bluuebunny/crossref_metadata_2025_split huggingface dataset:
Development of a MAGIC population and high-resolution quantitative trait mapping for nicotine content in tobacco
Authors: Yuan Guangdi , Sun Kefan , Yu Wenlong , Jiang Zipeng , Jiang Caihong , Liu Dan , Wen Liuying , Si Huan , Ren Min , Wu Fengyan , Meng He , Cheng Lirui , Yang Aiguo , Wang Yuanying 
Published: July 2022

Abstract
Multiparent Advanced Generation Inter-Cross (MAGIC) populations are ideal genetic and breeding materials for quantitative trait locus (QTL) mapping and molecular breeding. In this study, a MAGIC population derived from eight tobacco parents was developed. Eight parents and 560 homozygous lines were genotyped by a 430K single-nucleotide polymorphism (SNP) chip assay and phenotyped for nicotine content under different conditions. Four QTLs associated with nicotine content were detected by genome-wide association mapping (GWAS), and one major QTL, named qNIC5-1, was mapped repeatedly under different conditions. Furthermore, by combining forward mapping, bioinformatics analysis and gene editing, we identified an ethylene responsive factor (ERF) transcription factor as a candidate gene underlying the major QTL qNIC5-1 for nicotine content in tobacco. A presence/absence variation (PAV) at qNIC5-1 confers changes in nicotine content. Overall, the large size of this MAGIC population, diverse genetic composition, balanced parental contributions and high levels of recombination all contribute to its value as a genetic and breeding resource. The application of the tobacco MAGIC population for QTL mapping and detecting rare allelic variation was demonstrated using nicotine content as a proof of principle.
River Mouth Shifting and Horeline Change Analysis of Mangala River Mouth at Puri Coastline
Authors: Mishra Debabrata , Kar Anil Kumar 
Published: July 2022

Abstract
The shoreline environment has been considered as a major concern in most of the parts of the globe. A significant trend of both erosion and accretion are primarily experienced on the Puri coast of Bay of Bengal at mouth of river Mangala. The sand dunes are formed, so the river mouth is shifting towards town and a new mouth is beginning. The satellite images from the year 1998 to 2021 are used to detect the shoreline change and the river mouth shifting. The GIS tools as well as a compatible tool bar Digital Shoreline Analysis System (DSAS) has been used to delineate the shoreline change and its corresponding hazards. It is found that, the shoreline of Mangala river mouth is accredited with an average rate of accretion of 3.49 m/yr. Total forty number transects are formed along with none as erosional transects which means all the transects formed undergo 100% of accretion. The percent of all transects that have statistically significant to accretion is 87.5%. The maximum value of accretion is 6.11 m/yr. This research intends to describe possible causes and consequences of shoreline changes of the Mangala river mouth and need for necessary precautionary measures.
Optimizing Fault Detection for Big Data Analytics Through Evolutionary Computation
Authors: P Jothi , Dwivedi Mona 
Published: July 2022

Abstract
Intelligent fault detection is promising to deal with big data due to its ability in rapidly and efficiently processing collected signals and providing accurate detection results. In traditional fault detection methods, however, the features are manually extracted depending on prior knowledge and diagnostic expertise, such processes take advantage of human ingenuity but are time-consuming. Inspired by the idea of unsupervised feature learning artificial intelligence techniques are used to learn features from the raw data. As the dimensionality increases, the accuracy of fault identification methods implemented on big data decreases significantly. For supervised learning, large volume of data is needed which leads to high cost and time consuming. In this paper, an unsupervised learning approach is proposed based on weighted softmax regression for fault detection using the power signals. Fault prediction has become an important subject in recent years, as it helps businesses to make significant savings in time and expense by offering successful methods for predictive maintenance. Pre-processing of data was a complicated job to overcome many problems with the dataset, including scale, sparsity, distortion, burst effects and confidence. As pre-monitor signals for failure did not share standard patterns, but were characterized only as non-normal system signals, a predictive error was made using outlier detection. Faults were explained by displaying system characteristics with abnormal values. An experimental assessment was conducted to determine the quality of the solution proposed. Results indicate that high-grade outliers provide successful markers of initial failures. In addition, explanations about irregular characteristic values (responsible for oversight) seem rather expressive. Based on the sliding window technique, the method to detect errors in high dimensional data streams is applied to an on-line mode. The online extension can be adapted to the time changing behaviour of the controlled system by experiments on synthetic datasets and is therefore applicable to the dynamic error detection. To assess the suggested strategy, we contrasted it with engineered data sets created utilizing the LOF (online expansion), SVDD, and KPCA approaches getting more than 90% result. The data exhibit our methodology's accomplishment as far as perfection, productivity, and strength.
Nasal transcriptome and epigenome analysis identifies the pathogenic features of aspirin-exacerbated respiratory disease
Authors: Ban Ga-Young , Kwon Eun-Kyung , Kang Tae-Wook Kang , Oh Taeyun , Choo Oak-Sung , Ye Young Min , Park Hae-Sim 
Published: July 2022

Abstract
Background
Dysregulation of the arachidonic acid metabolic pathway is the most widely known pathomechanism of AERD. We performed integrative analysis of transcriptomic and epigenomic profiling with network analysis to determine the novel pathogenic features of AERD.
Methods
Ten patients with asthma including 5 patients with AERD and another 5 patients with aspirin tolerant asthma (ATA) were enrolled. Nasal scraping was performed and nasal mucosa was used in omics profiling. Peripheral eosinophil counts, sputum eosinophil counts, FeNO levels, and pulmonary function test results were evaluated. Differentially expressed genes (DEGs), differentially methylated probes (DMPs) and differentially correlated genes (DCGs) between patients with AERD and those with ATA were analyzed. Network analysis using Ingenuity Pathway Analysis (IPA) was performed to determine the gene connection network and signaling pathways.
Results
In total, 1,736 DEGs, 1,401 DMPs, and 19 pairs for DCGs were identified. Among DCGs, genes related to vesicle transport (e.g. RAB3B and STX2) and sphingolipid dysregulation (e.g. SMPD3) were found to be hypo-methylated and up-regulated in AERD. Using the canonical pathway analysis of IPA with 78 asthma-related DEGs, signaling pathways of T helper cell differentiation/activation and Fcε receptor I were generated. Up-regulation of RORγt and FCER1A were noted in AERD. Gene expression levels of RAB3B, SYNE1, STX2, SMPD3 and RORγt significantly affected sputum eosinophil counts. Quantitative real-time PCR was performed and mRNA expression levels of STX2, SMPD3, and RORγt were significantly higher in AERD compared to ATA.
Conclusions
Distinct pathogenic features were identified by using integrative multi-omics data analysis in patients with AERD.
Efficacy of endoscopic gastrojejunal bypass in obese Yucatan pigs: a comparative animal study
Authors: Ouazzani Sohaib , Monino Laurent , Beyer-Berjot Laura , Garnier Emanuelle , Berdah Stéphane , Barthet Marc , Gonzalez Jean-Michel 
Published: July 2022

Abstract
Background
Natural orifice transluminal endoscopy surgery (NOTES) gastrojejunal anastomosis (GJA) with duodenal exclusion (DE) could be used as a less invasive alternative to surgical gastric bypass. The aim of this study was to compare the efficacy and safety of both methods for bariatric purpose.
Methods
This was a prospective, experimental and comparative study on obese living pigs, comparing 4 groups: GJA alone (group 1, G1), GJA + DE (group 2, G2), surgical gastric bypass (group 3, G3), control group (group 4, G4). GJA was endoscopically performed, using NOTES technic and LAMS, while DE was performed surgically for limb length selection. Animals were followed for 3 months. Primary outcome included technical success and weight evolution, while secondary endpoints included the rate of perioperative mortality and morbidity, histological anastomosis analysis and biological analysis.
Results
Technical success was 100% in each intervention groups. No death related to endoscopic procedures occurred in endoscopic groups, while early mortality (< 1 month) was 57,1% in surgical group, all due to anastomotic dehiscence. At 3 months, compared to baseline, mean weight evolution was + 3,1% in G1 (p = 0,46); -14,9% in G2 (p = 0,17); +5,6% in G3 (p = 0,38) and + 25% in G4 (p = 0,029). Histopathological analysis of endoscopic GJA showed complete fusion of different layers without leak or abscess.
Conclusions
Endoscopic GJA with DE provide the efficacy of bypass on weight control in animal model. Next steps consist of the development of devices to perform exclusively endoscopically limb length selection and DE.
Tailoring red-NIR luminescence in rare earth doped lead-free layered double perovskites by bivalent manganese energy bridge
Authors: Lin Jun , Dang Peipei , Zhang Guodong , Yang Wei , Lian Hongzhou , Li Guogang 
Published: July 2022

Abstract
Combining rare earth ions (RE3+) in halide perovskites is a hopeful strategy to produce interesting optical properties in visible and near-infrared (NIR) regions. Here, RE3+ (RE = Ho, Er, Tm, Nd) are successfully introduced into lead-free Cs4Mn1-wCdwBi2Cl12 (0 ≤ w ≤ 1) layered double perovskites through a facile hydrothermal method. Besides the strong orange-red Mn2+ emission, the as-prepared materials exhibit effective characteristic emission of RE3+ in the red and NIR region via constructing Mn2+ energy bridge. With Cd2+ gradually replacing Mn2+ in Cs4Mn1-wCdwBi2Cl12:RE3+, the photoluminescence (PL) of RE3+ in red and NIR range shows a decreased trend until it disappeared (w = 1). The energy transfer processes of [BiCl6]3-→Mn2+→RE3+ are confirmed and corresponding mechanism is explored. According to the manipulation of Mn2+/Cd2+ component, an evolution process from indirect to direct band gap is verified via a combined experimental–theoretical approach. White LEDs are fabricated by employing RE3+-doped Cs4MnBi2Cl12 on near-ultraviolet (n-UV) LED chips, achieving an improved color rendering index (CRI) from 83.3 to 93.0 compared to parent compound. Co-doping RE3+ (RE = Ho, Er, Tm, Nd) into Cs4MnBi2Cl12 shows a wide range of full-spectral emission covering the NIR I and NIR II regions, showing great potential for NIR detection applications.
“If people are hesitant at all, you just want a really big front door”: A qualitative interview study on the Luton COVID-19 vaccination outreach clinics
Authors: Logue Martin , Haylock Catherine , Scarborough Ciceley , Mackenzie Joanna 
Published: July 2022

Abstract
Background
There is a lack of evidence on the usefulness, practicality, and acceptance of vaccination outreach clinics in the community especially during pandemics. In this qualitative study, we explored the experiences, motivations and perceptions of service users, health professionals, strategic staff, volunteers, and community workers involved in the COVID-19 vaccination outreach clinics in Luton.
Methods
Semi structured face to face, telephone, online interviews, and focus groups were conducted with 31 participants including health professionals, strategic staff, volunteers, community workers and service users. The framework method was used to analyse the data and generate themes.
Results
Service users expressed positivity towards the convenience and familiarity of the location of the vaccination outreach clinics and the flexibility of receiving the vaccination in a local setting. Participants involved in the planning and delivery of the service commented on the worthwhile and rewarding experience but suggested more attention should be given to preparation time, service user recruitment, the working environment, and staff welfare.
Conclusions
The COVID-19 mobile vaccination outreach clinics in Luton tested and developed a different model of service delivery and demonstrated a collaborative way of working: “taking the health service to the patient, not the patient to the health service”. Planning and local community engagement were seen as key to successful delivery of a mobile healthcare service.
Osimertinib induces paraptosis
and TRIP13 confers resistance
in glioblastoma cells
Authors: meng songshu , hu lulu , shi ji , Shen Dachuan , Zhai Xingyue , Liang Dapeng , Wang Jing , Xie Chunrui , Xia Zhiyu , Cui Jing , Liu Feng , Du Sha , Piao Haozhe 
Published: July 2022

Abstract
Osimertinib is a third-generation epidermal growth factor receptor tyrosine kinase inhibitor that has been evaluated in glioblastoma (GBM) in pre-clinical and clinical trials. However, the precise mechanism whereby Osimertinib induces GBM cell death as well as the underlying resistance mechanism to Osimertinibremain unclear. Here we show that Osimertinib induced paraptosis in GBM cells as evidenced by the formation of cytoplasmic vacuoles, accumulation of ubiquitinated proteins, and upregulation of endoplasmic reticulum (ER) stress markers like CHOP. In addition, apoptosis or autophagy was not responsible for Osimertinib-induced cell death. RNA-seq analysis revealed that ER stress was the mostly deregulated pathway upon Osimertinib exposure. Consistently, pharmacologically targeting the PERK-eIF2α axis impaired Osimertinib-induced paraptosis. Noteworthy, we show that the expression of thyroid receptor-interacting protein 13 (TRIP13), an AAA+ATPase, alleviated Osimertinib-triggered paraptosis, thus conferring resistance. Intriguingly, an AKT inhibitor MK-2206 downregulated TRIP13 abundance and synergized with Osimertinib to suppress TRIP13-high GBM cell growth in vitro and in vivo. Thus, this study reveals a novel mechanism of action associated with the anti-GBM effects of Osimertinib, which involves ER stress-regulated paraptosis. Furthermore, we identify a TRIP13-driven resistance mechanism against Osimeritinib in GBM and offer a MK-2206-based combination strategy to overcome such resistance.
Genetically-Informed Prediction of Short-Term Parkinson’s Disease Progression
Authors: Torkamani Ali , Sadaei Hossein , Chen Shang-Fu , Wineinger Nathan , Dias Raquel , Cordova-Palomera Also , Lee Jonghun , Padmanabhan Jaya , Prilutsky Daria , Szalma Sandor 
Published: July 2022

Abstract
Background: Parkinson’s disease (PD) treatments modify disease symptoms but do not halt progression, characterized by slow and varied motor and non-motor changes overtime. Variation in PD progression hampers clinical research, resulting in long and expensive clinical trials prone to failure.Objective: Development of models for short-term PD progression prediction, which could be useful for informing individual-level disease management, and shortening the time required to detect disease-modifying drug effects in clinical studies.Methods: PD progressors were defined by an increase in MDS-UPDRS scores at 12-, 24-, and 36- months post-baseline. Using only baseline features, PD progression was separately predicted across all timepoints and MDS-UPDRS subparts in an optimized XGBoost framework. These predictions were combined into a meta-predictor for 12-month MDS UPDRS Total progression. Data from the Parkinson's Progression Markers Initiative (PPMI) were used for training with independent testing on the Parkinson's Disease Biomarkers Program (PDBP) cohort.Results: 12-month PD total progression was predicted with an F-measure 0.77, ROC AUC of 0.77, and PR AUC of 0.76 when tested on a hold-out PPMI set. When tested on PDBP we achieve a F-measure 0.75, ROC AUC of 0.74, and PR AUC of 0.73. Exclusion of genetic predictors led to the greatest loss in predictive accuracy; ROC AUC of 0.66, PR AUC of 0.66-0.68 for both PPMI and PDBP testing.Conclusions: Short-term PD progression can be predicted with a combination of survey-based, neuroimaging, physician examination, and genetic predictors. Dissection of the interplay between genetic risk, motor symptoms, non-motor symptoms, and longer-term expected rates of progression enable generalizable predictions.
Extracellular signal-Regulated Kinase 5 (ERK5) is required for the Yes-associated protein (YAP) co-transcriptional activity
Authors: Marchetti Alessandra , Ippolito Francesca , Consalvi Veronica , Noce Valeria , Battistelli Cecilia , Cicchini Carla , Tripodi Marco , Amicone Laura 
Published: July 2022

Abstract
YES-associated protein (YAP) is a transcriptional cofactor with a key role in the regulation of several cellular processes, including proliferation, differentiation and epithelial-to-mesenchymal transition (EMT), by integrating multiple cell autonomous and microenvironmental cues. YAP overexpression was found in different types of human cancer where it is associated with the acquisition of stemness properties, chemoresistance, increased cell proliferation and survival, metastasis and, ultimately, poor prognosis. YAP is the main downstream effector of the Hippo pathway, a tumor suppressive signaling able to transduce several extracellular signals. The Hippo pathway acts restraining YAP activity, since its activation induces YAP phosphorylation and cytoplasmic sequestration. However, recent observations indicate that YAP activity can be also modulated by Hippo independent/integrating pathways, still largely unexplored. In this study, we demonstrated the role of the extracellular signal-regulated kinase 5 (ERK5)/mitogen-activated protein kinase in the regulation of YAP activity. By means of ERK5 inhibition/silencing and overexpression experiments, and by using as model liver stem cells, hepatocytes and hepatocellular carcinoma (HCC) cell lines, we provided evidence that ERK5 is required for YAP-dependent gene expression. Mechanistically, ERK5 controls the recruitment of YAP on promoters of target genes and its physical interaction with the transcriptional partner TEAD; moreover, it mediates the YAP activation occurring in cell adhesion, migration and TGFβ-induced EMT of liver cells. Furthermore, we demonstrated that ERK5 signaling modulates YAP activity in a LATS1/2-independent manner. Therefore, our observations identify ERK5 as a novel upstream Hippo-independent regulator of YAP activity, thus unveiling a new target for therapeutic approaches aimed at interfering with its function.
Evaluation of potential neuroprotective effects of Vanillin against MPP+/MPTP-induced dysregulation of dopaminergic regulatory mechanisms in SH-SY5Y cells and Parkinson's disease mice model
Authors: Rani Linchi , Ghosh Balaram , Ahmad Mir Hilal , Mondal Amal Chandra 
Published: July 2022

Abstract
Parkinson's disease (PD) is a progressive neurodegenerative condition. The pathogenesis of PD is still unknown, and drugs available for PD treatment either have side effects or suboptimal efficacy. Flavonoids are potent antioxidants having little toxicity with extended use, suggesting they might hold promising therapeutic potential against PD. Vanillin (Van), a phenolic compound that has exhibited neuroprotective properties in various neurological disorders, including PD. However, the neuroprotective role of Van in PD and its underlying mechanisms are scarce and therefore need more exploration. Here, we evaluated the neuroprotective potential of Van and its associated mechanisms against MPP + /MPTP-induced neuronal loss in differentiated human neuroblastoma (SH-SY5Y) cells and PD mice model. In the present study, Van treatment significantly enhances the cell viability, alleviates oxidative stress, mitochondrial membrane potential and apoptosis in MPP + -intoxicated SH-SY5Y cells. Moreover, Van significantly ameliorated the MPP + -induced dysregulations in protein expression of tyrosine hydroxylase (TH) and mRNA expressions of GSK-3β, PARP1, p53, Bcl-2, Bax and Caspase-3 genes in SH-SY5Y cells. Similar to our in vitro results, Van significantly alleviated MPTP-induced neurobehavioral dysregulations, oxidative stress, aberrant TH protein expressions and immunoreactivity in SNpc of mice brains. Treatment of Van also prevented MPTP-mediated loss of TH-positive dopaminergic neurons intrinsic to SNpc and TH-fibers projecting to the striatum of mice. Thus, Van exhibited promising neuroprotective properties in the current study against MPP + /MPTP-intoxicated SH-SY5Y cells and mice, indicating its potential therapeutic properties against PD pathology.
Comparative hydrodynamic characterisation of two hydroxylated polymers based on α-pinene- or oleic acid-derived monomers for potential use as archaeological consolidants
Authors: Cutajar Michelle , Machado Fabricio , Crucitti Valentina Cuzzucoli , Braovac Susan , Stockman Robert A. , Howdle Steven M. , Harding Stephen E. 
Published: July 2022

Abstract
The Oseberg Viking ship burial is one of the most extensive collections of Viking wooden artefacts ever excavated in Norway. In the early 20th century, many of these artefacts were treated with alum in order to preserve them, inadvertently leading to their current degraded state. It is therefore crucial to develop new bioinspired polymers which could be used to conserve these artefacts and prevent further disintegration. Two hydroxylated polymers were synthesised (TPA6 and TPA7), using α-pinene- and oleic acid-derived monomers functionalised with an acrylate moiety. Characterisation using biomolecular hydrodynamics (analytical ultracentrifugation and high precision viscometry) has shown that these polymers have properties which would potentially make them good wood consolidants. Conformation analyses with the viscosity increment (ν) universal hydrodynamic parameter and ELLIPS1 software showed that they both polymers extended conformations, facilitating in-situ networking when applied to wood. SEDFIT-MSTAR analyses of sedimentation equilibrium data indicates a weight average molar mass Mw of (3.9 ± 0.8) kDa and (4.2 ± 0.2) kDa for TPA6 and TPA7 respectively. Analyses with SEDFIT (sedimentation velocity) and MultiSig however revealed that TPA7 had a much greater homogeneity and a lower proportion of aggregation. These studies suggest that both these polymers – particularly TPA7 - have characteristics suitable for wood consolidation, such as an optimal molar mass, conformation and a hydroxylated nature, making them interesting leads for further research.
Do Government Policies drive institutional preferences on green investment? Evidence from China
Authors: Yang Wu-E , Lai Pei-Wen , Han Zhi-Qiu , Tang Zhen-Peng 
Published: July 2022

Abstract
To improve the guiding role of institutional investors in green investment and provide financial support for green enterprises, Chinese government has issued a series of policies to establish a green finance system. We use a difference-in-difference (DID) analysis to explore whether the implementation of policies could change institutional attitudes to environmental factors when making investment decisions. Considering the effect of investment horizon, we find long-term institutional investors have shown symmetric preferences on green investment, while short-term institutions are more affected by green finance policies. Additionally, we find the investment behavior of short-term institutions are highly associated with abnormal return triggered by the policy effect. Besides, the triple-difference (DDD) analysis further proves that the high level of environmental disclosure would expanse the effect of policies, but high quality of external auditors would reduce the policy effect. The finding would extend the studies of green investment in emerging markets and present new evidence about the policy effect on institutions’ preferences for green investment.