bluuebunny/crossref_metadata_2025_split huggingface dataset:
A simple and rapid diagnostic method for 13 types of High risk human papillomavirus (HR-HPVs) detection using CRISPR-Cas12a technology
Authors: Gong Jiaojiao , Zhang Guanghui , Wang Wangguo , Liang Liping , Li Qianyun , Liu Menghao , Xue Liang , Tang Guanghui 
Published: April 2021

Abstract
Cervical carcinoma is the second most common cancer in women worldwide with greater than 99% of the cases caused by human papillomaviruses (HPVs). Early detection of HPVs especially the high risk types (HR-HPVs) are essential to prevent the disease progression. The existing methods for HPV detection, such as qPCR are of high sensitivity and specificity, but the need for expensive machinery and well-trained personnel slow down the disease detection. The emerging Cas12a-based method presents a new technique for nucleic acid detection. However, it is time-consuming and labor-intensive when used for HPV detection, as several reactions are required in order to identify multiple HPV infections. We herein present a non-genotyping method for 13 types of HR-HPV detection in a single reaction by combining the isothermal recombinase polymerase amplification (RPA) method with CRISPR-Cas12a technology. The result could be achieved in 30 minutes with high sensitivity (500 copies per reaction). This assay reprsents great advances for the application of RPA-Cas12a system and holds a great potential to address the key challenges facing the HPV diagnostics.
NeosedumosideIII induced Apoptosis of Human Hepatocellular Carcinoma HepG2 cells and SMMC-7721 Cells and Related Mechanism
Authors: Li Xin-Yu , Zhou Xin , Liu Yu- , Qiu Feng , Zhao Qing-Qing 
Published: April 2021

Abstract
Purpose: NeosedumosideIII (Neo) is a megastigmanes and belongs to monocyclic sesquiterpenoids compound with antioxidant, anti-inflammatory and other pharmacological activities. In order to explore the anti-cancer effect and possible mechanism of Neo, the study examined the anti-proliferation and apoptosis effect of Neo against human hepatocellular carcinoma HepG2 cells and SMMC-772 cells and related mechanism in vitro. Methods ：The anti-proliferation effect of Neo was detected on HepG2 cells and SMMC-772 cells by MTT assay and IC50 with increasing dose and time. Cell cycle and apoptosis were detected by flow cytometer. The changes of Bcl-2, Bax, Caspase-3, Caspase-8 and Caspase-9 proteins were detected by western blotting.Results ：The results indicated that Neo could inhibited proliferation of HepG2 cells and SMMC-772 cells in vitro and promoted apoptosis, it significantly induced apoptosis of HepG2 cells and SMMC-772 cells arrested cell cycle at G0/G1 phase in a dose-dependent manner, reduce the expression of Bcl-2 protein, and increase the expression of Bax and Caspase-3, Caspase-8 and Caspase-9 proteins. Conclusion：Neo could inhibit proliferation and induce apoptosis of HepG2 cells and SMMC-7721 cells in vivo which suggested that it might be served as a promising candidate for the treatment of liver cancer.
Study of APOBEC3B focused breast cancer pathways and the clinical relevance
Authors: Choudhary Hani , Albukhari Ashwag , Mobashir Mohammad , Abdulaal Wesam 
Published: April 2021

Abstract
APOBEC3B is considered as an enzymatic source of mutation in case of breast cancer and Human T-Cell Leukemia Virus Type 1 and Bone Leiomyosarcoma are also associated with it. The major functions controlled or affected due to APOBEC3B are gene expression, mRNA editing such as C -> U conversion, and deoxycytidine deaminase activity. Here, the main goal of the study was to perform a systematic analysis of APOBEC3B associated genes and its functional impact in human breast cancer. For this purpose, the datasets have been utilized from the publicly available database such as GEO, OncoLnc, and TCGA. Based on the requirements for fetching the values, different bioinformatics approaches have been applied at different levels. Further, co-regulated genes obtained from co-expression network have been processed and the mutated genes with the pathways enrichment analysis, and the clinical relevance using survival curve analysis by using OncoLnc have been performed. In the results, we found that there are a number of critical pathways known to directly associated with breast cancer are altered because of the genes which are either overexpressed or top mutated and are associated with APOBEC3B and these pathways are cell cycle, p53 signaling, immune signaling pathways, progesterone-mediated oocyte maturation, apoptosis, critical metabolic pathways, and pathways in cancers. From the mutational and survival analysis data, we also observe that there are a number of well-known cancer associated signaling pathways (mainly cancer), immune signaling pathway, critical metabolic associated pathways, cell cycle, ubiquitin-proteasomal signaling pathways, and p53 signaling. Network-level study of pathways and their components CD40LG as the potential gene where CD40LG is directly affecting 10 pathways and most of them are the parts of immune system and known to control a number of leading human diseases including cancers.
Static Compliance and Driving Pressure are Associated with ICU Mortality in Intubated COVID-19 ARDS
Authors: Boscolo Annalisa , Sella Nicolò , Lorenzoni Giulia , Pettenuzzo Tommaso , Pasin Laura , Pretto Chiara , Tocco Martina , Tamburini Enrico , De Cassai Alessandro , Rosi Paolo , Polati Enrico , Donadello Katia , Gottin Leonardo , De Rosa Silvia , Baratto Fabio , Toffoletto Fabio , Ranieri V. Marco , Gregori Dario , Navalesi Paolo 
Published: April 2021

Abstract
Background: ascertaining whether respiratory system static compliance (Crs), driving pressure (DP), and tidal volume normalized for ideal body weight (VT/kg IBW) at the 1st day of controlled mechanical ventilation (CMV) are associated with intensive care unit (ICU) mortality in COVID-19 acute respiratory distress syndrome (ARDS).Methods: observational multicenter cohort study. All consecutive COVID-19 adult patients admitted to 25 ICUs belonging to the COVID-19 VENETO ICU network (February 28th-April 28th, 2020), who received CMV, were screened. Only patients fulfilling ARDS criteria and with complete records of Crs, DP and VT/kg IBW within the 1st day of CMV were included. Crs, DP and VT/kg IBW were collected in sedated, paralyzed and supine patients.Results: 704 COVID-19 patients were screened and 241 enrolled. Seventy-one patients (29%) died in ICU. The logistic regression analysis showed that: i) Crs was not linearly associated with ICU mortality (p-value for non-linearity=0.01), with a greater risk of death for values <48 ml/cmH2O; ii) the association between DP and ICU mortality was linear (p-value for non-linearity=0.68), and increasing DP from 10 to 14 cmH2O caused significant higher odds of in-ICU death (OR 1.45, 95%CI 1.06-1.99); iii) VT/kg IBW was not associated with a significant increase of the risk of death (OR 0.92, 95%CI 0.55-1.52). Multivariable analysis confirmed these findings.Conclusions: Crs <48 ml/cmH2O was associated with ICU mortality, while DP was linearly associated with mortality. DP should be kept as low as possible, even in the case of relatively preserved Crs, irrespective of VT/kg IBW, to reduce the risk of death.
The Effects of The COVID-19 Pandemic on Patients With Lysosomal Storage Disorders in Israel
Authors: Kristal Eyal , Pode-Shakked Ben , Hazan Guy , Banne Ehud , Ling Galina , David Odeya , Shany Eilon , Raas-Rothschild Annick , Anikster Yair , Kneller Katya , Hershkovitz Eli , Landau Yuval E. , Spiegel Ronen , Zehavi Yoav , Staretz-Chacham O 
Published: April 2021

Abstract
Background- Severe acute respiratory syndrome coronavirus 2 (SARS CoV-2) is the causative agent of the current COVID-19 pandemic. Lysosomal storage disorders (LSD) comprise of 70 inherited inborn errors of metabolism. Affected individuals suffer from multi-systemic involvement with variable severity and rate of disease progression between different diseases. Some of the LSDs have established treatments whether parenteral, or oral therapies. The full impact of the COVID-19 pandemic together with the lockdown on the wellbeing and medical management of patients with rare diseases, such as LSDs, is widely unknown. Herein, we describe the effects of the COVID-19 pandemic and its associated mandatory home lockdown on patients with LSDs in Israel. Results- We present a prospective multi-center questionnaire study including 48 LSD patients from four medical centers in Israel. The study objective was to assess the impact of the COVID-19 pandemic restrictions on individuals with LSDs in Israel, as reported by their caregivers. Secondary objectives were to assess the morbidity from SARS CoV-2 in LSD patients and the impact of changes in mood and behavior on compliance to treatment and to assess the relationship between changes in mood to changes in cognition and behavior. Thirty one of 38 patients (82%) who received any kind of regular treatment did not miss treatments. Among patients receiving enzyme replacement therapy (ERT) in the in-hospital setting, 5 patients (20%) experienced treatment disruptions. Four patients had tested positive for SARS-Cov-2 virus infection by PCR. Seven out of the 48 patients (14%) described mood changes with cognitive and motor deterioration during the home quarantine. Conclusions- We observed high rates of treatment adherence and low morbidity through the COVID-19 pandemic in patients with LSDs in Israel. LSDs patients can be a model for patients with complex chronic diseases requiring routine treatments and surveillance during a pandemic or other disruption of daily routine.
Promise of Risk Stratification for Multicancer Screening with Liquid Biopsy Tests
Authors: Chatterjee Nilanjan , Kim Sungwon , Garcia-Closas Montserrat , Scharpf Rob , Visvanathan Kala , Velculescu Victor 
Published: April 2021

Abstract
Noninvasive multicancer liquid biopsy tests are rapidly emerging for early detection, but implementation will require risk stratification to enhance risk-benefit balance. Using data from the UK Biobank study, we trained and validated a model that allows estimation of absolute risk of developing at least one of the eight common cancers among women. We found that pan-cancer risk scores (PCRSs), defined by the combination of body mass index, smoking, family history of cancer, and cancer-specific polygenic risk scores, were strongly associated with the risk of developing at least one cancer (hazard ratio = 1.40 per sd unit, 95% CI: 1.35 - 1.46, 5-year AUC = 0.61). Projections using recently reported diagnostic accuracy for a multicancer screening test show that positive predictive values of it is expected to vary widely across strata defined by age and PCRS due to differences in underlying absolute risks. Our study suggests that risk-stratification, based on age, emerging polygenic risk scores, and other important cancer risk factors, have significant potential to increase risk-benefit balance of early detection through multicancer liquid biopsy tests.
Effects of Order on Memory of Event Times
Authors: Naim Michelangelo , Katkov Mikhail , Tsodyks Misha 
Published: April 2021

Abstract
Memorizing time of an event may employ two processes (i) encoding of the absolute time of events within an episode, (ii) encoding of its relative order. Here we study interaction between these two processes. We performed experiments in which one or several items were presented, after which participants were asked to report the time of occurrence of items. When a single item was presented, the distribution of reported times was quite wide. When two or three items were presented, the relative order among them strongly affected the reported time of each of them. Bayesian theory that takes into account the memory for the events order is compatible with the experimental data, in particular in terms of the effect of order on absolute time reports. Our results suggest that people do not deduce order from memorized time, instead people’s memory for absolute time of events relies critically on memorized order of the events.
Antioxidant Defense, Chlorophyll Fluorescence and VvCBF4-VvNAC1 Genes Expression in Grapevine Cultivars (Vitis Vinifera L.) in Response to Cold Stress
Authors: Aazami M. A. , Aruq M. Asghari , Hassanpouraghdam M. B. 
Published: April 2021

Abstract
Background: Cold stress is one of the limitative factors of different species of crops on the planet, causing significant damage to the Iranian agricultural industry every year. Grapes are the product of temperate warm zones and sensitive to early autumn cold and spring cold. The current study the effects of cold stress (+1 °C for 4, 8, and 16 hours) on three grapevine cultivars (Ghiziluzum, Khalili, and Perllete) were investigated. Results: The results showed that cold stress caused significant changes in the antioxidant and biochemicals content in the studied cultivars. Furthermore, examining the chlorophyll fluorescence indices, cold stress caused a significant increase in minimal fluorescence (F0), a decrease in maximal fluorescence (Fm), and the maximum photochemical quantum yield of photosystem II (Fv/Fm) in all cultivars. According to the obtained results, among the three studied cultivars, ‘Perllete’ with the highest increase in proline content and the activity of antioxidant enzymes and also, having the lowest accumulation of malondialdehyde, hydrogen peroxide, electrolyte leakage, and F0 as well as less decrease in Fm and Fv/Fm had the higher tolerance to the cold stress than ‘Ghiziluzum’ and ‘Khalili’ cultivars. VvCBF4 and VvNAC1 genes expression was increased in all three cultivars at +1 °C at 8 hours and then decreased. The increase in VvCBF4 and VvNAC1 genes expression in ‘Perllete’ cultivar was higher than the other two cultivars. Conclusion: ‘Perllete’ and ‘Ghiziluzum’ showed the highest tolerance to low temperature stress, respectively. ‘Khalili’ was sensitive to low temperature stress.
Why Do Animals Swirl and How Do They Group?
Authors: Nuzhin Egor E. , Panov Maxim E. , Brilliantov Nikolai V. 
Published: April 2021

Abstract
We report a possible solution for the long-standing problem of the biological function of swirling motion, when a group of animals orbits a common center of the group. We exploit the hypothesis that learning processes in the nervous system of animals may be modelled by reinforcement learning (RL) and apply it to explain the phenomenon. In contrast to hardly justified models of physical interactions between animals, we propose a small set of rules to be learned by the agents, which results in swirling. The rules are extremely simple and thus applicable to animals with very limited level of information processing. We demonstrate that swirling may be understood in terms of the escort behavior, when an individual animal tries to reside within a certain distance from the swarm center. Moreover, we reveal the biological function of swirling motion: a trained for swirling swarm is by orders of magnitude more resistant to external perturbations, than an untrained one. Using our approach we analyze another class of a coordinated motion of animals – a group locomotion in viscous fluid. On a model example we demonstrate that RL provides an optimal disposition of coherently moving animals with a minimal dissipation of energy.
HIFU for the treatment of gastric cancer with liver metastases with unsuitable indications for hepatectomy and radiofrequency ablation: a prospective and propensity score-matched study Running title: HIFU treatment for gastric cancer with liver metastases
Authors: Gu Lihu , He Ning , Hong Jiaze , Yang Tong , Ng Derry , Gao Xudong , Yan Kun , Fan Xiaoxiang , Zheng Zhi , Chen Ping , Zheng Jianjun , Zheng Qi 
Published: April 2021

Abstract
Background: The purpose of this study was to explore the efficacy and safety of high intensity focused ultrasound (HIFU) in gastric cancer with liver metastasis (GCLM) patients who were contraindicated for either hepatectomy or radiofrequency ablation (RFA).Methods: This is a prospective, observational study on GCLM patients with 1-3 liver metastases. The primary gastric lesions were thoroughly resected and any case that exhibited extra-hepatic metastasis was excluded. A 1:2:2 propensity score-matching analysis was performed using a logistic regression model on the HIFU group, best supportive care (BSC) group, and palliative chemotherapy (PC) group. The primary endpoints include progression-free survival (PFS) and overall survival (OS). Results: Forty patients were finally included, there were 8 cases in HIFU group, 16 cases in BSC group, and 16 cases in PC group. The median follow-up time for the entire cohort was 10 months. The median PFS was 16.5 months in HIFU group, 2 months in BSC group, and 5 months in PC group. The median OS was 27.5 months in the HIFU group, 7 months in the BSC group, and 11.5 months in the PC group. Additionally, no grade 3 or higher adverse events occurred in the HIFU group.Conclusion: The results of this study showed that HIFU treatment could improve the long-term prognosis of GCLM patients without a significant increase in the occurrence of adverse events. Compared with PC and BSC, HIFU is the preferred treatment option when GCLM patients without extra-hepatic metastasis are unable to undergo either surgery or RFA.
gene.iobio: an interactive web tool for versatile, clinically-driven variant interrogation and prioritization
Authors: DiSera Tonya , Velinder Matt , Ward Alistair , Qiao Yi , Georges Stephanie , Miller Chase , Pitman Anders , Richards Will , Ekawade Aditya , Viskochil David , Carey John C , Pace Laura , Bale Jim , Clardy Stacey L , Andrews Ashley , Botto Lorenzo , Marth Gabor 
Published: April 2021

Abstract
With increasing utilization of comprehensive genomic data to guide clinical care, anticipated to become the standard of care in many clinical settings, the practice of diagnostic medicine is undergoing a notable shift. However, the move from single-gene or panel-based genetic testing to exome and genome sequencing has not been matched by the development of tools to enable diagnosticians to interpret increasingly complex or uncertain genomic findings. Here, we present gene.iobio, a real-time, intuitive and interactive web application for clinically-driven variant interrogation and prioritization. We show gene.iobio is a novel and effective approach that significantly improves upon and reimagines existing methods. In a radical departure from existing methods that present variants and genomic data in text and table formats, gene.iobio provides an interactive, intuitive and visually-driven analysis environment. We demonstrate that adoption of gene.iobio in clinical and research settings empowers clinical care providers to interact directly with patient genomic data both for establishing clinical diagnoses and informing patient care, using sophisticated genomic analyses that previously were only accessible via complex command line tools.
Therapeutic Potential of Adipose-Derived Mesenchymal Stem Cells (Admscs) and/or Taurine in Aluminum Chloride-Induced Alzheimer's Disease Rat Model
Authors: Hosney Mohamed , Sakraan Alaa , Asaad Aman , El-Deftar Mervat , Elzayat Emad 
Published: April 2021

Abstract
Alzheimer's disease (AD) is the most prevalent type of dementia characterized by its progression, neurobehavioral and neuro-pathological characteristics, leading to a diverse neuronal loss. Adipose-derived mesenchymal stem cells (ADMSCs) have previously proved potential role in preventing the pathogenesis of several neurodegenerative disorders, so regarded as a promising new approach for AD regenerative therapy. Taurine was found to enhance stem cell activation and propagation yielding a higher concentration of neural progenitors and stem cells, and aid to lessen the number of activated microglia leading to down-regulated inflammation in vitro. The present study aimed to investigate the possible therapeutic potential of ADMSCs and/or taurine in treating AD rat model. It was planned to include three successive phases; induction, withdrawal, and therapeutic phases. Fifty male Wistar rats were divided into 2 main groups: control (C) group and AD model group. Behavioral changes, as manifested by the T-Maze experiment, had been recorded. β-amyloid levels had been measured in brain homogenate and serum by ELISA. Oxidative stress marker (MDA), and anti-oxidant enzymes activity (SOD, GSH, and CAT) in brain, as well as serum acetylcholine esterase activity were spectrophotometrically determined. Pro-apoptotic (p53 and Bax) and anti-apoptotic (Bcl2) gene expression in brain were evaluated using RT-qPCR. The histopathological alterations in brain tissues were also observed. The present study proved the potential therapeutic ability of ADMSCs and/or taurine in alleviating the adverse pathological changes induced by AlCl3 in AD rat model at both physiological and molecular levels.
Stability of "Support-Surrounding Rock" System for Fully Mechanized Longwall Mining in Steeply Dipping Coal Seams
Authors: Shenghu Luo , wang tong , Yongping Wu , Jingyu Huangfu , Huatao Zhao 
Published: April 2021

Abstract
The key to the safe and efficient longwall mining of steeply dipping seams lies in the stability control of the "support-surrounding rock" system. This paper analyzes the difficulty of controlling the stability of the support during the longwall mining process of steeply dipping coal seams in terms of the characteristics of the non-uniform filled-in gob using a combination of physical test, theoretical analysis and field measurements. Considering the floor as an elastic foundation, we built a "support-surrounding rock" mechanical model based on data obtained on "support-surrounding rock" systems in different regions and the laws of support motion under different load conditions. Our findings are summarized as follows. First, depending on the angle of the coal seam, the caving gangue will roll (slide) downward along the incline, resulting in the formation of a non-uniform filling zone in the deep gob in which the lower, middle, and upper sections are filled, half-filled, and empty, respectively. In addition, an inverted triangular hollow surface is formed on the floor of the gob in the middle and upper sections behind the support. Furthermore, as the angle of the coal seam, length of the working face, and mining height increase, the characteristics of the non-uniform filled-in gob are enhanced. Second, we found that, as a result of support by the gangue, the "support-surrounding rock" system is relatively stable in the lower part of the working face while, in the middle and upper sections of the working face, the contact method and loading characteristics of the support are more complicated, making stability control difficult. Third, the magnitude and direction of the load, action point, and mining height all affect the stability of the support to varying degrees, with the tangential load and action position of the roof load having the most significant impacts on the stability of the support. Under loading by the roof, rotation and subsidence of the support inevitably occur, with gradually increasing amplitude and effects on the inter-support and sliding forces. Finally, we found that it is advisable in the process of moving the support to adopt "sliding advance of support" measures and to apply a "down-up" removal order to ensure overall stability. These research results provide reference and guidance of significance to field practice production.