bluuebunny/crossref_metadata_2025_split huggingface dataset:
MicroRNA-509-3p inhibits cellular migration, invasion, and proliferation, and sensitizes osteosarcoma to cisplatin
Authors: Patil Sagar L. , Palat Asha , Pan Yinghong , Rajapakshe Kimal , Mirchandani Rachna , Bondesson Maria , Yustein Jason T. , Coarfa Cristian , Gunaratne Preethi H. 
Published: December 2019

AbstractOsteosarcoma (OS) is the most common primary pediatric malignancy of the bone having poor prognosis and long-term survival rates of less than 30% in patients with metastasis. MicroRNA-509 was reported to be downregulated in OS. We and others previously published that miR-509-3p can strongly attenuate cellular migration/invasion and sensitize ovarian cancer to cisplatin. Here, we show that overexpression of miR-509-3p inhibited migration of primary OS cell lines U2OS, HOS, and SaOS2 as well as metastatic derivatives 143B and LM7. miR-509-3p overexpression also inhibited proliferation and invasion of HOS and 143B cells and sensitized cells to cisplatin. Luciferase reporter assays using 3′-UTRs of predicted miR-509-3p targets associated with metastatic phenotypes revealed ARHGAP1 could be one of the downstream effectors of miR-509-3p in HOS. To find the global impact of miR-509-3p overexpression and cisplatin treatment we performed Reverse Phase Protein Analysis (RPPA). AXL, which has been reported to play a critical role in cisplatin resistance and confirmed as direct target of miR-509-3p was downregulated upon miR-509-3p treatment and further down-regulated upon miR-509-3p + cisplatin treatment. We propose that the miR-509-3p/AXL and miR-509-3p/ARHGAP1 axes have the potential to uncover new druggable targets for the treatment of drug resistant metastatic osteosarcoma.
Microwave magnetic field modulation of spin torque oscillator based on perpendicular magnetic tunnel junctions
Authors: Skowroński Witold , Chęciński Jakub , Ziętek Sławomir , Yakushiji Kay , Yuasa Shinji 
Published: December 2019

AbstractModulation of a microwave signal generated by the spin-torque oscillator (STO) based on a magnetic tunnel junction (MTJ) with perpendicularly magnetized free layer is investigated. Magnetic field inductive loop was created during MTJ fabrication process, which enables microwave field application during STO operation. The frequency modulation by the microwave magnetic field of up to 3 GHz is explored, showing a potential for application in high-data-rate communication technologies. Moreover, an inductive loop is used for self-synchronization of the STO signal, which after field-locking, exhibits significant improvement of the linewidth and oscillation power.
Photonic reservoir computing based on nonlinear wave dynamics at microscale
Authors: Sunada Satoshi , Uchida Atsushi 
Published: December 2019

AbstractHigh-dimensional nonlinear dynamical systems, including neural networks, can be utilized as computational resources for information processing. In this sense, nonlinear wave systems are good candidates for such computational resources. Here, we propose and numerically demonstrate information processing based on nonlinear wave dynamics in microcavity lasers, i.e., optical spatiotemporal systems at microscale. A remarkable feature is its ability of high-dimensional and nonlinear mapping of input information to the wave states, enabling efficient and fast information processing at microscale. We show that the computational capability for nonlinear/memory tasks is maximized at the edge of dynamical stability. Moreover, we show that computational capability can be enhanced by applying a time-division multiplexing technique to the wave dynamics. Thus, the computational potential of the wave dynamics can sufficiently be extracted even when the number of detectors to monitor the wave states is limited. In addition, we discuss the merging of optical information processing with optical sensing, revealing a novel method for model-free sensing by using a microcavity reservoir as a sensing element. These results pave a way for on-chip photonic computing with high-dimensional dynamics and a model-free sensing method.
Phylogeographic patterns of intertidal arthropods (Acari, Oribatida) from southern Japanese islands reflect paleoclimatic events
Authors: Pfingstl Tobias , Wagner Maximilian , Hiruta Shimpei F. , Koblmüller Stephan , Hagino Wataru , Shimano Satoshi 
Published: December 2019

AbstractThe Japanese islands represent one of the world’s biodiversity hotspots. Their geological history and present geography resulted in a high number of endemic species in nearly all major metazoan clades. We investigated the phylogeography of three different intertidal mite species from the Ryukyu islands and southern mainland by means of morphometry and molecular genetics. None of the species represents an endemic, nearly all show distributions ranging over at least the southern and central Ryukyus. Two species, Fortuynia shibai and F. churaumi sp. n. clearly represent sister species that are derived from a common Eastern ancestor. Molecular genetic results indicate that these species separated approx. 3 Ma before the opening of the Okinawa trough, whereas F. shibai most likely showed an ancestral distribution stretching from the central Ryukyus across the Tokara strait to Japanese mainland, whereas F. churaumi probably evolved somewhere south of the Tokara strait. Phylogenetic data further indicates that long periods of isolation resulted in heterogeneous genetic structure but subsequent low sea level stands during Pleistocene allowed recent expansion and gene flow between island populations. Comparing these patterns with those of other animals, these tiny wingless mites apparently show better dispersal abilities than partially volant terrestrial organism groups.
Phonetic relevance and phonemic grouping of speech in the automatic detection of Parkinson’s Disease
Authors: Moro-Velazquez Laureano , Gomez-Garcia Jorge A. , Godino-Llorente Juan I. , Grandas-Perez Francisco , Shattuck-Hufnagel Stefanie , Yagüe-Jimenez Virginia , Dehak Najim 
Published: December 2019

AbstractLiterature documents the impact of Parkinson’s Disease (PD) on speech but no study has analyzed in detail the importance of the distinct phonemic groups for the automatic identification of the disease. This study presents new approaches that are evaluated in three different corpora containing speakers suffering from PD with two main objectives: to investigate the influence of the different phonemic groups in the detection of PD and to propose more accurate detection schemes employing speech. The proposed methodology uses GMM-UBM classifiers combined with a technique introduced in this paper called phonemic grouping, that permits observation of the differences in accuracy depending on the manner of articulation. Cross-validation results reach accuracies between 85% and 94% with AUC ranging from 0.91 to 0.98, while cross-corpora trials yield accuracies between 75% and 82% with AUC between 0.84 and 0.95, depending on the corpus. This is the first work analyzing the generalization properties of the proposed approaches employing cross-corpora trials and reaching high accuracies. Among the different phonemic groups, results suggest that plosives, vowels and fricatives are the most relevant acoustic segments for the detection of PD with the proposed schemes. In addition, the use of text-dependent utterances leads to more consistent and accurate models.
Trajectory of vitamin D, micronutrient status and childhood growth in exclusively breastfed children
Authors: Liao Sui-Ling , Yao Tsung-Chieh , Hua Man-Chin , Tsai Ming-Han , Hsu Shih-Yun , Chen Li-Chen , Yeh Kuo-Wei , Chiu Chih-Yung , Lai Shen-Hao , Huang Jing-Long 
Published: December 2019

AbstractThis study aimed to compare the trajectory of serum 25(OH)D, micronutrient levels, and anthropometric measurements between exclusively breastfed and mixed-fed children. This is a prospective cohort study. Anthropometric measurements of the children were obtained during scheduled clinical visits. Tests for 25(OHD), ferritin, zinc and complete blood count were performed yearly until 3 years of age. Clinical records and questionnaires on dietary habits were obtained. The results showed that despite official recommendations on vitamin D/iron supplements for breastfed children, less than 10% of our exclusively breastfed children received regular supplements. Thus, after 1 year, the odds for having iron deficiency anemia and vitamin D insufficiency were 9 [95% CI, 4–19] and 6 [95% CI, 2–16], respectively. Longitudinal follow-up showed the prevalence of iron deficiency to decrease from 34% at 1 year to 2% at age 3 years. However, the prevalence of vitamin D insufficiency remained persistently high throughout the first three years of life (60% at 1 to 44% at 3 years). Very few children had zinc deficiency. Anthropometric measurements showed exclusively breastfed children to have lower mean z-scores for body weight and height when compared to mixed-fed children after 12 months. In conclusion, children who were exclusively breastfed for longer than 4 months without proper supplement were more likely to have transient iron deficiency anemia and persistent vitamin D insufficiency. Their growth became relatively slower after infancy. Whether this was associated with underlying inadequate serum vitamin D and iron level remains an important issue to be explored.
Cosolvent Analysis Toolkit (CAT): a robust hotspot identification platform for cosolvent simulations of proteins to expand the druggable proteome
Authors: Sabanés Zariquiey Francesc , de Souza João V. , Bronowska Agnieszka K. 
Published: December 2019

AbstractCosolvent Molecular Dynamics (MD) simulations are increasingly popular techniques developed for prediction and characterization of allosteric and cryptic binding sites, which can be rendered “druggable” by small molecule ligands. Despite their conceptual simplicity and effectiveness, the analysis of cosolvent MD trajectories relies on pocket volume data, which requires a high level of manual investigation and may introduce a bias. In this work, we present CAT (Cosolvent Analysis Toolkit): an open-source, freely accessible analytical tool, suitable for automated analysis of cosolvent MD trajectories. CAT is compatible with commonly used molecular graphics software packages such as UCSF Chimera and VMD. Using a novel hybrid empirical force field scoring function, CAT accurately ranks the dynamic interactions between the macromolecular target and cosolvent molecules. To benchmark, CAT was used for three validated protein targets with allosteric and orthosteric binding sites, using five chemically distinct cosolvent molecules. For all systems, CAT has accurately identified all known sites. CAT can thus assist in computational studies aiming at identification of protein “hotspots” in a wide range of systems. As an easy-to-use computational tool, we expect that CAT will contribute to an increase in the size of the potentially ‘druggable’ human proteome.
Encoding Temporal Regularities and Information Copying in Hippocampal Circuits
Authors: Roberts Terri P. , Kern Felix B. , Fernando Chrisantha , Szathmáry Eörs , Husbands Phil , Philippides Andrew O. , Staras Kevin 
Published: December 2019

AbstractDiscriminating, extracting and encoding temporal regularities is a critical requirement in the brain, relevant to sensory-motor processing and learning. However, the cellular mechanisms responsible remain enigmatic; for example, whether such abilities require specific, elaborately organized neural networks or arise from more fundamental, inherent properties of neurons. Here, using multi-electrode array technology, and focusing on interval learning, we demonstrate that sparse reconstituted rat hippocampal neural circuits are intrinsically capable of encoding and storing sub-second-order time intervals for over an hour timescale, represented in changes in the spatial-temporal architecture of firing relationships among populations of neurons. This learning is accompanied by increases in mutual information and transfer entropy, formal measures related to information storage and flow. Moreover, temporal relationships derived from previously trained circuits can act as templates for copying intervals into untrained networks, suggesting the possibility of circuit-to-circuit information transfer. Our findings illustrate that dynamic encoding and stable copying of temporal relationships are fundamental properties of simple in vitro networks, with general significance for understanding elemental principles of information processing, storage and replication.
The TreaT-Assay: A Novel Urine-Derived Donor Kidney Cell-Based Assay for Prediction of Kidney Transplantation Outcome
Authors: Thieme Constantin J. , Weist Benjamin J. D. , Mueskes Annemarie , Roch Toralf , Stervbo Ulrik , Rosiewicz Kamil , Wehler Patrizia , Stein Maik , Nickel Peter , Kurtz Andreas , Lachmann Nils , Choi Mira , Schmueck-Henneresse Michael , Westhoff Timm H. , Reinke Petra , Babel Nina 
Published: December 2019

AbstractDonor-reactive immunity plays a major role in rejection after kidney transplantation, but analysis of donor-reactive T-cells is not applied routinely. However, it has been shown that this could help to identify patients at risk of acute rejection. A major obstacle is the limited quantity or quality of the required allogenic stimulator cells, including a limited availability of donor-splenocytes or an insufficient HLA-matching with HLA-bank cells. To overcome these limitations, we developed a novel assay, termed the TreaT (Transplant reactive T-cells)-assay. We cultivated renal tubular epithelial cells from the urine of kidney transplant patients and used them as stimulators for donor-reactive T-cells, which we analyzed by flow cytometry. We could demonstrate that using the TreaT-assay the quantification and characterization of alloreactive T-cells is superior to other stimulators. In a pilot study, the number of pre-transplant alloreactive T-cells negatively correlated with the post-transplant eGFR. Frequencies of pre-transplant CD161+alloreactive CD4+T-cells and granzyme B producing alloreactive CD8+T-cells were substantially higher in patients with early acute rejection compared to patients without complications. In conclusion, we established a novel assay for the assessment of donor-reactive memory T-cells based on kidney cells with the potential to predict early acute rejection and post-transplant eGFR.
Interactions between sleep disturbances and Alzheimer’s disease on brain function: a preliminary study combining the static and dynamic functional MRI
Authors: Li Kaicheng , Luo Xiao , Zeng Qingze , Jiaerken Yerfan , Wang Shuyue , Xu Xiaopei , Xu Xiaojun , Xu Jingjing , Wang Chao , Zhou Jiong , Huang Peiyu , Zhang Minming 
Published: December 2019

AbstractThough sleep disturbance constitutes the risk factor for Alzheimer’s disease (AD), the underlying mechanism is still unclear. This study aims to explore the interaction between sleep disturbances and AD on brain function. We included 192 normal controls, 111 mild cognitive impairment (MCI), and 30 AD patients, with either poor or normal sleep (PS, NS, respectively). To explore the strength and stability of brain activity, we used static amplitude of low-frequency fluctuation (sALFF) and dynamic ALFF (dALFF) variance. Further, we examined white matter hyperintensities (WMH) and amyloid PET deposition, representing the vascular risk factor and AD-related hallmark, respectively. We observed that sleep disturbance significantly interacted with disease severity, exposing distinct effects on sALFF and dALFF variance. Interestingly, PS groups showed the dALFF variance trajectory of initially increased, then decreased and finally increased along the AD spectrum, while showing the opposite trajectory of sALFF. Further correlation analysis showed that the WMH burden correlates with dALFF variance in PS groups. Conclusively, our study suggested that sleep disturbance interacts with AD severity, expressing as effects of compensatory in MCI and de-compensatory in AD, respectively. Further, vascular impairment might act as important pathogenesis underlying the interaction effect between sleep and AD.
Different level of virtualization of sight and touch produces the uncanny valley of avatar’s hand embodiment
Authors: D’Alonzo M. , Mioli A. , Formica D. , Vollero L. , Di Pino G. 
Published: December 2019

AbstractHumans increasingly often act through virtual and robotic avatars, which can feed back to their user only virtual sensory information. Since avatar is user’s embodiment and body image is mostly based on senses, how virtualization of sensory inputs affects avatar self-attribution is a key question for understanding nowadays human behavior. By manipulating visual and tactile inputs in a series of experiments fashioned after the rubber hand illusion, we assessed the relative weight of the virtualization of sight (Real, Robotic, Virtual) and of touch (Real, Virtual) on artificial hand embodiment. Virtualization decreased embodiment, but unexpectedly lowest embodiment was found when only one sense was virtual. Discordant levels of virtualization of sight and touch elicited revulsion, extending the concept of the uncanny valley to avatar embodiment. Besides timing, spatial constraints and realism of feedback, a matched degree of virtualization of seen and felt stimuli is a further constraint in building the representation of the body.
Association between anemia and hyperuricemia: results from the Korean National Health and Nutrition Examination Survey
Authors: Eun Yeonghee , Han Kyung-Do , Kim Da Hye , Kim In Young , Park Eun-Jung , Lee Seulkee , Cha Hoon-Suk , Koh Eun-Mi , Lee Jaejoon , Kim Hyungjin 
Published: December 2019

AbstractHyperuricemia and anemia share several comorbidities, but the association between the two conditions remains unclear. The purpose of this study was to investigate the association between hyperuricemia and anemia. Data of 10794 subjects from the Korean National Health and Nutrition Examination Survey conducted in 2016–2017 were analyzed using multivariate logistic regression analyses. An association between anemia and hyperuricemia was not evident in subjects without chronic kidney disease (CKD). In patients with CKD, anemia increased the risk of hyperuricemia by 2-fold. This association remained significant when adjusting for the glomerular filtration rate. In subgroup analyses, the association of anemia with hyperuricemia was significant in subjects aged ≥65 years, and in those with diabetes or hypertension. Subgroup analyses of CKD patients showed similar results. In the current study using data from Korean representative samples, anemia in subjects with CKD was associated with a 2-fold increase in the risk of hyperuricemia, which remained significant even after adjustment for renal function.
Correlates of individual variation in the porphyrin-based fluorescence of red-necked nightjars (Caprimulgus ruficollis)
Authors: Camacho Carlos , Negro Juan José , Redondo Iraida , Palacios Sebastián , Sáez-Gómez Pedro 
Published: December 2019

AbstractMany nocturnal animals, including invertebrates such as scorpions and a variety of vertebrate species, including toadlets, flying squirrels, owls, and nightjars, emit bright fluorescence under ultraviolet light. However, the ecological significance of this unique coloration so attached to nocturnality remains obscure. Here, we used an intensively studied population of migratory red-necked nightjars (Caprimulgus ruficollis) to investigate inter-individual variation in porphyrin-based pink fluorescence according to sex, age, body condition, time of the year, and the extent of white plumage patches known to be involved in sexual communication. Males and females exhibited a similar extent of pink fluorescence on the under-side of the wings in both juvenile and adult birds, but males had larger white patches than females. Body condition predicted the extent of pink fluorescence in juvenile birds, but not in adults. On average, the extent of pink fluorescence in juveniles increased by ca. 20% for every 10-g increase in body mass. For both age classes, there was a slight seasonal increase (1–4% per week) in the amount of fluorescence. Our results suggest that the porphyrin-based coloration of nightjars might signal individual quality, at least in their first potential breeding season, although the ability of these and other nocturnal birds to perceive fluorescence remains to be unequivocally proven.
The Western Diet Regulates Hippocampal Microvascular Gene Expression: An Integrated Genomic Analyses in Female Mice
Authors: Nuthikattu Saivageethi , Milenkovic Dragan , Rutledge John , Villablanca Amparo 
Published: December 2019

AbstractHyperlipidemia is a risk factor for dementia, and chronic consumption of a Western Diet (WD) is associated with cognitive impairment. However, the molecular mechanisms underlying the development of microvascular disease in the memory centers of the brain are poorly understood. This pilot study investigated the nutrigenomic pathways by which the WD regulates gene expression in hippocampal brain microvessels of female mice. Five-week-old female low-density lipoprotein receptor deficient (LDL-R−/−) and C57BL/6J wild type (WT) mice were fed a chow or WD for 8 weeks. Metabolics for lipids, glucose and insulin were determined. Differential gene expression, gene networks and pathways, transcription factors, and non-protein coding RNAs were evaluated by genome-wide microarray and bioinformatics analysis of laser captured hippocampal microvessels. The WD resulted in differential expression of 2,412 genes. The majority of differential gene expression was attributable to differential regulation of cell signaling proteins and their transcription factors, approximately 7% was attributable to differential expression of miRNAs, and a lesser proportion was due to other non-protein coding RNAs, primarily long non-coding RNAs (lncRNAs) and small nucleolar RNAs (snoRNAs) not previously described to be modified by the WD in females. Our findings revealed that chronic consumption of the WD resulted in integrated multilevel molecular regulation of the hippocampal microvasculature of female mice and may provide one of the mechanisms underlying vascular dementia.