bluuebunny/crossref_metadata_2025_split huggingface dataset:
The astrocytic transporter SLC7A10 (Asc-1) mediates glycinergic inhibition of spinal cord motor neurons
Authors: Ehmsen Jeffrey T. , Liu Yong , Wang Yue , Paladugu Nikhil , Johnson Anna E. , Rothstein Jeffrey D. , du Lac Sascha , Mattson Mark P. , Höke Ahmet 
Published: October 2016

AbstractSLC7A10 (Asc-1) is a sodium-independent amino acid transporter known to facilitate transport of a number of amino acids including glycine, L-serine, L-alanine, and L-cysteine, as well as their D-enantiomers. It has been described as a neuronal transporter with a primary role related to modulation of excitatory glutamatergic neurotransmission. We find that SLC7A10 is substantially enriched in a subset of astrocytes of the caudal brain and spinal cord in a distribution corresponding with high densities of glycinergic inhibitory synapses. Accordingly, we find that spinal cord glycine levels are significantly reduced in Slc7a10-null mice and spontaneous glycinergic postsynaptic currents in motor neurons show substantially diminished amplitudes, demonstrating an essential role for SLC7A10 in glycinergic inhibitory function in the central nervous system. These observations establish the etiology of sustained myoclonus (sudden involuntary muscle movements) and early postnatal lethality characteristic of Slc7a10-null mice, and implicate SLC7A10 as a candidate gene and auto-antibody target in human hyperekplexia and stiff person syndrome, respectively.
Study on spin and optical polarization in a coupled InGaN/GaN quantum well and quantum dots structure
Authors: Yu Jiadong , Wang Lai , Di Yang  , Zheng Jiyuan , Xing Yuchen , Hao Zhibiao , Luo Yi , Sun Changzheng , Han Yanjun , Xiong Bing , Wang Jian , Li Hongtao 
Published: October 2016

AbstractThe spin and optical polarization based on a coupled InGaN/GaN quantum well (QW) and quantum dots (QDs) structure is investigated. In this structure, spin-electrons can be temporarily stored in QW, and spin injection from the QW into QDs via spin-conserved tunneling is enabled. Spin relaxation can be suppressed owing to the small energy difference between the initial state in the QW and the final states in the QDs. Photoluminescence (PL) and time-resolved photoluminescence (TRPL) measurements are carried out on optical spin-injection and -detection. Owing to the coupled structure, spin-conserved tunneling mechanism plays a significant role in preventing spin relaxation process. As a result, a higher circular polarization degree (CPD) (~49.1%) is achieved compared with conventional single layer of QDs structure. Moreover, spin relaxation time is also extended to about 2.43 ns due to the weaker state-filling effect. This coupled structure is believed an appropriate candidate for realization of spin-polarized light source.
Multiscale limited penetrable horizontal visibility graph for analyzing nonlinear time series
Authors: Gao Zhong-Ke , Cai Qing , Yang Yu-Xuan , Dang Wei-Dong , Zhang Shan-Shan 
Published: October 2016

AbstractVisibility graph has established itself as a powerful tool for analyzing time series. We in this paper develop a novel multiscale limited penetrable horizontal visibility graph (MLPHVG). We use nonlinear time series from two typical complex systems, i.e., EEG signals and two-phase flow signals, to demonstrate the effectiveness of our method. Combining MLPHVG and support vector machine, we detect epileptic seizures from the EEG signals recorded from healthy subjects and epilepsy patients and the classification accuracy is 100%. In addition, we derive MLPHVGs from oil-water two-phase flow signals and find that the average clustering coefficient at different scales allows faithfully identifying and characterizing three typical oil-water flow patterns. These findings render our MLPHVG method particularly useful for analyzing nonlinear time series from the perspective of multiscale network analysis.
Improved performance of a barrier-discharge plasma jet biased by a direct-current voltage
Authors: Li Xuechen , Li Yaru , Zhang Panpan , Jia Pengying , Dong Lifang 
Published: October 2016

AbstractOne of the challenges that plasma research encounters is how to generate a large-scale plasma plume at atmospheric pressure. Through utilizing a third electrode biased by a direct-current voltage, a longer plasma plume is generated by a plasma jet in dielectric barrier discharge configurations. Results indicate that the plume length increases until it reaches the third electrode with increasing the bias voltage. By fast photography, it is found that the plume consists of two types of streamers under the influence of the bias voltage, which develops from a guided streamer to a branching one with leaving the tube opening. The transition from the guided streamer to the branching one can be attributed to the electric field and the air/argon fraction.
Live-cell imaging of ER-PM contact architecture by a novel TIRFM approach reveals extension of junctions in response to store-operated Ca2+-entry
Authors: Poteser Michael , Leitinger Gerd , Pritz Elisabeth , Platzer Dieter , Frischauf Irene , Romanin Christoph , Groschner Klaus 
Published: October 2016

AbstractNanometer-spaced appositions between endoplasmic reticulum and plasma membrane (ER-PM junctions) stabilized by membrane-joining protein complexes are critically involved in cellular Ca2+-handling and lipid trafficking. ER-PM junctional architecture and plasticity associated with inter-membrane communication are as yet barely understood. Here, we introduce a method to precisely characterize ER-PM junction morphology and dynamics with high temporal resolution and minimal disturbance of junctional intermembrane communication. We show that expression of soluble cytosolic fluorophores in combination with TIRFM enables to delineate ER and PM distance in the range of 10–150 nm. Live-cell imaging of sub-plasmalemmal structures in RBL-2H3 mast cells by this method, designated as fluorescence density mapping (FDM), revealed profound dynamics of ER-PM contact sites in response to store-depletion. We report the existence of a Ca2+-dependent process that expands the junctional ER to enlarge its contact surface with the PM, thereby promoting and stabilizing STIM1-Orai1 competent ER-PM junctions.
Core Amino Acid Residues in the Morphology-Regulating Protein, Mms6, for Intracellular Magnetite Biomineralization
Authors: Yamagishi Ayana , Narumiya Kaori , Tanaka Masayoshi , Matsunaga Tadashi , Arakaki Atsushi 
Published: October 2016

AbstractLiving organisms produce finely tuned biomineral architectures with the aid of biomineral-associated proteins. The functional amino acid residues in these proteins have been previously identified usingin vitroandin silicoexperimentation in different biomineralization systems. However, the investigation in living organisms is limited owing to the difficulty in establishing appropriate genetic techniques. Mms6 protein, isolated from the surface of magnetite crystals synthesized in magnetotactic bacteria, was shown to play a key role in the regulation of crystal morphology. In this study, we have demonstrated a defect in the specific region or substituted acidic amino acid residues in the Mms6 protein for observing their effect on magnetite biomineralizationin vivo. Analysis of the gene deletion mutants and transformants ofMagnetospirillum magneticumAMB-1 expressing partially truncated Mms6 protein revealed that deletions in the N-terminal or C-terminal regions disrupted proper protein localization to the magnetite surface, resulting in a change in the crystal morphology. Moreover, single amino acid substitutions at Asp123, Glu124, or Glu125 in the C-terminal region of Mms6 clearly indicated that these amino acid residues had a direct impact on magnetite crystal morphology. Thus, these consecutive acidic amino acid residues were found to be core residues regulating magnetite crystal morphology.
Prophylaxis of Diallyl Disulfide on Skin Carcinogenic Model via p21-dependent Nrf2 stabilization
Authors: Shan Yunlong , Wei Zhonghong , Tao Li , Wang Siliang , Zhang Feng , Shen Cunsi , Wu Hongyan , Liu Zhaoguo , Zhu Pingting , Wang Aiyun , Chen Wenxing , Lu Yin 
Published: October 2016

AbstractCancer prevention through intake of biologically active natural products appears to be an accessible way to reduce the risk of cancer. Diallyl disulfide (DADS), a major garlic derivative, has exhibited potential role in cancer therapy. The study is aimed to evaluate the prophylactic effect of DADS in chemically induced mouse skin carcinogenesis and investigate the molecular targets mediated by DADS. Two-stage chemically induced carcinogenesis model by cutaneous application of DMBA and subsequent TPA was established to study the prophylactic effect of DADS. As a result, we observed that DADS dose-dependently attenuated skin tumor incidence and multiplicity in the model mice, which was related to the up-regulation of a bunch of antioxidant enzymes activities and the nuclear accumulation of Nrf2. Furthermore, we developed skin carcinogenesis in Nrf2 knockout mice which could reverse the activity of DADS. Finally, we uncovered the underlying mechanism that DADS promoted the endogenous interaction between p21 and Nrf2, which was critical for impairing the Keap1-mediated degradation of Nrf2. Based on the results, we concluded that DADS was a promising cancer chemoprevention agent and suggested a garlic-rich diet might be beneficial to reduce the cancer risk in our daily life.
Effectiveness evaluation of organized screening for esophageal cancer: a case-control study in Linzhou city, China
Authors: Chen Qiong , Yu Liang , Hao Changqing , Wang Jinwu , Liu Shuzheng , Zhang Meng , Zhang Shaokai , Guo Lanwei , Quan Peiliang , Germain Patrick , Zhang Yawei , Sun Xibin 
Published: October 2016

AbstractIn China, esophageal cancer has remained a large burden, and endoscopic screening is expected to reduce esophageal cancer mortality. Therefore, a population-based case-control study was conducted to evaluate the effect of screening. Cases were defined as individuals who had died of esophageal cancer, and controls were residents from the same area (three per case) who had not died of esophageal cancer, matched by gender and birth year. The exposure status (whether cases and controls had ever attended the screening or not) was acquired by inspecting the well documented screening records. A conditional logistic regression model was used to estimate the odds ratios (OR) and their 95% confidence intervals (95% CI). There were 253 cases and 759 controls. The reduction in risk of esophageal cancer mortality in individuals who had ever attended screening was 47% (OR: 0.53, 95% CI: 0.37–0.77). Compared with never-screened subjects, the ORs for screened subjects within 36 and 48 months before the reference date were 0.59(0.39–0.89) and 0.59(0.40–0.87); the ORs for 50–59 year old subjects were 0.48(0.28–0.85). The results suggest a 47% reduction in esophageal cancer mortality risk due to endoscopic screening, which may have significant implications for esophageal cancer screening in China, especially in rural areas.
Genetic analysis of rare coding mutations of CELSR1–3 in congenital heart and neural tube defects in Chinese people
Authors: Qiao Xiaojin , Liu Yahui , Li Peiqiang , Chen Zhongzhong , Li Huili , Yang Xueyan , Finnell Richard H. , Yang Zhangmin , Zhang Ting , Qiao Bin , Zheng Yufang , Wang Hongyan 
Published: October 2016

The planar cell polarity (PCP) pathway is critical for proper embryonic development of the neural tube and heart. Mutations in these genes have previously been implicated in the pathogenesis of neural tube defects (NTDs), but not in congenital heart defects (CHDs) in humans. We systematically identified the mutation patterns of CELSR1–3, one family of the core PCP genes, in human cohorts composed of 352 individuals with NTDs, 412 with CHDs and matched controls. A total of 72 disease-specific, rare, novel, coding mutations were identified, of which 37 were identified in patients with CHDs and 36 in patients with NTDs. Most of these mutations differed between the two cohorts, because only one novel missense mutation in CELSR1 (c.2609G&gt;A p.P870L) was identified in both NTD and CHD patients. Both in vivo and in vitro assays revealed that CELSR1 P870L is a gain-of-function mutation. It up-regulates not only the PCP pathway, but also canonical WNT signalling in cells, and also induces both NTDs and CHDs in zebrafish embryos. As almost equal numbers of mutations were identified in each cohort, our results provided the first evidence that mutations in CELSR genes are as likely to be associated with CHDs as with NTDs, although the specific mutations differ between the two cohorts. Such differences in mutation panels suggested that CELSRs [cadherin, EGF (epidermal growth factor), LAG (laminin A G-type repeat), seven-pass receptors)] might be regulated differently during the development of these two organ systems.
Interference DOA estimation and suppression for GNSS receivers using fully augmentable arrays
Authors: Wang Xiangrong , Amin Moeness , Ahmad Fauzia , Aboutanios Elias 
Published: October 2016

Multiple antenna receivers have been proposed for interference nulling in Global Navigation Satellite Systems (GNSS). An open‐loop anti‐jam approach is considered and an interference direction‐of‐arrival (DOA) estimation technique using fully augmentable non‐uniform linear arrays is introduced. The DOAs of incoming jammers are estimated utilising the minimum output power method applied to the GNSS receiver coarray and through two different approaches of spectrum sensing and polynomial rooting. Subsequently, the strong interferers are cancelled utilising a subspace projection approach, whereas the 30 dB despreading gain of GNSS receivers protects the satellite signals against weak jammers. Supporting simulation results demonstrate that DOA estimation based on polynomial rooting outperforms spectrum sensing and validate the effectiveness of the proposed anti‐jam strategy.
Parasites et cancer : existe-t-il un lien ?
Authors: Cheeseman Kevin , Certad Gabriela , Weitzman Jonathan B. 
Published: October 2016

Le nombre de décès dus au cancer ne cesse d’augmenter. Plus de 20 % des cas de cancers sont d’origine infectieuse qu’elle soit virale, bactérienne ou parasitaire. Si la contribution de virus et de bactéries aux cancers d’origine infectieuse est clairement établie et acceptée, il n’en va pas de même pour les parasites eucaryotes intracellulaires. Ainsi, malgré l’accumulation de données épidémiologiques et cliniques indiquant un lien entre parasites et cancer, la contribution de ces derniers à la tumorigenèse reste floue et peu étudiée. Nous proposons ici un état des lieux sur les liens entre parasites intracellulaires eucaryotes et cancers, et montrons en prenant appui sur trois récentes études, comment les mécanismes des interactions hôtes-parasites peuvent conduire à l’apparition de cancers.
Aberrant H3.3 dynamics in NAc promote vulnerability to depressive-like behavior
Authors: Lepack Ashley E. , Bagot Rosemary C. , Peña Catherine J. , Loh Yong-Hwee E. , Farrelly Lorna A. , Lu Yang , Powell Samuel K. , Lorsch Zachary S. , Issler Orna , Cates Hannah M. , Tamminga Carol A. , Molina Henrik , Shen Li , Nestler Eric J. , Allis C. David , Maze Ian 
Published: October 2016

Significance
Human major depressive disorder is a chronic remitting syndrome that affects millions of individuals worldwide; however, the molecular mechanisms mediating this syndrome remain elusive. Here, using a unique combination of epigenome-wide and behavioral analyses, we demonstrate a role for histone variant dynamics in the nucleus accumbens (NAc)—a critical brain center of reward and mood—contributing to stress susceptibility in mice. These studies, which also demonstrate that molecular blockade of aberrant dynamics in the NAc promotes resilience to chronic stress, promise to aid in the identification of novel molecular targets (i.e., downstream genes displaying altered expression as the result of stress-induced histone dynamics) that may be exploited in the development of more effective pharmacotherapeutics.
Situating the default-mode network along a principal gradient of macroscale cortical organization
Authors: Margulies Daniel S. , Ghosh Satrajit S. , Goulas Alexandros , Falkiewicz Marcel , Huntenburg Julia M. , Langs Georg , Bezgin Gleb , Eickhoff Simon B. , Castellanos F. Xavier , Petrides Michael , Jefferies Elizabeth , Smallwood Jonathan 
Published: October 2016

SignificanceWe describe an overarching organization of large-scale connectivity that situates the default-mode network at the opposite end of a spectrum from primary sensory and motor regions. This topography, based on the differentiation of connectivity patterns, is also embedded in the spatial distance along the cortical surface between these respective systems. In addition, this connectivity gradient accounts for the respective positions of canonical networks and captures a functional spectrum from perception and action to more abstract cognitive functions. These results suggest that the default-mode network consists of regions at the top of a representational hierarchy that describe the current cognitive landscape in the most abstract terms.
Cockayne syndrome group A and B proteins converge on transcription-linked resolution of non-B DNA
Authors: Scheibye-Knudsen Morten , Tseng Anne , Borch Jensen Martin , Scheibye-Alsing Karsten , Fang Evandro Fei , Iyama Teruaki , Bharti Sanjay Kumar , Marosi Krisztina , Froetscher Lynn , Kassahun Henok , Eckley David Mark , Maul Robert W. , Bastian Paul , De Supriyo , Ghosh Soumita , Nilsen Hilde , Goldberg Ilya G. , Mattson Mark P. , Wilson David M. , Brosh Robert M. , Gorospe Myriam , Bohr Vilhelm A. 
Published: October 2016

Significance
In this paper we describe a possible pathogenesis for the accelerated aging disease Cockayne syndrome that entails defective transcription through DNA secondary structures leading to activation of the DNA damage response enzyme poly-ADP-ribose polymerase 1 and downstream mitochondrial derangement. These findings are important because they signify a possible new role of transcription in the resolution of DNA structures that form spontaneously and suggest a possible pathogenesis for this accelerated aging disease.
Structural and functional significance of water permeation through cotransporters
Authors: Zeuthen Thomas , Gorraitz Edurne , Her Ka , Wright Ernest M. , Loo Donald D. F. 
Published: October 2016

Significance
Transport of water and polar solutes across membranes play an important physiological role, and it is widely appreciated that many membrane transport proteins are permeable to water. Molecular dynamics studies of sodium-coupled glucose cotransporters (SGLTs) indicate that water flows through the sugar transport pathway. We test this hypothesis by mutating residues lining the sugar transport pathway through SGLT1, and measuring the changes in the permeability of water and urea before and after their chemical modification. Mutation of outer and inner gate residues and residues involved in sugar binding confirms that water and urea permeate the glucose transport pathway, suggesting that water is involved in sugar transport. SGLT1 is physiologically important in determining osmotic flow across the small intestine.
Critical roles of soluble starch synthase SSIIIa and granule-bound starch synthase Waxy in synthesizing resistant starch in rice
Authors: Zhou Hongju , Wang Lijun , Liu Guifu , Meng Xiangbing , Jing Yanhui , Shu Xiaoli , Kong Xiangli , Sun Jian , Yu Hong , Smith Steven M. , Wu Dianxing , Li Jiayang 
Published: October 2016

SignificanceResistant starch (RS) has the potential to protect against diabetes and reduce the incidence of diarrhea, inflammatory bowel disease, colon cancer, and chronic renal and hepatic diseases. In this study, we identified two critical starch synthase genes which together regulate RS biosynthesis in rice, and we explored their potential interactions as part of a network of starch biosynthetic enzymes. The findings hold promise for applications in breeding varieties with improvement of RS in hot cooked rice and may also have general implications for understanding RS biosynthesis in other major cereal crops.
HiLive: real-time mapping of illumina reads while sequencing
Authors: Lindner Martin S , Strauch Benjamin , Schulze Jakob M , Tausch Simon H , Dabrowski Piotr W , Nitsche Andreas , Renard Bernhard Y 
Published: October 2016

Abstract

Motivation
Next Generation Sequencing is increasingly used in time critical, clinical applications. While read mapping algorithms have always been optimized for speed, they follow a sequential paradigm and only start after finishing of the sequencing run and conversion of files. Since Illumina machines write intermediate output results, HiLive performs read mapping while still sequencing and thereby drastically reduces crucial overall sample analysis time, e.g. in precision medicine.

Methods
We present HiLive as a novel real time read mapper that implements a k-mer based alignment strategy. HiLive continuously reads intermediate BCL files produced by Illumina sequencers and then extends initial k-mer matches by increasingly produced data from the sequencer.

Results
We applied HiLive on real human transcriptome data to show that final read alignments are reported within few minutes after the end of a full Illumina HiSeq 1500 run, while already the necessary conversion to FASTQ files as the standard input to current read mapping methods takes roughly five times as long. Further, we show on simulated and real data that HiLive has comparable accuracy to recent read mappers.

Availability and Implementation
HiLive and its source code are freely available from https://gitlab.com/SimonHTausch/HiLive.

Supplementary information
Supplementary data are available at Bioinformatics online.
Discovery of a new subparsec counterjet in NGC 1275: the inclination angle and the environment
Authors: Fujita Yutaka , Nagai Hiroshi 
Published: October 2016

Abstract
We report on the detection of a new feature at the centre of NGC 1275 in the Perseus cluster, hosting the radio source 3C 84. This feature emerges ∼2 mas (∼0.8 pc) north of the central core in recent 15- and 43-GHz Very Long Baseline Array images, and it seems to be the counterjet to a known radio jet expanding to the south of the core. Apparently, the two jets were born through an outburst around 2005. From the ratio of the apparent lengths of the two jets from the core, we have found that the jet angle to the line of sight is θ = 65° ± 16°, which is not much different from the angle of the outer jets generated by an activity around 1959 and constrains theories on gamma-ray emission from jets. The new northern jet has a strongly inverted spectrum in contrast to the southern jet. This suggests that the central black hole is surrounded by a subparsec-scale accretion disc with the density of ≳ 105 cm−3. The brightness of the counterjet suggests that the disc is highly inhomogeneous. The ambient gas density in the direction of the jet is ∼8 cm−3 if the current jet activity is similar to the past average.