bluuebunny/crossref_metadata_2025_split huggingface dataset:
Interactome based identification and validation of prefoldin 5-α for prognosing CNS leukemia in B-ALL patients
Authors: Xavier Tessy , Vijayachandran Lakshmi Sumitra , Chandran Rumamol , Mony Ullas , Augustine Anitha , Sidharthan Neeraj , Ganapathy Rema , Keechilat Pavithran , Sundaram K R. , Menon Krishnakumar N. 
Published: September 2022

AbstractWe report here the identification and validation of prefoldin 5-alpha (PFDN5-α) for the first time as prognostic biomarker for prediction of central nervous system (CNS) leukemia of B cell acute lymphoblastic leukemia (B-ALL) origin. Since cerebrospinal fluid (CSF) cytology being the gold standard of diagnosis for CNS leukemia with poor sensitivity, mandatory prophylactic intrathecal chemotherapy is administered irrespective of patients develop CNS leukemia. Thus, using interactome studies, we identified PFDN5-α as a prognostic biomarker for predicting CNS leukemia by interacting lymphoblastic proteins and CSF from B-ALL patients using far-western clinical proteomics approach. Validation by both western and ELISA methods confirmed our results. For further clinical translation, we performed Receiver Operating Characteristic (ROC) curve analysis generated from CNS +ve (n = 25) and −ve (n = 40) CSF samples from B-ALL patients and identified PFDN5-α-CSF reactivity cut-off value as 0.456. Values below 0.456 indicate the patient is at risk of developing CNS leukemia and suggestive of having intrathecal chemotherapy. Further flow cytometry validation for CNS leukemia positivity revealed that with increasing blast cells, a decrease in PFDN5-α-CSF reactivity confirming ELISA based PFDN5α-CSF reactivity assay. Predicting CNS leukemia development risk by ELISA based PFDN5-α-CSF reactivity assay could have potential in the clinical management of CNS leukemia.
Efficient removal of noxious methylene blue and crystal violet dyes at neutral conditions by reusable montmorillonite/NiFe2O4@amine-functionalized chitosan composite
Authors: Gomaa Hassanien , Abd El-Monaem Eman M. , Eltaweil Abdelazeem S. , Omer Ahmed M. 
Published: September 2022

AbstractThe jeopardy of the synthetic dyes effluents on human health and the environment has swiftly aggravated, threatening human survival. Hence, sustained studies have figured out the most acceptable way to eliminate this poisonous contaminant. Thereby, our investigation aimed to fabricate montmorillonite/magnetic NiFe2O4@amine-functionalized chitosan (MMT-mAmCs) composite as a promising green adsorbent to remove the cationic methylene blue (MB) and crystal violet (CV) dyes from the wastewater in neutral conditions. Interestingly, MMT-mAmCs composite carries high negative charges at a wide pH range from 4 to 11 as clarified from zeta potential measurements, asserting its suitability to adsorb the cationic contaminants. In addition, the experimental study confirmed that the optimum pH to adsorb both MB and CV was pH 7, inferring the ability of MMT-mAmCs to adsorb both cationic dyes in simple process conditions. Furthermore, the ferromagnetic behavior of the MMT-mAmCs composite is additional merit to our adsorbent that provides facile, fast, and flawless separation. Notably, the as-fabricated composite revealed an auspicious adsorbability towards the adsorptive removal of MB and CV, since the maximum adsorption capacity of MB and CV were 137 and 118 mg/g, respectively. Moreover, the isotherm and kinetic investigatins depicted that the adsorption of both cationic dyes fitted Langmuir and Pseudo 2nd order models, respectively. Besides, the advanced adsorbent preserved satisfactory adsorption characteristics with maximal removal efficacy exceeding 87% after reuse for ten consecutive cycles. More importantly, MMT-mAmCs efficiently adsorbed MB and CV from real agricultural water, Nile river water and wastewater samples at the neutral pH medium, reflecting its potentiality to be a superb reusable candidate for adsorptive removal cationic pollutants from their aquatic media.
Recording of pig neuronal activity in the comparative context of the awake human brain
Authors: Dobariya Aksharkumar , El Ahmadieh Tarek Y. , Good Levi B. , Hernandez-Reynoso Ana G. , Jakkamsetti Vikram , Brown Ronnie , Dunbar Misha , Ding Kan , Luna Jesus , Kallem Raja Reddy , Putnam William C. , Shelton John M. , Evers Bret M. , Azami Amirhossein , Geramifard Negar , Cogan Stuart F. , Mickey Bruce , Pascual Juan M. 
Published: September 2022

AbstractGyriform mammals display neurophysiological and neural network activity that other species exhibit only in rudimentary or dissimilar form. However, neural recordings from large mammals such as the pig can be anatomically hindered and pharmacologically suppressed by anesthetics. This curtails comparative inferences. To mitigate these limitations, we set out to modify electrocorticography, intracerebral depth and intracortical recording methods to study the anesthetized pig. In the process, we found that common forms of infused anesthesia such as pentobarbital or midazolam can be neurophysiologic suppressants acting in dose-independent fashion relative to anesthetic dose or brain concentration. Further, we corroborated that standard laboratory conditions may impose electrical interference with specific neural signals. We thus aimed to safeguard neural network integrity and recording fidelity by developing surgical, anesthesia and noise reduction methods and by working inside a newly designed Faraday cage, and evaluated this from the point of view of neurophysiological power spectral density and coherence analyses. We also utilized novel silicon carbide electrodes to minimize mechanical disruption of single-neuron activity. These methods allowed for the preservation of native neurophysiological activity for several hours. Pig electrocorticography recordings were essentially indistinguishable from awake human recordings except for the small segment of electrical activity associated with vision in conscious persons. In addition, single-neuron and paired-pulse stimulation recordings were feasible simultaneously with electrocorticography and depth electrode recordings. The spontaneous and stimulus-elicited neuronal activities thus surveyed can be recorded with a degree of precision similar to that achievable in rodent or any other animal studies and prove as informative as unperturbed human electrocorticography.
Study of a Si-based light initiated multi-gate semiconductor switch for high temperatures
Authors: Luan Chongbiao , Liu Hongwei , Fu Jiabin , He Yang , Xu Le , Wang Lingyun , Yuan Jianqiang , Xiao Longfei , Feng Zhuoyun , Huang Yupeng 
Published: September 2022

AbstractLight initiated multi-gate semiconductor switch (LIMS) is a kind of power electronic device which has many differences from traditional thyristor triggered by electric pulse. LIMS is triggered by laser, the turn-on time is smaller, and the anti-electromagnetic interferences is strong. The opening mode of LIMS is obviously different to traditional thyristor. After the laser into the gate area, a large number of electrons and holes will appear in P-base region, holes gather in the area of P-base in PN junction J2, and electrons gather in N-drift region around the PN junction J2. PN junction J2 will open first, then PN junction J3 opens. The delay time of the NPN and PNP thyristors is close to zero when the laser pulse is narrow and the peak power is high, so the turn-on velocity is fast. To optimize the characteristics of the LIMS at high temperatures, we propose a new structure of the LIMS with the optimization of the n+layer, circular light gate, and the new-style edge termination. The diameter of the LIMS is 23 mm. The experiment results show that the leakage current of the proposed LIMS has been decreased from more than 1 mA to 500 μA at 125 °C, the output current of the LIMS is 10.2 kA with a voltage of 4 kV at 85 °C, and the output current of the LIMS is 12.1 kA with a voltage of 4 kV at − 55 °C. Additionally, di/dt is larger than 30 kA/μs.
CCIVR facilitates comprehensive identification of cis-natural antisense transcripts with their structural characteristics and expression profiles
Authors: Ohhata Tatsuya , Suzuki Maya , Sakai Satoshi , Ota Kosuke , Yokota Hazuki , Uchida Chiharu , Niida Hiroyuki , Kitagawa Masatoshi 
Published: September 2022

AbstractCis-natural antisense transcripts (cis-NATs) are transcribed from the same genomic locus as their partner gene but from the opposite DNA strand and overlap with the partner gene transcript. Here, we developed a simple and convenient program termed CCIVR (comprehensive cis-NATs identifier via RNA-seq data) that comprehensively identifies all kinds of cis-NATs based on genome annotation with expression data obtained from RNA-seq. Using CCIVR with genome databases, we demonstrated total cis-NAT pairs from 11 model organisms. CCIVR analysis with RNA-seq data from parthenogenetic and androgenetic embryonic stem cells identified well-known imprinted cis-NAT pair, KCNQ1/KCNQ1OT1, ensuring the availability of CCIVR. Finally, CCIVR identified cis-NAT pairs that demonstrate inversely correlated expression upon TGFβ stimulation including cis-NATs that functionally repress their partner genes by introducing epigenetic alteration in the promoters of partner genes. Thus, CCIVR facilitates the investigation of structural characteristics and functions of cis-NATs in numerous processes in various species.
Effects of Chlorella extracts on growth of Capsicum annuum L. seedlings
Authors: Tian Shi-Lin , Khan Abid , Zheng Wen-Na , Song Li , Liu Jun-He , Wang Xiao-Qian , Li Li 
Published: September 2022

AbstractThe long-term application of chemical fertilizers has caused to the farmland soil compaction, water pollution, and reduced the quality of vegetable to some extent. So, its become a trend in agriculture to find new bio-fertilizers.Chlorellaextract is rich in amino acids, peptides, nucleic acids, growth hormones, potassium, calcium, magnesium, iron, zinc ions, vitamin E, B1, B2, C, B6, folic acid, free biotin and chlorophyll.Chlorellaextract can promote biological growth, mainly by stimulating the speed of cell division, thereby accelerating the proliferation rate of cells and playing a role in promoting plant growth. WhetherChlorellaextract can be used to improve the growth of pepper (Capsicum annuum), needs to be verified. In current study, a pepper variety 'Chao Tian Jiao' was used as experiment material, by determining the changes of the related characteristics after spraying the seedlings withChlorellaextract, and its effect on growth ofCapsicum annuumplants was investigated. The results showed that theChlorellaextract significantly increased plant height of pepper seedlings (treatment: 32.2 ± 0.3 cm; control: 24.2 ± 0.2 cm), stem diameter (treatment: 0.57 ± 0.02 cm; control: 0.41 ± 0.03 cm) and leaf area (treatment: 189.6 ± 3.2 cm2; control: 145.8 ± 2.5 cm2). Particularly, the pepper seedlings treated withChlorellaextract, developed the root system in better way, significantly increased the chlorophylla, and the activities of SOD, POD and CAT enzymes were also improved significantly. Based on our results, we can speculate that it is possible to improve the growth ofCapsicum annuumseedlings and reduce the application of chemical fertilizers in pepper production by usingChlorellaextract.
Comparative transcriptome profiling and molecular marker development for oil palm fruit color
Authors: Suraninpong Potjamarn , Nuanlaong Sunya 
Published: September 2022

AbstractOil palm harvesting is normally determined by fruit exocarp color. To detect expressed sequence tag (EST)-simple sequence repeat (SSR) markers in oil palm hybrid populations, de novo transcriptomic profiling of Nigeria black and Suratthani 1 (Deli × Calabar) plants was performed. More than 46 million high-quality clean reads with a mean length of 1117 bp were generated. Functional annotation and gene ontology (GO) enrichment analysis of differentially expressed genes (DEGs) revealed that the genes were involved in fruit color development and pigment synthesis. Comparison of immature/mature DEGs indicated that nigrescent fruit color was driven by the anthocyanin biosynthesis pathway (ABP); however, the carotenoid biosynthesis pathway (CBP) was involved in the color development of both fruit types. The transcripts of both unique and different genes involved in the ABP and CBP in higher plants were highlighted for further study, especially 3GT, downstream genes in the ABP, and DEARF27 in the CBP. Additionally, SSR primer motifs, namely, 9949, discovered from the DEGs upregulated in the virescent type that encode vacuolar iron transporter (VIT), could separate the nigrescence and virescence traits of Nigeria hybrids. This novel primer has potential to be used as a molecular for further selection in breeding programs especially involving the specific genetic backgrounds described in this study.
Sensing and photocatalytic properties of a new 3D Co(ii) coordination polymer based on 1,1′-di(p-carboxybenzyl)-2,2′-biimidazole
Authors: Yang Bo 
Published: September 2022

One novel 3D interpenetrated Co(ii) CP acts as multi-functional chemosensors in detection of Fe3+, Cr2O72−, CrO42− and nitrofurantoin and is an effective and stable photocatalyst and displays excellent photo-catalytic properties.
Development of free 25-hydroxyvitamin D3 assay method using liquid chromatography-tandem mass spectrometry
Authors: Ishimine Nau , Wu Shixing , Ota Ryusei , Takahashi Koji , Takiwaki Masaki , Sugano Mitsutoshi , Tozuka Minoru , Uehara Takeshi 
Published: September 2022

Abstract
The free hormone hypothesis has triggered controversies regarding the measurement of free vitamin D metabolites, such as free 25-hydroxyvitamin D (25(OH)D), as a suitable indicator for total vitamin D for clinical use. This issue can be addressed by developing a precise and accurate method for free 25(OH)D measurement. In the present study, a novel assay method for free 25(OH)D3 based on liquid chromatography-tandem mass spectrometry (LC-MS/MS) was developed. Sample preparation first involved ultrafiltration to remove vitamin D-binding protein-bound and albumin-bound 25(OH)D, followed by extraction with a column, derivatization, evaporation, dissolution, and injection into the LC-MS/MS system. The coefficient of variation of repeatability and reproducibility obtained were 3.8–4.5% and 4.8–5.9%, respectively. Satisfactory linearity (r=0.999) was obtained up to 80 pg/ml. The lower quantification limit was 0.97 pg/ml and the S/N ratio on the peak of 1.0 pg/ml sample was 24.8 (which is more than the acceptable value of 10). The recovery rate was between 84.5 and 92.4% with a negligible matrix effect (94.5–104.9%). Levels of free 25(OH)D3, but not total 25(OH)D3, in the serum of the patients with chronic kidney disease (CKD) and hepatic cirrhosis (HC) were substantially lower than those in healthy subjects. The correlation coefficient between total and free 25(OH)D3 was 0.738 in all samples, while the linear regression equations were different between the patients with CKD and HC. In conclusion, LC-MS/MS assay for free 25(OH)D3 might be useful to evaluate high-throughput methods, including ELISA.
Distributed online adaptive subgradient optimization with dynamic bound of learning rate over time‐varying networks
Authors: Fang Runyue , Li Dequan , Shen Xiuyu 
Published: September 2022

AbstractAdaptive online optimization algorithms, such as Adam, RMSprop, and AdaBound, have recently been tremendously popular as they have been widely applied to address the issues in the field of deep learning. Despite their prevalence and prosperity, however, it is rare to investigate the distributed versions of these adaptive online algorithms. To fill the gap, a distributed online adaptive subgradient learning algorithm over time‐varying networks, called DAdaxBound, which exponentially accumulates long‐term past gradient information and possesses dynamic bounds of learning rates under learning rate clipping is developed. Then, the dynamic regret bound of DAdaxBound on convex and potentially nonsmooth objective functions is theoretically analysed. Finally, numerical experiments are carried out to assess the effectiveness of DAdaxBound on different datasets. The experimental results demonstrate that DAdaxBound compares favourably to other competing distributed online optimization algorithms.
A hierarchical diagnosis method of cable aged segment based on transfer function
Authors: Hong‐shan Zhao , Xiao‐mei Guo , Li‐bo Ma , Yan Wang , Cheng‐yan Sun , Jie‐ying Chang 
Published: September 2022

AbstractTraditional offline cable diagnosis methods need power outages during detection, affecting power supply reliability. Here, a hierarchical diagnosis method of cable aged segment based on transfer function is proposed. Firstly, the calculation model of cable transfer function with the aged segment is established; on this basis, the correlation between transfer function and cable aging is analysed. Then, a structure with combined sparse autoencoder and convolutional neural network is trained to estimate the aging location, and a hierarchical diagnosis model of distribution cable based on transfer function is proposed. The sensitivity and accuracy of aged segment detection are improved after hierarchical diagnosis. Finally, the simulation results show that the method proposed in this paper can effectively realize the online identification and location of the cable aged segment. The proposed method makes use of the advantage that the cable transfer function can be obtained online. Compared with the existing methods, this method does not need power outages in the diagnosis process, and the aged segment can be located without a lot of additional equipment.
LoRaWAN‐implemented node localisation based on received signal strength indicator
Authors: Aqeel Ibrahim , Iorkyase Ephraim , Zangoti Hussein , Tachtatzis Christos , Atkinson Robert , Andonovic Ivan 
Published: September 2022

AbstractLong Range Wireless Area Network (LoRaWAN) provides desirable solutions for Internet of Things (IoT) applications that require hundreds or thousands of actively connected devices (nodes) to monitor the environment or processes. In most cases, the location information of the devices arguably plays a critical role and is desirable. In this regard, the physical characteristics of the communication channel can be leveraged to provide a feasible and affordable node localisation solution. This paper presents an evaluation of the performance of LoRaWAN Received Signal Strength Indicator (RSSI)‐based node localisation in a sandstorm environment. The authors employ machine learning algorithms, Support Vector Regression and Gaussian Process Regression, which turn the high variance of RSSI due to frequency hopping feature of LoRaWAN to advantage, creating unique signatures representing different locations. In this work, the RSSI features are used as input location fingerprints into the machine learning models. The proposed method reduces node localisation complexity when compared to GPS‐based approaches whilst provisioning more extensive connection paths. Furthermore, the impact of LoRa spreading factor and kernel function on the performance of the developed models have been studied. Experimental results show that the SVR‐enhanced fingerprint yields the most significant improvement in node localisation performance.
Revisiting fundamental properties of TiO2 nanoclusters as condensation seeds in astrophysical environments
Authors: Sindel J. P. , Gobrecht D. , Helling Ch. , Decin L. 
Published: September 2022

Context. The formation of inorganic cloud particles takes place in several atmospheric environments, including those of warm, hot, rocky, and gaseous exoplanets, brown dwarfs, and asymptotic giant branch stars. The cloud particle formation needs to be triggered by the in situ formation of condensation seeds since it cannot be reasonably assumed that such condensation seeds preexist in these chemically complex gas-phase environments.
Aims. We aim to develop a method for calculating the thermochemical properties of clusters as key inputs for modelling the formation of condensation nuclei in gases of changing chemical composition. TiO2 is used as benchmark species for cluster sizes N = 1–15.
Methods. We created a total of 90000 candidate (TiO2)N geometries for cluster sizes N = 3−15. We employed a hierarchical optimisation approach, consisting of a force-field description, density-functional based tight-binding, and all-electron density-functional theory (DFT) to obtain accurate zero-point energies and thermochemical properties for the clusters.
Results. In 129 combinations of functionals and basis sets, we find that B3LYP/cc-pVTZ, including Grimme’s empirical dispersion, performs most accurately with respect to experimentally derived thermochemical properties of the TiO2 molecule. We present a hitherto unreported global minimum candidate for size N = 13. The DFT-derived thermochemical cluster data are used to evaluate the nucleation rates for a given temperature-pressure profile of a model hot-Jupiter atmosphere. We find that with the updated and refined cluster data, nucleation becomes unfeasible at slightly lower temperatures, raising the lower boundary for seed formation in the atmosphere.
Conclusions. The approach presented in this paper allows finding stable isomers for small (TiO2)N clusters. The choice of the functional and basis set for the all-electron DFT calculations has a measurable impact on the resulting surface tension and nucleation rate, and the updated thermochemical data are recommended for future considerations.