bluuebunny/crossref_metadata_2025_split huggingface dataset:
Biomechanical and structural responses of the aorta to intermittent hypobaric hypoxia in a rat model
Authors: Utrera Andrés , Navarrete Álvaro , González-Candia Alejandro , García-Herrera Claudio , Herrera Emilio A. 
Published: March 2022

AbstractHigh altitude hypoxia is a condition experienced by diverse populations worldwide. In addition, several jobs require working shifts where workers are exposed to repetitive cycles of hypobaric hypoxia and normobaric normoxia. Currently, few is known about the biomechanical cardiovascular responses of this condition. In the present study, we investigate the cycle-dependent biomechanical effects of intermittent hypobaric hypoxia (IHH) on the thoracic aorta artery, in terms of both structure and function. To determine the vascular effects of IHH, functional, mechanical and histological approaches were carried out in the thoracic aorta artery, using uniaxial, pre-stretch, ring opening, myography, and histological tests. Three groups of rats were established: control (normobaric normoxia, NN), 4-cycles of intermittent hypoxia (short-term intermittent hypobaric hypoxia, STH), and 10-cycles of intermittent hypoxia (long-term intermittent hypobaric hypoxia, LTH). The pre-stretch and ring opening tests, aimed at quantifying residual strains of the tissues in longitudinal and circumferential directions, showed that the hypoxia condition leads to an increase in the longitudinal stretch and a marked decrease of the circumferential residual strain. The uniaxial mechanical tests were used to determine the elastic properties of the tissues, showing that a general stiffening process occurs during the early stages of the IH (STH group), specially leading to a significative increase in the high strain elastic modulus ($$E_{2}$$

E
2

) and an increasing trend of low strain elastic modulus ($$E_{1}$$

E
1

). In contrast, the LTH group showed a more control-like mechanical behavior. Myography test, used to assess the vasoactive function, revealed that IH induces a high sensitivity to vasoconstrictor agents as a function of hypoxic cycles. In addition, the aorta showed an increased muscle-dependent vasorelaxation on the LTH group. Histological tests, used to quantify the elastic fiber, nuclei, and geometrical properties, showed that the STH group presents a state of vascular fibrosis, with a significant increase in elastin content, and a tendency towards an increase in collagen fibers. In addition, advanced stages of IH (LTH), showed a vascular remodeling effect with a significant increase of internal and external diameters. Considering all the multidimensional vascular effects, we propose the existence of a long-term passive adaptation mechanism and vascular dysfunction as cycle-dependent effects of intermittent exposures to hypobaric hypoxia.
Computing microRNA-gene interaction networks in pan-cancer using miRDriver
Authors: Bose Banabithi , Moravec Matthew , Bozdag Serdar 
Published: March 2022

AbstractDNA copy number aberrated regions in cancer are known to harbor cancer driver genes and the short non-coding RNA molecules, i.e., microRNAs. In this study, we integrated the multi-omics datasets such as copy number aberration, DNA methylation, gene and microRNA expression to identify the signature microRNA-gene associations from frequently aberrated DNA regions across pan-cancer utilizing a LASSO-based regression approach. We studied 7294 patient samples associated with eighteen different cancer types from The Cancer Genome Atlas (TCGA) database and identified several cancer-specific and common microRNA-gene interactions enriched in experimentally validated microRNA-target interactions. We highlighted several oncogenic and tumor suppressor microRNAs that were cancer-specific and common in several cancer types. Our method substantially outperformed the five state-of-art methods in selecting significantly known microRNA-gene interactions in multiple cancer types. Several microRNAs and genes were found to be associated with tumor survival and progression. Selected target genes were found to be significantly enriched in cancer-related pathways, cancer hallmark and Gene Ontology (GO) terms. Furthermore, subtype-specific potential gene signatures were discovered in multiple cancer types.
Transiently expressed CRISPR/Cas9 induces wild-type dystrophin in vitro in DMD patient myoblasts carrying duplications
Authors: Pini Veronica , Mariot Virginie , Dumonceaux Julie , Counsell John , O’Neill Helen C. , Farmer Sarah , Conti Francesco , Muntoni Francesco 
Published: March 2022

AbstractAmong the mutations arising in the DMD gene and causing Duchenne Muscular Dystrophy (DMD), 10–15% are multi-exon duplications. There are no current therapeutic approaches with the ability to excise large multi-exon duplications, leaving this patient cohort without mutation-specific treatment. Using CRISPR/Cas9 could provide a valid alternative to achieve targeted excision of genomic duplications of any size. Here we show that the expression of a single CRISPR/Cas9 nuclease targeting a genomic region within a DMD duplication can restore the production of wild-type dystrophin in vitro. We assessed the extent of dystrophin repair following both constitutive and transient nuclease expression by either transducing DMD patient-derived myoblasts with integrating lentiviral vectors or electroporating them with CRISPR/Cas9 expressing plasmids. Comparing genomic, transcript and protein data, we observed that both continuous and transient nuclease expression resulted in approximately 50% dystrophin protein restoration in treated myoblasts. Our data demonstrate that a high transient expression profile of Cas9 circumvents its requirement of continuous expression within the cell for targeting DMD duplications. This proof-of-concept study therefore helps progress towards a clinically relevant gene editing strategy for in vivo dystrophin restoration, by highlighting important considerations for optimizing future therapeutic approaches.
Seasonal and temporal patterns of rainfall shape arthropod community composition and multi-trophic interactions in an arid environment
Authors: Fischer Christina , Gerstmeier Roland , Wagner Thomas C. 
Published: March 2022

AbstractIn arid and semi-arid ecosystems, rainfall and rainfall temporal distribution shape species communities and multi-trophic interactions. Whereas the relationship between climate change-induced decline of precipitation and plants is well know, there is little knowledge of these relationships with consumers, such as arthropods of different trophic levels. In a 6-year period we studied precipitation effects and microhabitat conditions on multi-trophic interactions of ground-dwelling arthropods in an arid savannah. We analysed the effects of seasonal rainfall, plant cover and soil texture on community composition and activity density of arthropods of different trophic levels and investigated the critical window of vegetation and occurrence arthropods in relation to rainfall. Our result show, that arthropod community composition was determined by seasonal rainfall and plant cover. Soil texture did not explain arthropod response sufficiently. Especially detritivorous arthropods were strongly affected by precipitation and can therefore serve as indicators of droughts. Further, multi-trophic interactions can better be explained by short-term rainfall pulses, rather than by seasonal patterns, with a window of seven days being most suitable to explain the influence of rainfall. Plant cover responded immediately after the rainfall, followed by herbivorous and predatory arthropods, and with a lag of 23 days omnivorous arthropods. This highlights the importance of short-term rain pulses for multi-trophic interactions among arthropods and emphasized the relevance of studying detailed precipitation effects for the arthropod diversity and ecosystem stability in arid ecosystems.
Multiple asters organize the yolk microtubule network during dclk2-GFP zebrafish epiboly
Authors: Marsal Maria , Bernardello Matteo , Gualda Emilio J. , Loza-Alvarez Pablo 
Published: March 2022

AbstractIt is known that the organization of microtubule (MT) networks in cells is orchestrated by subcellular structures named MT organizing centers (MTOCs). In this work, we use Light Sheet Fluorescence and Confocal Microscopy to investigate how the MT network surrounding the spherical yolk is arranged in the dclk2-GFP zebrafish transgenic line. We found that during epiboly the MT network is organized by multiple aster-like MTOCS. These structures form rings around the yolk sphere. Importantly, in wt embryos, aster-like MTOCs are only found upon pharmacological or genetic induction. Using our microscopy approach, we underscore the variability in the number of such asters in the transgenic line and report on the variety of global configurations of the yolk MT network. The asters’ morphology, dynamics, and their distribution in the yolk sphere are also analyzed. We propose that these features are tightly linked to epiboly timing and geometry. Key molecules are identified which support this asters role as MTOCs, where MT nucleation and growth take place. We conclude that the yolk MT network of dclk2-GFP transgenic embryos can be used as a model to organize microtubules in a spherical geometry by means of multiple MTOCs.
Prediction of treatment outcome in clinical trials under a personalized medicine perspective
Authors: Berchialla Paola , Lanera Corrado , Sciannameo Veronica , Gregori Dario , Baldi Ileana 
Published: March 2022

AbstractA central problem in most data-driven personalized medicine scenarios is the estimation of heterogeneous treatment effects to stratify individuals into subpopulations that differ in their susceptibility to a particular disease or response to a specific treatment. In this work, with an illustrative example on type 2 diabetes we showed how the increasing ability to access and analyzed open data from randomized clinical trials (RCTs) allows to build Machine Learning applications in a framework of personalized medicine. An ensemble machine learning predictive model is first developed and then applied to estimate the expected treatment response according to the medication that would be prescribed. Machine learning is quickly becoming indispensable to bridge science and clinical practice, but it is not sufficient on its own. A collaborative effort is requested to clinicians, statisticians, and computer scientists to strengthen tools built on machine learning to take advantage of this evidence flow.
Identification of the potential mechanism of Radix pueraria in colon cancer based on network pharmacology
Authors: Li Yi , Zhang Chunli , Ma Xiaohan , Yang Liuqing , Ren Huijun 
Published: March 2022

AbstractRadix Puerariae(RP), a dry root ofPueraria lobata(Willd.) Ohwi, is used to treat a variety of diseases, including cancer. Several in vitro and in vivo studies have demonstrated the efficacy of RP in the treatment of colon cancer (CC). However, the biological mechanism of RP in the treatment of colon cancer remains unclear. In this study, the active component of RP and its potential molecular mechanism against CC were studied by network pharmacology and enrichment analysis. The methods adopted included screening active ingredients of Chinese medicine, predicting target genes of Chinese medicine and disease, constructing of a protein interaction network, and conducting GO and KEGG enrichment analysis. Finally, the results of network pharmacology were further validated by molecular docking experiments and cell experiments. Eight active constituents and 14 potential protein targets were screened from RP, including EGFR, JAK2 and SRC. The biological mechanism of RP against CC was analysed by studying the relationship between active components, targets, and enrichment pathways. These findings provide a basis for understanding the clinical application of RP in CC.
Change in knee cartilage components in stroke patients with genu recurvatum analysed by zero TE MR imaging
Authors: Li Wenshan , Li Youwei , Gao Qiang , Liu Jingxin , Wen Qiping , Jia Shiqi , Tang Fen , Mo Linhong , Zhang Yuanfang , Zhai Mingchun , Chen Yukun , Guo Yue , Gong Weijun 
Published: March 2022

AbstractGenu recurvatum in stroke patients with hemiplegia causes readily cumulative damage and degenerative changes in the knee cartilage. It is important to detect early cartilage lesions for appropriate treatment and rehabilitation. The purpose of this cross-sectional study was to provide a theoretical basis for the early rehabilitation of hemiplegia patients. We used a zero TE double-echo imaging sequence to analyse the water content in knee joint cartilage at 12 different sites of 39 stroke patients with genu recurvatum and 9 healthy volunteers using a metric similar to the porosity index. When comparing the hemiplegic limb vs. the nonhemiplegic limb in patients, the ratios of the deep/shallow free water content of the femur cartilages at the anterior horn (1.16 vs. 1.06) and posterior horn (1.13 vs. 1.25) of the lateral meniscus were significantly different. Genu recurvatum in stroke patients with hemiplegia can cause changes in the moisture content of knee cartilage, and the changes in knee cartilage are more obvious as the genu recurvatum increases. The "healthy limb" can no longer be considered truly healthy and should be considered simultaneously with the affected limb in the development of a rehabilitation treatment plan.
Efficient prediction of temperature-dependent elastic and mechanical properties of 2D materials
Authors: Kastuar S. M. , Ekuma C. E. , Liu Z. -L. 
Published: March 2022

AbstractAn efficient automated toolkit for predicting the mechanical properties of materials can accelerate new materials design and discovery; this process often involves screening large configurational space in high-throughput calculations. Herein, we present the ElasTool toolkit for these applications. In particular, we use the ElasTool to study diversity of 2D materials and heterostructures including their temperature-dependent mechanical properties, and developed a machine learning algorithm for exploring predicted properties.
An intra-cytoplasmic route for SARS-CoV-2 transmission unveiled by Helium-ion microscopy
Authors: Merolli Antonio , Kasaei Leila , Ramasamy Santhamani , Kolloli Afsal , Kumar Ranjeet , Subbian Selvakumar , Feldman Leonard C. 
Published: March 2022

AbstractSARS-CoV-2 virions enter the host cells by docking their spike glycoproteins to the membrane-bound Angiotensin Converting Enzyme 2. After intracellular assembly, the newly formed virions are released from the infected cells to propagate the infection, using the extra-cytoplasmic ACE2 docking mechanism. However, the molecular events underpinning SARS-CoV-2 transmission between host cells are not fully understood. Here, we report the findings of a scanning Helium-ion microscopy study performed on Vero E6 cells infected with mNeonGreen-expressing SARS-CoV-2. Our data reveal, with unprecedented resolution, the presence of: (1) long tunneling nanotubes that connect two or more host cells over submillimeter distances; (2) large scale multiple cell fusion events (syncytia); and (3) abundant extracellular vesicles of various sizes. Taken together, these ultrastructural features describe a novel intra-cytoplasmic connection among SARS-CoV-2 infected cells that may act as an alternative route of viral transmission, disengaged from the well-known extra-cytoplasmic ACE2 docking mechanism. Such route may explain the elusiveness of SARS-CoV-2 to survive from the immune surveillance of the infected host.
Prevalence, awareness, treatment, and control of hypertension based on ACC/AHA versus JNC7 guidelines in the PERSIAN cohort study
Authors: Sepanlou Sadaf , Najafi Farid , Poustchi Hossein , Parsaeian Mahboubeh , Ahmadi Ali , Somi Mohammadhossein , Moradpour Farhad , Alizadeh-Navaei Reza , Gohari Ali , Zamani Bijan , Esmaeilinadimi Ali , Rezaianzadeh Abbas , Mansour-Ghanaei Fariborz , Bahramali Ehsan , Ansari-Moghaddam Alireza , Hamzeh Behrooz , Zanganeh Yousefabadi Elham , Zare Sakhvidi Mohammad Javad , Mohebbi Iraj , Fattahi Mohammad Reza , Nejatizadeh Azim , Marioryad Hossein , Motamed-Gorji Nazgol , Roozafzai Farzin , Eghtesad Sareh , Mohammadi Zahra , Shayanrad Amaneh , Sharafkhah Maryam , Etemadi Arash , Kamangar Farin , Juraschek Stephen P. , Malekzadeh Reza 
Published: March 2022

AbstractIn this cross-sectional population-based study, we used the baseline data of the Prospective Epidemiologic Research Studies in IrAN cohort study collected in Iran from 2014 to 2020. The main outcomes were the prevalence of hypertension and proportion of awareness, treatment, and control based on the 2017 ACC/AHA guideline compared to the seventh report of the Joint National Committee (JNC7). Of the total of 163,770 participants, aged 35–70 years, 55.2% were female. The sex-age standardized prevalence of hypertension was 22.3% (95% CI 20.6, 24.1) based on the JNC7 guideline and 36.5% (31.1, 41.8) based on the ACC/AHA guideline. A total of 24,312 participants [14.1% (10.1, 18.1)] were newly diagnosed based on the ACC/AHA guideline. Compared to adults diagnosed with hypertension based on the JNC7 guideline, the newly diagnosed participants were mainly young literate males who had low levels of risk factors and were free from conventional comorbidities of hypertension. About 30.7% (25.9, 35.4) of them (4.3% of the entire population) were eligible for pharmacologic intervention based on the ACC/AHA guideline. Implementation of the new guideline may impose additional burden on health systems. However, early detection and management of elevated blood pressure may reduce the ultimate burden of hypertension in Iran.
The effect of age-related macular degeneration on cognitive test performance
Authors: Macnamara Anne , Schinazi Victor R. , Chen Celia , Coussens Scott , Loetscher Tobias 
Published: March 2022

AbstractThe reliable assessment of cognitive functioning is critical to the study of brain-behaviour relationships. Yet conditions that are synchronous which ageing, including visual decline, are easily overlooked when interpreting cognitive test scores. The purpose of this study was to demonstrate the negative consequences of visual impairments on cognitive tests performance. Moderate to severe levels of age-related macular degeneration were simulated, with a set of goggles, in a sample of twenty-four normally sighted participants while they completed two cognitive tasks: a vision-dependent reaction time task and a vision-independent verbal fluency test. Performance on the reaction time task significantly decreased (p < 0.001) in the simulated age-related macular degeneration condition, by as much as 25 percentile ranks. In contrast, performance on the verbal fluency test were not statistically different between the simulated and normal vision conditions (p = 0.78). The findings highlight the importance of considering visual functioning when assessing cognitive function. When vision is not accounted for, low test scores may inaccurately indicate poor cognition. Such false attributions may have significant ramification for diagnosis and research on cognitive functioning.
The connectivity network underlying the German’s Twittersphere: a testbed for investigating information spreading phenomena
Authors: Schroeder Daniel Thilo , Langguth Johannes , Burchard Luk , Pogorelov Konstantin , Lind Pedro G. 
Published: March 2022

AbstractOnline social networks are ubiquitous, have billions of users, and produce large amounts of data. While platforms like Reddit are based on a forum-like organization where users gather around topics, Facebook and Twitter implement a concept in which individuals represent the primary entity of interest. This makes them natural testbeds for exploring individual behavior in large social networks. Underlying these individual-based platforms is a network whose “friend” or “follower” edges are of binary nature only and therefore do not necessarily reflect the level of acquaintance between pairs of users. In this paper,we present the network of acquaintance “strengths” underlying the German Twittersphere. To that end, we make use of the full non-verbal information contained in tweet–retweet actions to uncover the graph of social acquaintances among users, beyond pure binary edges. The social connectivity between pairs of users is weighted by keeping track of the frequency of shared content and the time elapsed between publication and sharing. Moreover, we also present a preliminary topological analysis of the German Twitter network. Finally, making the data describing the weighted German Twitter network of acquaintances, we discuss how to apply this framework as a ground basis for investigating spreading phenomena of particular contents.
The image-based preoperative fistula risk score (preFRS) predicts postoperative pancreatic fistula in patients undergoing pancreatic head resection
Authors: Kolbinger Fiona R. , Lambrecht Julia , Leger Stefan , Ittermann Till , Speidel Stefanie , Weitz Jürgen , Hoffmann Ralf-Thorsten , Distler Marius , Kühn Jens-Peter 
Published: March 2022

AbstractClinically relevant postoperative pancreatic fistula (CR-POPF) is a common severe surgical complication after pancreatic surgery. Current risk stratification systems mostly rely on intraoperatively assessed factors like manually determined gland texture or blood loss. We developed a preoperatively available image-based risk score predicting CR-POPF as a complication of pancreatic head resection. Frequency of CR-POPF and occurrence of salvage completion pancreatectomy during the hospital stay were associated with an intraoperative surgical (sFRS) and image-based preoperative CT-based (rFRS) fistula risk score, both considering pancreatic gland texture, pancreatic duct diameter and pathology, in 195 patients undergoing pancreatic head resection. Based on its association with fistula-related outcome, radiologically estimated pancreatic remnant volume was included in a preoperative (preFRS) score for POPF risk stratification. Intraoperatively assessed pancreatic duct diameter (p < 0.001), gland texture (p < 0.001) and high-risk pathology (p < 0.001) as well as radiographically determined pancreatic duct diameter (p < 0.001), gland texture (p < 0.001), high-risk pathology (p = 0.001), and estimated pancreatic remnant volume (p < 0.001) correlated with the risk of CR-POPF development. PreFRS predicted the risk of CR-POPF development (AUC = 0.83) and correlated with the risk of rescue completion pancreatectomy. In summary, preFRS facilitates preoperative POPF risk stratification in patients undergoing pancreatic head resection, enabling individualized therapeutic approaches and optimized perioperative management.
Wave types and energy conversion of impulse waves generated by landslides into mountain reservoirs
Authors: Han Linfeng , Wang Pingyi , Yu Tao 
Published: March 2022

AbstractSubaerial landslides sliding into shallow water are physically modeled in a three-dimensional wave basin. The generated impulse waves are highly nonlinear, and a large-scale splash zone is formed above the waves. Such impulse wave characteristics are different from those from landslides into deep water that are completely submerged after sliding. The recorded wave profiles included three wave types, namely nonlinear oscillatory wave, nonlinear transition wave and bore-like wave, mainly depending on the relative slide thickness and slide Froude number at impact. Bore-like waves were possible produced only by landslides into shallow water in three-dimensional experiments. The conversion rate of landslide kinetic energy at impact into the wave train energy is 1 to 18%. Energy conversion characteristics are compared with other two- and three-dimensional studies on landslide-generated waves and the results are discussed.