bluuebunny/crossref_metadata_2025_split huggingface dataset:
Experimental vulnerability analysis of QKD based on attack ratings
Authors: Kumar Rupesh , Mazzoncini Francesco , Qin Hao , Alléaume Romain 
Published: May 2021

AbstractInspired by the methodology used for classical cryptographic hardware, we consider the use of attack ratings in the context of QKD security evaluation. To illustrate the relevance of this approach, we conduct an experimental vulnerability assessment of CV-QKD against saturation attacks, for two different attack strategies. The first strategy relies on inducing detector saturation by performing a large coherent displacement. This strategy is experimentally challenging and therefore translates into a high attack rating. We also propose and experimentally demonstrate a second attack strategy that simply consists in saturating the detector with an external laser. The low rating we obtain indicates that this attack constitutes a primary threat for practical CV-QKD systems. These results highlight the benefits of combining theoretical security considerations with vulnerability analysis based on attack ratings, in order to guide the design and engineering of practical QKD systems towards the highest possible security standards.
Characteristics of chronic obstructive pulmonary disease patients with robust progression of emphysematous change
Authors: Tsutsumi Akihiro , Chubachi Shotaro , Irie Hidehiro , Sasaki Mamoru , Yamada Yoshitake , Sugiura Hiroaki , Jinzaki Masahiro , Nakamura Hidetoshi , Asano Koichiro , Betsuyaku Tomoko , Fukunaga Koichi 
Published: May 2021

AbstractEmphysema is a major pathological change in chronic obstructive pulmonary disease (COPD). However, the annual changes in the progression of emphysematous have not been investigated. We aimed to determine possible baseline predicting factors of the change in emphysematous progression in a subgroup of COPD patients who demonstrated rapid progression. In this observational study, we analyzed patients with COPD who were followed up by computed tomography (CT) at least two times over a 3-year period (n = 217). We divided the annual change in the low attenuation area percentage (LAA%) into quartiles and defined a rapid progression group (n = 54) and a non-progression group (n = 163). Predictors of future changes in emphysematous progression differed from predictors of high LAA% at baseline. On multivariate logistic regression analysis, low blood eosinophilic count (odds ratio [OR], 3.22; P = 0.04) and having osteoporosis (OR, 2.13; P = 0.03) were related to rapid changes in emphysematous progression. There was no difference in baseline nutritional parameters, but nutritional parameters deteriorated in parallel with changes in emphysematous progression. Herein, we clarified the predictors of changes in emphysematous progression and concomitant deterioration of nutritional status in COPD patients.
Prognostic histologic subtyping of dominant tumor in resected synchronous multiple adenocarcinomas of lung
Authors: Tsai Ping-Chung , Liu Chia , Yeh Yi-Chen , Chen Chun-Ku , Hsu Po-Kuei , Chen Hui-Shan , Huang Chien-Sheng , Hsieh Chih-Cheng , Hsu Han-Shui , Huang Biing-Shiun 
Published: May 2021

AbstractThe prognostic role of histological patterns of dominant tumor (DT) and second dominant tumor (sDT) in synchronous multiple adenocarcinoma (SMADC) of lung remains unclear. SMADC patients diagnosed between 2003 and 2015 were retrospectively reviewed. DT and sDT were defined as two maximum diameters of consolidation among multiple tumors. Histological pattern was determined using IASLC/ATS/ERS classification system. DTs were divided into low- (lepidic), intermediate- (acinar, papillary) and high-grade (micropapillary, solid) subtypes, and sDTs into non-invasive predominant (lepidic) and invasive predominant (acinar, papillary, micropapillary, solid) subtypes. During mean 74-month follow-up among 149 nodal-negative patients having SMADC resected, recurrence was noted in 44 (29.5%), with significantly higher percentage in high-grade DT (p < 0.001). Five-year overall (OS) and disease-free (DFS) survivals in low-, intermediate- and high-grade DT were 96.9%, 94.3%, 63.3% (p < 0.001) and 100%, 87.2%, 30.0%, respectively (p < 0.001). Cox-regression multivariate analysis demonstrated high-grade DT as a significant predictor for DFS (Hazard ratio [HR] 5.324; 95% CI 2.570–11.462, p < 0.001) and OS (HR 3.287; 95% CI 1.323–8.168, p = 0.010). Analyzing DT and sDT together, we found no significant differences in DFS, either in intermediate- or high-grade DT plus invasive or non-invasive sDT. DT was histologically an independent risk factor of DFS and OS in completely resected nodal-negative SMADCs.
Network pharmacology approach to decipher signaling pathways associated with target proteins of NSAIDs against COVID-19
Authors: Oh Ki Kwang , Adnan Md. , Cho Dong Ha 
Published: May 2021

AbstractNon-steroidal anti-inflammatory drugs (NSAIDs) showed promising clinical efficacy toward COVID-19 (Coronavirus disease 2019) patients as potent painkillers and anti-inflammatory agents. However, the prospective anti-COVID-19 mechanisms of NSAIDs are not evidently exposed. Therefore, we intended to decipher the most influential NSAIDs candidate(s) and its novel mechanism(s) against COVID-19 by network pharmacology. FDA (U.S. Food & Drug Administration) approved NSAIDs (19 active drugs and one prodrug) were used for this study. Target proteins related to selected NSAIDs and COVID-19 related target proteins were identified by the Similarity Ensemble Approach, Swiss Target Prediction, and PubChem databases, respectively. Venn diagram identified overlapping target proteins between NSAIDs and COVID-19 related target proteins. The interactive networking between NSAIDs and overlapping target proteins was analyzed by STRING. RStudio plotted the bubble chart of the KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway enrichment analysis of overlapping target proteins. Finally, the binding affinity of NSAIDs against target proteins was determined through molecular docking test (MDT). Geneset enrichment analysis exhibited 26 signaling pathways against COVID-19. Inhibition of proinflammatory stimuli of tissues and/or cells by inactivating the RAS signaling pathway was identified as the key anti-COVID-19 mechanism of NSAIDs. Besides, MAPK8, MAPK10, and BAD target proteins were explored as the associated target proteins of the RAS. Among twenty NSAIDs, 6MNA, Rofecoxib, and Indomethacin revealed promising binding affinity with the highest docking score against three identified target proteins, respectively. Overall, our proposed three NSAIDs (6MNA, Rofecoxib, and Indomethacin) might block the RAS by inactivating its associated target proteins, thus may alleviate excessive inflammation induced by SARS-CoV-2.
Determinants of loss to care and risk of clinical progression in PLWH who are re-engaged in care after a temporary loss
Authors: Mussini Cristina , Lorenzini Patrizia , Cozzi-Lepri Alessandro , Mammone Alessia , Guaraldi Giovanni , Marchetti Giulia , Lichtner Miriam , Lapadula Giuseppe , Lo Caputo Sergio , Antinori Andrea , d’Arminio Monforte Antonella , Girardi Enrico 
Published: May 2021

AbstractThe risk of developing AIDS is elevated not only among those with a late HIV diagnosis but also among those lost to care (LTC). The aims were to address the risk of becoming LTC and of clinical progression in LTC patients who re-enter care. Patients were defined as LTC if they had no visit for ≥ 18 months. Of these, persons with subsequent visits were defined as re-engaged in care (RIC). Factors associated with becoming LTC and RIC were investigated. The risk of disease progression was estimated by comparing RIC with patients continuously followed. Over 11,285 individuals included, 3962 became LTC, and of these, 1062 were RIC. Older age, presentation with AIDS and with higher HIV-RNA were associated with a reduced risk of LTC. In contrast, lower education level, irregular job, being an immigrant and injecting-drug user were associated with an increased LTC probability. Moreover, RIC with HIV-RNA > 200 copies/mL at the re-entry had a higher risk of clinical progression, while those with HIV-RNA ≤ 200 copies/mL had a higher risk of only non-AIDS progression. Patients re-entering care after being LTC appeared to be at higher risk of clinical progression than those continuously in care. Active strategies for re-engagement in care should be promoted.
Realization and training of an inverter-based printed neuromorphic computing system
Authors: Weller Dennis D. , Hefenbrock Michael , Beigl Michael , Aghassi-Hagmann Jasmin , Tahoori Mehdi B. 
Published: May 2021

AbstractEmerging applications in soft robotics, wearables, smart consumer products or IoT-devices benefit from soft materials, flexible substrates in conjunction with electronic functionality. Due to high production costs and conformity restrictions, rigid silicon technologies do not meet application requirements in these new domains. However, whenever signal processing becomes too comprehensive, silicon technology must be used for the high-performance computing unit. At the same time, designing everything in flexible or printed electronics using conventional digital logic is not feasible yet due to the limitations of printed technologies in terms of performance, power and integration density. We propose to rather use the strengths of neuromorphic computing architectures consisting in their homogeneous topologies, few building blocks and analog signal processing to be mapped to an inkjet-printed hardware architecture. It has remained a challenge to demonstrate non-linear elements besides weighted aggregation. We demonstrate in this work printed hardware building blocks such as inverter-based comprehensive weight representation and resistive crossbars as well as printed transistor-based activation functions. In addition, we present a learning algorithm developed to train the proposed printed NCS architecture based on specific requirements and constraints of the technology.
Deep hierarchical embedding for simultaneous modeling of GPCR proteins in a unified metric space
Authors: Lee Taeheon , Lee Sangseon , Kang Minji , Kim Sun 
Published: May 2021

AbstractGPCR proteins belong to diverse families of proteins that are defined at multiple hierarchical levels. Inspecting relationships between GPCR proteins on the hierarchical structure is important, since characteristics of the protein can be inferred from proteins in similar hierarchical information. However, modeling of GPCR families has been performed separately for each of the family, subfamily, and sub-subfamily level. Relationships between GPCR proteins are ignored in these approaches as they process the information in the proteins with several disconnected models. In this study, we propose DeepHier, a deep learning model to simultaneously learn representations of GPCR family hierarchy from the protein sequences with a unified single model. Novel loss term based on metric learning is introduced to incorporate hierarchical relations between proteins. We tested our approach using a public GPCR sequence dataset. Metric distances in the deep feature space corresponded to the hierarchical family relation between GPCR proteins. Furthermore, we demonstrated that further downstream tasks, like phylogenetic reconstruction and motif discovery, are feasible in the constructed embedding space. These results show that hierarchical relations between sequences were successfully captured in both of technical and biological aspects.
Cross-sectional analysis of the Parkinson’s disease Non-motor International Longitudinal Study baseline non-motor characteristics, geographical distribution and impact on quality of life
Authors: van Wamelen Daniel J. , Sauerbier Anna , Leta Valentina , Rodriguez-Blazquez Carmen , Falup-Pecurariu Cristian , Rodriguez‐Violante Mayela , Rizos Alexandra , Tsuboi Y. , Metta Vinod , Bhidayasiri Roongroj , Bhattacharya Kalyan , Borgohain Rupam , Prashanth L. K. , Rosales Raymond , Lewis Simon , Fung Victor , Behari Madhuri , Goyal Vinay , Kishore Asha , Lloret Santiago Perez , Martinez-Martin Pablo , Chaudhuri K. Ray 
Published: May 2021

AbstractGrowing evidence suggests that non-motor symptoms (NMS) in Parkinson’s disease (PD) have differential progression patterns that have a different natural history from motor progression and may be geographically influenced. We conducted a cross-sectional analysis of 1607 PD patients of whom 1327 were from Europe, 208 from the Americas, and 72 from Asia. The primary objective was to assess baseline non-motor burden, defined by Non-Motor Symptoms Scale (NMSS) total scores. Other aims included identifying the factors predicting quality of life, differences in non-motor burden between drug-naïve and non-drug-naïve treated patients, and non-motor phenotypes across different geographical locations. Mean age was 65.9 ± 10.8 years, mean disease duration 6.3 ± 5.6 years, median Hoehn and Yahr stage was 2 (2–3), and 64.2% were male. In this cohort, mean NMSS scores were 46.7 ± 37.2. Differences in non-motor burden and patterns differed significantly between drug-naïve participants, those with a disease duration of less than five years, and those with a duration of five years or over (p ≤ 0.018). Significant differences were observed in geographical distribution (NMSS Europe: 46.4 ± 36.3; Americas: 55.3 ± 42.8; Asia: 26.6 ± 25.1; p < 0.001), with differences in sleep/fatigue, urinary, sexual, and miscellaneous domains (p ≤ 0.020). The best predictor of quality of life was the mood/apathy domain (β = 0.308, p < 0.001). This global study reveals that while non-motor symptoms are globally present with severe NMS burden impacting quality of life in PD, there appear to be differences depending on disease duration and geographical distribution.
Acitretin mitigates uroporphyrin-induced bone defects in congenital erythropoietic porphyria models
Authors: Bragazzi Cunha Juliana , Elenbaas Jared S. , Maitra Dhiman , Kuo Ning , Azuero-Dajud Rodrigo , Ferguson Allison C. , Griffin Megan S. , Lentz Stephen I. , Shavit Jordan A. , Omary M. Bishr 
Published: May 2021

AbstractCongenital erythropoietic porphyria (CEP) is a rare genetic disorder leading to accumulation of uro/coproporphyrin-I in tissues due to inhibition of uroporphyrinogen-III synthase. Clinical manifestations of CEP include bone fragility, severe photosensitivity and photomutilation. Currently there is no specific treatment for CEP, except bone marrow transplantation, and there is an unmet need for treating this orphan disease. Fluorescent porphyrins cause protein aggregation, which led us to hypothesize that uroporphyrin-I accumulation leads to protein aggregation and CEP-related bone phenotype. We developed a zebrafish model that phenocopies features of CEP. As in human patients, uroporphyrin-I accumulated in the bones of zebrafish, leading to impaired bone development. Furthermore, in an osteoblast-like cell line, uroporphyrin-I decreased mineralization, aggregated bone matrix proteins, activated endoplasmic reticulum stress and disrupted autophagy. Using high-throughput drug screening, we identified acitretin, a second-generation retinoid, and showed that it reduced uroporphyrin-I accumulation and its deleterious effects on bones. Our findings provide a new CEP experimental model and a potential repurposed therapeutic.
A new method for facilitating ultrasound-guided in-plane cannulation of the subclavian vein: a randomized clinical trial
Authors: Mao Qingxiang , He Haitao , Lu Yuangang , Hu Yi , Wang Zhen , Gan Maoxiang , Chen Liyong , Yan Hong 
Published: May 2021

AbstractThe objective of this study was to propose a new method for facilitating needle-beam alignment ultrasound-guided in-plane catheterization of the subclavian vein (SCV). Three hundred patients were recruited, and ultrasound examination of the SCV was performed. Then, the patients were divided into two groups and SCV catheterization was performed: ultrasound-guided catheterization with the aiming method (group A) and ultrasound-guided catheterization with needle guide (group NG). The success rate, insertion time, number of skin breaks, number of needle redirections, needle visibility and rate of mechanical complications were documented and compared for each procedure. To depict the optimum long-axis view of the SCV, there was a 30° ± 7.3° angle (rotation) between the long axis of the ultrasound probe and the clavicle, while there was a 39° ± 7.4° angle (tilt) between the ultrasound beam plane and the right chest wall. The aiming method was associated with fewer skin breaks [(mean (IQR): 1 (1–1) times vs 1 (1–2) times, P = 0.009], a shorter time to cannulation [(mean (IQR): 39 (32–48.5) s vs 48 (44–54.8) s, P = 0.000] and more needle redirections [(mean (IQR): 0 (0–1) vs 0 (0–0), P = 0.000]. There were no differences between group A and group NG in the overall success rate, first puncture success rate, needle visibility or mechanical complication rate. In conclusion, during ultrasound-guided in-plane catheterization of the SCV, the aiming method provides comparable needle-beam alignment with a lower cannulation time than the needle guide technique.
Environmental conditions, diel period, and fish size influence the horizontal and vertical movements of red snapper
Authors: Bacheler Nathan M. , Shertzer Kyle W. , Runde Brendan J. , Rudershausen Paul J. , Buckel Jeffrey A. 
Published: May 2021

AbstractMost demersal fishes are difficult to observe and track due to methodological and analytical constraints. We used an acoustic positioning system to elucidate the horizontal and vertical movements of 44 red snapper (Lutjanus campechanus) off North Carolina, USA, in 2019. Mean movement rate and distance off bottom varied by individual, with larger red snapper generally moving faster and spending more time farther off the bottom than smaller individuals. We used generalized additive mixed models that accounted for temporal autocorrelation in the data to show that mean hourly red snapper movement rate was lower during the day than at night and was negatively related to bottom water temperature. Moreover, red snapper spent more time off the bottom during the day than at night, and vertical movements were mostly related to bottom upwelling events that sporadically occurred in May–July. Our results and previous observations suggest that red snapper feed primarily on benthic organisms at night, and display diel vertical migration (i.e., thermotaxis) up to warmer waters (when present) during the day to aid digestive efficiency. Movement is a central organizing feature in ecology, and the sustainable management of fish will benefit from a better understanding of the timing and causes of fish movement.
A hierarchical clustering method of hydrogen bond networks in liquid water undergoing shear flow
Authors: Gao Yitian , Fang Hongwei , Ni Ke 
Published: May 2021

AbstractMany properties of water, such as turbulent flow, are closely related to water clusters, whereas how water clusters form and transform in bulk water remains unclear. A hierarchical clustering method is introduced to search out water clusters in hydrogen bonded network based on modified Louvain algorithm of graph community. Hydrogen bonds, rings and fragments are considered as 1st-, 2nd-, and 3rd-level structures, respectively. The distribution, dynamics and structural characteristics of 4th- and 5th-level clusters undergoing non-shear- and shear-driven flow are also analyzed at various temperatures. At low temperatures, nearly 50% of water molecules are included in clusters. Over 60% of clusters remain unchanged between neighboring configurations. Obvious collective translational motion of clusters is observed. The topological difference for clusters is elucidated between the inner layer, which favors 6-membered rings, and the external surface layer, which contains more 5-membered rings. Temperature and shearing can not only accelerate the transformation or destruction of clusters at all levels but also change cluster structures. The assembly of large clusters can be used to discretize continuous liquid water to elucidate the properties of liquid water.
On Gaussian curvature and membrane fission
Authors: Rueda-Contreras Mara Denisse , Gallen Andreu F. , Romero-Arias J. Roberto , Hernandez-Machado Aurora , Barrio Rafael A. 
Published: May 2021

AbstractWe propose a three-dimensional mathematical model to describe dynamical processes of membrane fission. The model is based on a phase field equation that includes the Gaussian curvature contribution to the bending energy. With the addition of the Gaussian curvature energy term numerical simulations agree with the predictions that tubular shapes can break down into multiple vesicles. A dispersion relation obtained with linear analysis predicts the wavelength of the instability and the number of formed vesicles. Finally, a membrane shape diagram is obtained for the different Gaussian and bending modulus, showing different shape regimes.
Nicotine suppresses Parkinson’s disease like phenotypes induced by Synphilin-1 overexpression in Drosophila melanogaster by increasing tyrosine hydroxylase and dopamine levels
Authors: Carvajal-Oliveros Angel , Domínguez-Baleón Carmen , Zárate Rafaella V. , Campusano Jorge M. , Narváez-Padilla Verónica , Reynaud Enrique 
Published: May 2021

AbstractIt has been observed that there is a lower Parkinson’s disease (PD) incidence in tobacco users. Nicotine is a cholinergic agonist and is the principal psychoactive compound in tobacco linked to cigarette addiction. Different studies have shown that nicotine has beneficial effects on sporadic and genetic models of PD. In this work we evaluate nicotine’s protective effect in a Drosophila melanogaster model for PD where Synphilin-1 (Sph-1) is expressed in dopaminergic neurons. Nicotine has a moderate effect on dopaminergic neuron survival that becomes more evident as flies age. Nicotine is beneficial on fly survival and motility increasing tyrosine hydroxylase and dopamine levels, suggesting that cholinergic agonists may promote survival and metabolic function of the dopaminergic neurons that express Sph-1. The Sph-1 expressing fly is a good model for the study of early-onset phenotypes such as olfaction loss one of the main non-motor symptom related to PD. Our data suggest that nicotine is an interesting therapeutic molecule whose properties should be explored in future research on the phenotypic modulators of the disease and for the development of new treatments.