bluuebunny/crossref_metadata_2025_split huggingface dataset:
Proteo-genomic characterization of virus-associated liver cancers reveals potential subtypes and therapeutic targets
Authors: Fujita Masashi , Chen Mei-Ju May , Siwak Doris Rieko , Sasagawa Shota , Oosawa-Tatsuguchi Ayako , Arihiro Koji , Ono Atsushi , Miura Ryoichi , Maejima Kazuhiro , Aikata Hiroshi , Ueno Masaki , Hayami Shinya , Yamaue Hiroki , Chayama Kazuaki , Lee Ju-Seog , Lu Yiling , Mills Gordon B. , Liang Han , Nishizuka Satoshi S. , Nakagawa Hidewaki 
Published: October 2022

AbstractPrimary liver cancer is a heterogeneous disease in terms of its etiology, histology, and therapeutic response. Concurrent proteomic and genomic characterization of a large set of clinical liver cancer samples can help elucidate the molecular basis of heterogeneity and thus serve as a valuable resource for personalized liver cancer treatment. In this study, we perform proteomic profiling of ~300 proteins on 259 primary liver cancer tissues with reverse-phase protein arrays, mutational analysis using whole genome sequencing and transcriptional analysis with RNA-Seq. Patients are of Japanese ethnic background and mainly HBV or HCV positive, providing insight into this important liver cancer subtype. Unsupervised classification of tumors based on protein expression profiles reveal three proteomic subclasses R1, R2, and R3. The R1 subclass is immunologically hot and demonstrated a good prognosis. R2 contains advanced proliferative tumor with TP53 mutations, high expression of VEGF receptor 2 and the worst prognosis. R3 is enriched with CTNNB1 mutations and elevated mTOR signaling pathway activity. Twenty-two proteins, including CDK1 and CDKN2A, are identified as potential prognostic markers. The proteomic classification presented in this study can help guide therapeutic decision making for liver cancer treatment.
Encapsulated CdSe/CdS nanorods in double-shelled porous nanocomposites for efficient photocatalytic CO2 reduction
Authors: Li Hui , Cheng Caikun , Yang Zhijie , Wei Jingjing 
Published: October 2022

AbstractColloidal quantum dots have been emerging as promising photocatalysts to convert CO2 into fuels by using solar energy. However, the above photocatalysts usually suffer from low CO2 adsorption capacity because of their nonporous structures, which principally reduces their catalytic efficiency. Here, we show that synchronizing imine polycondensation reaction to self-assembly of colloidal CdSe/CdS nanorods can produce micro-meso hierarchically porous nanocomposites with double-shelled nanocomposites. Owing to their hierarchical pores and the ability to separate photoexcited electrons, the self-assembled porous nanocomposites exhibit remarkably higher activity (≈ 64.6 μmol g−1 h−1) toward CO2 to CO in solid-gas regime than that of nonporous solids from self-assembled CdSe/CdS nanorods under identical conditions. Importantly, the length of the nanorods is demonstrated to be crucial to correlate their ability to long-distance separation of photogenerated electrons and holes along their axial direction. Overall, this approach provides a rational strategy to optimize the CO2 adsorption and conversion by integrating the inorganic and organic semiconductors.
LINC00589-dominated ceRNA networks regulate multiple chemoresistance and cancer stem cell-like properties in HER2+ breast cancer
Authors: Bai Wendong , Peng Hongyan , Zhang Jiarui , Zhao Yongmei , Li Zhijun , Feng Xuelian , Zhang Jiang , Liang Fei , Wang Li , Zhang Nan , Li Yize , Zhu Huayu , Ji Qiuhe 
Published: October 2022

AbstractResistance to human epidermal growth factor receptor 2 (HER2)-targeted therapy (trastuzumab), cancer stem cell (CSC)-like properties and multiple chemoresistance often concur and intersect in breast cancer, but molecular links that may serve as effective therapeutic targets remain largely unknown. Here, we identified the long noncoding RNA, LINC00589 as a key regulatory node for concurrent intervention of these processes in breast cancer cells in vitro and in vivo. We demonstrated that the expression of LINC00589 is clinically valuable as an independent prognostic factor for discriminating trastuzumab responders. Mechanistically, LINC00589 serves as a ceRNA platform that simultaneously sponges miR-100 and miR-452 and relieves their repression of tumor suppressors, including discs large homolog 5 (DLG5) and PR/SET domain 16 (PRDM16, a transcription suppressor of mucin4), thereby exerting multiple cancer inhibitory functions and counteracting drug resistance. Collectively, our results disclose two LINC00589-initiated ceRNA networks, the LINC00589-miR-100-DLG5 and LINC00589-miR-452-PRDM16- mucin4 axes, which regulate trastuzumab resistance, CSC-like properties and multiple chemoresistance of breast cancer, thus providing potential diagnostic and prognostic markers and therapeutic targets for HER2-positive breast cancer.
Multiple input algorithm-guided Deep Brain stimulation-programming for Parkinson’s disease patients
Authors: Gülke Eileen , Juárez Paz León , Scholtes Heleen , Gerloff Christian , Kühn Andrea A. , Pötter-Nerger Monika 
Published: October 2022

AbstractTechnological advances of Deep Brain Stimulation (DBS) within the subthalamic nucleus (STN) for Parkinson’s disease (PD) provide increased programming options with higher programming burden. Reducing the effort of DBS optimization requires novel programming strategies. The objective of this study was to evaluate the feasibility of a semi-automatic algorithm-guided-programming (AgP) approach to obtain beneficial stimulation settings for PD patients with directional DBS systems. The AgP evaluates iteratively the weighted combination of sensor and clinician assessed responses of multiple PD symptoms to suggested DBS settings until it converges to a final solution. Acute clinical effectiveness of AgP DBS settings and DBS settings that were found following a standard of care (SoC) procedure were compared in a randomized, crossover and double-blind fashion in 10 PD subjects from a single center. Compared to therapy absence, AgP and SoC DBS settings significantly improved (p = 0.002) total Unified Parkinson’s Disease Rating Scale III scores (median 69.8 interquartile range (IQR) 64.6|71.9% and 66.2 IQR 58.1|68.2%, respectively). Despite their similar clinical results, AgP and SoC DBS settings differed substantially. Per subject, AgP tested 37.0 IQR 34.0|37 settings before convergence, resulting in 1.7 IQR 1.6|2.0 h, which is comparable to previous reports. Although AgP long-term clinical results still need to be investigated, this approach constitutes an alternative for DBS programming and represents an important step for future closed-loop DBS optimization systems.
Validation of the Spanish language version of the control of allergic rhinitis and asthma test
Authors: Diana Quijano , Abraham Ali , Yaicith Arevalo , Peter Orejuela , Juan Trujillo 
Published: October 2022

AbstractAllergic rhinitis and asthma are common diseases that frequently coexist, referred to as unified airway disease. There is currently no validated scale in Spanish, which allows simultaneous evaluation of both conditions. A translation from Portuguese to Spanish was therefore performed. It was administered to 120 patients aged between 18 and 70 years whose native language was Spanish and presented a diagnosis of allergic rhinitis and asthma. The reliability, validity and sensitivity to instrument change validations were carried out, as well as the values of minimally relevant clinical differences. Reliability was evaluated using Cronbach´s alpha test on CARAT-global: 0.83 [IC 95% 0.79–0.88]; test and retest evaluation was done with Pearson´s correlation coefficient: 0.6 [IC 95% 0.32–0.77] and the standard error of measurement 3.5 (p < 0.005). A confirmatory factor analysis was performed corroborating two factors. Correlation coefficients were not high in the longitudinal validation. Concurrent validity showed an acceptable correlation between CARAT10 asthma ACQ5 and low between allergic rhinitis-VAS. There was a milestone of the controlled disease in the discriminant validity of CARAT10 rhinitis ≥ 8 mean an adequate control, CARAT10-asthma > 16 In this case, CARAT10-asthma value < 16 are interpreted as an inadequate or partial control and values ≥ 16 mean an adequate control and CARAT10-global ≥ 18, patients evaluated with CARAT10 with a result ≥ 18, which would be a patient with both conditions controlled. The minimally relevant clinically important average difference found in the CARAT10 scale was 3.25 (SD 3.77). The CARAT10 scale in Spanish is a standardised, reliable and valid evaluation method on patients with unified airway disease.
Analyses of adult transcriptomes from four different populations of the spongy moth, Lymantria dispar L., from China and the USA
Authors: Wang Yi-Ming , Sparks Michael E. , Harrison Robert L. , Shi Juan 
Published: October 2022

AbstractThe spongy mothLymantria dispar, formerly known as the gypsy moth, is a forest pest that occurs as two different biotypes: the European spongy moth (ESM),Lymantria dispar dispar, which is distributed in Europe and North America; and the Asian spongy moth (ASM), which consists of subspeciesLymantria dispar asiaticaandLymantria dispar japonicaand is distributed in China, Russia, Korea, and Japan. The Asian biotype is classified as a quarantine pest by the U.S. Department of Agriculture because of the superior flight ability of adult females compared to females of the European biotype. To identify genes that potentially account for differences in female flight capability between the two biotypes, we assembled and compared transcriptional profiles of two North American populations of ESM and two Chinese populations of ASM, including samples of unmated female adults and females after mating and oviposition. Of 129,286 unigenes identified, 306 were up-regulated in ASM samples relative to ESM, including genes involved in egg production. In contrast, 2309 unigenes were down-regulated in ASM samples, including genes involved in energy production. Although a previous study found that ASM female flight was reduced after oviposition, a comparison of gene expression before and after mating and oviposition did not reveal any genes which were consistently up- or down-regulated in the two ASM populations.
Clinical relevance of CERK and SPHK1 in breast cancer and their association with metastasis and drug resistance
Authors: Bhadwal Priyanka , Randhawa Vinay , Vaiphei Kim , Dahiya Divya , Agnihotri Navneet 
Published: October 2022

AbstractDespite numerous reports on the altered sphingolipids metabolism in human cancers, their clinical significance in breast cancer remains obscure. Previously, we identified the high levels of sphingolipids, ceramide phosphates and sphingosine phosphates, and the genes involved in their synthesis, CERK and SPHK1, in breast cancer patients. The present study aimed to determine the correlations of CERK and SPHK1 with clinical outcomes as well as metastasis and drug resistance markers. Both local and TCGA cohorts were analysed. High-confidence regulatory interaction network was constructed to find association of target genes with metastasis and drug resistance. Furthermore, correlations of CERK and SPHK1 with selected metastasis and drug resistance markers were validated in both cohorts. Overexpression of CERK and SPHK1 was associated with nodal metastasis, late tumor stage and high proliferation potency. In addition, increased CERK expression was also indicative of poor patient survival. Computational network analysis revealed the association of CERK and SPHK1 with known metastasis markers MMP-2 and MMP-9 and drug resistance markers ABCC1 and ABCG2. Correlation analysis confirmed the associations of target genes with these markers in both local as well as TCGA cohort. The above findings suggest clinical utility of CERK and SPHK1 as potential biomarkers in breast cancer patients and thus could provide novel leads in the development of therapeutics.
Morphometric classification of kangaroo bones reveals paleoecological change in northwest Australia during the terminal Pleistocene
Authors: Mein Erin , Manne Tiina , Veth Peter , Weisbecker Vera 
Published: October 2022

AbstractSpecimen identification is the backbone of archeozoological research. The challenge of differentiating postcranial skeletal elements of closely related wild animals in biodiverse regions can prove a barrier to understanding past human foraging behaviours. Morphometrics are increasingly being employed to classify paleozoological animal remains, however, the potential of these methods to discriminate between wild animal groups has yet to be fully realised. Here we demonstrate the applicability of a traditional morphometric approach to taxonomically classify foot and ankle bones of kangaroos, a large and highly diverse marsupial family. Using multiple discriminant analysis, we classify archaeological specimens from Boodie Cave, in northwest Australia and identify the presence of two locally extinct macropod species during the terminal Pleistocene. The appearance of the banded hare-wallaby and northern nail-tail wallaby in the Pilbara region at this time provides independent evidence of the ecological and human responses to a changing climate at the end of the last Ice Age. Traditional morphometrics provides an accessible, inexpensive, and non-destructive tool for paleozoological specimen classification and has substantial potential for applications to other diverse wild faunas.
Infants infer third-party social dominance relationships based on visual access to intergroup conflict
Authors: Pun Anthea , Birch Susan A. J. , Baron Andrew Scott 
Published: October 2022

AbstractDuring a conflict, having a greater number of allies than the opposition can improve one’s success in a conflict. However, allies must be aware that has a conflict has occurred, and this is often influenced by what they are able to see. Here, we explored whether infants’ assessment of social dominance is influenced by whether or not social allies have visual access to an episode of intergroup conflict. In Experiment 1, 9–12-month-olds only expected an agent to be socially dominant if their allies were able to witness the conflict. Experiment 2 provided further support for this finding, as infants did not expect an agent from a numerically larger group to be socially dominant when allies were unable to witness the conflict. Together, these results suggest that infants do not simply use a heuristic in which “numerically larger groups are always more dominant”. Importantly, infants are able to incorporate social allies’ ability to witness a conflict when predicting social dominance between groups.
The optimization method of wing ice shape regulation based on flight dynamics characteristics
Authors: Dou Pengfei , Li Zhe , Dong Zehong , Xie Li-ke 
Published: October 2022

AbstractIce on aircraft wing changes the aircraft aerodynamic shape, and has negative effects on flight dynamic characteristics, seriously threatening flight safety. Plasma ice shape regulation is a new de-icing method. Plasma actuator produces an apparent thermal effect, which is designed to dissolve the continuous ice into intermittent ice pieces. How to achieve the optimal regulation ice shape to improve the flight dynamics characteristics under icing conditions is a technical problem restricting the application of this method. A simulation ice shape based on previous ice tunnel experiments and a scale model of swept wing were established. The aerodynamic parameters of no ice, full ice, and two regulation ice schemes were obtained based on wind tunnel. Six degrees of freedom flight dynamics model was established, and flight simulation had been carried out. As the analysis of trim characteristics, dynamic stability, and maneuverability, flight dynamics characteristics were better improved when the ratio of ice width to the mean aerodynamic chord was 0.15. The evaluation method of plasma ice shape regulation schemes was proposed. The proposed method, which can compare and optimize the arrangement of plasma actuators, realized the optimal regulation ice shape on the premise of balancing flight safety and energy consumption.
Photobiochemical mechanisms of biomolecules relevant to germicidal ultraviolet irradiation at 222 and 254 nm
Authors: Naito Keisuke , Sawadaishi Kazuyuki , Kawasaki Masahiro 
Published: October 2022

AbstractTo inactivate viruses and microorganisms, ultraviolet light in the short wavelength region is a promising candidate for mitigating the infection of disease. Germicidal mercury lamps emitting at 254 nm and KrCl excimer lamps emitting at 222 nm have sterilisation properties. In this work, wavelength dependence of the photobiochemical mechanisms was investigated with 222- and 254-nm irradiation to analyze the underlying damage mechanisms of DNA/RNA and proteins, using Escherichia coli, a protease, an oligopeptide, amino acids, plasmid DNA and nucleosides. The photorepair of damaged DNA and the “dark” reversion of the hydrates of uracil phosphoramidite coupling blocks were also investigated.
A spatial beam property analyzer based on dispersive crystal diffraction for low-emittance X-ray light sources
Authors: Samadi Nazanin , Shi Xianbo , Ozkan Loch Cigdem , Krempasky Juraj , Boege Michael , Chapman Dean , Stampanoni Marco 
Published: October 2022

AbstractThe advent of low-emittance synchrotron X-ray sources and free-electron lasers urges the development of novel diagnostic techniques for measuring and monitoring the spatial source properties, especially the source sizes. This work introduces an X-ray beam property analyzer based on a multi-crystal diffraction geometry, including a crystal-based monochromator and a Laue crystal in a dispersive setting to the monochromator. By measuring the flat beam and the transmitted beam profiles, the system can provide a simultaneous high-sensitivity characterization of the source size, divergence, position, and angle in the diffraction plane of the multi-crystal system. Detailed theoretical modeling predicts the system’s feasibility as a versatile characterization tool for monitoring the X-ray source and beam properties. The experimental validation was conducted at a bending magnet beamline at the Swiss Light Source by varying the machine parameters. A measurement sensitivity of less than 10% of a source size of around 12 µm is demonstrated. The proposed system offers a compact setup with simple X-ray optics and can also be utilized for monitoring the electron source.
Droplet to soliton crossover at negative temperature in presence of bi-periodic optical lattices
Authors: Pathak Maitri R. , Nath Ajay 
Published: October 2022

AbstractIt is shown that the phenomenon of negative temperature essentially occurs in Bose-Einstein condensate due to the realization of the upper bound energy state utilizing a combination of expulsive harmonic oscillator and optical lattice potentials. We study the existence of quantum droplets at negative temperature and droplet-to-soliton crossover in the binary Bose-Einstein condensate mixture in the presence of bi-periodic optical lattices and expulsive-BOL confinements. Based on the beyond mean field approximation, we employ the extended Gross-Pitäevskii equation and calculate the exact analytical form of wavefunction solutions for BOL, expulsive-BOL confinements. An interesting transition of quantum droplets from positive to negative temperatures and the droplet-to-soliton crossover by modulating the disorder in BOL potential are illustrated. The affirmation of such crossover is performed by exploring the profile of atomic condensate density which smoothly transits from being a flat top density in optical lattice confinement to a bright soliton for BOL trap. Further, we confirm the crossover by exploring the energy per particle and the variation in the root mean square size of the condensate with respect to the potential depth of the BOL trap. Eventually, all of this aid us to construct a phase diagram in a space between the amplitude of BOL potential depth and particle number which reveals the formation of droplet and soliton phases. In expulsive-BOL confinement, it is seen that the impact of the expulsive trap is insignificant on atomic condensate density in the droplet phase and it becomes prominent in the soliton region. Further, the variation of total energy reveals that the amplitude of the expulsive oscillator strengthens the droplet phase and leads to an increase in the negative temperature of the considered system.
Far-field ultrasonic imaging using hyperlenses
Authors: Syed Akbar Ali Mohamed Subair , Rajagopal Prabhu 
Published: October 2022

AbstractHyperlenses for ultrasonic imaging in nondestructive evaluation and non-invasive diagnostics have not been widely discussed, likely due to the lack of understanding on their performance, as well as challenges with reception of the elastic wavefield past fine features. This paper discusses the development and application of a cylindrical hyperlens that can magnify subwavelength features and achieve super-resolution in the far-field. A radially symmetric structure composed of alternating metal and water layers is used to demonstrate the hyperlens. Numerical simulations are used to study the performance of cylindrical hyperlenses with regard to their geometrical parameters in imaging defects separated by a subwavelength distance, gaining insight into their construction for the ultrasonic domain. An elegant extension of the concept of cylindrical hyperlens to flat face hyperlens is also discussed, paving the way for a wider practical implementation of the technique. The paper also presents a novel waveguide-based reception technique that uses a conventional ultrasonic transducer as receiver to capture waves exiting from each fin of the hyperlens discretely. A metallic hyperlens is then custom-fabricated, and used to demonstrate for the first time, a super-resolved image with 5X magnification in the ultrasonic domain. The proposed hyperlens and the reception technique are among the first demonstrations in the ultrasonic domain, and well-suited for practical inspections. The results have important implications for higher resolution ultrasonic imaging in industrial and biomedical applications.
In vitro and in vivo assessment of the antioxidant potential of isoxazole derivatives
Authors: Hawash Mohammed , Jaradat Nidal , Abualhasan Murad , Thaher Manar , Sawalhi Rawan , Younes Nadeen , Shanaa Amani , Nuseirat Mariam , Mousa Ahmed 
Published: October 2022

AbstractPreviously developed fluorophenyl-isoxazole-carboxamides derivatives were re-synthesized and their scavenging activity against DPPH free radical and inhibitory activity against lipase and α-amylase enzymes were evaluated. The inhibition of the tested enzymes was weak while the most potent activities were observed in the DPPH assay. In particular, compounds2aand2cdemonstrated high antioxidant potency with IC50values of 0.45 ± 0.21 and 0.47 ± 0.33 µg/ml, respectively, when compared to Trolox, the positive control compound, which has an IC50value of 3.10 ± 0.92 µg/ml. Based on the in vitro results, the most potent compound2awas chosen for in vivo evaluation of antioxidant properties using 20 male mice injected intra-peritoneally and divided into four groups. The in vivo results revealed that total antioxidant capacity (TAC) obtained for mice treated with2awas two folds greater than that of mice treated with the positive control Quercetin. Although further biological and preclinical investigations need to be performed to assess the therapeutic potential of2a, the results of this study show promising antioxidant activities both in vitro and in vivo.