bluuebunny/crossref_metadata_2025_split huggingface dataset:
Soluble syndecan‐1 (SDC1) serum level as an independent pre‐operative predictor of cancer‐specific survival in prostate cancer
Authors: Szarvas Tibor , Reis Henning , vom Dorp Frank , Tschirdewahn Stephan , Niedworok Christian , Nyirady Peter , Schmid Kurt W. , Rübben Herbert , Kovalszky Ilona 
Published: April 2016

BACKGROUNDPSA‐screening detects many cases of clinically non‐aggressive prostate cancer (PC) leading to significant overtreatment. Therefore, pre‐operatively available prognostic biomarkers are needed to help therapy decisions. Syndecan‐1 (SDC1) is a promising prognostic tissue marker in several cancers including PC but serum levels of shedded SDC1‐ectodomain (sSDC1) have not been assessed in PC.METHODSA total of 150 patients with PC were included in this study (n = 99 serum samples, n = 103 paraffin‐embedded samples (FFPE), n = 52 overlap). SDC1 protein expression and cellular localization was evaluated by immunohistochemistry (IHC), while sSDC1 serum concentrations were measured by ELISA. Serum sSDC1 levels were compared to those of MMP7, which is known to be a protease involved in SDC1 ectodomain‐shedding. Clinico‐pathological and follow‐up data were collected and correlated with SDC1 tissue and serum levels. Disease (PC)‐specific (DSS) and overall‐survival (OS) were primary endpoints.RESULTSMedian follow‐up was 167 months in the serum‐ and 146 months in the FFPE‐group. SDC1‐reactivity was higher in non‐neoplastic prostate glands compared to PC. In addition, cytoplasmatic, but not membranous SDC1 expression was enhanced in PC patients with higher Gleason‐score >6 PC (P = 0.016). Soluble SDC1‐levels were higher in patients with Gleason‐score >6 (P = 0.043) and metastatic disease (P = 0.022) as well as in patients with progressed disease treated with palliative transurethral resection (P = 0.002). In addition, sSDC1 levels were associated with higher MMP7 serum concentration (P = 0.005). In univariable analyses, only sSDC1‐levels exhibited a trend to unfavorable DSS (P = 0.077). In a multivariable pre‐operative model, high pre‐operative sSDC1‐level (>123 ng/ml) proved to be an independent marker of adverse OS (P = 0.048) and DSS (P = 0.020).CONCLUSIONSThe present study does not confirm the prognostic relevance of SDC1‐IHC. The significant higher sSDC1 serum levels in advanced cases of PC, suggest that SDC1 shedding might be involved in PC progression. Additionally, high sSDC1‐level proved to be an independent factor of adverse OS and DSS in a multivariable pre‐operative model, making evaluation of sSDC1‐levels a promising tool for pre‐operative risk‐stratification and/or therapy monitoring. Prostate 76:977–985, 2016. © 2016 Wiley Periodicals, Inc.
Central limit theorems for the radial spanning tree
Authors: Schulte Matthias , Thäle Christoph 
Published: April 2016

AbstractConsider a homogeneous Poisson point process in a compact convex set in d‐dimensional Euclidean space which has interior points and contains the origin. The radial spanning tree is constructed by connecting each point of the Poisson point process with its nearest neighbour that is closer to the origin. For increasing intensity of the underlying Poisson point process the paper provides expectation and variance asymptotics as well as central limit theorems with rates of convergence for a class of edge functionals including the total edge length. © 2016 Wiley Periodicals, Inc. Random Struct. Alg., 50, 262–286, 2017
Surface characterization of CuSn thin films deposited by RF co‐sputtering method
Authors: Kang Yujin , Park Juyun , Kang Yong‐Cheol 
Published: April 2016

AbstractCuSn thin films were deposited by the radio‐frequency (RF) magnetron co‐sputtering method on Si(100) with Cu and Sn metal targets with various RF powers. The thickness of the films was fixed at 200 ± 10 nm. The synthesized CuSn thin films mainly consisted of Cu20Sn6 and Cu39Sn11 phases, which was revealed by an X‐ray diffraction (XRD) study. The high‐resolution Cu 2p XPS and Cu LMM Auger electron spectra indicate that metallic Cu oxidized to Cu+ and Cu2+ as the RF power on Cu target increased. The atomic ratios of Sn0 and Sn4+ decreased, while that of Sn2+ increased with increasing RF power on the Cu target. The polar surface free energy (SFE) component has a different tendency in comparison with the total SFE and the dispersive SFE component. The dispersive SFE component was the dominating contributing factor to the total SFE compared with the polar SFE. Copyright © 2016 John Wiley & Sons, Ltd.
Saikokaryukotsuboreito during pregnancy protects rat neonates from maternal cannibalism and death in a neurolathyrism experimental model
Authors: Kusama‐Eguchi Kuniko , Kawaguchi Kimino , Yakubo Syuji , Kitanaka Susumu , Matsuzaki Keiichi , Takamiya Tomoko , Fukuda Noboru , Masuko Takashi , Hirose Dai , Makino Mitsuko , Ueda Yukiko , Ikegami Fumio , Iijima Hiroshi 
Published: April 2016

ABSTRACTAimStress during the perinatal period may result in failure to thrive in the newborn. A possible preventive effect of two kampo formulae, saikokaryukotsuboreito (SRB) and hachimijiogan (HJG) on the incidence of hind‐leg paraparesis and mortality in newborns, including that due to maternal cannibalism, were examined in neurotoxin‐treated rats.MethodsFemale Wistar/ST rats treated with SRB or HJG during pregnancy and the lactation period were separated from their pups for 6 h daily and then reunited. The pups were treated daily with a neurotoxin, l‐β‐
N
‐oxalyl‐α,β‐diaminopropionic acid (l‐β‐ODAP), to cause neurolathyrism‐like symptoms, a motor defect leading to hind‐leg paraparesis.ResultsAlthough SRB and HJG treatment in mother rats did not affect the incidence of motor defect (paraparesis) in the pups, pup mortality was greatly and significantly decreased during the treatment period in the SRB group but not in the HJG group.ConclusionSRB treatment in mother rats is effective in decreasing pup mortality mainly due to cannibalism, thus suggesting its potential for anxiety disorder during the perinatal period in humans.
Inhibition of NF‐κB and metastasis in irinotecan (CPT‐11)‐resistant LoVo colon cancer cells by thymoquinone via JNK and p38
Authors: Chen Ming‐Cheng , Lee Nien‐Hung , Hsu Hsi‐Hsien , Ho Tsung‐Jung , Tu Chuan‐Chou , Chen Ray‐Jade , Lin Yueh‐Min , Viswanadha Vijaya Padma , Kuo Wei‐Wen , Huang Chih‐Yang 
Published: April 2016

ABSTRACTClinically used chemotherapeutics can effectively eliminate most tumor cells. However, they cause unwanted side effects and result in chemoresistance. To overcome such problems, phytochemicals are now used to treat cancers by means of targeted therapy. Thymoquinone (TQ) is used to treat different cancers (including colon cancer) and is an NF‐κB inhibitor. Irinotecan resistant (CPT‐11‐R) LoVo colon cancer cell line was previous constructed by step‐wise CPT‐11 challenges to un‐treated parental LoVo cells and expresses EGFR/IKKα/β/NF‐κB pathway. TQ resulted in reduced total and phosphorylation of IKKα/β and NF‐κB and decreased metastasis in CPT‐11‐R cells. TQ not only reduced activity of ERK1/2 and PI3K but also activated JNK and p38. Furthermore, TQ was also found to suppress metastasis through activation of JNK and p38. Therefore, TQ suppressed metastasis through NF‐κB inhibition and activation of JNK and p38 in CPT‐11‐R LoVo colon cancer cells. © 2016 Wiley Periodicals, Inc. Environ Toxicol 32: 669–678, 2017.
Conflict and cooperation in the water‐security nexus: a global comparative analysis of river basins under climate change
Authors: Link P. Michael , Scheffran Jürgen , Ide Tobias 
Published: April 2016

Adequate fresh water availability is an important factor for human security in many parts of the world. In transboundary river basins, decreased water supply due to local environmental change and global climate change and increased water demand due to growing populations and continued economic development can aggravate water scarcity. Contrary to the claim that water scarcity may result in an increased risk of armed conflict, there is no simple relationship between freshwater availability and violent conflict. Other crucial factors need to be taken into consideration that also directly influence resource availability and personal human well‐being. In this review, we assess the scientific literature on conflict and cooperation in transboundary river systems. Most international river basins are already jointly managed by the riparians, but successful management in times of climate change necessitates the inclusion of more factors besides mere allocation schemes. On the basis of a substantial body of literature on the management of transboundary watersheds, an analytical framework of the water‐security nexus is developed that integrates the physical and socioeconomic pathways connecting water availability with conflict or cooperation. This framework is subsequently applied to two transboundary river basins—the Nile River and the Syr Darya/Amu Darya—as they represent two world regions that could become future water hot spots. An improved understanding of the developments leading to water conflicts and their interaction can help to successfully reduce the risk of water conflicts in these regions and to move toward increased cooperation among the riparians of transboundary river systems. WIREs Water 2016, 3:495–515. doi: 10.1002/wat2.1151This article is categorized under:

Engineering Water > Planning Water
Science of Water > Water and Environmental Change
Human Water > Water Governance
Seasonal movements of greater sage‐grouse populations in Utah: Implications for species conservation
Authors: Dahlgren David K. , Messmer Terry A. , Crabb Benjamin A. , Larsen Randy T. , Black Todd A. , Frey S. Nicole , Thacker Eric T. , Baxter Rick J. , Robinson Jason D. 
Published: April 2016

ABSTRACTGreater sage‐grouse (Centrocercus urophasianus; sage‐grouse) is considered an umbrella species for sagebrush (Artemisia spp.) landscapes in western North America. In 2015, the U.S. Fish and Wildlife Service determined sage‐grouse unwarranted for protection under the Endangered Species Act (1973) because of conservation actions in priority areas. Understanding seasonal movements is key to delineation and assessment of priority conservation areas. We monitored radiomarked sage‐grouse from 1998 to 2013 throughout Utah, USA, to determine seasonal movements. Maximum distances from nearest lek to nesting, summer, and winter locations across all radiomarked grouse averaged 2.20 km (90th percentile = 5.06 km), 3.93 km (90th percentile = 8.45 km), and 3.76 km (90th percentile = 7.15 km), respectively. Maximum movements from nest to summer, nest to winter, and between summer and winter locations across all radiomarked grouse averaged 5.77 km (90th percentile = 13.60 km), 11.77 km (90th percentile = 26.36 km), and 14.75 km (90th percentile = 30.77 km), respectively. Maximum distance from lek of capture to summer locations was greater for males than females, whereas females moved farther than males from lek to winter and summer to winter locations. Adult females moved farther than yearlings from lek to nest and summer to winter areas. The state of Utah's Sage‐Grouse Management Areas included approximately 85% of the radiotelemetry seasonal locations and >95% when weighted by lek counts. Our results suggest that seasonal movements could be facilitated by increasing usable habitat space through management actions, as emphasized in Utah's sage‐grouse plan. © 2016 The Wildlife Society.
Syntheses, Crystal Structures, and Magnetic Properties of Two Mononuclear Nickel‐Nitronyl Nitroxide Radical Compounds
Authors: Zhai Bin , Li Zhong‐Yi , Zhang Fu‐Qiang , Li Su‐Zhi , Zhang Fu‐Li , Zhang Chi , Zhang Xiang‐Fei , Cao Guang‐Xiu , Ma Yue 
Published: April 2016

AbstractTwo nickel(II) complexes were synthesized and structurally as well as magnetically characterized by using two positional isomeric nitronyl nitroxide radical ligands and H3cda as co‐ligand: [Ni(NIToPy)(cda)]H2O·CH3OH (1) and [Ni(IM4Py)2(cda)H2O] (2) [NIToPy = 2‐(3′‐pyridinyl)‐4,4,5,5‐tetramethyl‐4,5‐dihydro‐1H‐imidazolyl‐1‐oxyl‐3‐oxide; IM4Py = 2‐(4′‐pyridinyl)‐4,4,5,5‐tetramethylimidazoline‐l‐oxyl; H3cda = 4‐hydroxypyridine‐2,6‐dicarboxylic acid]. Single‐crystal structures analyses show that both complexes have similar mononuclear structures, in which the central NiII ions are hexacoordinated with a distorted octahedral arrangement. The magnetic properties of 1 and 2 were studied, and antiferromagnetic interactions between NiII ion and radicals are observed.
The exon junction complex in neural development and neurodevelopmental disease
Authors: McMahon J.J. , Miller E.E. , Silver D.L. 
Published: April 2016

AbstractPost‐transcriptional mRNA metabolism has emerged as a critical regulatory nexus in proper development and function of the nervous system. In particular, recent studies highlight roles for the exon junction complex (EJC) in neurodevelopment. The EJC is an RNA binding complex composed of 3 core proteins, EIF4A3 (DDX48), RBM8A (Y14), and MAGOH, and is a major hub of post‐transcriptional regulation. Following deposition onto mRNA, the EJC serves as a platform for the binding of peripheral factors which together regulate splicing, nonsense mediated decay, translation, and RNA localization. While fundamental molecular roles of the EJC have been well established, the in vivo relevance in mammals has only recently been examined. New genetic models and cellular assays have revealed core and peripheral EJC components play critical roles in brain development, stem cell function, neuronal outgrowth, and neuronal activity. Moreover, human genetics studies increasingly implicate EJC components in the etiology of neurodevelopmental disorders. Collectively, these findings indicate that proper dosage of EJC components is necessary for diverse aspects of neuronal development and function. Going forward, genetic models of EJC components will provide valuable tools for further elucidating functions in the nervous system relevant for neurodevelopmental disease.
How various drugs affect anxiety‐related behavior in male and female rats prenatally exposed to methamphetamine
Authors: Macúchová E. , Ševčíková M. , Hrebíčková I. , Nohejlová K. , Šlamberová R. 
Published: April 2016

AbstractDifferent forms of anxiety‐related behavior have been reported after a single drug use of many abused substances, however, less is known about how males and females are affected differently from exposure to various drugs. Furthermore, chronic prenatal methamphetamine (MA) exposure was shown to predispose the animal to an increased sensitivity to drugs administrated in adulthood. Using the Elevated plus‐maze test (EPM), the first aim of the present study was to examine how male and female rats are affected by acute drug treatment with subcutaneously (s.c.) administrated (a) MA (1 mg/kg); (b) drugs with a similar mechanism of action to MA: amphetamine (AMP, 1 mg/kg), cocaine (COC, 5 mg/kg), 3,4‐methylenedioxymethamphetamine (MDMA, 5 mg/kg); and (c) drugs with different mechanisms of action: morphine (MOR, 5 mg/kg), and Δ 9‐tetrahydrocannabinol (THC, 2 mg/kg). The second aim was to determine if prenatally MA‐exposed (5 mg/kg) animals show an increased sensitivity to adult drug treatment. The parameters analyzed were divided into two categories: anxiety‐related behavior and anxiety‐unrelated/exploratory behavior. Our results showed in female rats a decreased percentage of the time spent in the closed arms (CA) after MA, and an increased percentage of the time spent in the open arms (OA) after MA, AMP, and COC treatment, indicating an anxiolytic‐like effect. In females, MDMA and THC treatment increased the percentage of the time spent in the CA. An increased percentage of the time spent in the CA was also seen after MOR treatment in females as well as in males, indicating an anxiogenic‐like effect. As far as the interaction between prenatal MA exposure and adult drug treatment is concerned, there was no effect found. In conclusion, it seems that: (a) in some cases female rats are more vulnerable to acute drug treatment, in terms of either anxiogenic‐ or anxiolytic‐like effects; (b) prenatal MA exposure does not sensitize animals to the anxiety‐related effects of any of the drugs.
Incorporating uterine artery embolization in the treatment of cesarean scar pregnancy following diagnostic ultrasonography
Authors: Li Yang , Wang Weiwen , Yang Ting , Wei Xing , Yang Xiaofeng 
Published: April 2016

AbstractObjectiveTo evaluate combining uterine artery embolization (UAE) with other treatments for cesarean scar pregnancy (CSP).MethodsA retrospective study included patients attending the First affiliated Hospital of Xi'an Jiaotong University, China, between March 1, 2009 and March 31, 2014, who were diagnosed with CSP. Patients were classified by ultrasonography as having endogenous CSP (CSP type I [CSP‐I]) or exogenous CSP (CSP type II [CSP‐II]). Patient outcomes were compared between patients who underwent treatment that included or excluded UAE. Patient records were reviewed and patients were interviewed by telephone to report on recovery following treatment.ResultsIn total, 52 patients met the inclusion criteria. In patients with CSP‐I, the blood loss, length of hospital stay, and time before restoration of normal β human chorionic gonadotropin levels were significantly higher in patients who were treated with methotrexate combined with dilatation and curettage compared with those treated with UAE combined with dilatation and curettage (P < 0.05). In patients with CSP‐II, blood loss was lower in patients treated with UAE combined with excision compared with excision alone (P < 0.001).ConclusionIncorporating UAE in the treatment of CSP‐I and CSP‐II was safe; CSP should be properly classified to select the appropriate treatment.
Thrombophilia prevalence among women with placenta‐mediated pregnancy complications
Authors: Gils Charlotte , Nybo Mads 
Published: April 2016

AbstractObjectiveTo evaluate the prevalence of thrombophilia in patients with placenta‐mediated pregnancy complications (PMPC).MethodsPatients referred for thrombophilia testing at Odense University Hospital, Denmark, owing to PMPC between January 1, 2010 and December 31, 2014, were included in the present retrospective study. Data collected from patient medical records included the type of PMPC, history of previous thrombosis, and arterial thrombosis risk factors.ResultsA total of 103 patients were included in the study; 25 (24.3%) were diagnosed with thrombophilia. Among the study population, factor V Leiden was the most dominant thrombophilia and was diagnosed in 11 (10.7%) patients (compared with 7% prevalence in the general population). The prevalence of all thrombophilias (except prothrombin mutation) was significantly higher in patients with PMPC in comparison with the reported prevalence in the general population.ConclusionThe incidence of thrombophilia was higher in patients with PMPC than in the general population. A positive thrombophilia diagnosis in a patient with PMPC can have significant clinical consequences for future pregnancies. It can also instigate thrombophilia testing among a patient's family members if necessary. Owing to these advantages, continued thrombophilia testing in these patients seems appropriate.
Luminescence ages for three ‘Middle Palaeolithic’ sites in the Nihewan Basin, northern China, and their archaeological and palaeoenvironmental implications
Authors: Guo Yu-Jie , Li Bo , Zhang Jia-Fu , Yuan Bao-Yin , Xie Fei , Roberts Richard Graham 
Published: April 2016

The Nihewan Basin is a key region for studying the Palaeolithic archaeology of East Asia. However, because of the lack of suitable dating methods and representative lithic technologies in this region, the ‘Middle Palaeolithic’ sites in this basin have been designated based mainly on stratigraphic correlation, which may be unreliable. In this study, three Palaeolithic sites, Motianling, Queergou and Banjingzi, which have been assigned previously to the ‘Middle Palaeolithic’, are dated based on luminescence dating of K-feldspar grains. Our results show that the cultural layers at Motianling, Queergou and Banjingzi have ages of 315 ± 13, 268 ± 13 and 86 ± 4 ka (corresponding to Marine Isotope Stages 9, 8 and 5), respectively, suggesting that Motianling and Queergou should be assigned to the Lower Palaeolithic, while the age of Banjingzi is consistent with a Middle Palaeolithic attribution. Our results suggest that reassessing the age of ‘Middle Palaeolithic’ sites in the Nihewan Basin, and elsewhere in North China, is crucial for understanding the presence or absence of the Middle Palaeolithic phase in China. Our dating results also indicate that the Sanggan River developed sometime between about 270 and 86 ka ago.
SBtab: a flexible table format for data exchange in systems biology
Authors: Lubitz Timo , Hahn Jens , Bergmann Frank T. , Noor Elad , Klipp Edda , Liebermeister Wolfram 
Published: April 2016

Abstract
Summary: SBtab is a table-based data format for Systems Biology, designed to support automated data integration and model building. It uses the structure of spreadsheets and defines conventions for table structure, controlled vocabularies and semantic annotations. The format comes with predefined table types for experimental data and SBML-compliant model structures and can easily be customized to cover new types of data.
Availability and Implementation: SBtab documents can be created and edited with any text editor or spreadsheet tool. The website www.sbtab.net provides online tools for syntax validation and conversion to SBML and HTML, as well as software for using SBtab in MS Excel, MATLAB and R. The stand-alone Python code contains functions for file parsing, validation, conversion to SBML and HTML and an interface to SQLite databases, to be integrated into Systems Biology workflows. A detailed specification of SBtab, including examples and descriptions of table types and available tools, can be found at www.sbtab.net.
Contact: wolfram.liebermeister@gmail.com
MOCAT2: a metagenomic assembly, annotation and profiling framework
Authors: Kultima Jens Roat , Coelho Luis Pedro , Forslund Kristoffer , Huerta-Cepas Jaime , Li Simone S. , Driessen Marja , Voigt Anita Yvonne , Zeller Georg , Sunagawa Shinichi , Bork Peer 
Published: April 2016

Abstract
Summary: MOCAT2 is a software pipeline for metagenomic sequence assembly and gene prediction with novel features for taxonomic and functional abundance profiling. The automated generation and efficient annotation of non-redundant reference catalogs by propagating pre-computed assignments from 18 databases covering various functional categories allows for fast and comprehensive functional characterization of metagenomes.
Availability and Implementation: MOCAT2 is implemented in Perl 5 and Python 2.7, designed for 64-bit UNIX systems and offers support for high-performance computer usage via LSF, PBS or SGE queuing systems; source code is freely available under the GPL3 license at http://mocat.embl.de.
Contact: bork@embl.de
Supplementary information: Supplementary data are available at Bioinformatics online.