified for a benzene dimer with intermonomer vertical and horizontal distances which are in the range of values often found in crystals of organic compounds. Results obtained by the GIAO calculations combined with B3LYP and MP2 methods were compared, and revealed qualitatively the same trends in the 1H CS data. The parametrization was found to be quantitatively correct for the T-shaped benzene dimers, and its limitations were discussed. Parametrized 1H CS surfaces should become useful for providing additional restraints in the search of site-specific information through an analysis of structurally induced 1H CS changes.
Identification of Ovine Serum miRNAs Following Bacterial Lipopolysaccharide Challenge
Authors: Sharma Ankita , Shandilya Umesh K. , Sullivan Tianna , Naylor Danielle , Canovas Angela , Mallard Bonnie A. , Karrow Niel A.
Published: October 2020

Host–pathogen interactions are complex and influenced by host genetic and epigenetic modifications. Recently, the significance of microRNAs (miRNAs) in pathogenic infection and the regulation of immune response has been highlighted. However, information on miRNAs’ role in the course of inflammation is still very limited in small ruminants. The present study was intended to identify changes in the expression of circulatory miRNAs post-lipopolysaccharide (LPS)-challenge. In this study, young ewes (n = 18) were challenged with Escherichia coli LPS (400 ng/kg i.v.) and blood samples were collected for serum miRNA isolation at two-time points; prior to challenge (T0), and 4 h (T4) post-challenge, reflecting the peak cortisol response. A total of 91 miRNAs were profiled, including 84 miRNAs on a commercial ovine miRNA-PCR array, and seven individual miRNAs. Forty five miRNAs were differentially expressed (DE) with 35 being up-regulated (Fold regulation, FR > 2) and 10 being down-regulated (FR < 1, p < 0.05) at T4. Among the up-regulated miRNAs, 14 were significantly (p < 0.05) induced, including oar-miRs: 369-3p, 495-3p, 376a-3p, 543-3p, 668-3p, 329a-3p, 655-3p, 411a-5p, and 154a-3p, which were located on ovine chromosome 18 forming four miRNA clusters within 10 kb. The elevated miRNAs belonged to different functional classes, playing roles in activating the hypothalamic-pituitary-adrenal axis; increasing cell survival and differentiation; and inducing inflammatory responses and targeted PI3K-Akt and MAPK signaling and chemokine signaling pathways. In summary, these results reveal the dynamic nature of ovine serum miRNAs during LPS-induced stress and highlight the potential role of identified miRNA-clusters on chromosome 18 to understand the regulation of the acute-phase response. Some of these identified circulating miRNAs may also serve as stress biomarkers for livestock in the future.
Molecular Mechanisms Underlying Sugarcane Response to Aluminum Stress by RNA-Seq
Authors: Rosa-Santos Thiago Mateus , Silva Renan Gonçalves da , Kumar Poornasree , Kottapalli Pratibha , Crasto Chiquito , Kottapalli Kameswara Rao , França Suzelei Castro , Zingaretti Sonia Marli
Published: October 2020

Some metals are beneficial to plants and contribute to critical physiological processes. Some metals, however, are not. The presence of aluminum ions (Al3+) can be very toxic, especially in acidic soils. Considerable parts of the world’s arable land are acidic in nature; mechanistically elucidating a plant’s response to aluminum stress is critical to mitigating this stress and improving the quality of plants. To identify the genes involved in sugarcane response to aluminum stress, we generated 372 million paired-end RNA sequencing reads from the roots of CTC-2 and RB855453, which are two contrasting cultivars. Data normalization resulted in 162,161 contigs (contiguous sequences) and 97,335 genes from a de novo transcriptome assembly (trinity genes). A total of 4858 and 1307 differently expressed genes (DEGs) for treatment versus control were identified for the CTC-2 and RB855453 cultivars, respectively. The DEGs were annotated into 34 functional categories. The majority of the genes were upregulated in the CTC-2 (tolerant cultivar) and downregulated in RB855453 (sensitive cultivar). Here, we present the first root transcriptome of sugarcane under aluminum stress. The results and conclusions of this study are a crucial launch pad for future genetic and genomic studies of sugarcane. The transcriptome analysis shows that sugarcane tolerance to aluminum may be explained by an efficient detoxification mechanism combined with lateral root formation and activation of redox enzymes. We also present a hypothetical model for aluminum tolerance in the CTC-2 cultivar.
Interleukin-6: Molecule in the Intersection of Cancer, Ageing and COVID-19
Authors: Brábek Jan , Jakubek Milan , Vellieux Fréderic , Novotný Jiří , Kolář Michal , Lacina Lukáš , Szabo Pavol , Strnadová Karolína , Rösel Daniel , Dvořánková Barbora , Smetana Karel
Published: October 2020

Interleukin-6 (IL-6) is a cytokine with multifaceted effects playing a remarkable role in the initiation of the immune response. The increased level of this cytokine in the elderly seems to be associated with the chronic inflammatory setting of the microenvironment in aged individuals. IL-6 also represents one of the main signals in communication between cancer cells and their non-malignant neighbours within the tumour niche. IL-6 also participates in the development of a premetastatic niche and in the adjustment of the metabolism in terminal-stage patients suffering from a malignant disease. IL-6 is a fundamental factor of the cytokine storm in patients with severe COVID-19, where it is responsible for the fatal outcome of the disease. A better understanding of the role of IL-6 under physiological as well as pathological conditions and the preparation of new strategies for the therapeutic control of the IL-6 axis may help to manage the problems associated with the elderly, cancer, and serious viral infections.
Challenges in Assessing the Cost-Effectiveness of Newborn Screening: The Example of Congenital Adrenal Hyperplasia
Authors: Grosse Scott D. , Van Vliet Guy
Published: October 2020

Generalizing about the cost-effectiveness of newborn screening (NBS) is difficult due to the heterogeneity of disorders included in NBS panels, along with data limitations. Furthermore, it is unclear to what extent evidence about cost-effectiveness should influence decisions to screen for specific disorders. Screening newborns for congenital adrenal hyperplasia (CAH) due to 21-hydroxylase deficiency can serve as a useful test case, since there is no global consensus on whether CAH should be part of NBS panels. Published and unpublished cost-effectiveness analyses of CAH screening have yielded mixed findings, largely due to differences in methods and data sources for estimating health outcomes and associated costs of early versus late diagnosis as well as between-country differences. Understanding these methodological challenges can help inform future analyses and could also help interested policymakers interpret the results of economic evaluations.
Enhanced Video Classification System Using a Block-Based Motion Vector
Authors: K Jayasree , Mary Idicula Sumam
Published: October 2020

The main objective of this work was to design and implement a support vector machine-based classification system to classify video data into predefined classes. Video data has to be structured and indexed for any video classification methodology. Video structure analysis involves shot boundary detection and keyframe extraction. Shot boundary detection is performed using a two-pass block-based adaptive threshold method. The seek spread strategy is used for keyframe extraction. In most of the video classification methods, selection of features is important. The selected features contribute to the efficiency of the classification system. It is very hard to find out which combination of features is most effective. Feature selection makes relevance to the proposed system. Herein, a support vector machine-based classifier was considered for the classification of video clips. The performance of the proposed system considered six categories of video clips: cartoons, commercials, cricket, football, tennis, and news. When shot level features and keyframe features, along with motion vectors, were used, 86% correct classification was achieved, which was comparable with the existing methods. The research concentrated on feature extraction where combination of selected features was given to a classifier to get the best classification performance.
Comparative Transcriptome Analysis Reveals the Mechanism Related to Fluazinam Stress of Panonychus citri (Acarina: Tetranychidae)
Authors: Shang Yi , Wang Yanbo , Deng Jianyu , Liu Xunyue , Fang Yihao , Rao Qiong , Wu Huiming
Published: October 2020

The use of a large number of chemical acaricides to control these pest mites has led to an increasing problem of pesticide resistance, which has always been the difficulty in integrated pest management (IPM). Fluazinam has a good control effect on Panonychus citri, the serious pest on citrus; however, we only know the mechanism of action of fluazinam as a fungicide and its mechanism of action on mites remains unclear. Through analysis using Illumina high-throughput transcriptomic sequencing and differential expression genes in P. citri treated with fluazinam, 59 cytochrome P450 genes, 23 glutathione s-transferase genes, five carboxylate esterase genes, 11 superoxide dismutase genes and 15 catalase genes were identified. The Gene Ontology enrichment and the enrichment of KEGG results showed that the treatment were enrichment for redox enzyme pathways. Evaluating the efficacy of fluazinam, and analyzing the transcriptome data of P. citri under fluazinam stress, potentially provide a new agent for prevention and control of P. citri, and also preliminary research results for exploring the mechanism of action of fluazinam on P. citri. Given the up-regulated expression levels of genes for Mn-superoxide dismutase and catalase, we speculate that they play an important role in fluazinam-stress action on P. citri.
The Role of Autoimmune Diseases in the Prognosis of Lymphoma
Authors: Masciopinto Pierluigi , Dell’Olio Grazia , De Robertis Rosa , Specchia Giorgina , Musto Pellegrino , Albano Francesco
Published: October 2020

The connection between autoimmune disease (AID) and lymphoproliferative disorders is a complex bidirectional relationship that has long been a focus of attention by researchers and physicians. Although advances in pathobiology knowledge have ascertained an AID role in the development of lymphoproliferative diseases developing, results about AID influence on the prognosis of lymphoma are discordant. In this review, we collect the most relevant literature debating a direct or indirect link between immune-mediated diseases and lymphoma prognosis. We also consider the molecular, genetic, and microenvironmental factors involved in the pathobiology of these diseases in order to gain a deeper understanding of the nature of this link.
Executive Functions Are Associated with Fall Risk but not Balance in Chronic Cerebrovascular Disease
Authors: Tuena Cosimo , Mancuso Valentina , Benzi Ilaria M. A. , Cipresso Pietro , Chirico Alice , Goulene Karine Marie , Riva Giuseppe , Stramba-Badiale Marco , Pedroli Elisa
Published: October 2020

Background: Older people’s deficits in executive functions (EF) have been shown to lead to higher fall risk, postural sway, and reduced speed. Crucially, EF impairments are even more pronounced in individuals with chronic cerebrovascular disease (CVD), namely vascular cognitive impairment. Methods: In this retrospective cross-sectional study, we used a complete neuropsychological battery, including the Trail Making Test (TMT) and physical measures, such as the Morse fall and EQUI scales, to assess 66 individuals with chronic CVD. Linear regressions, Bayesian analyses, and model selection were performed to see the impact of EF, global cognition, and vascular parkinsonism/hemiplegia on physical measures (fall risk and balance). Results: The TMT part B and BA correlated (r = 0.44 and r = 0.45) with Morse fall scale. Only EF significantly explained fall risk, whereas global cognition and vascular parkinsonism/hemiplegia did not. These findings were confirmed by Bayesian evidence and parsimony model selection. Balance was not significantly correlated with any of the neuropsychological tests. Conclusions: This is the first study investigating the relationship between cognitive and physical measures in a sample of older people with chronic CVD. The results are consistent with previous findings that link EF with fall risk in CVD.
Usability of EU-TIRADS in the Diagnostics of Hürthle Cell Thyroid Nodules with Equivocal Cytology
Authors: Słowińska-Klencka Dorota , Wysocka-Konieczna Kamila , Klencki Mariusz , Popowicz Bożena
Published: October 2020

The aim of this study was to compare the diagnostic effectiveness of EU-TIRADS in two groups of nodules with equivocal cytology (categories III-V of Bethesda system), with and without Hürthle cells (HC and non-HC). The study included 162 HC and 378 non-HC nodules with determined histopathological diagnosis (17.9% and 15.6% cancers). In both groups calculated and expected risk of malignancy (RoM) for high, intermediate and benign risk categories of EU-TIRADS were concordant. RoM for low risk category was higher than expected in both groups, but especially in HC (HC: 13.9%, non-HC: 7.0%, expected: 2–4%). The majority of cancers in HC of that category were follicular thyroid carcinomas (FTC) and Hürthle cell thyroid carcinoma (HTC) (60.0% vs. non-HC: 16.7%). The diagnostic efficacy of EU-TIRADS was lower in HC (the area under the receiver operating characteristics curve (AUC): 0.621, sensitivity (SEN): 44.8%, specificity (SPC): 78.9% for high risk threshold) than in non-HC (AUC: 0.711, SEN: 61.0%, SPC: 77.7%). AUC was the highest for category V (AUC > 0.8, both groups) and the lowest for category IV (inefficient, both group). If intermediate risk category was interpreted as an indication for surgery, 25% of cancers from category III and 21.4% from category IV would not be treated in the HC group (0.0% and 7.4% from non-HC group, respectively). EU-TIRADS does not aid making clinical decisions in patients with cytologically equivocal HC nodules, particularly those classified into category IV of Bethesda System for Reporting Thyroid Cytopathology (BSRTC).
Radiostereometric Analysis Allows Assessment of the Stability and Inducible Displacement of Pelvic Ring Disruptions during Healing: A Case Series
Authors: Ladurner Andreas , Callary Stuart A. , Mitra Aniruddha , Rickman Mark , Thewlis Dominic , Solomon Lucian B.
Published: October 2020

There is currently no accurate data on fracture displacement during the rehabilitation of pelvic ring injuries. This study investigated the use of radiostereometric analysis (RSA) in assessing the stability of C1 pelvic ring injuries stabilised with a posterior plate and an anterior external fixator. Six patients, instructed to weight-bear as tolerated after surgery, were reviewed at 2, 4, 6, 12, 26, 52 and 104 weeks. The external fixators were removed at 6 weeks. Outcomes, including the Iowa Pelvic Score (IPS), and complications were recorded. Fracture stability was assessed using measurements on plain radiographs and RSA. All patients progressed to full weight-bearing without support within 6 weeks. At 104 weeks, the IPS was excellent in four patients, good in one patient and fair in one patient. Plain radiographs showed that all fractures were well reduced, and no loss of reduction occurred over time. By contrast, RSA measurements identified displacement in all cases. The maximum three-dimensional (3D) displacement at any time point in each patient ranged from 2 to 10 mm. Two patients with the largest displacement over time had the lowest IPS. RSA also demonstrated displacements above the currently defined normal threshold through the ‘un-injured’ sacroiliac joint in the same two patients, suggesting a subtle C2 injury, missed at initial assessment. This study demonstrates the limitations of plain radiographs in assessing pelvic fracture stability and displacement during healing, and the potential of RSA to monitor more accurately the effects of stabilisation and weight-bearing on fracture stability.
Abnormal Nailfold Capillaries in Patients after Hand Transplantation
Authors: Sikorska Dorota , Samborski Włodzimierz , Kamińska Dorota , Kusztal Mariusz , Jabłecki Jerzy , Nijakowski Kacper , Oko Andrzej , Karczewski Marek , Korybalska Katarzyna , Witowski Janusz
Published: October 2020

Background: The development of graft vasculopathy may play a role in the long-term deterioration of hand grafts. The aim of study was to examine the patterns of the nailfold capillaries in hand transplant recipients. Methods: the study was performed on six patients who received hand transplantation. To normalize for the effect of immunosuppression an age- and sex-matched group of 12 patients with active kidney transplant was selected. As an additional control group, 12 healthy volunteers were recruited. Nailfold videocapillaroscopy was performed in all participants. Additionally, serum concentrations of vascular endothelial growth factor (VEGF) were measured. Results: Videocapillaroscopic examination of the hand allografts revealed significant abnormalities: including capillary disorganization and microhaemorrhages. The number of capillaries was reduced, the vessels were enlarged and branched. Surprisingly, similar, albeit slightly less pronounced, changes were seen in the nailfolds of healthy hands of the limb transplant recipients. In kidney transplant recipients the capillaroscopic pattern was general normal and comparable to healthy individuals. Moreover, serum concentrations of VEGF in all participants correlated with average capillary diameter in capillaroscopy. Conclusions: in hand transplant recipients advanced microvascular abnormalities are found in nailfold capillaroscopic pattern in both transplanted and own extremities connected with elevated levels of VEGF.
Impact of the COVID-19 Pandemic on Student and Resident Teaching and Training in Surgical Oncology
Authors: Hau Hans-Michael , Weitz Jürgen , Bork Ulrich
Published: October 2020

The COVID-19 pandemic has tremendously changed private and professional interactions and behaviors worldwide. The effects of this pandemic and the actions taken have changed our healthcare systems, which consequently has affected medical education and surgical training. In the face of constant disruptions of surgical education and training during this pandemic outbreak, structured and innovative concepts and adapted educational curricula are important to ensure a high quality of medical treatment. While efforts were undertaken to prevent viral spreading, it is important to analyze and assess the effects of this crisis on medical education, surgical training and teaching at large and certainly in the field of surgical oncology. Against this background, in this paper we introduce practical and creative recommendations for the continuity of students’ and residents’ medical and surgical training and teaching. This includes virtual educational curricula, skills development classes, video-based feedback and simulation in the specialty field of surgical oncology. In conclusion, the effects of COVID 19 on Surgical Training and Teaching, certainly in the field of Surgical Oncology, are challenging.
Virtual Reality in the Assessment, Understanding and Treatment of Mental Health Disorders
Authors: Riva Giuseppe , Serino Silvia
Published: October 2020

Computer scientists usually describe virtual reality (VR) as a set of fancy hardware and software technologies. However, psychology and neuroscience are starting to consider VR as the most advanced form of human-computer interaction allowing individuals to act, communicate and become present in a computer-generated environment. In this view, the feeling of “being there” experienced during a VR experience can become a powerful tool for personal change: it offers a dynamic and social world where individuals can live and share a specific experience. For this reason, the use of VR in mental health shows promise: different researches support its clinical efficacy for conditions including anxiety disorders, stress-related disorders, obesity and eating disorders, pain management, addiction and schizophrenia. However, more research is needed to transform the promises of VR in a real clinical tool for mental health. This Special Issue aims to present the most recent advances in the mental health applications of VR, as well as their implications for future patient care.
Outcomes of Pediatric Liver Transplantation in Korea Using Two National Registries
Authors: Hong Suk Kyun , Yi Nam-Joon , Yoon Kyung Chul , Kim Myoung Soo , Lee Jae Geun , Lee Sanghoon , Kang Koo Jeong , Hwang Shin , Ryu Je Ho , Hong Kwangpyo , Han Eui Soo , Lee Jeong-Moo , Lee Kwang-Woong , Suh Kyung-Suk
Published: October 2020

Background: This retrospective study aimed to evaluate overall survival and the risk factors for mortality among Korean pediatric liver transplantation (LT) patients using data from two national registries: the Korean Network Organ Sharing (KONOS) of the Korea Centers for Disease Control and Prevention and the Korean Organ Transplantation Registry (KOTRY). Methods: Prospectively collected data of 755 pediatric patients who underwent primary LT (KONOS, February 2000 to December 2015; KOTRY, May 2014 to December 2017) were retrospectively reviewed. Results: The 1-, 5-, 10-, and 15-year survival rates were 90.6%, 86.7%, 85.8%, and 85.5%, respectively, in KONOS, and the 1-month, 3-month, 1-year, and 2-year survival rates were 92.1%, 89.4%, 89.4%, and 87.2%, respectively, in KOTRY. There was no significant difference in survival between the two registries. Multivariate analysis identified that body weight ≥6 kg (p <0.001), biliary atresia as underlying liver disease (p = 0.001), and high-volume center (p < 0.001) were associated with better survival according to the KONOS database, while hepatic artery complication (p < 0.001) was associated with poorer overall survival rates according to the KOTRY database. Conclusion: Long-term pediatric patient survival after LT was satisfactory in this Korean national registry analysis. However, children with risk factors for poor outcomes should be carefully managed after LT.
Prediction of Discontinuation of Structured Exercise Programme in Chronic Fatigue Syndrome Patients
Authors: Kujawski Sławomir , Cossington Jo , Słomko Joanna , Dawes Helen , Strong James W.L. , Estevez-Lopez Fernando , Murovska Modra , Newton Julia L. , Hodges Lynette , Zalewski Paweł
Published: October 2020

Purpose: The purpose of this study was to assess differences in the physiological profiles of completers vs. non-completers following a structured exercise programme (SEP) and the ability to predict non-completers, which is currently unknown in this group. Methods: Sixty-nine patients met the Fukuda criteria. Patients completed baseline measures assessing fatigue, autonomic nervous system (ANS), cognitive, and cardiovascular function. Thirty-four patients completed a home-based SEP consisting of 10–40 min per day at between 30 and 80% actual HR max. Exercise intensity and time was increased gradually across the 16 weeks and baseline measures were repeated following the SEP. Results: Thirty-five patients discontinued, while 34 completed SEP. For every increase in sympathetic drive for blood pressure control as measured by the taskforce, completion of SEP decreased by a multiple of 0.1. For a 1 millisecond increase in reaction time for the simple reaction time (SRT), the probability for completion of SEP also decreases by a multiple of 0.01. For a one beat HRmax increase, there is a 4% increase in the odds of completing SEP. Conclusion: The more sympathetic drive in the control of blood vessels, the longer the reaction time on simple visual stimuli and the lower the HRmax during physical exercise, then the lower the chance of SEP completion in ME/CFS.
Critical Water Depth and Installation Curves for Submarine Cable Deployment Process
Authors: Mamatsopoulos Vasileios A. , Michailides Constantine , Theotokoglou Efstathios E. , Onoufriou Toula
Published: October 2020

The purpose of the present paper is to propose installation curves for submarine cable deployment process for different water depths and tension deployment, emphasizing on the importance of modelling the “out of water” cable segment and the friction force between cable and overboard chute of the installation vessel. A custom-made analysis tool has been further expanded and used for the calculation of the cable hydraulic critical responses. Moreover, the concept of the critical water depth is proposed analytically for first time to define the cases in which the “out of water” cable segment can be ignored without denoting the accuracy of the minimum bending radius calculation. In addition, correction factors are proposed in relation to water depth and bottom tension values in order to eliminate the error of the safety factor calculation. Numerical formulation of the friction has been incorporated in the custom-made analysis tool as a further development. The analysis of various cable deployment cases proves that the inclusion of the “out of water” segment in the analysis is critical in shallow water areas. In contradiction, the modelling of the friction force is critical in deep water areas. However, both parameters are potential causes of important analysis errors.
Quantifying Variable Importance in Predicting Critical Span Length and Scour Depth for Failure of Onshore River Crossing Pipelines Using ANN
Authors: Karthikeyan Adithyaa , Mirza Saadat , Hur Byul , Pearlstein Gregory , Ledbetter Ronald
Published: October 2020

Onshore oil and gas pipelines are often buried beneath the river bed and channel banks. One of the primary reasons for the exposure of buried pipelines is the scouring mechanism that occurs when shear stress induced on riverbed by flowing water exceeds the resistance of channel bed material. Depending on the free spanning length and watercourse flow velocity, the vortex shedding phenomena may cause interactions resulting in a catastrophic pipeline failure. Accurate estimation of parameters that influence critical span length and scour depth become extremely important to maintain the integrity of the pipeline system and optimize its effective service life. This study is aimed at quantifying the relative importance of input variables used in predicting critical span length and scour depth based on the weights obtained from an Artificial Neural Network (ANN). The Artificial Neural Network model is developed by collecting pipeline accident reports from Pipeline and Hazardous Material Safety Administration (PHMSA) database for accidents that occurred due to Vortex Induced Vibration (VIV) loading during flooding in the last 35 years. It is seen that factors such as internal fluid pressure, dynamic lateral and vertical soil stiffness, reduced velocity and age of pipeline have a significant contribution in terms of model weights and help in accurately assessing the pipeline’s vulnerability to failure.
Proper Functions of Peroxisomes Are Vital for Pathogenesis of Citrus Brown Spot Disease Caused by Alternaria alternata
Authors: Wu Pei-Ching , Chen Chia-Wen , Choo Celine Yen Ling , Chen Yu-Kun , Yago Jonar I. , Chung Kuang-Ren
Published: October 2020

In addition to the production of a host-selective toxin, the tangerine pathotype of Alternaria alternata must conquer toxic reactive oxygen species (ROS) in order to colonize host plants. The roles of a peroxin 6-coding gene (pex6) implicated in protein import into peroxisomes was functionally characterized to gain a better understanding of molecular mechanisms in ROS resistance and fungal pathogenicity. The peroxisome is a vital organelle involved in metabolisms of fatty acids and hydrogen peroxide in eukaryotes. Targeted deletion of pex6 had no impacts on the biogenesis of peroxisomes and cellular resistance to ROS. The pex6 deficient mutant (Δpex6) reduced toxin production by 40% compared to wild type and barely induce necrotic lesions on citrus leaves. Co-inoculation of purified toxin with Δpex6 conidia on citrus leaves, however, failed to fully restore lesion formation, indicating that toxin only partially contributed to the loss of Δpex6 pathogenicity. Δpex6 conidia germinated poorly and formed fewer appressorium-like structures (nonmelanized enlargement of hyphal tips) than wild type. Δpex6 hyphae grew slowly and failed to penetrate beyond the epidermal layers. Moreover, Δpex6 had thinner cell walls and lower viability. All of these defects resulting from deletion of pex6 could also account for the loss of Δpex6 pathogenicity. Overall, our results have demonstrated that proper peroxisome functions are of vital importance to pathogenesis of the tangerine pathotype of A. alternata.
Plasma Brain-Derived Neurotrophic Factor (BDNF) Concentration and BDNF/TrkB Gene Polymorphisms in Croatian Adults with Asthma
Authors: Sreter Katherina B. , Popovic-Grle Sanja , Lampalo Marina , Konjevod Marcela , Tudor Lucija , Nikolac Perkovic Matea , Jukic Irena , Bingulac-Popovic Jasna , Safic Stanic Hana , Markeljevic Jasenka , Pivac Nela , Svob Strac Dubravka
Published: October 2020

Brain-derived neurotrophic factor (BDNF) and its tropomyosin-related kinase B (TrkB) receptor might contribute to normal lung functioning and immune responses; however, their role in asthma remains unclear. Plasma BDNF concentrations, as well as BDNF and NTRK2 (TrkB gene) polymorphisms, were investigated in 120 asthma patients and 120 healthy individuals using enzyme-linked immunosorbent assay and polymerase chain reaction, respectively. The genotype and allele frequencies of BDNF Val66Met (rs6265) and NTRK2 rs1439050 polymorphisms did not differ between healthy individuals and asthma patients, nor between patients grouped according to severity or different asthma phenotypes. Although plasma BDNF concentrations were higher among healthy subjects carrying the BDNF Val66Met GG genotype compared to the A allele carriers, such differences were not detected in asthma patients, suggesting the influences of other factors. Plasma BDNF concentration was not affected by NTRK2 rs1439050 polymorphism. Asthma patients had higher plasma BDNF concentrations than control subjects; however, no differences were found between patients subdivided according to asthma severity, or Type-2, allergic, and eosinophilic asthma. Higher plasma BDNF levels were observed in asthma patients with aspirin sensitivity and aspirin-exacerbated respiratory disease. These results suggest that plasma BDNF may serve as a potential peripheral biomarker for asthma, particularly asthma with aspirin sensitivity.
Comment: “Evaluation of the Association of Omentin 1 rs2274907 A>T and rs2274908 G>A Gene Polymorphisms with Coronary Artery Disease in Indian Population: A Case Control Study”
Authors: Vimaleswaran Karani S.
Published: October 2020

The study by Jha et al. (2019) demonstrated an association of the single nucleotide polymorphism (SNP) rs2274907 A>T with coronary artery disease (CAD) in 100 CAD patients and 100 matched healthy controls from a South Indian population. There are serious concerns with regard to the interpretations of the study findings. The genotypes of the SNP are not in Hardy–Weinberg equilibrium (HWE) in both cases (p < 0.0001) and controls (p = 0.006), which is indicative of a technical error due to a problematic genotyping method. In addition, the genotype and allele frequencies reported in the study do not match with the frequencies listed in the SNP database for Asian Indians. While the study by Jha et al. reported ”T” allele as the minor allele, the dbSNP database reported ”A” as the minor allele. In summary, it can be concluded that the data presented in the study suffer from genotyping as well as data interpretation error and, hence, the findings should be considered by the reader with caution.
Reply to Comment: Evaluation of the Association of Omentin 1 rs2274907 A > T and rs2274908 G > A Gene Polymorphisms with Coronary Artery Disease in Indian Population: A Case–Control Study
Authors: Jha Chandan K. , Mir Rashid , Elfaki Imadeldin , Javid Jamsheed , Babakr Abdullatif Taha , Banu Shaheena , Chahal S. M. S.
Published: October 2020

Coronary artery disease (CAD) is a major cause of death all over the world. CAD is caused by atherosclerosis which is induced by the interaction of genetic factors and environmental factors. Genome-wide association studies have revealed the association of certain gene polymorphisms with susceptibility to CAD. Omentin 1 is an adipokine secreted by the visceral adipose tissues and has been reported to have anti-inflammatory, cardioprotective, and enhances insulin sensitivity. In this study, we examined the role of omentin-1 common single nucleotide polymorphisms (SNPs) (rs2274907 A > T and rs2274908 G > A) in CAD. We conclude that the AT genotype and the T allele of the rs2274907 A > T is associated with Cad in the south Indian population. Our results indicated that the rs2274907 SNP may be associated with CAD in this population. This finding needs further validation in well-designed and large-sample size studies before being introduced in clinical settings.
A Longitudinal Study in the L2 Acquisition of the French TAM System
Authors: Ayoun Dalila
Published: October 2020

Empirical studies investigating the second language (L2) acquisition of tense, aspect, mood/modality (TAM) systems offer an enlightening window into L2 learners’ linguistic competence because they involve all areas of a language, making them ideal testing grounds for the Interface hypothesis and ultimately whether adult learners may achieve a native-like TAM system. This longitudinal study used a pre-test, repeated exposure, delayed post-test design guided by a main research question—does the L2 learners’ interlanguage display contrasts and systematicity? Sixteen L2 French learners—L1 English (n = 9), HL French (n = 4), and HL Spanish (n = 3) speakers enrolled in a fourth-year college Film and Fiction class read five novels that were extensively discussed in class and used as essay topics, thus providing controlled, repeated exposure to oral and written input over a semester. Qualitative and quantitative findings reveal a highly accurate production of several forms, but with an over-reliance on the indicative present. The learners’ TAM system appears to be contrasted and varied, but unbalanced. Findings regarding the Interface hypothesis are mixed.
CNT Conductive Epoxy Composite Metamaterials: Design, Fabrication, and Characterization
Authors: Rizzo Alexa , Luhrs Claudia , Earp Brian , Grbovic Dragoslav
Published: October 2020

In this study, carbon nanotube (CNT) epoxy composite films were fabricated, characterized, and tested as resonant, plasmonic metamaterials. CNT–epoxy formulations, containing diverse CNT loadings, were fabricated and templates were used to generate repeating arrays of squares of diverse dimensions. Their absorption characteristics were characterized by collecting free space reflectivity data in the microwave band, using an arch setup in an anechoic chamber. Data were collected from 2 to 20 GHz. The materials behavior was modeled using a standard unit-cell-based finite element model, and the experimental and calculated data were compared. The experimental results were successfully reproduced with appropriate adjustments to relative permittivity of the composite films. This research demonstrates the ability to use CNT-based conductive composites for manufacturing metamaterials, offering a potentially lighter-weight alternative in place of traditional metal films. Lower conductivity than other conductors causes a widening of the absorption curves, providing a wider band of frequency absorption.
Miscibility Studies of Hyaluronic Acid and Poly(Vinyl Alcohol) Blends in Various Solvents
Authors: Lewandowska Katarzyna
Published: October 2020

In this study, blends based on hyaluronic acid (HA) and poly(vinyl alcohol) (PVA) were characterized by the viscometric method, steady shear rheological tests and FTIR spectroscopy (Fourier Transform Infrared Spectroscopy). Viscometric studies showed the miscibility of HA and PVA in distilled water: 0.1 mol dm−3 NaCl and 0.1 mol dm−3 HCl. The method proposed by Garcia et al. was applied to assess the miscibility of polymers, while Δ[η] and Δb were introduced to determine of miscibility from the Huggins plots. The viscometric data showed that the attractive forces of HA and PVA were dominant when dissolved in 0.1 mol dm−3 NaCl and 0.1 mol dm−3 HCl, while, in distilled water, repulsive forces played the leading role. All polymer solutions were well characterized using a power law model, and exhibited non-Newtonian behavior with pseudoplasticity increasing with the increasing weight fraction of HA in 0.1 mol dm−3 NaCl and 0.1 mol dm−3 HCl. FTIR studies exhibited the formation of new intermolecular interactions between HA and PVA via hydrogen bonding.
The hetero-Friedel-Crafts-Bradsher Cyclizations with Formation of Ring Carbon-Heteroatom (P, S) Bonds, Leading to Organic Functional Materials
Authors: Skalik Joanna , Koprowski Marek , Różycka-Sokołowska Ewa , Bałczewski Piotr
Published: October 2020

The interest in functional materials possessing improved properties led to development of new methods of their synthesis, which allowed to obtain new molecular arrangements with carbon and heteroatom motifs. Two of the classical reactions of versatile use are the Friedel-Crafts and the Bradsher reactions, which in the new heteroatomic versions allow to replace ring carbon atoms by heteroatoms. In the present work, we review methods of synthesis of C–S and C–P bonds utilizing thia- and phospha-Friedel-Crafts-Bradsher cyclizations. Single examples of C–As and lack of C–Se bond formation, involving two of the closest neighbors of P and S in the periodic table, have also been noted. Applications of the obtained π-conjugated molecules, mainly as semiconducting materials, flame retardants, and resins hardeners, designed on the basis of five- and six-membered cyclic molecules containing ring phosphorus and sulfur atoms, are also included. This comprehensive review covers literature up to August 2020.
GaN Nanowire Array for Charge Transfer in Hybrid GaN/P3HT:PC71BM Photovoltaic Heterostructure Fabricated on Silicon
Authors: Tchutchulashvili Giorgi , Chusnutdinow Sergij , Mech Wojciech , Korona Krzysztof P. , Reszka Anna , Sobanska Marta , Zytkiewicz Zbigniew R. , Sadowski Wojciech
Published: October 2020

We demonstrate that a GaN nanowire array can be used for efficient charge transfer between the organic photovoltaic layer and silicon in a Si/GaN/P3HT:PC71BM inverted hybrid heterostructure. The band alignment of such a material combination is favorable to facilitate exciton dissociation, carrier separation and electron transport into Si. The ordered nature of the GaN array helps to mitigate the intrinsic performance limitations of the organic active layer. The dependence of photovoltaic performance enhancement on the morphology of the nanostructure with nanowire diameters 30, 50, 60, 100 and 150 nm was studied in detail. The short circuit current was enhanced by a factor of 4.25, while an open circuit voltage increase by 0.32 volts was achieved compared to similar planar layers.