bluuebunny/crossref_metadata_2025_split huggingface dataset:
Direct Inversion of S‐P Differential Arrival Times for Ratio in SE Asia
Authors: Zenonos Aristides , De Siena Luca , Widiyantoro Sri , Rawlinson Nicholas 
Published: April 2020

AbstractSoutheast Asia lies within one of the most complex tectonic settings on Earth and exhibits a range of features, including strongly curved subduction zones, arc‐continent collision, and slab break‐off, which are not well understood. To help gain insight into mantle structure and processes beneath this region, we perform an inversion for variations in Vp, Vs, and
structure using arrival time information from the ISC‐EHB catalog. The oceanic lithosphere subducting beneath Java is imaged as a positive dVp and negative d(Vp/Vs) anomaly. At 200 km depth, the forearc mantle beneath Sumatra and Java is revealed by positive dVp and d(Vp/Vs) anomalies which cease at Sumba island, where negative d(Vp/Vs) anomalies mark the presence of cold Australian lithosphere (down to 200–250 km depth) which is colliding with Sundaland. These negative d(Vp/Vs) anomalies depict a ∼WE trending structure that appears to correspond with the underthrusting of Australian continental crust. One notable salient has a location and shape which appears to coincide with those of ancient terranes or a Gondwana‐related microcontinent reconstructed by paleogeographic studies and may have been entrained in the subduction process. The velocity and d(Vp/Vs) patterns beneath the Banda Arc support the existence of a single curved subducting slab associated with rollback. The extreme extensional strike‐slip setting in Seram produces the highest positive d(Vp/Vs) anomalies in the model which may be due to one or more of widespread serpentinization, high concentrations of intraslab fluid‐filled faulting, and mantle upwelling.
Promoter-anchored chromatin interactions predicted from genetic analysis of epigenomic data
Authors: Wu Yang , Qi Ting , Wang Huanwei , Zhang Futao , Zheng Zhili , Phillips-Cremins Jennifer E. , Deary Ian J. , McRae Allan F. , Wray Naomi R. , Zeng Jian , Yang Jian 
Published: April 2020

AbstractPromoter-anchored chromatin interactions (PAIs) play a pivotal role in transcriptional regulation. Current high-throughput technologies for detecting PAIs, such as promoter capture Hi-C, are not scalable to large cohorts. Here, we present an analytical approach that uses summary-level data from cohort-based DNA methylation (DNAm) quantitative trait locus (mQTL) studies to predict PAIs. Using mQTL data from human peripheral blood ($$n = 1980$$
n
=
1980
), we predict 34,797 PAIs which show strong overlap with the chromatin contacts identified by previous experimental assays. The promoter-interacting DNAm sites are enriched in enhancers or near expression QTLs. Genes whose promoters are involved in PAIs are more actively expressed, and gene pairs with promoter-promoter interactions are enriched for co-expression. Integration of the predicted PAIs with GWAS data highlight interactions among 601 DNAm sites associated with 15 complex traits. This study demonstrates the use of mQTL data to predict PAIs and provides insights into the role of PAIs in complex trait variation.
Near-infrared observations of active asteroid (3200) Phaethon reveal no evidence for hydration
Authors: Takir Driss , Kareta Theodore , Emery Joshua P. , Hanuš Josef , Reddy Vishnu , Howell Ellen S. , Rivkin Andrew S. , Arai Tomoko 
Published: April 2020

AbstractAsteroid (3200) Phaethon is an active near-Earth asteroid and the parent body of the Geminid Meteor Shower. Because of its small perihelion distance, Phaethon’s surface reaches temperatures sufficient to destabilize hydrated materials. We conducted rotationally resolved spectroscopic observations of this asteroid, mostly covering the northern hemisphere and the equatorial region, beyond 2.5-µm to search for evidence of hydration on its surface. Here we show that the observed part of Phaethon does not exhibit the 3-µm hydrated mineral absorption (within 2σ). These observations suggest that Phaethon’s modern activity is not due to volatile sublimation or devolatilization of phyllosilicates on its surface. It is possible that the observed part of Phaethon was originally hydrated and has since lost volatiles from its surface via dehydration, supporting its connection to the Pallas family, or it was formed from anhydrous material.
Simultaneous human intracerebral stimulation and HD-EEG, ground-truth for source localization methods
Authors: Mikulan Ezequiel , Russo Simone , Parmigiani Sara , Sarasso Simone , Zauli Flavia Maria , Rubino Annalisa , Avanzini Pietro , Cattani Anna , Sorrentino Alberto , Gibbs Steve , Cardinale Francesco , Sartori Ivana , Nobili Lino , Massimini Marcello , Pigorini Andrea 
Published: April 2020

AbstractPrecisely localizing the sources of brain activity as recorded by EEG is a fundamental procedure and a major challenge for both research and clinical practice. Even though many methods and algorithms have been proposed, their relative advantages and limitations are still not well established. Moreover, these methods involve tuning multiple parameters, for which no principled way of selection exists yet. These uncertainties are emphasized due to the lack of ground-truth for their validation and testing. Here we present the Localize-MI dataset, which constitutes the first open dataset that comprises EEG recorded electrical activity originating from precisely known locations inside the brain of living humans. High-density EEG was recorded as single-pulse biphasic currents were delivered at intensities ranging from 0.1 to 5 mA through stereotactically implanted electrodes in diverse brain regions during pre-surgical evaluation of patients with drug-resistant epilepsy. The uses of this dataset range from the estimation of in vivo tissue conductivity to the development, validation and testing of forward and inverse solution methods.
The CDK inhibitor p57Kip2 enhances the activity of the transcriptional coactivator FHL2
Authors: Kullmann Michael Keith , Podmirseg Silvio Roland , Roilo Martina , Hengst Ludger 
Published: April 2020

AbstractThe eukaryotic cell cycle is negatively regulated by cyclin-dependent kinase inhibitors (CKIs). p57Kip2 is a member of the Cip/Kip family of CKIs and frequently inactivated by genomic mutations associated with human overgrowth disorders. There is increasing evidence for p57 to control cellular processes in addition to cell cycle and CDK regulation including transcription, apoptosis, migration or development. In order to obtain molecular insights to unknown functions of p57, we performed a protein interaction screen. We identified the transcription regulator four-and-a-half LIM-only protein 2 (FHL2) as a novel p57-binding protein. Co-immunoprecipitation and reporter gene assays were used to elucidate the physiological and functional relevance of p57/FHL2 interaction. We found in cancer cells that endogenous p57 and FHL2 are in a complex. We observed a substantial induction of established FHL2-regulated gene promoters by p57 in reporter gene experiments and detected strong induction of the intrinsic transactivation activity of FHL2. Treatment of cells with histone deacetylase (HDAC) inhibitors and binding of exogenous FHL2 to HDACs indicated repression of FHL2 transcription activity by HDACs. In the presence of the HDAC inhibitor sodium butyrate activation of FHL2 by p57 is abrogated suggesting that p57 shares a common pathway with HDAC inhibitors. p57 competes with HDACs for FHL2 binding which might partly explain the mechanism of FHL2 activation by p57. These results suggest a novel function of p57 in transcription regulation.
Prime factorization algorithm based on parameter optimization of Ising model
Authors: Wang Baonan , Hu Feng , Yao Haonan , Wang Chao 
Published: April 2020

AbstractThis paper provides a new (second) way, which is completely different from Shor’s algorithm, to show the optimistic potential of a D-Wave quantum computer for deciphering RSA and successfully factoring all integers within 10000. Our method significantly reduced the local field coefficient $$h$$h and coupling term coefficient $$J$$J by more than 33% and 26%, respectively, of those of Ising model, which can further improve the stability of qubit chains and improve the upper bound of integer factorization. In addition, our results obtained the best index (20-bit integer (1028171)) of quantum computing for deciphering RSA via the quantum computing software environment provided by D-Wave. Furthermore, Shor’s algorithm requires approximately 40 qubits to factor the integer 1028171, which is far beyond the capacity of universal quantum computers. Thus, post quantum cryptography should further consider the potential of the D-Wave quantum computer for deciphering the RSA cryptosystem in future.
Magnetic field sensor based on magnetoplasmonic crystal
Authors: Belyaev Victor K. , Rodionova Valeria V. , Grunin Andrey A. , Inoue Mitsuteru , Fedyanin Andrey A. 
Published: April 2020

AbstractHere we report on designing a magnetic field sensor based on magnetoplasmonic crystal made of noble and ferromagnetic metals deposited on one-dimensional subwavelength grating. The experimental data demonstrate resonant transverse magneto-optical Kerr effect (TMOKE) at a narrow spectral region of 50 nm corresponding to the surface plasmon-polaritons excitation and maximum modulation of the reflected light intensity of 4.5% in a modulating magnetic field with the magnitude of 16 Oe. Dependences of TMOKE on external alternating current (AC) and direct current (DC) magnetic field demonstrate that it is a possibility to use the magnetoplasmonic crystal as a high-sensitive sensing probe. The achieved sensitivity to DC magnetic field is up to 10−6 Oe at local area of 1 mm2.
Conflicting evidence for the use of caudal autotomy in mesosaurs
Authors: MacDougall Mark J. , Verrière Antoine , Wintrich Tanja , LeBlanc Aaron R. H. , Fernandez Vincent , Fröbisch Jörg 
Published: April 2020

AbstractThe early Permian mesosaurs were the first amniotes to re-invade aquatic environments. One of their most controversial and puzzling features is their distinctive caudal anatomy, which has been suggested as a mechanism to facilitate caudal autotomy. Several researchers have described putative fracture planes in mesosaur caudal vertebrae — unossified regions in the middle of caudal vertebral centra — that in many extant squamates allow the tail to separate and the animal to escape predation. However, the reports of fracture planes in mesosaurs have never been closely investigated beyond preliminary descriptions, which has prompted scepticism. Here, using numerous vertebral series, histology, and X-ray computed tomography, we provide a detailed account of fracture planes in all three species of mesosaurs. Given the importance of the tail for propulsion in many other aquatic reptiles, the identification of fracture planes in mesosaurs has important implications for their aquatic locomotion. Despite mesosaurs apparently having the ability to autotomize their tail, it is unlikely that they actually made use of this behaviour due to a lack of predation pressure and no record of autotomized tails in articulated specimens. We suggest that the presence of fracture planes in mesosaurs is an evolutionary relic and could represent a synapomorphy for an as-yet undetermined terrestrial clade of Palaeozoic amniotes that includes the earliest radiation of secondarily aquatic tetrapods.
Larger, but not better, motor adaptation ability inherent in medicated Parkinson’s disease patients revealed by a smart-device-based study
Authors: Takiyama Ken , Sakurada Takeshi , Shinya Masahiro , Sato Takaaki , Ogihara Hirofumi , Komatsu Taiki 
Published: April 2020

AbstractGenerating appropriate motor commands is an essential brain function. To achieve proper motor control in diverse situations, predicting future states of the environment and body and modifying the prediction are indispensable. The internal model is a promising hypothesis about brain function for generating and modifying the prediction. Although several findings support the involvement of the cerebellum in the internal model, recent results support the influence of other related brain regions on the internal model. A representative example is the motor adaptation ability in Parkinson’s disease (PD) patients. Although this ability provides some hints about how dopamine deficits and other PD symptoms affect the internal model, previous findings are inconsistent; some reported a deficit in the motor adaptation ability in PD patients, but others reported that the motor adaptation ability of PD patients is comparable to that of healthy controls. A possible factor causing this inconsistency is the difference in task settings, resulting in different cognitive strategies in each study. Here, we demonstrate a larger, but not better, motor adaptation ability in PD patients than in healthy controls while reducing the involvement of cognitive strategies and concentrating on implicit motor adaptation abilities. This study utilizes a smart-device-based experiment that enables motor adaptation experiments anytime and anywhere with less cognitive strategy involvement. The PD patients showed a significant response to insensible environmental changes, but the response was not necessarily suitable for adapting to the changes. Our findings support compensatory cerebellar functions in PD patients from the perspective of motor adaptation.
Electrofluidic control of bioactive molecule delivery into soft tissue models based on gelatin methacryloyl hydrogels using threads and surgical sutures
Authors: Cabot Joan M. , Daikuara Luciana Y. , Yue Zhilian , Hayes Patricia , Liu Xiao , Wallace Gordon G. , Paull Brett 
Published: April 2020

AbstractThe delivery of bioactive molecules (drugs) with control over spatial distribution remains a challenge. Herein, we demonstrate for the first time an electrofluidic approach to controlled delivery into soft tissue models based on gelatin methacryloyl (GelMA) hydrogels. This was achieved using a surgical suture, whereby transport of bioactive molecules, including drugs and proteins, was controlled by imposition of an electric field. Commonly employed surgical sutures or acrylic threads were integrated through the hydrogels to facilitate the directed introduction of bioactive species. The platform consisted of two reservoirs into which the ends of the thread were immersed. The anode and cathode were placed separately into each reservoir. The thread was taken from one reservoir to the other through the gel. When current was applied, biomolecules loaded onto the thread were directed into the gel. Under the same conditions, the rate of movement of the biomolecules along GelMA was dependent on the magnitude of the current. Using 5% GelMA and a current of 100 µA, 2 uL of fluorescein travelled through the hydrogel at a constant velocity of 7.17 ± 0.50 um/s and took less than 8 minutes to exit on the thread. Small molecules such as riboflavin migrated faster (5.99 ± 0.40 μm/s) than larger molecules such as dextran (2.26 ± 0.55 μm/s with 4 kDa) or BSA (0.33 ± 0.07 μm/s with 66.5 kDa). A number of commercial surgical sutures were tested and found to accommodate the controlled movement of biomolecules. Polyester, polyglactin 910, glycolide/lactide copolymer and polyglycolic acid braided sutures created adequate fluid connection between the electrodes and the hydrogel. With a view to application in skin inflammatory diseases and wound treatment, wound healing, slow and controlled delivery of dexamethasone 21-phosphate disodium salt (DSP), an anti-inflammatory prodrug, was achieved using medical surgicryl PGA absorbable suture. After 2 hours of electrical stimulation, still 81.1% of the drug loaded was encapsulated within the hydrogel.
Controlling oxygen coordination and valence of network forming cations
Authors: Aoyagi Takuya , Kohara Shinji , Naito Takashi , Onodera Yohei , Kodama Motomune , Onodera Taigo , Takamatsu Daiko , Tahara Shuta , Sakata Osami , Miyake Tatsuya , Suzuya Kentaro , Ohara Koji , Usuki Takeshi , Hayashi Yamato , Takizawa Hirotsugu 
Published: April 2020

AbstractUnderstanding the structure-property relationship of glass material is still challenging due to a lack of periodicity in disordered materials. Here, we report the properties and atomic structure of vanadium phosphate glasses characterized by reverse Monte Carlo modelling based on neutron/synchrotron X-ray diffraction and EXAFS data, supplemented by Raman and NMR spectroscopy. In vanadium-rich glass, the water durability, thermal stability and hardness improve as the amount of P2O5 increases, and the network former of the glass changes from VOx polyhedra to the interplay between VOx polyhedra and PO4 tetrahedra. We find for the first time that the coordination number of oxygen atoms around a V4+ is four, which is an unusually small coordination number, and plays an important role for water durability, thermal stability and hardness. Furthermore, we show that the similarity between glass and crystal beyond the nearest neighbour distance is important for glass properties. These results demonstrate that controlling the oxygen coordination and valence of the network-forming cation is necessary for designing the properties of glass.
Global trends in mangrove forest fragmentation
Authors: Bryan-Brown Dale N. , Connolly Rod M. , Richards Daniel R. , Adame Fernanda , Friess Daniel A. , Brown Christopher J. 
Published: April 2020

AbstractFragmentation is a major driver of ecosystem degradation, reducing the capacity of habitats to provide many important ecosystem services. Mangrove ecosystem services, such as erosion prevention, shoreline protection and mitigation of climate change (through carbon sequestration), depend on the size and arrangement of forest patches, but we know little about broad-scale patterns of mangrove forest fragmentation. Here we conduct a multi-scale analysis using global estimates of mangrove density and regional drivers of mangrove deforestation to map relationships between habitat loss and fragmentation. Mangrove fragmentation was ubiquitous; however, there are geographic disparities between mangrove loss and fragmentation; some regions, like Cambodia and the southern Caribbean, had relatively little loss, but their forests have been extensively fragmented. In Southeast Asia, a global hotspot of mangrove loss, the conversion of forests to aquaculture and rice plantations were the biggest drivers of loss (>50%) and fragmentation. Surprisingly, conversion of forests to oil palm plantations, responsible for >15% of all deforestation in Southeast Asia, was only weakly correlated with mangrove fragmentation. Thus, the management of different deforestation drivers may increase or decrease fragmentation. Our findings suggest that large scale monitoring of mangrove forests should also consider fragmentation. This work highlights that regional priorities for conservation based on forest loss rates can overlook fragmentation and associated loss of ecosystem functionality.
A neck compression injury criterion incorporating lateral eccentricity
Authors: Whyte Tom , Melnyk Angela D. , Van Toen Carolyn , Yamamoto Shun , Street John , Oxland Thomas R. , Cripton Peter A. 
Published: April 2020

AbstractThere is currently no established injury criterion for the spine in compression with lateral load components despite this load combination commonly contributing to spinal injuries in rollover vehicle crashes, falls and sports. This study aimed to determine an injury criterion and accompanying tolerance values for cervical spine segments in axial compression applied with varying coronal plane eccentricity. Thirty-three human cadaveric functional spinal units were subjected to axial compression at three magnitudes of lateral eccentricity of the applied force. Injury was identified by high-speed video and graded by spine surgeons. Linear regression was used to define neck injury tolerance values based on a criterion incorporating coronal plane loads accounting for specimen sex, age, size and bone density. Larger coronal plane eccentricity at injury was associated with smaller resultant coronal plane force. The level of coronal plane eccentricity at failure appears to distinguish between the types of injuries sustained, with hard tissue structure injuries more common at low levels of eccentricity and soft tissue structure injuries more common at high levels of eccentricity. There was no relationship between axial force and lateral bending moment at injury which has been previously proposed as an injury criterion. These results provide the foundation for designing and evaluating strategies and devices for preventing severe spinal injuries.
RNase E-dependent degradation of tnaA mRNA encoding tryptophanase is prerequisite for the induction of acid resistance in Escherichia coli
Authors: Kanda Takeshi , Abiko Genta , Kanesaki Yu , Yoshikawa Hirofumi , Iwai Noritaka , Wachi Masaaki 
Published: April 2020

AbstractAcid-resistance systems are essential for pathogenic Escherichia coli to survive in the strongly acidic environment of the human stomach (pH < 2.5). Among these, the glutamic acid decarboxylase (GAD) system is the most effective. However, the precise mechanism of GAD induction is unknown. We previously reported that a tolC mutant lacking the TolC outer membrane channel was defective in GAD induction. Here, we show that indole, a substrate of TolC-dependent efflux pumps and produced by the tryptophanase encoded by the tnaA gene, negatively regulates GAD expression. GAD expression was restored by deleting tnaA in the tolC mutant; in wild-type E. coli, it was suppressed by adding indole to the growth medium. RNA-sequencing revealed that tnaA mRNA levels drastically decreased upon exposure to moderately acidic conditions (pH 5.5). This decrease was suppressed by RNase E deficiency. Collectively, our results demonstrate that the RNase E-dependent degradation of tnaA mRNA is accelerated upon acid exposure, which decreases intracellular indole concentrations and triggers GAD induction.
Bmi1 inhibitor PTC-209 promotes Chemically-induced Direct Cardiac Reprogramming of cardiac fibroblasts into cardiomyocytes
Authors: Testa Gianluca , Russo Michele , Di Benedetto Giorgia , Barbato Matteo , Parisi Silvia , Pirozzi Flora , Tocchetti Carlo Gabriele , Abete Pasquale , Bonaduce Domenico , Russo Tommaso , Passaro Fabiana 
Published: April 2020

AbstractThe development of therapeutic approaches based on direct cardiac reprogramming of fibroblasts into induced-cardiomyocytes (iCM) has emerged as an attractive strategy to repair the injured myocardium. The identification of the mechanisms driving lineage conversion represents a crucial step toward the development of new and more efficient regenerative strategies. To this aim, here we show that pre-treatment with the Bmi1 inhibitor PTC-209 is sufficient to increase the efficiency of Chemical-induced Direct Cardiac Reprogramming both in mouse embryonic fibroblasts and adult cardiac fibroblasts. PTC-209 induces an overall increase of spontaneously beating iCM at end-stage of reprogramming, expressing high levels of late cardiac markers Troponin T and myosin muscle light chain-2v. The inhibition of Bmi1 expression occurring upon PTC-209 pre-treatment was maintained throughout the reprogramming protocol, contributing to a significant gene expression de-regulation. RNA profiling revealed that, upon Bmi1 inhibition a significant down-regulation of genes associated with immune and inflammatory signalling pathways occurred, with repression of different genes involved in interleukin, cytokine and chemokine pathways. Accordingly, we observed the down-regulation of both JAK/STAT3 and MAPK/ERK1-2 pathway activation, highlighting the crucial role of these pathways as a barrier for cardiac reprogramming. These findings have significant implications for the development of new cardiac regenerative therapies.