bluuebunny/crossref_metadata_2025_split huggingface dataset:
A feasibility study of a peer discussion group intervention for patients with pancreatobiliary cancer and their caregivers
Authors: Yanai Yuko , Makihara Reiko Ando , Matsunaga Naoko , Shimizu Rieko , Tominaga Sayaka , Hoshino Saki , Nishibuchi Yukiko , Maruki Yuta , Ohba Akihiro , Shimizu Ken , Okusaka Takuji 
Published: October 2021

AbstractObjectivesThe purpose of this feasibility study was to examine the impacts of a peer discussion group intervention called “the pancreatobiliary cancer salon” on psychological distress among patients with pancreatobiliary cancer and their caregivers.MethodsWe recruited patients with pancreatic or biliary tract cancer and their caregivers. We conducted a within-group pre–post comparison study. Participants were grouped by the type of cancer and treatment. Each group consisted of four to five patients or caregivers. Hospital staff members facilitated group discussions where participants freely talked for 1 h. We evaluated participants’ psychological condition using the Profile of Mood States (POMS) and their impressions of the pancreatobiliary cancer salon.ResultsWe analyzed data from 42 patients and 27 caregivers who joined the salon for the first time. Thirty-five patients (83.3%) had pancreatic cancer. Thirty-one patients (71.4%) had unresectable pancreatobiliary cancer and 14 patients (33.3%) were being treated with second-line or third-line chemotherapy at the time of the survey. Twenty-two patients (52.4%) participated in the salon within 6 months after diagnosis. Most participating caregivers were the patient's spouse/partner (51.9%) or child (34.6%). Both patients and caregivers experienced high levels of satisfaction with the pancreatobiliary cancer salon. Both patients and caregivers had significantly lower psychological distress as assessed by POMS after the salon.Significance of resultsA peer discussion group intervention might be well-received and has potential to benefit for patients with pancreatobiliary cancer and their caregivers.
Drivers of Change of Thwaites Glacier, West Antarctica, Between 1995 and 2015
Authors: dos Santos Thiago Dias , Barnes Jowan M. , Goldberg Daniel N. , Gudmundsson G. Hilmar , Morlighem Mathieu 
Published: October 2021

AbstractUsing three independent ice‐flow models and several satellite‐based datasets, we assess the importance of correctly capturing ice‐shelf breakup, shelf thinning, and reduction in basal traction from ungrounding in reproducing observed speed‐up and thinning of Thwaites Glacier between 1995 and 2015. We run several transient numerical simulations applying these three perturbations individually. Our results show that ocean‐induced ice‐shelf thinning generates most of the observed grounding line retreat, inland speed‐up, and mass loss, in agreement with previous work. We improve the agreement with observed inland speed‐up and thinning by prescribing changes in ice‐shelf geometry and a reduction in basal traction over areas that became ungrounded since 1995, suggesting that shelf breakups and thinning‐induced reduction in basal traction play a critical role on Thwaites's dynamics, as pointed out by previous studies. These findings suggest that modeling Thwaites's future requires reliable ocean‐induced melt estimates in models that respond accurately to downstream perturbations.
A novel inactivated whole-cell Pseudomonas aeruginosa vaccine that acts through the cGAS-STING pathway
Authors: Ma Cuicui , Ma Xiao , Jiang Boguang , Pan Hailong , Liao Xueyuan , Zhang Li , Li Wenfang , Luo Yingjie , Shen Zhixue , Cheng Xingjun , Lian Mao , Wang Zhenling 
Published: October 2021

AbstractPseudomonas aeruginosa infection continues to be a major threat to global public health, and new safe and efficacious vaccines are needed for prevention of infections caused by P. aeruginosa. X-ray irradiation has been used to prepare whole-cell inactivated vaccines against P. aeruginosa infection. However, the immunological mechanisms of X-ray-inactivated vaccines are still unclear and require further investigation. Our previous study found that an X-ray-inactivated whole-cell vaccine could provide protection against P. aeruginosa by boosting T cells. The aim of the present study was to further explore the immunological mechanisms of the vaccine. Herein, P. aeruginosa PAO1, a widely used laboratory strain, was utilized to prepare the vaccine, and we found nucleic acids and 8-hydroxyguanosine in the supernatant of X-ray-inactivated PAO1 (XPa). By detecting CD86, CD80, and MHCII expression, we found that XPa fostered dentritic cell (DC) maturation by detecting. XPa stimulated the cGAS-STING pathway as well as Toll-like receptors in DCs in vitro, and DC finally underwent apoptosis and pyroptosis after XPa stimulation. In addition, DC stimulated by XPa induced CD8+ T-cell proliferation in vitro and generated immunologic memory in vivo. Moreover, XPa vaccination induced both Th1 and Th2 cytokine responses in mice and reduced the level of inflammatory factors during infection. XPa protected mice in pneumonia models from infection with PAO1 or multidrug-resistant clinical isolate W9. Chronic obstructive pulmonary disease (COPD) mice immunized with XPa could resist PAO1 infection. Therefore, a new mechanism of an X-ray-inactivated whole-cell vaccine against P. aeruginosa infection was discovered in this study.
Alterations of kynurenine pathway in alcohol use disorder and abstinence: a link with gut microbiota, peripheral inflammation and psychological symptoms
Authors: Leclercq Sophie , Schwarz Markus , Delzenne Nathalie M. , Stärkel Peter , de Timary Philippe 
Published: October 2021

AbstractThe gut-brain communication is mostly driven by the immune, metabolic and neural pathways which remained poorly explored in patients with alcohol use disorder (AUD). The metabolites arising from the tryptophan-kynurenine pathway have gained considerable attention since they are at the interface between intestinal bacteria, host immune response and brain functions. This study described the circulating levels of kynurenine metabolites in AUD patients, at the onset (T1) and end (T2) of a 3-week detoxification program, and tested correlations between those metabolites and inflammatory markers, the gut microbiota and the psychological symptoms. Increased concentration of the neurotoxic metabolite quinolinic acid (QUIN) and decreased levels of the neuroprotector metabolite kynurenic acid (KYNA) which both modulate glutamatergic neurotransmission were observed in AUD patients, particularly at T2. The inflammatory marker hsCRP was associated with several metabolic ratios of the kynurenine pathway. Tryptophan, KYNA and QUIN were correlated with depression, alcohol craving and reaction time, respectively. Analysis of gut microbiota revealed that bacteria known as short-chain fatty acid producers, as well as bacterial metabolites including butyrate and medium-chain fatty acids were associated with some metabolites of the tryptophan-kynurenine pathway. Targeting the glutamatergic neurotransmission through the modulation of the kynurenine pathway, by manipulating the gut microbiota, might represent an interesting alternative for modulating alcohol-related behavior.
Chromosome-level genome assemblies of five Prunus species and genome-wide association studies for key agronomic traits in peach
Authors: Tan Qiuping , Li Sen , Zhang Yuzheng , Chen Min , Wen Binbin , Jiang Shan , Chen Xiude , Fu Xiling , Li Dongmei , Wu Hongyu , Wang Yong , Xiao Wei , Li Ling 
Published: October 2021

AbstractPrunus species include many important perennial fruit crops, such as peach, plum, apricot, and related wild species. Here, we report de novo genome assemblies for five species, including the cultivated species peach (Prunus persica), plum (Prunus salicina), and apricot (Prunus armeniaca), and the wild peach species Tibetan peach (Prunus mira) and Chinese wild peach (Prunus davidiana). The genomes ranged from 240 to 276 Mb in size, with contig N50 values of 2.27−8.30 Mb and 25,333−27,826 protein-coding gene models. As the phylogenetic tree shows, plum diverged from its common ancestor with peach, wild peach species, and apricot ~7 million years ago (MYA). We analyzed whole-genome resequencing data of 417 peach accessions, called 3,749,618 high-quality SNPs, 577,154 small indels, 31,800 deletions, duplications, and inversions, and 32,338 insertions, and performed a structural variant-based genome-wide association study (GWAS) of key agricultural traits. From our GWAS data, we identified a locus associated with a fruit shape corresponding to the OVATE transcription factor, where a large inversion event correlates with higher OVATE expression in flat-shaped accessions. Furthermore, a GWAS revealed a NAC transcription factor associated with fruit developmental timing that is linked to a tandem repeat variant and elevated NAC expression in early-ripening accessions. We also identified a locus encoding microRNA172d, where insertion of a transposable element into its promoter was found in double-flower accessions. Thus, our efforts have suggested roles for OVATE, a NAC transcription factor, and microRNA172d in fruit shape, fruit development period, and floral morphology, respectively, that can be connected to traits in other crops, thereby demonstrating the importance of parallel evolution in the diversification of several commercially important domesticated species. In general, these genomic resources will facilitate functional genomics, evolutionary research, and agronomic improvement of these five and other Prunus species. We believe that structural variant-based GWASs can also be used in other plants, animal species, and humans and be combined with deep sequencing GWASs to precisely identify candidate genes and genetic architecture components.
AaWRKY17, a positive regulator of artemisinin biosynthesis, is involved in resistance to Pseudomonas syringae in Artemisia annua
Authors: Chen Tiantian , Li Yongpeng , Xie Lihui , Hao Xiaolong , Liu Hang , Qin Wei , Wang Chen , Yan Xin , Wu-Zhang Kuanyu , Yao Xinghao , Peng Bowen , Zhang Yaojie , Fu Xueqing , Li Ling , Tang Kexuan 
Published: October 2021

AbstractArtemisia annua, a traditional Chinese medicinal plant, remains the only plant source for artemisinin production, yet few genes have been identified to be involved in both the response to biotic stresses, such as pathogens, and artemisinin biosynthesis. Here, we isolated and identified the WRKY transcription factor (TF) AaWRKY17, which could significantly increase the artemisinin content and resistance to Pseudomonas syringae in A. annua. Yeast one-hybrid (Y1H), dual-luciferase (dual-LUC), and electrophoretic mobility shift assay (EMSA) results showed that AaWRKY17 directly bound to the W-box motifs in the promoter region of the artemisinin biosynthetic pathway gene amorpha-4,11-diene synthase (ADS) and promoted its expression. Real-time quantitative PCR (RT-qPCR) analysis revealed that the transcript levels of two defense marker genes, Pathogenesis-Related 5 (PR5) and NDR1/HIN1-LIKE 10 (NHL10), were greatly increased in AaWRKY17-overexpressing transgenic A. annua plants. Additionally, overexpression of AaWRKY17 in A. annua resulted in decreased susceptibility to P. syringae. These results indicated that AaWRKY17 acted as a positive regulator in response to P. syringae infection. Together, our findings demonstrated that the novel WRKY transcription factor AaWRKY17 could potentially be used in transgenic breeding to improve the content of artemisinin and pathogen tolerance in A. annua.
Advanced machine learning decision policies for diameter control of carbon nanotubes
Authors: Rao Rahul , Carpena-Núñez Jennifer , Nikolaev Pavel , Susner Michael A. , Reyes Kristofer G. , Maruyama Benji 
Published: October 2021

AbstractThe diameters of single-walled carbon nanotubes (SWCNTs) are directly related to their electronic properties, making diameter control highly desirable for a number of applications. Here we utilized a machine learning planner based on the Expected Improvement decision policy that mapped regions where growth was feasible vs. not feasible and further optimized synthesis conditions to selectively grow SWCNTs within a narrow diameter range. We maximized two ranges corresponding to Raman radial breathing mode frequencies around 265 and 225 cm−1 (SWCNT diameters around 0.92 and 1.06 nm, respectively), and our planner found optimal synthesis conditions within a hundred experiments. Extensive post-growth characterization showed high selectivity in the optimized growth experiments compared to the unoptimized growth experiments. Remarkably, our planner revealed significantly different synthesis conditions for maximizing the two diameter ranges in spite of their relative closeness. Our study shows the promise for machine learning-driven diameter optimization and paves the way towards chirality-controlled SWCNT growth.
Sign-reversible valley-dependent Berry phase effects in 2D valley-half-semiconductors
Authors: Zhou Xiaodong , Zhang Run-Wu , Zhang Zeying , Feng Wanxiang , Mokrousov Yuriy , Yao Yugui 
Published: October 2021

AbstractManipulating valley-dependent Berry phase effects provides remarkable opportunities for both fundamental research and practical applications. Here, by referring to effective model analysis, we propose a general scheme for realizing topological magneto-valley phase transitions. More importantly, by using valley-half-semiconducting VSi2N4 as an outstanding example, we investigate sign change of valley-dependent Berry phase effects which drive the change-in-sign valley anomalous transport characteristics via external means such as biaxial strain, electric field, and correlation effects. As a result, this gives rise to quantized versions of valley anomalous transport phenomena. Our findings not only uncover a general framework to control valley degree of freedom, but also motivate further research in the direction of multifunctional quantum devices in valleytronics and spintronics.
Tendon and multiomics: advantages, advances, and opportunities
Authors: Sarmiento Paula , Little Dianne 
Published: October 2021

AbstractTendons heal by fibrosis, which hinders function and increases re-injury risk. Yet the biology that leads to degeneration and regeneration of tendons is not completely understood. Improved understanding of the metabolic nuances that cause diverse outcomes in tendinopathies is required to solve these problems. ‘Omics methods are increasingly used to characterize phenotypes in tissues. Multiomics integrates ‘omic datasets to identify coherent relationships and provide insight into differences in molecular and metabolic pathways between anatomic locations, and disease stages. This work reviews the current literature pertaining to multiomics in tendon and the potential of these platforms to improve tendon regeneration. We assessed the literature and identified areas where ‘omics platforms contribute to the field: (1) Tendon biology where their hierarchical complexity and demographic factors are studied. (2) Tendon degeneration and healing, where comparisons across tendon pathologies are analyzed. (3) The in vitro engineered tendon phenotype, where we compare the engineered phenotype to relevant native tissues. (4) Finally, we review regenerative and therapeutic approaches. We identified gaps in current knowledge and opportunities for future study: (1) The need to increase the diversity of human subjects and cell sources. (2) Opportunities to improve understanding of tendon heterogeneity. (3) The need to use these improvements to inform new engineered and regenerative therapeutic approaches. (4) The need to increase understanding of the development of tendon pathology. Together, the expanding use of various ‘omics platforms and data analysis resulting from these platforms could substantially contribute to major advances in the tendon tissue engineering and regenerative medicine field.
Modeling congenital cataract in vitro using patient-specific induced pluripotent stem cells
Authors: Lyu Danni , Zhang Lifang , Qin Zhenwei , Ni Shuang , Li Jiayong , Lu Bing , Hao Shengjie , Tang Qiaomei , Yin Houfa , Chen Zhijian , Yan Yong-Bin , Ji Junfeng , He Jiliang , Nagy Andras , Fu Qiuli , Yao Ke 
Published: October 2021

AbstractCongenital cataracts are the leading cause of childhood blindness. To date, surgical removal of cataracts is the only established treatment, but surgery is associated with multiple complications, which often lead to visual impairment. Therefore, mechanistic studies and drug-candidate screening have been intrigued by the aims of developing novel therapeutic strategies. However, these studies have been hampered by a lack of an appropriate human-disease model of congenital cataracts. Herein, we report the establishment of a human congenital cataract in vitro model through differentiation of patient-specific induced pluripotent stem cells (iPSCs) into regenerated lenses. The regenerated lenses derived from patient-specific iPSCs with known causative mutations of congenital cataracts (CRYBB2 [p. P24T] and CRYGD [p. Q155X]) showed obvious opacification that closely resembled that seen in patients’ cataracts in terms of opacification severity and disease course accordingly, as compared with lentoid bodies (LBs) derived from healthy individuals. Increased protein aggregation and decreased protein solubility corresponding to the patients’ cataract severity were observed in the patient-specific LBs and were attenuated by lanosterol treatment. Taken together, the in vitro model described herein, which recapitulates patient-specific clinical manifestations of congenital cataracts and protein aggregation in patient-specific LBs, provides a robust system for research on the pathological mechanisms of cataracts and screening of drug candidates for cataract treatment.
PD-L1 expression evaluated by 22C3 antibody is a better prognostic marker than SP142/SP263 antibodies in breast cancer patients after resection
Authors: Cha Yoon Jin , Kim Dooreh , Bae Soong June , Ahn Sung Gwe , Jeong Joon , Lee Hye Sun , Jeon Soyoung , Yoo Tae-Kyung , Park Woo-Chan , Yoon Chang Ik 
Published: October 2021

AbstractImmune checkpoint inhibitors (ICI) have demonstrated efficacy in the treatment of solid cancers. However, there is no unified predictive biomarker available for ICIs. We aimed to compare the prognostic impact of using three PD-L1 antibodies (SP142, SP263, and 22C3) for immunohistochemical (IHC) analysis. We retrospectively investigated tumor tissues derived from 316 breast cancer cases, by constructing tissue microarrays and by performing IHC staining. The immune-cell expression rate (for SP142 and SP263) and combined proportional score (for 22C3) were evaluated, and survival outcomes were analyzed. Prediction models were developed, and values of Harrel’s c-index and areas under curves were calculated to compare the discriminatory power. Negative PD-L1 expression based on the 22C3-IHC assay was determined to be an independent prognostic marker for recurrence-free survival (RFS, P = 0.0337) and distant metastasis-free survival (DMFS, P = 0.0131). However, PD-L1 expression based on SP142- and SP263-IHC assays did not reveal a prognostic impact. Among the three antibodies, adding PD-L1 expression data obtained via 22C3-IHC assay to the null model led to a significant improvement in the discriminatory power of RFS and DMFS. We suggest that PD-L1 expression based on the 22C3-IHC assay is a superior prognostic marker than that based on SP142- and SP263-IHC assays.
Hybrid quantum investment optimization with minimal holding period
Authors: Mugel Samuel , Abad Mario , Bermejo Miguel , Sánchez Javier , Lizaso Enrique , Orús Román 
Published: October 2021

AbstractIn this paper we propose a hybrid quantum-classical algorithm for dynamic portfolio optimization with minimal holding period. Our algorithm is based on sampling the near-optimal portfolios at each trading step using a quantum processor, and efficiently post-selecting to meet the minimal holding constraint. We found the optimal investment trajectory in a dataset of 50 assets spanning a 1 year trading period using the D-Wave 2000Q processor. Our method is remarkably efficient, and produces results much closer to the efficient frontier than typical portfolios. Moreover, we also show how our approach can easily produce trajectories adapted to different risk profiles, as typically offered in financial products. Our results are a clear example of how the combination of quantum and classical techniques can offer novel valuable tools to deal with real-life problems, beyond simple toy models, in current NISQ quantum processors.
On hybrid nanofluid Yamada-Ota and Xue flow models in a rotating channel with modified Fourier law
Authors: Ramzan Muhammad , Gul Hina , Malik M. Y. , Baleanu Dumitru , Nisar Kottakkaran Sooppy 
Published: October 2021

AbstractThe present study analyzes the comparison of the Xue and Yamada-Ota models for a hybrid nanoliquid flow in porous media occurring amidst a rotating channel with surface catalyzed reaction. Here, the hybrid nanofluid flow is studied under the effect of Cattaneo Christov (C–C) heat flux and homogenous heterogeneous (Homo-Hetero) chemical reaction with entropy generation minimization analysis. The assumptions of the viscosity of hybrid nanomaterial fluid and variable thermal conductivity are added characteristics to the inimitability of the flow model. Two kinds of nanoparticles, namely single-wall carbon nanotubes and multi-wall carbon nanotubes with ethylene glycol (EG) as the base fluid are considered. Carbon nanotubes possess diverse applications in daily life including energy storage, drug delivery, cancer treatment, tissue generation, platelet activation, magnetic force microscopy, and microwave absorption, etc. Similarity transformations are utilized to translate the modeled problem into the coupled ordinary differential equations. This system of ordinary differential equations is addressed numerically. The graphical outcomes are scrutinized by utilizing the MATLAB software bvp4c function. The results revealed that the velocity profile decreases for the higher rotation parameter while increases for the escalated slip parameter. Furthermore, the fluid concentration and temperature are on the decline for higher surface catalyzed reaction and thermal relaxation parameters respectively.
Fabrication and microfluidic analysis of graphene-based molecular communication receiver for Internet of Nano Things (IoNT)
Authors: Kuscu Murat , Ramezani Hamideh , Dinc Ergin , Akhavan Shahab , Akan Ozgur B. 
Published: October 2021

AbstractBio-inspired molecular communications (MC), where molecules are used to transfer information, is the most promising technique to realise the Internet of Nano Things (IoNT), thanks to its inherent biocompatibility, energy-efficiency, and reliability in physiologically-relevant environments. Despite a substantial body of theoretical work concerning MC, the lack of practical micro/nanoscale MC devices and MC testbeds has led researchers to make overly simplifying assumptions about the implications of the channel conditions and the physical architectures of the practical transceivers in developing theoretical models and devising communication methods for MC. On the other hand, MC imposes unique challenges resulting from the highly complex, nonlinear, time-varying channel properties that cannot be always tackled by conventional information and communication tools and technologies (ICT). As a result, the reliability of the existing MC methods, which are mostly adopted from electromagnetic communications and not validated with practical testbeds, is highly questionable. As the first step to remove this discrepancy, in this study, we report on the fabrication of a nanoscale MC receiver based on graphene field-effect transistor biosensors. We perform its ICT characterisation in a custom-designed microfluidic MC system with the information encoded into the concentration of single-stranded DNA molecules. This experimental platform is the first practical implementation of a micro/nanoscale MC system with nanoscale MC receivers, and can serve as a testbed for developing realistic MC methods and IoNT applications.