bluuebunny/crossref_metadata_2025 huggingface dataset:
The Sterol Trafficking Pathway in Arabidopsis thaliana
Authors: Kumar Krishna , Gibbs Holly C. , Yeh Alvin T. , Griffing Lawrence R.
Published: May 2021

In plants, the trafficking mechanisms by which sterols move through the plant and into target cells are unknown. Earlier studies identified endosomes as primary candidates for internalization of sterols in plants, but these results have come into question. Here, we show that in elongating root cells, the internalization of sterol occurs primarily by a non-endocytic mechanism. Added fluorescent sterols [dehydroergosterol (DHE) and BODIPY-cholesterol (BCh)] do not initially label endosomes identified by fluorescent protein markers or by internalized FM4-64. Instead, the nuclear envelope, an organelle not associated with the endocytic pathway but part of the endoplasmic reticulum (ER), becomes labeled. This result is supported by experiments with the inducible overexpression of auxilin-2-like protein (AUX2 line), which blocks most endocytosis upon induction. Internalization and nuclear envelope labeling still occur in induced AUX2 cells. Longer-term incubation labels the oil body, a site involved in sterol storage. Although the first site of localization, the nuclear envelope, is part of the ER, other domains of the ER do not accumulate the label. The trafficking pathway differs from vesicular endocytosis and points toward a different pathway of sterol transport possibly involving other mechanisms, such as ER–plasma membrane contact sites and cytoplasmic transport.
Effects of Hydrological Regime on Foliar Decomposition and Nutrient Release in the Riparian Zone of the Three Gorges Reservoir, China
Authors: Chen Zhangting , Arif Muhammad , Wang Chaoying , Chen Xuemei , Li Changxiao
Published: May 2021

Foliar decomposition has significant effects on nutrient cycling and the productivity of riparian ecosystems, but studies on the impact of related hydrological dynamics have been lacking. Here, the litterbag method was carried out to compare decomposition and nutrient release characteristics in situ, including three foliage types [two single-species treatments using Taxodium distichum (L.) Rich., Salix matsudana Koidz., or a mixture with equal proportions of leaf mass], three flooding depths (unflooded, shallow flooding, and deep flooding), two hydrodynamic processes (continuous flooding and flooded-to-unflooded hydrological processes), and one hydrological cycle (1 year) in the riparian zone of the Three Gorges Reservoir. The results showed that both hydrological processes significantly promoted foliage decomposition, and all foliage types decomposed the fastest in a shallow flooding environment (P < 0.05). The mixed-species samples decomposed most quickly in the flooded hydrological process in the first half of the year and the unflooded hydrological process in the second half of the year. Flooding also significantly promoted the release of nutrients (P < 0.05). Mixed-species samples had the fastest release rates of carbon and nutrients in the flooded hydrological process in the first half of the year and the unflooded hydrological process in the second half of the year. Foliage decomposition was also closely related to environmental factors, such as water depth, temperature, and hydrological processes. Our research clarified the material cycling and energy flow process of the riparian ecosystem in the Three Gorges Reservoir area. It also provided a new reference for further understanding of foliage decomposition and nutrient release under different hydrological environments.
Psychological Consequences in Patients With Amputation of a Limb. An Interpretative-Phenomenological Analysis
Authors: Roșca Andra Cătălina , Baciu Cosmin Constantin , Burtăverde Vlad , Mateizer Alexandru
Published: May 2021

The study aimed to identify the psychological changes that result from the amputation of a limb and the ways in which patients coordinate their daily lives. The study uses an interpretative phenomenological analysis (IPA) aimed at understanding individual experiences in seven patients who have suffered limb amputation. The method used consisted of individual, semi-structured interviews, conducted approximately 4 months after surgery, to patients at home or in hospital, at the time of their regular checkup. The interviews were audio recorded, transcribed and, following the qualitative analysis performed, six common themes were identified: emotional impact, negative affects, tendency toward isolation, role constraints and limitations, phantom limb, and emotional balancing. A specific theme for patients who have suffered amputations is phantom limb pain, which has received special attention from researchers. The last topic relates to the tendency toward emotional balancing and psychological calibration to return to normal life.
Emotional Reactions and Adaptation to COVID-19 Lockdown (or Confinement) by Spanish Competitive Athletes: Some Lesson for the Future
Authors: Jaenes Sánchez José Carlos , Alarcón Rubio David , Trujillo Manuel , Peñaloza Gómez Rafael , Mehrsafar Amir Hossien , Chirico Andrea , Giancamilli Francesco , Lucidi Fabio
Published: May 2021

The Coronavirus Covid 19 (SARS-CoV-2) pandemic has produced terrible effects in the world economy and is shaking social and political stability around the world. The world of sport has obviously been severely affected by the pandemic, as authorities progressively canceled all level of competitions, including the 2020 Olympic Games in Tokyo. In Spain, the initial government-lockdown closed the Sports High-performance Centers, and many other sports facilities. In order to support athlete's health and performance at crises like these, an online questionnaire named RECOVID-19, was designed to assess how athletes were living their lives during such periods of home confinement. The main purpose of the questionnaire was to assess the impact of prolongued confinement on athlete's psychological, emotional, and behavioral performance. One thousand, two hundred forty-eight athletes participated in the survey. They had the fllowing characteristics: (Mean age = 22.31 ± 11.49, Female: 53%), who compete at National (N: 1017, Mean age = 21.58 ± 11.42, Female: 52%) and International level (N: 231, Mean age = 25.56 ± 11.22, Female: 57%). Results showed that during the confinement period, those athletes who lacked motivation reported a higher level of stressful thoughts, more behavioral problems, and greater emotional upheaval (anger, fatigue, tension, and depression). However, those athletes who accepted confinement measures as necessary, and were in favor of respecting the rules of social isolation, fostered positive emotional states such as feelings of friendship. In addition, the availability of some sport equipment together with the ability to continue some training, were (1) protective factors against emotional stress, lack of motivation and behavioral problems; and (2) they were associated with greater respect for, and adherence to, confinement rules. Gender differences, tested by multigroup analysis, revealed that coping activities were more often associated to negative emotional states among women, whereas the ongoing availability of training information and future conditions were equally protective factors for both genders. This study also showed that receiving coaching, support and completing frequent training routines seem to be valuable tools to prevent or reduce some of the harmful effects of isolation on athlete's emotional well-being. The conclusions derived from this research would possibly help sport authorities to design supporting policies and plans to support athletes and trainers in future disruptive health crises.
Acupuncture Combined With Emotional Therapy of Chinese Medicine Treatment for Improving Depressive Symptoms in Elderly Patients With Alcohol Dependence During the COVID-19 Epidemic
Authors: Zhao Fazheng , Tong Xin , Wang Changqing
Published: May 2021

Objective: We aimed to analyze the characteristics and psychological mechanism of depressive symptoms in elderly patients with alcohol dependence under the COVID-19 epidemic and to observe the effect of acupuncture combined with emotional therapy of Chinese medicine treatment on depressive symptoms in elderly patients with alcohol dependence.

Methods: Sixty patients were randomly divided into two groups. One group was treated by a set of emotional therapy of Chinese medicine treatment for 12 weeks (control group). One group was treated by a set of acupuncture combined with emotional therapy of Chinese medicine treatment for 12 weeks (treatment group). We compared the curative effect between the control group and the treatment group, the mean alcohol consumption, the SF-36 scores before and after treatment, and the scores of Hamilton Depression Scale before and after treatment of 3, 6, and 9 weeks.

Results: Based on the cognitive behavior model, the characteristics and psychological mechanism of depression in elderly patients with alcohol dependence under the COVID-19 epidemic situation were summarized. The total effective rate of the control group was 60%, and that of the treatment group was 100% (p < 0.05). The alcohol consumption of the patients in each group decreased significantly after treatment (p < 0.05), and there was no significant difference in alcohol consumption between the treatment group and the control group (p > 0.05). After 12 weeks of treatment, there were significant differences in PF, RF, physical pain, general health status, energy, and mental health between the treatment group and the control group (p < 0.05). Before and after treatment, there were significant differences in PF, RF, physical pain, general health, energy, emotional function, and mental health (p < 0.05) of the treatment group. The PF, energy, and mental health of the control group were significantly different before and after treatment (p < 0.05). There was no significant difference between the treatment group and the control group in the scores of Hamilton Depression Scale before treatment. There was significant difference between the treatment group and the control group in the scores of Hamilton Depression Scale at 3, 6, and 9 weeks after treatment.

Conclusion: Attention, cognition, emotion, behavior, and physical response reinforce each other, creating a vicious cycle that reinforces and sustains the depressive symptoms of elderly alcohol dependence under the COVID-19 epidemic, and acupuncture combined with emotional therapy of Chinese medicine treatment for improving the depressive symptoms of elderly alcohol dependence during the epidemic period of COVID-19 has a brilliant therapeutic effect.
Becoming Native-Like for Good or Ill: Online and Offline Processing of Case Forms in L2 Russian
Authors: Cherepovskaia Natalia , Reutova Elizaveta , Slioussar Natalia
Published: May 2021

One of the central questions in second language processing studies is whether native (L1) and second language (L2) readers process sentences relying on the same mechanisms or there are qualitative differences. As their proficiency grows, L2 readers become more efficient, but it is difficult to determine whether they develop native-like mechanisms or rely on different strategies. Our study contributes to this debate by focusing on constructions that were demonstrated to cause characteristic problems in L1 processing: a particular type of case errors in Russian was taken as an example. We investigated how beginner and intermediate learners of Russian process such errors, measuring reading times and grammaticality judgment accuracy. At the beginner level, we found non-native-like patterns both in online and in offline measures. But at the intermediate level, native-like problems emerged in offline measures. In our view, this is a strong indication that these readers are using the same underlying mechanisms as in L1 processing. In online measures, L2 readers at both levels were, in general, much slower than native participants and exhibited characteristic non-native-like patterns, which we explained by delayed morphosyntactic processing. We conclude that our results are compatible with approaches, assuming that the mechanisms for L1 and advanced L2 processing are the same, but L2 processing is more cognitively demanding and therefore slower.
Accessibility and Historical Change: An Emergent Cluster Led Uncles and Aunts to Become Aunts and Uncles
Authors: Goldberg Adele E. , Lee Crystal
Published: May 2021

There are times when a curiously odd relic of language presents us with a thread, which when pulled, reveals deep and general facts about human language. This paper unspools such a case. Prior to 1930, English speakers uniformly preferred male-before-female word order in conjoined nouns such asuncles and aunts; nephews and nieces; men and women. Since then, at least a half dozen items have systematically reversed their preferred order (e.g.,aunts and uncles, nieces and nephews) while others have not (men and women). We review evidence that the unusual reversals began withmother and dad(dy)and spread to semantically and morphologically related binomials over a period of decades. The present work proposes that three aspects ofcognitive accessibilitycombine to quantify the probability of A&B order: (1) the relative accessibility of the A&B terms individually, (2) competition from B&A order, and critically, (3) cluster strength (i.e., similarity to related A'&B' cases). The emergent cluster of female-first binomials highlights the influence of semantic neighborhoods in memory retrieval. We suggest that cognitive accessibility can be used to predict the word order of both familiar and novel binomials generally, as well as the diachronic change focused on here.
Improvisational Dance-Based Psychological Training of College Students’ Dance Improvement
Authors: Dou Xinyu , Jia Lin , Ge Jinchuan
Published: May 2021

Dance creation involves complex psychological activities. Although previous studies have conducted extensive investigations on the psychological aspects of choreographers’ creations, little is known regarding the psychological barrier of choreographers in terms of creativity. The study aims to explore the psychological barrier of innovation in dance choreography, which is a kind of situation between mental illness and mental problems. The research shows that improvisational dance is a free dance with the human body as a material carrier, and it is a dance form that the dancer’s thinking is transformed into dance action to express their inner thoughts. The improvement of the potential creative thinking of dance creators through the improvisational dance movement and structure are explored. Meanwhile, the theoretical ideas of psychologists have been applied to the cultivation and improvement of improvisational dance creativity, which has made full certification and supplement. Moreover, through psychological experiments, it is proved that improvisational dance is an important way to release and develop creativity. Based on the theory of psychology, feasible suggestions are given to improve students’ creative ability in the process of improvisational dance teaching.
Psychometric Properties of the Independent 36-Item PID5BF+M for ICD-11 in the Czech-Speaking Community Sample
Authors: Riegel Karel D. , Ksinan Albert J. , Schlosserova Lucia
Published: May 2021

Background: Empirical soundness and international robustness of the PID5BF+M, a shortened version of the PID-5 developed for simultaneous evaluation of maladaptive personality traits in the DSM-5 AMPD and ICD-11 models for personality disorders, was recently confirmed in 16 samples from different countries. Because the modified PID5BF+ scale (36 items) was extracted from the complete 220-item PID-5, an independent evaluation of psychometric properties of a stand-alone PID5BF+M is still missing.

Objectives: The present study evaluated the validity and reliability of the 36-item PID5BF+M in comparison with the extracted version from the original PID-5. It also assessed associations between the Borderline Pattern qualifier and trait domain qualifiers.

Methods: Two non-clinical samples meeting the inclusion criteria were employed in the study. Sample 1 (n = 614) completed the 220-item PID-5; Sample 2 (n = 1,040) completed the independent 36-item PID5BF+M. Participants were from all 14 regions of the Czech Republic. The Borderline Pattern qualifier was evaluated using a shortened IPDEQ screener.

Results: The proposed latent structure of the independent PID5BF+M was confirmed, with an exception of the Disinhibition domain. The results confirmed good internal consistency and test-retest reliability of the measure, as well as some support for the measurement invariance of the independent PID5BF+M in comparison with the extracted version from the original PID-5. Significant associations between the Negative affectivity, Disinhibition, and Psychoticism qualifiers and the IPDEQ items for the emotionally unstable personality disorder of both impulsive and borderline types confirmed good predictive validity of the PID5BF+M in pursuing borderline psychopathology within the ICD-11 model.

Conclusions: The independent PID5BF+M was found to be a valid and reliable tool for evaluation of the ICD-11 trait model. However, the Disinhibition domain deserves further investigation in clinical samples as well as in international community samples.
Coping With the Experiences of Intimate Partner Violence Among South African Women: Systematic Review and Meta-Synthesis
Authors: Sere Yalda , Roman Nicolette V. , Ruiter Robert A. C.
Published: May 2021

Background: Intimate partner violence (IPV) continues to be a serious problem worldwide. South Africa has a high prevalence of women experiencing IPV. Although much research reports on the prevalence rates, risk factors, and consequences of IPV, fewer studies report on how women deal with the experiences of IPV.

Objective: This systematic review of the empirical literature aimed to identify and synthesize the best available evidence on women's experiences of coping with IPV in South Africa.

Methods: A four-level search and retrieval strategy using PRISMA and JBI guidelines was conducted, which included critical appraisal, study selection, data extraction, and data synthesis. Ten studies met the eligibility criteria and were included in the review. They were assessed to meet a set threshold (7/10) based on the JBI Critical Appraisal Checklist for Qualitative Research. All studies were conducted between 2010 and 2020, conducted in South Africa, and used qualitative methodologies to accomplish the overall aim of investigating IPV experiences of women and their responses to it.

Results: The total number of women included in the studies was 159. The data extraction yielded 49 findings of which 47 were aggregated into 14 categories and three themes: (1) help- and support-seeking coping, (2) emotional regulation coping, and (3) problem avoidance and distraction coping. Help- and support-seeking coping refers to women's responses when they seek instrumental aid, advice, comfort, and/or understanding from others. Emotional regulation includes responses of women in which their emotions were expressed or regulated. Problem avoidance and distraction coping represent responses of women in which they take efforts to avoid thinking about the problem situation and rather reshift their focus.

Conclusion: Overall, this review found that a variety of coping responses are used by South African women experiencing IPV. The findings point to the need for understanding IPV and responses to it within a broader social context rather than just at the personal level. Approaching IPV at many levels may lead to a change in societal norms, better access to and delivery of services to IPV survivors, more functional family affairs, and personal well-being and improved quality of life.
InferBERT: A Transformer-Based Causal Inference Framework for Enhancing Pharmacovigilance
Authors: Wang Xingqiao , Xu Xiaowei , Tong Weida , Roberts Ruth , Liu Zhichao
Published: May 2021

Background: T ransformer-based language models have delivered clear improvements in a wide range of natural language processing (NLP) tasks. However, those models have a significant limitation; specifically, they cannot infer causality, a prerequisite for deployment in pharmacovigilance, and health care. Therefore, these transformer-based language models should be developed to infer causality to address the key question of the cause of a clinical outcome.

Results: In this study, we propose an innovative causal inference model–InferBERT, by integrating the A Lite Bidirectional Encoder Representations from Transformers (ALBERT) and Judea Pearl’s Do-calculus to establish potential causality in pharmacovigilance. Two FDA Adverse Event Reporting System case studies, including Analgesics-related acute liver failure and Tramadol-related mortalities, were employed to evaluate the proposed InferBERT model. The InferBERT model yielded accuracies of 0.78 and 0.95 for identifying Analgesics-related acute liver failure and Tramadol-related death cases, respectively. Meanwhile, the inferred causes of the two clinical outcomes, (i.e. acute liver failure and death) were highly consistent with clinical knowledge. Furthermore, inferred causes were organized into a causal tree using the proposed recursive do-calculus algorithm to improve the model’s understanding of causality. Moreover, the high reproducibility of the proposed InferBERT model was demonstrated by a robustness assessment.

Conclusion: The empirical results demonstrated that the proposed InferBERT approach is able to both predict clinical events and to infer their causes. Overall, the proposed InferBERT model is a promising approach to establish causal effects behind text-based observational data to enhance our understanding of intrinsic causality.

Availability and implementation: The InferBERT model and preprocessed FAERS data sets are available on GitHub at https://github.com/XingqiaoWang/DeepCausalPV-master.
A Landscape Analysis of Offering HIV Testing Services Within Family Planning Service Delivery
Authors: Drake Alison L. , Quinn Caitlin , Kidula Nancy , Sibanda Euphemia , Steyn Petrus , Barr-DiChiara Magdalena , Jamil Muhammad S. , Rodolph Michelle , Gaffield Mary E. , Kiarie James , Baggaley Rachel , Johnson Cheryl
Published: May 2021

Introduction: Offering HIV testing services (HTS) within sexual and reproductive health (SRH) services is a priority, especially for women who have a substantial risk. To reach women with HIV who do not know their status and prevent mother-to-child HIV transmission, the World Health Organization (WHO) recommends routinely offering HTS as part of family planning (FP) service delivery in high HIV burden settings. We conducted a landscape analysis to assess HTS uptake and HIV positivity in the context of FP/SRH services.

Assessment of Research and Programs: We searched records from PubMed, four gray literature databases, and 13 organization websites, and emailed 24 organizations for data on HTS in FP/SRH services. We also obtained data from International Planned Parenthood Federation (IPPF) affiliates in Eswatini, Kenya, Lesotho, Malawi, Namibia, Uganda, Zambia, and Zimbabwe. Unique programs/studies from records were included if they provided data on, or barriers/facilitators to, offering HTS in FP/SRH. Overall, 2,197 records were screened and 12 unique programs/studies were eligible, including 10 from sub-Saharan Africa. Four reported on co-delivery of SRH services (including FP), with reported HTS uptake between 17 and 94%. Six reported data on HTS in FP services: four among general FP clients; one among couples; and one among female sex workers, adolescent girls, and young women. Two of the six reported HTS uptake >50% (51%, 419/814 Kenya; 63%, 5,930/9,439 Uganda), with positivity rates of 2% and 4.1%, respectively. Uptake was low (8%, 74/969 Kenya) in the one FP program offering pre-exposure prophylaxis. In the IPPF program, seven countries reported HTS uptake in FP services and ranged from 4% in Eswatini to 90% in Lesotho; between 0.6% (Uganda) and 8% (Eswatini) of those tested were HIV positive.

Implications: Data on providing HTS in FP/SRH service delivery were sparse and HTS uptake varied widely across programs.

Actionable Recommendations: As countries expand HTS in FP/SRH appropriate to epidemiology, they should ensure data are reported and monitored for progress and impact.
The Spectral Nature of Earth’s Reflected Radiation: Measurement and Science Applications
Authors: Stephens Graeme , Kalashnikova Olga , Gristey Jake J. , Pilewskie Peter , Thompson David R. , Huang Xianglei , Lebsock Matthew , Schmidt Sebastian
Published: May 2021

This paper introduces the aerosol, clouds, convection and precipitation (ACCP) program that is currently in the process of defining a number of measurement objectives for NASA that are to be implemented toward the end of the current decade. Since a (solar) visible-shortwave infrared (VSWIR) spectrometer is being considered as part of the ACCP architecture, illustrations of the different ways these measurements will contribute to this program and how these measurements can be expected to advance the science objectives of ACCP are highlighted. These contributions range from 1) constraining cloud radiative process and related estimates of radiative fluxes, 2) scene discrimination, 3) providing aerosol and cloud optical properties, and 4) providing other enhanced information such as the phase of water in clouds, and total column water vapor. The spectral measurements also offer new capabilities that will further enhance the ACCP science such as the discrimination of dust aerosol and the potential for the vertical profiling cloud droplet size in shallow clouds. The areas where the maturity of approaches is lacking is also highlighted as a way of emphasizing research topics to be a focus in the coming years.
A Review of Operational Ensemble Forecasting Efforts in the United States Air Force
Authors: Kuchera Evan L. , Rentschler Scott A. , Creighton Glenn A. , Rugg Steven A.
Published: May 2021

United States Air Force (USAF) operations are greatly influenced and impacted by environmental conditions. Since 2004, USAF has researched, developed, operationalized, and refined numerical weather prediction ensembles to provide improved environmental information for mission success and safety. This article reviews how and why USAF capabilities evolved in the context of USAF requirements and limitations. The convergence of time-lagged convection-allowing ensembles with inline diagnostics, algorithms to estimate the sub-grid scale uncertainty of critical forecasting variables, and the distillation of large quantities of ensemble information into decision-relevant products has led to the acceptance of probabilistic environmental forecast information and widespread reliance on ensembles in USAF operations worldwide.
Neuro-Inspired Signal Processing in Ferromagnetic Nanofibers
Authors: Blachowicz Tomasz , Grzybowski Jacek , Steblinski Pawel , Ehrmann Andrea
Published: May 2021

Computers nowadays have different components for data storage and data processing, making data transfer between these units a bottleneck for computing speed. Therefore, so-called cognitive (or neuromorphic) computing approaches try combining both these tasks, as is done in the human brain, to make computing faster and less energy-consuming. One possible method to prepare new hardware solutions for neuromorphic computing is given by nanofiber networks as they can be prepared by diverse methods, from lithography to electrospinning. Here, we show results of micromagnetic simulations of three coupled semicircle fibers in which domain walls are excited by rotating magnetic fields (inputs), leading to different output signals that can be used for stochastic data processing, mimicking biological synaptic activity and thus being suitable as artificial synapses in artificial neural networks.
Common Motor Drive Triggers Response of Prime Movers When Two Fingers Simultaneously Respond to a Cue
Authors: Jono Yasutomo , Iwata Yasuyuki , Kinoshita Atsushi , Hiraoka Koichi
Published: May 2021

This study investigated whether the motor execution process of one finger movement in response to a start cue is influenced by the participation of another finger movement and whether the process of the finger movement is dependent on the movement direction. The participants performed a simple reaction time (RT) task, the abduction or flexion of one (index or little finger) or two fingers (index and little fingers). The RT of the prime mover for the finger abduction was significantly longer than that for the flexion, indicating that the time taken for the motor execution of the finger response is dependent on the movement direction. The RT of the prime mover was prolonged when the abduction of another finger, whose RT was longer than the flexion, was added. This caused closer RTs between the prime movers for a two-finger response compared with the RTs for a one finger response. The absolute difference in the RT between the index and little finger responses became smaller when two fingers responded together compared with one finger response. Those results are well explained by a view that the common motor drive triggers the prime movers when two fingers move together in response to a start cue.
GATCDA: Predicting circRNA-Disease Associations Based on Graph Attention Network
Authors: Bian Chen , Lei Xiu-Juan , Wu Fang-Xiang
Published: May 2021

CircRNAs (circular RNAs) are a class of non-coding RNA molecules with a closed circular structure. CircRNAs are closely related to the occurrence and development of diseases. Due to the time-consuming nature of biological experiments, computational methods have become a better way to predict the interactions between circRNAs and diseases. In this study, we developed a novel computational method called GATCDA utilizing a graph attention network (GAT) to predict circRNA–disease associations with disease symptom similarity, network similarity, and information entropy similarity for both circRNAs and diseases. GAT learns representations for nodes on a graph by an attention mechanism, which assigns different weights to different nodes in a neighborhood. Considering that the circRNA–miRNA–mRNA axis plays an important role in the generation and development of diseases, circRNA–miRNA interactions and disease–mRNA interactions were adopted to construct features, in which mRNAs were related to 88% of miRNAs. As demonstrated by five-fold cross-validation, GATCDA yielded an AUC value of 0.9011. In addition, case studies showed that GATCDA can predict unknown circRNA–disease associations. In conclusion, GATCDA is a useful method for exploring associations between circRNAs and diseases.
Refinement of an Established Procedure and Its Application for Identification of Hypoxia in Prostate Cancer Xenografts
Authors: Elming Pernille B. , Wittenborn Thomas R. , Busk Morten , Sørensen Brita S. , Thomsen Mathilde Borg Houlberg , Strandgaard Trine , Dyrskjøt Lars , Nielsen Steffen , Horsman Michael R.
Published: May 2021

Background: This pre-clinical study was designed to refine a dissection method for validating the use of a 15-gene hypoxia classifier, which was previously established for head and neck squamous cell carcinoma (HNSCC) patients, to identify hypoxia in prostate cancer. Methods: PC3 and DU-145 adenocarcinoma cells, in vitro, were gassed with various oxygen concentrations (0–21%) for 24 h, followed by real-time PCR. Xenografts were established in vivo, and the mice were injected with the hypoxic markers [18F]-FAZA and pimonidazole. Subsequently, tumors were excised, frozen, cryo-sectioned, and analyzed using autoradiography ([18F]-FAZA) and immunohistochemistry (pimonidazole); the autoradiograms used as templates for laser capture microdissection of hypoxic and non-hypoxic areas, which were lysed, and real-time PCR was performed. Results: In vitro, all 15 genes were increasingly up-regulated as oxygen concentrations decreased. With the xenografts, all 15 genes were up-regulated in the hypoxic compared to non-hypoxic areas for both cell lines, although this effect was greater in the DU-145. Conclusions: We have developed a combined autoradiographic/laser-guided microdissection method with broad applicability. Using this approach on fresh frozen tumor material, thereby minimizing the degree of RNA degradation, we showed that the 15-gene hypoxia gene classifier developed in HNSCC may be applicable for adenocarcinomas such as prostate cancer.
Quality of Life in Vulnerable Older Patients with Metastatic Colorectal Cancer Receiving Palliative Chemotherapy—The Randomized NORDIC9-Study
Authors: Liposits Gabor , Eshøj Henrik Rode , Möller Sören , Winther Stine Brændegaard , Skuladottir Halla , Ryg Jesper , Hofsli Eva , Shah Carl-Henrik , Poulsen Laurids Østergaard , Berglund Åke , Qvortrup Camilla , Österlund Pia , Glimelius Bengt , Sorbye Halfdan , Pfeiffer Per
Published: May 2021

Quality of life data from randomized trials are lacking in older patients with metastatic colorectal cancer (mCRC). In the randomized NORDIC9-study, reduced-dose S1+oxaliplatin (SOx) showed superior efficacy compared to full-dose S1 monotherapy. We hypothesized that treatment with SOx does not result in inferior quality of life. Patients with mCRC aged ≥70 years and that were not a candidate for standard combination chemotherapy were included and randomly assigned to receive either S1 or SOx. The EORTC QLQ-C30 questionnaire was completed at baseline, after 9, and 18 weeks. The primary endpoint was global Quality of Life (QoL) at 9 weeks. For statistical analysis, a non-inferiority design was chosen applying linear mixed effects models for repeated measurements. The results were interpreted according to statistical significance and anchor-based, clinically relevant between-group minimally important differences (MID). A total of 160 patients aged (median (Interquartile range (IQR))) 78 years (76–81) were included. The QLQ-C30 questionnaire was completed by 150, 100, and 60 patients at baseline, at 9, and 18 weeks, respectively. The difference at 9 weeks in global QoL was 6.85 (95%CI—1.94; 15.65) and 7.37 (0.70; 14.05) in the physical functioning domain in favor of SOx exceeding the threshold for MID. At 18 weeks, the between-group MID in physical functioning was preserved. Dose-reduced combination chemotherapy may be recommended in vulnerable older patients with mCRC, rather than full-dose monotherapy.
Multimodality and Sequential Therapy in Locally Advanced Head and Neck Cancer: A Preface to the Special Issue
Authors: Riva Giuseppe , Pecorari Giancarlo
Published: May 2021

Head and neck squamous cell carcinomas are heterogeneous in molecular pattern, clinical presentation and prognosis [...]
Optimizing Loco Regional Management of Oligometastatic Colorectal Cancer: Technical Aspects and Biomarkers, Two Sides of the Same Coin
Authors: Mauri Giovanni , Monfardini Lorenzo , Garnero Andrea , Zampino Maria Giulia , Orsi Franco , Della Vigna Paolo , Bonomo Guido , Varano Gianluca Maria , Busso Marco , Gazzera Carlo , Fonio Paolo , Veltri Andrea , Calandri Marco
Published: May 2021

Colorectal cancer (CRC) is the third most common cancer worldwide and has a high rate of metastatic disease which is the main cause of CRC-related death. Oligometastatic disease is a clinical condition recently included in ESMO guidelines that can benefit from a more aggressive locoregional approach. This review focuses the attention on colorectal liver metastases (CRLM) and highlights recommendations and therapeutic locoregional strategies drawn from the current literature and consensus conferences. The different percutaneous therapies (radiofrequency ablation, microwave ablation, irreversible electroporation) as well as trans-arterial approaches (chemoembolization and radioembolization) are discussed. Ablation margins, the choice of the imaging guidance as well as characteristics of the different ablation techniques and other technical aspects are analyzed. A specific attention is then paid to the increasing role of biomarkers (in particular molecular profiling) and their role in the selection of the proper treatment for the right patient. In conclusion, in this review an up-to-date state of the art of the application of locoregional treatments on CRLM is provided, highlighting both technical aspects and the role of biomarkers, two sides of the same coin.
Outcome Using Either Intradermal Botox Injection or Endoscopic Thoracic Sympathectomy for Patients with Primary Palmar Hyperhidrosis: A Comparative Study
Authors: Alhetheli Ghadah
Published: May 2021

Hyperhidrosis, or excessive sweating, negatively impacts patients both physically and psychologically. It may be primary or secondary: the primary form is a benign condition, with its growing prevalence reaching 5% recently. Its medical treatments are transitory. Objectives: Comparison of the outcomes of patients with primary palmar hyperhidrosis (PPH) after intradermal Botox injection (IBI) versus endoscopic thoracic sympathectomy (ETS). Methods: Forty patients were randomly divided into two equal groups. Patients in the IBI group received an intradermal injection of a botulinum toxin A. Patients in the EST group received endoscopic electrocautery of the sympathetic chain. The patients were evaluated biweekly for 12 weeks, and patient satisfaction by outcome was evaluated using a 4-point satisfaction score. Results: At 12 weeks, 60% of the IBI group patients had maintained an improvement. Meanwhile, 40% of the patients were improved compared to pre-intervention scores, despite deterioration after remarkable improvement. On the other hand, 80% of ETS group patients maintained their Hyperhidrosis Disease Severity Scale (HDSS) up until the end of follow-up. Patient satisfaction scores were significantly higher for the IBI group compared to the ETS group. Conclusions: Intradermal Botox injection is a simple, safe, non-invasive, and effective therapeutic modality for PPH and achieved higher patient satisfaction compared to ETS.
West Bay Business District in Doha, State of Qatar: Envisioning a Vibrant Transit-Oriented Development
Authors: Alattar Deema , Furlan Raffaello , Grosvald Michael , Al-Matwi Rashid
Published: May 2021

In recent decades, Doha, the capital of Qatar, has experienced a large-scale transformation due to globalization and rapid economic growth. Recently, these changes have led to a focus on infrastructural development and the launch of the city’s metro project, whose success will depend heavily on Transit-Oriented Development (TOD). TOD focuses on the “3Ds” principles—design, density, and diversity—aiming to create walkable neighborhoods and well-integrated public transportation, with diverse mixed land uses and high-density, sustainable growth. In combining the concepts of livability, sustainable urbanism, and urban sociology, TOD leads to the creation of vibrant and active neighborhoods. The present research project focuses on TOD around Doha’s West Bay metro station, using the city’s central business district as a case study. The aim of this research project is to investigate the existing site conditions of the West Bay area, evaluate them with respect to TOD principles, and then propose a master plan for improved development. The final product of the research project is a proposal with design guidelines that are aimed at increasing the ridership of the West Bay metro station and creating a more attractive and dynamic neighborhood.
Techno-Economic Analysis of Integrating Soybean Biorefinery Products into Corn-Based Ethanol Fermentation Operations
Authors: Rosentrater Kurt A. , Zhang Weitao
Published: May 2021

With the development of agricultural biorefineries and bioprocessing operations, understanding the economic efficiencies and environmental impacts for these have gradually become popular for the deployment of these industrial processes. The corn-based ethanol and soybean oil refining industries have been examined extensively over the years, especially details of processing technologies, including materials, reaction controls, equipment, and industrial applications. The study focused on examining the production efficiency changes and economic impacts of integrating products from the enzyme-assisted aqueous extraction processing (EAEP) of soybeans into corn-based ethanol fermentation processing. Using SuperPro Designer to simulate production of corn-based ethanol at either 40 million gallons per year (MGY) or 120 MGY, with either oil separation or no oil removal, we found that indeed integrating soy products into corn ethanol fermentation may be slightly more expensive in terms of production costs, but economic returns justify this integration due to substantially greater quantities of ethanol, distillers corn oil, and distillers dried grains with solubles being produced.
Unsteady MHD Mixed Convection Flow of Non-Newtonian Casson Hybrid Nanofluid in the Stagnation Zone of Sphere Spinning Impulsively
Authors: El-Zahar Essam R. , Mahdy Abd El Nasser , Rashad Ahmed M. , Saad Wafaa , Seddek Laila F.
Published: May 2021

In the present analysis, an unsteady MHD mixed convection flow is scrutinized for a non-Newtonian Casson hybrid nanofluid in the stagnation zone of a rotating sphere, resulting from the impulsive motion of the angular velocity of the sphere and the velocity of the free stream. A set of linearized equations is derived from the governing ones, and these differential equations are solved numerically using the hybrid linearization–differential quadrature method. The surface shear stresses in the x- and y-directions and the surface heat transfer rate are improved due to the Casson βo, mixed convection α, rotation γ and magnetic field M parameters. In addition, as nanoparticles, the solid volume fraction (parameter ϕ) increases, and the surface shear stresses and the rate of heat transfer are raised. A comparison between earlier published data and the present numerical computations is presented for the limiting cases, which are noted to be in very good agreement.
Origin, Evolution and Stability of Overlapping Genes in Viruses: A Systematic Review
Authors: Pavesi Angelo
Published: May 2021

During their long evolutionary history viruses generated many proteins de novo by a mechanism called “overprinting”. Overprinting is a process in which critical nucleotide substitutions in a pre-existing gene can induce the expression of a novel protein by translation of an alternative open reading frame (ORF). Overlapping genes represent an intriguing example of adaptive conflict, because they simultaneously encode two proteins whose freedom to change is constrained by each other. However, overlapping genes are also a source of genetic novelties, as the constraints under which alternative ORFs evolve can give rise to proteins with unusual sequence properties, most importantly the potential for novel functions. Starting with the discovery of overlapping genes in phages infecting Escherichia coli, this review covers a range of studies dealing with detection of overlapping genes in small eukaryotic viruses (genomic length below 30 kb) and recognition of their critical role in the evolution of pathogenicity. Origin of overlapping genes, what factors favor their birth and retention, and how they manage their inherent adaptive conflict are extensively reviewed. Special attention is paid to the assembly of overlapping genes into ad hoc databases, suitable for future studies, and to the development of statistical methods for exploring viral genome sequences in search of undiscovered overlaps.
Interleukins and Interleukin Receptors Evolutionary History and Origin in Relation to CD4+ T Cell Evolution
Authors: Kubick Norwin , Klimovich Pavel , Flournoy Patrick Henckell , Bieńkowska Irmina , Łazarczyk Marzena , Sacharczuk Mariusz , Bhaumik Suniti , Mickael Michel-Edwar , Basu Rajatava
Published: May 2021

Understanding the evolution of interleukins and interleukin receptors is essential to control the function of CD4+ T cells in various pathologies. Numerous aspects of CD4+ T cells’ presence are controlled by interleukins including differentiation, proliferation, and plasticity. CD4+ T cells have emerged during the divergence of jawed vertebrates. However, little is known about the evolution of interleukins and their origin. We traced the evolution of interleukins and their receptors from Placozoa to primates. We performed phylogenetic analysis, ancestral reconstruction, HH search, and positive selection analysis. Our results indicated that various interleukins’ emergence predated CD4+ T cells divergence. IL14 was the most ancient interleukin with homologs in fungi. Invertebrates also expressed various interleukins such as IL41 and IL16. Several interleukin receptors also appeared before CD4+ T cells divergence. Interestingly IL17RA and IL17RD, which are known to play a fundamental role in Th17 CD4+ T cells first appeared in mollusks. Furthermore, our investigations showed that there is not any single gene family that could be the parent group of interleukins. We postulate that several groups have diverged from older existing cytokines such as IL4 from TGFβ, IL10 from IFN, and IL28 from BCAM. Interleukin receptors were less divergent than interleukins. We found that IL1R, IL7R might have diverged from a common invertebrate protein that contained TIR domains, conversely, IL2R, IL4R and IL6R might have emerged from a common invertebrate ancestor that possessed a fibronectin domain. IL8R seems to be a GPCR that belongs to the rhodopsin-like family and it has diverged from the Somatostatin group. Interestingly, several interleukins that are known to perform a critical function for CD4+ T cells such as IL6, IL17, and IL1B have gained new functions and evolved under positive selection. Overall evolution of interleukin receptors was not under significant positive selection. Interestingly, eight interleukin families appeared in lampreys, however, only two of them (IL17B, IL17E) evolved under positive selection. This observation indicates that although lampreys have a unique adaptive immune system that lacks CD4+ T cells, they could be utilizing interleukins in homologous mode to that of the vertebrates’ immune system. Overall our study highlights the evolutionary heterogeneity within the interleukins and their receptor superfamilies and thus does not support the theory that interleukins evolved solely in jawed vertebrates to support T cell function. Conversely, some of the members are likely to play conserved functions in the innate immune system.