bluuebunny/crossref_metadata_2025_split huggingface dataset:
Differentially expressed glycoproteins in pre‐ and post‐digital rectal examination urine samples for detecting aggressive prostate cancer
Authors: Wang Yuefan , Lih Tung‐Shing Mamie , Höti Naseruddin , Sokoll Lori J. , Chesnut Gregory , Petrovics Gyorgy , Kohaar Indu , Zhang Hui 
Published: December 2022

AbstractUrinary glycoproteins associated with aggressive prostate cancer (AG‐PCa) were previously reported using post‐digital rectal examination (DRE) urine specimens. To explore the potential of using pre‐DRE urine specimens for detecting AG‐PCa, we compared glycoproteins between pre‐ and post‐DRE urine specimens, verified the previously identified post‐DRE AG‐PCa‐associated urinary glycoproteins in pre‐DRE urine specimens, and explored potential new glycoproteins for AG‐PCa detection in pre‐DRE urine specimens. Quantitative glycoproteomic data were acquired for 154 pre‐DRE urine specimens from 41 patients with no cancer at biopsy, 48 patients with non‐AG‐PCa (Gleason score = 6), and 65 patients with AG‐PCa (Gleason score 7 or above). Compared to glycopeptides from the post‐DRE urine data, humoral immunity‐related proteins were enriched in pre‐DRE urine samples, whereas cell mediated immune response proteins were enriched in post‐DRE urine samples. Analyses of AG‐PCa‐associated glycoproteins from pre‐DRE urine revealed that the three urinary glycoproteins, prostate‐specific antigen (PSA), prostatic acid phosphatase (ACPP), and CD97 antigen (CD97) that were previously identified in post‐DRE urine samples, were also observed as AG‐PCa associated glycoproteins in pre‐DRE urine. In addition, we identified three new glycoproteins, fibrillin 1 (FBN1), vitronectin (VTN), and hemicentin 2 (HMCN2), to be potentially associated with AG‐PCa in pre‐DRE urine specimens. In summary, glycoprotein profiles differ between pre‐ and post‐DRE urine specimens. The identified AG‐PCa‐associated glycoproteins may be further evaluated in large cohort of pre‐DRE urine specimens for detecting clinically significant PCa.
Bioprospecting the American Alligator Peptidome for antiviral peptides against Venezuelan equine encephalitis virus
Authors: Carfagno Amy , Lin Shih‐Chao , Chafran Liana , Akhrymuk Ivan , Callahan Victoria , Po Marynet , Zhu Yaling , Altalhi Amaal , Durkin David P. , Russo Paul , Vliet Kent A. , Webb‐Robertson Bobbie‐Jo , Kehn‐Hall Kylene , Bishop Barney 
Published: December 2022

AbstractThe innate immune protection provided by cationic antimicrobial peptides (CAMPs) has been shown to extend to antiviral activity, with putative mechanisms of action including direct interaction with host cells or pathogen membranes. The lack of therapeutics available for the treatment of viruses such as Venezuelan equine encephalitis virus (VEEV) underscores the urgency of novel strategies for antiviral discovery. American alligator plasma has been shown to exhibit strong in vitro antibacterial activity, and functionalized hydrogel particles have been successfully employed for the identification of specific CAMPs from alligator plasma. Here, a novel bait strategy in which particles were encapsulated in membranes from either healthy or VEEV‐infected cells was implemented to identify peptides preferentially targeting infected cells for subsequent evaluation of antiviral activity. Statistical analysis of peptide identification results was used to select five candidate peptides for testing, of which one exhibited a dose‐dependent inhibition of VEEV and also significantly inhibited infectious titers. Results suggest our bioprospecting strategy provides a versatile platform that may be adapted for antiviral peptide identification from complex biological samples.
Isobaric labeling‐based quantitative proteomics of FACS‐purified immune cells and epithelial cells from the intestine of Crohn's disease patients reveals proteome changes of potential importance in disease pathogenesis
Authors: Alfredsson Johannes , Fabrik Ivo , Gorreja Frida , Caër Charles , Sihlbom Carina , Block Mattias , Börjesson Lars G. , Lindskog Elinor Bexe , Wick Mary Jo 
Published: December 2022

AbstractCrohn's disease (CD) is a chronic condition characterized by recurrent flares of inflammation in the gastrointestinal tract. Disease etiology is poorly understood and is characterized by dysregulated immune activation that progressively destroys intestinal tissue. Key cellular compartments in disease pathogenesis are the intestinal epithelial layer and its underlying lamina propria. While the epithelium contains predominantly epithelial cells, the lamina propria is enriched in immune cells. Deciphering proteome changes in different cell populations is important to understand CD pathogenesis. Here, using isobaric labeling‐based quantitative proteomics, we perform an exploratory study to analyze in‐depth proteome changes in epithelial cells, immune cells and stromal cells in CD patients compared to controls using cells purified by FACS. Our study revealed increased proteins associated with neutrophil degranulation and mitochondrial metabolism in immune cells of CD intestinal mucosa. We also found upregulation of proteins involved in glycosylation and secretory pathways in epithelial cells of CD patients, while proteins involved in mitochondrial metabolism were reduced. The distinct alterations in protein levels in immune‐ versus epithelial cells underscores the utility of proteome analysis of defined cell types. Moreover, our workflow allowing concomitant assessment of cell‐type specific changes on an individual basis enables deeper insight into disease pathogenesis.
Impact of dose calculation accuracy on inverse linear energy transfer optimization for intensity‐modulated proton therapy
Authors: Chen Mei , Cao Wenhua , Yepes Pablo , Guan Fada , Poenisch Falk , Xu Cheng , Chen Jiayi , Li Yupeng , Vazquez Ivan , Yang Ming , Zhu X. Ronald , Zhang Xiaodong 
Published: December 2022

AbstractObjectiveTo determine the effect of dose calculation accuracy on inverse linear energy transfer (LET) optimization for intensity‐modulated proton therapy, and to determine whether adding more beams would improve the plan robustness to different dose calculation engines.MethodsTwo sets of intensity‐modulated proton therapy plans using two, four, six, and nine beams were created for 10 prostate cancer patients: one set was optimized with dose constraints (DoseOpt) using the pencil beam (PB) algorithm, and the other set was optimized with additional LET constraints (LETOpt) using the Monte Carlo (MC) algorithm. Dose distributions of DoseOpt plans were then recalculated using the MC algorithm, and the LETOpt plans were recalculated using the PB algorithm. Dosimetric indices of targets and critical organs were compared between the PB and MC algorithms for both sets of plans.ResultsFor DoseOpt plans, dose differences between the PB and MC algorithms were minimal. However, the maximum dose differences in LETOpt plans were 11.11% and 15.85% in the dose covering 98% and 2% (D2) of the clinical target volume, respectively. Furthermore, the dose to 1 cc of the bladder differed by 11.42 Gy (relative biological effectiveness). Adding more beams reduced the discrepancy in target coverage, but the errors in D2 of the structure were increased with the number of beams.ConclusionHigh modulation of LET requires high dose calculation accuracy during the optimization and final dose calculation in the inverse treatment planning for intensity‐modulated proton therapy, and adding more beams did not improve the plan robustness to different dose calculation algorithms.
A tissue miRNA expression pattern is associated with disease aggressiveness of localized prostate cancer
Authors: Juracek Jaroslav , Madrzyk Marie , Stanik Michal , Ruckova Michaela , Trachtova Karolina , Malcikova Hana , Lzicarova Eva , Barth Dominik A. , Pichler Martin , Slaby Ondrej 
Published: December 2022

AbstractBackgroundProstate cancer (PCa) is a heterogeneous malignancy with high variability in clinical course. Insufficient stratification according to the aggressiveness at the time of diagnosis causes unnecessary or delayed treatment. Current stratification systems are not effective enough because they are based on clinical, surgical or biochemical parameters, but do not take into account molecular factors driving PCa cancerogenesis. MicroRNAs (miRNAs) are important players in molecular pathogenesis of PCa and could serve as valuable biomarkers for the assessment of disease aggressiveness and its prognosis.MethodsIn the study, in total, 280 PCa patients were enrolled. The miRNA expression profiles were analyzed in FFPE PCa tissue using the miRCURY LNA miRNA PCR System. The expression levels of candidate miRNAs were further verified by two‐level validation using the RT‐qPCR method and evaluated in relation to PCa stratification reflecting the disease aggressiveness.ResultsMiRNA profiling revealed 172 miRNAs dysregulated between aggressive (ISUP 3–5) and indolent PCa (ISUP 1) (p < 0.05). In the training and validation cohort, miR‑15b‑5p and miR‐106b‐5p were confirmed to be significantly upregulated in tissue of aggressive PCa when their level was associated with disease aggressiveness. Furthermore, we established a prognostic score combining the level of miR‑15b‑5p and miR‐106b‐5p with serum PSA level, which discriminated indolent PCa from an aggressive form with even higher analytical parameters (AUC being 0.9338 in the training set and 0.8014 in the validation set, respectively). The score was also associated with 5‐year biochemical progression‐free survival (bPFS) of PCa patients.ConclusionsWe identified a miRNA expression pattern associated with disease aggressiveness in prostate cancer patients. These miRNAs may be of biological interest as the focus can be also set on their specific role within the molecular pathology and the molecular mechanism that underlies the aggressivity of prostate cancer.
Fungicide smoke generated by electrical heating effectively controls gray mold of Chinese chives and reduces residue risk through adequate environmental sterilization
Authors: Gao Haojie , Shi Shaokun , Luan Fengxin , Jin Yan , Zhang Wenwen , Xu Yue , Li Beixing , Mu Wei , Gao Chuanjie , Liu Feng 
Published: December 2022

AbstractBACKGROUNDLabor‐saving pesticide application technology is eagerly pursued in the planting system of Chinese chives. In this study, we developed a set of application approaches by turning fungicides into smoke to achieve this goal.RESULTSThe fungicides fludioxonil, fluopyram, boscalid, procymidone, and prochloraz could be vaporized into smoke at temperatures below 300 °C. The SFR (smoke formation rate) decreased with the increasing temperature. At 300 °C, the SFR of fludioxonil, fluopyram, boscalid and procymidone were all higher than 80%. At 300 °C and 600 °C, there were no significant differences in the smoke particle state of these five fungicides. However, the inhibition rate of these five fungicides against the growth of Botrytis squamosa generally decreased with the temperature. At 600 °C, only fludioxonil and boscalid had inhibition rates higher than 80%. The deposition uniformity of fungicide smoke increased with the increasing amounts of NH4Cl. When the amount of NH4Cl reached 80% of the total content, the smoke of fungicide was uniformly deposited throughout each glass slide. In the greenhouse experiment, the control efficacy of fungicide application by smoke was significantly better than that of spraying application, whereas its residue was much lower.CONCLUSIONIt is feasible to control air‐borne disease through the vaporization of fungicides into smoke by electrical heating. Smoke application would effectively inhibit the spores in the air and would not increase the humidity of the environment. These findings indicate that smoke application is a labor‐saving pesticide application technology viable in production. © 2022 Society of Chemical Industry.
Few indirect effects of baculovirus on parasitoids demonstrate high compatibility of biocontrol methods against Tuta absoluta
Authors: Gonthier Jérémy , Arnó Judit , Romeis Jörg , Collatz Jana 
Published: December 2022

AbstractBACKGROUNDCombining different biocontrol agents, particularly micro‐ and macroorganisms, can contribute to new and sustainable pest control approaches. Tuta absoluta (Meyrick) (Lepidoptera: Gelechiidae) is one of the most destructive pests of solanaceous crops. An emerging management strategy consists of biological control using microbial insecticides such as baculoviruses, but with limited efficacy. Thanks to their high target specificity, baculoviruses can be used simultaneously with natural enemies such as parasitoids for improved control of T. absoluta. However, potential indirect nontarget effects of baculoviruses on parasitoids can result from overlapping resource requirements. We assessed whether ovipositing parasitoid females discriminated against virus‐treated hosts and examined the outcome of within‐host competition between the hymenopteran parasitoids Necremnus tutae (Reuter) (Eulophidae) and Dolichogenidea gelechiidivoris Marsch (Braconidae), and the Phthorimaea operculella granulovirus (PhopGV, Baculoviridae) that infects T. absoluta larvae.RESULTSFemale D. gelechiidivoris discriminated against virus‐treated hosts, whereas N. tutae did not. We found few indirect virus‐related effects depending on the species, the sex, and the time of virus treatment. Effects were ambivalent for D. gelechiidivoris offspring and ranged from increased male longevity when infection occurred before parasitization to reduced emergence and male longevity when infection occurred after parasitization. N. tutae offspring showed a longer development time and shorter male longevity when they developed in virus‐treated hosts.CONCLUSIONThe virus had a low impact on parasitoid offspring. In rare cases, adverse effects were detected; however, the low magnitude of these effects is unlikely to reduce the fitness of parasitoid offspring, therefore both parasitoids seem compatible with the baculovirus for control of T. absoluta. © 2022 The Authors. Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.
The effect of implementation of a creative thinking model on the development of creative thinking skills in high school students: A systematic review
Authors: Saeed Brwa Adnan , Ramdane Tahraoui 
Published: December 2022

AbstractCreative thinking plays a pivotal role in science, innovation and the arts, solidifying its significance in daily life problem solving as well as maintaining and fostering our well‐being. Creative problem solving (CPS) and critical reasoning enables students to be challenged and to grasp complex problems and is defined as one's ability to generate both original and useful ideas to be adopted in a wide array of situations. However, the literature concerning the integration and adoption of creative thinking models in educational systems and the implications this has on creative thinking skills is limited. To investigate whether the implementation of a creative thinking model leads to the development of creative thinking skills in high school students, and whether it affects any other abilities of high school students, Scopus, Web of Science and PubMed were systematically screened on 21 February 2022. Studies that adopted a CPS model in a high school setting and investigated its role in improving the creative thinking skills of students were included. Eight studies that spanned 542 high school students were included in this systematic review. Implementation of creative thinking models, including FPSPI, SCAMPER, quantum‐based CPS learning, and traditional CPS models, resulted in notable improvements in the development of creative thinking skills in high school students. Improvements were also evident in the participant's academic achievements, concept understanding and higher‐order thinking skills. A data extraction form was formulated in accordance with the PRISMA recommendations and (GRADE) criterion for risk of bias was incorporated. The implementation of a creative thinking model in educational institutions results in the development and improvement of creative thinking skills in high school students when used alongside traditional teaching methods. Future studies should focus on investigating the adoption of these models and others on a wider scale, spanning several geographical locations and education systems.
Performance analysis of weather‐dependent satellite–terrestrial network with rate adaptation hybrid free‐space optical and radio frequency link
Authors: Li Xin , Li Yongjun , Zhao Shanghong , Tang Hanling , Shao Long 
Published: December 2022

SummaryDue to the rapid development of satellite laser communication technology, free‐space optical (FSO) links present a promising alternative to traditional radio frequency (RF) links. In this paper, taking the influence of weather factors into consideration, we investigate the performance of the hybrid FSO/RF links where the feeder link operates in the FSO band and the user link operates in the hybrid FSO/RF band. Specifically, the FSO feeder link is modeled by the gamma–gamma distribution in the presence of beam wander and pointing error, and the detection method adopts either the intensity modulation with direct intensity (IM/DD) or heterodyne detection. The RF user link is assumed to follow the shadowed Rician model. In addition, in order to improve the transmission rate of the link under the time‐varying satellite–terrestrial channel, a rate adaptation scheme is proposed. The performance of the system under study is evaluated in terms of the outage probability, average bit error rate (BER), and average transmission rate. Our results provide some important insights, for example, (1) due to the constraints of the feeder link and weather factors, there is an upper limit on the outage performance and bit error rate of the hybrid link; (2) the adaptive transmission strategy can significantly improve the transmission rate of the link compared with traditional design.
Folic Acid Modified Graphene Quantum Dots from Konjac Glucomannan for Cell Imaging and Targeted Drug Delivery
Authors: Kang Huiting , Wang Tengfei , Liu Wei , Tian Dating 
Published: December 2022

AbstractGreen and low‐cost photoluminescent graphene quantum dots (GQDs) were prepared by a one‐step hydrothermal method with konjac glucomannan (KGM), a natural polysaccharide, as the precursors. Then, the folic acid (FA)‐functionalized GQDs (FA‐GQDs) was formed by the amidation of GQDs with FA, and the drug carrier named as FA‐GQDs‐DOX was obtained by loading doxorubicin (DOX) on FA‐GQDs. Due to the inherent fluorescence properties of GQDs and DOX in FA‐GQDs‐DOX, the resultant samples could be used to selectively label cancer cells without external dyes, and the cellular uptake and the drug‐releasing behavior could be visualized. The coupling of FA with GQDs and the loading of DOX on FA‐GQDs were confirmed by various means. In addition, the cell imaging showed that the FA‐GQDs could be used as a fluorescent probe to recognize folate receptor (FR)‐positive cancer cells and that the FA‐GQDs‐DOX could selectively deliver DOX to FR‐positive cancer cells. As a result, the FA‐GQDs‐DOX could be applied in early diagnosis and targeted therapy of cancer.
Analyzing business process management capabilities of low‐code development platforms
Authors: Sahay Apurvanand , Di Ruscio Davide , Iovino Ludovico , Pierantonio Alfonso 
Published: December 2022

AbstractLow‐code development platforms (LCDPs) aim to simplify software systems' development by providing easy‐to‐use graphical interfaces and drag‐and‐drop facilities. The system behaviors are defined through available data handling and workflow mechanisms enabling the specification of business processes from users that do not have strong programming skills. However, the number of LCDPs has grown significantly over the last few years. Consequently, it is not easy for inexpert users to understand their differences, especially in terms of provided modeling constructs. In this article, we analyze and compare eight low‐code development platforms by focusing on their capabilities for specifying business processes. The analysis exploits business process modeling and notation (BPMN) as a reference modeling language. Thus, the core elements of BPMN are leveraged to analyze the workflow mechanisms provided by each of the analyzed LCDP. The article explains different types of process flows and data handling means of the different LCDPs aiming to give potential users objective elements that can be used to make educated decisions when selecting LCDPs.
Characterization of Rsg3, a novel greenbug resistance gene from the Chinese barley landrace PI 565676
Authors: Xu Xiangyang , Mornhinweg Dolores , Bai Guihua , Li Genqiao , Bian Ruolin , Bernardo Amy , Armstrong J. Scott 
Published: December 2022

AbstractGreenbug (Schizaphis graminum Rondani) is a pest that poses a serious threat to cereal production worldwide. Yield losses caused by greenbug are predicted to increase because of global warming. To date, only a few barley (Hordeum vulgare L.) greenbug resistance genes have been reported and new genes are urgently needed because of the continuous occurrence of novel greenbug biotypes. PI 565676, a landrace collected from Henan province of China, exhibits high resistance to several predominant greenbug biotypes. An F6:7 recombinant inbred line (RIL) population derived from the cross PI 565676 × ‘Weskan’ was evaluated for response to greenbug biotypes E and F using a standard aphid assay protocol, and a randomized complete block design with two replicates was adopted. The RIL population was genotyped using single‐nucleotide polymorphisms (SNPs) markers generated by genotyping‐by‐sequencing (GBS). Gene mapping placed the greenbug resistance gene in PI 565676, designated Rsg3, to an interval of 93,140 bp between 667,558,306 and 667,651,446 bp on the long arm of chromosome 3H. Four high‐confidence genes were annotated in this region with one encoding a leucine‐rich repeat‐containing protein. An allelism test indicated that Rsg3 is independent of the Rsg1 locus, with estimated recombination frequency of 12.85 ± 0.20% and genetic distance of 13.14 ± 0.21 cM between the two loci. Therefore, Rsg3 represents a new locus for greenbug resistance. Two SNPs flanking Rsg3 were converted to Kompetitive Allele Specific PCR (KASP) markers, which can be used to tag Rsg3 in barley breeding.