bluuebunny/crossref_metadata_2025_split huggingface dataset:
Entanglement criterion independent on observables for multipartite Gaussian states based on uncertainty principle
Authors: He Kan , Huang Miaomiao , Hou Jinchuan 
Published: February 2019

AbstractQuantum entanglement is one of important resources for quantum communication. Entanglement criteria help us detect entangled states. One of important criteria is the local uncertainty relation (LUR) entanglement criteria, which is studied extensively. However, all existent LUR criteria are dependent on the chosen observables. In the paper, applying the uncertainty principle, we improve the LUR criteria to obtain entanglement criteria for multipartite Gaussian states, which are independent on observalbes.
Anaerobic degradation of hexadecane and phenanthrene coupled to sulfate reduction by enriched consortia from northern Gulf of Mexico seafloor sediment
Authors: Shin Boryoung , Kim Minjae , Zengler Karsten , Chin Kuk-Jeong , Overholt Will A. , Gieg Lisa M. , Konstantinidis Konstantinos T. , Kostka Joel E. 
Published: February 2019

AbstractTo advance understanding of the fate of hydrocarbons released from the Deepwater Horizon oil spill and deposited in marine sediments, this study characterized the microbial populations capable of anaerobic hydrocarbon degradation coupled with sulfate reduction in non-seep sediments of the northern Gulf of Mexico. Anaerobic, sediment-free enrichment cultures were obtained with either hexadecane or phenanthrene as sole carbon source and sulfate as a terminal electron acceptor. Phylogenetic analysis revealed that enriched microbial populations differed by hydrocarbon substrate, with abundant SSU rRNA gene amplicon sequences from hexadecane cultures showing high sequence identity (up to 98%) to Desulfatibacillum alkenivorans (family Desulfobacteraceae), while phenanthrene-enriched populations were most closely related to Desulfatiglans spp. (up to 95% sequence identity; family Desulfarculaceae). Assuming complete oxidation to CO2, observed stoichiometric ratios closely resembled the theoretical ratios of 12.25:1 for hexadecane and 8.25:1 for phenanthrene degradation coupled to sulfate reduction. Phenanthrene carboxylic acid was detected in the phenanthrene-degrading enrichment cultures, providing evidence to indicate carboxylation as an activation mechanism for phenanthrene degradation. Metagenome-assembled genomes (MAGs) revealed that phenanthrene degradation is likely mediated by novel genera or families of sulfate-reducing bacteria along with their fermentative syntrophic partners, and candidate genes linked to the degradation of aromatic hydrocarbons were detected for future study.
INITIAL – An observational study of disease severity in newly diagnosed asthma patients and initial response following 12 weeks’ treatment
Authors: Lin Jiangtao , Fu Xiuhua , Jiang Ping , Song Weidong , Hu Xiaoyun , Jie Zhijun , Liu Chuntao , He Zhengguang , Zhou Xiangdong , Tang Huaping 
Published: February 2019

AbstractIn China, there are an estimated 30 million people with asthma, a condition that remains poorly controlled in many patients. The INITIAL study (NCT02143739) was a 12-week, multicentre, prospective, observational study comprising 45 centres across Northern and Southern China that aimed to assess asthma severity among newly diagnosed patients as well as their prescribed medications and response to treatment. The primary objective was to evaluate asthma severity using Global Initiative for Asthma (GINA) 2006 research criteria. Secondary objectives included the distribution of asthma medication by GINA severity category and evaluation of GINA 2012-defined control levels. Medications were prescribed as per usual clinical practice. At baseline, among 4491 patients, 3.9%, 12.0%, 22.6% and 61.6% had intermittent, mild persistent, moderate persistent and severe persistent asthma, respectively. Inhaled corticosteroid/long-acting β2agonist was the most common initial therapy in 90.2% of patients. GINA 2012-defined controlled asthma levels increased in all groups, rising from 6.1% at baseline to 43.0%, 53.8% and 67.8% at Weeks 4, 8 and 12, respectively. Most patients presented with severe persistent asthma. Newly diagnosed patients with asthma could benefit from at least 3 months of regular treatment followed by long-term pharmacological management.
The Distribution of Standard Deviations Applied to High Throughput Screening
Authors: Hanley Quentin S. 
Published: February 2019

AbstractHigh throughput screening (HTS) assesses compound libraries for “activity” using target assays. A subset of HTS data contains a large number of sample measurements replicated a small number of times providing an opportunity to introduce the distribution of standard deviations (DSD). Applying the DSD to some HTS data sets revealed signs of bias in some of the data and discovered a sub-population of compounds exhibiting high variability which may be difficult to screen. In the data examined, 21% of 1189 such compounds were pan-assay interference compounds. This proportion reached 57% for the most closely related compounds within the sub-population. Using the DSD, large HTS data sets can be modelled in many cases as two distributions: a large group of nearly normally distributed “inactive” compounds and a residual distribution of “active” compounds. The latter were not normally distributed, overlapped inactive distributions – on both sides –, and were larger than typically assumed. As such, a large number of compounds are being misclassified as “inactive” or are invisible to current methods which could become the next generation of drugs. Although applied here to HTS, it is applicable to data sets with a large number of samples measured a small number of times.
Imaging the Galápagos mantle plume with an unconventional application of floating seismometers
Authors: Nolet Guust , Hello Yann , Lee Suzan van der , Bonnieux Sébastien , Ruiz Mario C. , Pazmino Nelson A. , Deschamps Anne , Regnier Marc M. , Font Yvonne , Chen Yongshun J. , Simons Frederik J. 
Published: February 2019

AbstractWe launched an array of nine freely floating submarine seismometers near the Galápagos islands, which remained operational for about two years. P and PKP waves from regional and teleseismic earthquakes were observed for a range of magnitudes. The signal-to-noise ratio is strongly influenced by the weather conditions and this determines the lowest magnitudes that can be observed. Waves from deep earthquakes are easier to pick, but the S/N ratio can be enhanced through filtering and the data cover earthquakes from all depths. We measured 580 arrival times for different raypaths. We show that even such a limited number of data gives a significant increase in resolution for the oceanic upper mantle. This is the first time an array of floating seismometers is used in seismic tomography to improve the resolution significantly where otherwise no seismic information is available. We show that the Galápagos Archipelago is underlain by a deep (about 1900 km) 200–300 km wide plume of high temperature, with a heat flux very much larger than predicted from its swell bathymetry. The decrease of the plume temperature anomaly towards the surface indicates that the Earth’s mantle has a subadiabatic temperature gradient.
The evolution of the axial skeleton intercentrum system in snakes revealed by new data from the Cretaceous snakes Dinilysia and Najash
Authors: Garberoglio Fernando F. , Gómez Raúl O. , Simões Tiago R. , Caldwell Michael W. , Apesteguía Sebastián 
Published: February 2019

AbstractSnakes are an extremely modified and long-lived clade of lizards that have either lost or highly altered many of the synapomorphies that would clearly link them to their closest sister-group among squamates. We focus here on one postcranial morphological complex, the intercentrum system which in most non-ophidian squamates is limited to the cervical and caudal regions. The Cervical Intercentrum System (CeIS) is composed of a single intercentral element that sometimes articulates with a ventral projection (hypapophyses) of the centrum; the Caudal Intercentrum System (CaIS) is formed by an intercentral element, the haemal arch/chevron bone, and paired ventral projections of the centrum, the haemapophyses. In modern snakes, the intercentrum element of the CeIS is considered lost or fused to the hypaphophysis, and the chevron bone in CaIS is considered lost. Here, we describe new specimens of the early snake Dinilysia patagonica, and reinterpret previously known specimens of Dinilysia and Najash rionegrina, that do not show the expected snake morphology. The anatomy of these fossil taxa unambiguously shows that free cervical and caudal intercentra attached to distinct downgrowths (hypapophyses and haemapophyses) of the centra, are present in basal fossil snakes, and agrees with the proposed loss of post atlas-axis intercentra in later evolving snakes.
Efficacy of High-intensity Statin Use for Transient Ischemic Attack Patients with Positive Diffusion-weighted Imaging
Authors: Song Bo , Cao Yuan , Pei Lulu , Fang Hui , Zhao Lu , Chen Pei , Si Pan , Liu Xinjing , Liu Kai , Gao Yuan , Wu Jun , Sun Shilei , Wang Xiaoying , Lo Eng H. , Buonanno Ferdinando S. , Ning Mingming , Xu Yuming 
Published: February 2019

AbstractTo determine whether positive or negative DWI TIA patients could get benefits from HST we conducted a cohort study which data from the prospective, hospital-based, TIA database of the First Affiliated Hospital of Zhengzhou University. The end-point was 7-day and 90-day incidence of stroke. Cox proportional hazard regression models were used to analyze the association between end-points and high-intensity statin treatment in TIA patients with positive and negative DWI. A total of 987 eligible TIA patients were analyzed. The stroke risk of patients with positive DWI was about a four-fold increase compared to that with negative DWI (7 d, 10.9 versus 1.8, p < 0.001 and 90 d, 18.3 versus 4.2, p < 0.001). After adjusting confounding factors, HST significantly improved both 7-day (HR 0.331, 95% CI 0.165–0.663; p = 0.002) and 90-day (HR 0.480, 95% CI 0.288–0.799; p = 0.005) outcomes in positive DWI patients. As a conclusion, high-intensity statin use reduces the 90 days’ recurrent stroke risk in DWI-positive TIA patients but not in DWI-negative patients.
Impaired Spatial Reorientation in the 3xTg-AD Mouse Model of Alzheimer’s Disease
Authors: Stimmell Alina C. , Baglietto-Vargas David , Moseley Shawn C. , Lapointe Valérie , Thompson Lauren M. , LaFerla Frank M. , McNaughton Bruce L. , Wilber Aaron A. 
Published: February 2019

AbstractIn early Alzheimer’s disease (AD) spatial navigation is impaired; however, the precise cause of this impairment is unclear. Recent evidence suggests that getting lost is one of the first impairments to emerge in AD. It is possible that getting lost represents a failure to use distal cues to get oriented in space. Therefore, we set out to look for impaired use of distal cues for spatial orientation in a mouse model of amyloidosis (3xTg-AD). To do this, we trained mice to shuttle to the end of a track and back to an enclosed start box to receive a water reward. Then, mice were trained to stop in an unmarked reward zone to receive a brain stimulation reward. The time required to remain in the zone for a reward was increased across training, and the track was positioned in a random start location for each trial. We found that 6-month female, but not 3-month female, 6-month male, or 12-month male, 3xTg-AD mice were impaired. 6-month male and female mice had only intracellular pathology and male mice had less pathology, particularly in the dorsal hippocampus. Thus, AD may cause spatial disorientation as a result of impaired use of landmarks.
Autofluorescence lifetime augmented reality as a means for real-time robotic surgery guidance in human patients
Authors: Gorpas D. , Phipps J. , Bec J. , Ma D. , Dochow S. , Yankelevich D. , Sorger J. , Popp J. , Bewley A. , Gandour-Edwards R. , Marcu L. , Farwell D. G. 
Published: February 2019

AbstractDue to loss of tactile feedback the assessment of tumor margins during robotic surgery is based only on visual inspection, which is neither significantly sensitive nor specific. Here we demonstrate time-resolved fluorescence spectroscopy (TRFS) as a novel technique to complement the visual inspection of oral cancers during transoral robotic surgery (TORS) in real-time and without the need for exogenous contrast agents. TRFS enables identification of cancerous tissue by its distinct autofluorescence signature that is associated with the alteration of tissue structure and biochemical profile. A prototype TRFS instrument was integrated synergistically with the da Vinci Surgical robot and the combined system was validated in swine and human patients. Label-free and real-time assessment and visualization of tissue biochemical features during robotic surgery procedure, as demonstrated here, not only has the potential to improve the intraoperative decision making during TORS but also other robotic procedures without modification of conventional clinical protocols.
Ligand-induced conformational switch in an artificial bidomain protein scaffold
Authors: Léger Corentin , Di Meo Thibault , Aumont-Nicaise Magali , Velours Christophe , Durand Dominique , Li de la Sierra-Gallay Ines , van Tilbeurgh Herman , Hildebrandt Niko , Desmadril Michel , Urvoas Agathe , Valerio-Lepiniec Marie , Minard Philippe 
Published: February 2019

AbstractArtificial proteins binding any predefined “target” protein can now be efficiently generated using combinatorial libraries based on robust protein scaffolds. αRep is such a family of artificial proteins, based on an α-solenoid protein repeat scaffold. The low aggregation propensity of the specific “binders” generated from this library opens new protein engineering opportunities such as the creation of biosensors within multidomain constructions. Here, we have explored the properties of two new types of artificial bidomain proteins based on αRep structures. Their structural and functional properties are characterized in detail using biophysical methods. The results clearly show that both bidomain proteins adopt a closed bivalve shell-like conformation, in the ligand free form. However, the presence of ligands induces a conformational transition, and the proteins adopt an open form in which each domain can bind its cognate protein partner. The open/closed equilibria alter the affinities of each domain and induce new cooperative effects. The binding-induced relative domain motion was monitored by FRET. Crystal structures of the chimeric proteins indicate that the conformation of each constituting domain is conserved but that their mutual interactions explain the emergent properties of these artificial bidomain proteins. The ligand-induced structural transition observed in these bidomain proteins should be transferable to other αRep proteins with different specificity and could provide the basis of a new generic biosensor design.
Uncovering regional variability in disturbance trends between parks and greater park ecosystems across Canada (1985–2015)
Authors: Bolton Douglas K. , Coops Nicholas C. , Hermosilla Txomin , Wulder Michael A. , White Joanne C. , Ferster Colin J. 
Published: February 2019

AbstractWe assess the protective function of Canada’s parks and protected areas (PPAs) by analyzing three decades of stand-replacing disturbance derived from Landsat time series data (1985–2015). Specifically, we compared rates of wildfire and harvest within 1,415 PPAs against rates of disturbance in surrounding greater park ecosystems (GPEs). We found that disturbance rates in GPEs were significantly higher (p < 0.05) than in corresponding PPAs in southern managed forests (six of Canada’s 12 forested ecozones). Higher disturbance rates in GPEs were attributed to harvesting activities, as the area impacted by wildfire was not significantly different between GPEs and PPAs in any ecozone. The area burned within PPAs and corresponding GPEs was highly correlated (r = 0.90), whereas the area harvested was weakly correlated (r = 0.19). The average area burned in PPAs/GPEs below 55° N was low (0.05% yr−1) largely due to fire suppression aimed at protecting communities, timber, and recreational values, while the average burn rate was higher in northern PPAs/GPEs where fire suppression is uncommon (0.40% yr−1 in PPAs/GPEs above 55° N). Assessing regional variability in disturbance patterns and the pressures faced by PPAs can better inform policy and protection goals across Canada and the globe.
High PKD2 predicts poor prognosis in lung adenocarcinoma via promoting Epithelial–mesenchymal Transition
Authors: Pang Zhaofei , Wang Yu , Ding Nan , Chen Xiaowei , Yang Yufan , Wang Guanghui , Liu Qi , Du Jiajun 
Published: February 2019

AbstractProtein kinase D2 (PKD2) has been reported to be related with progression and invasion in various cancers. However, its prognostic value and the underlying mechanism in lung cancer remains unclear. Herein we evaluated the expression of PKD2 in lung adenocarcinoma and investigated its relationship with EMT. GSEA, TCGA and K-M plotter database were applied and revealed that high PKD2 expression predicted poor outcome and related with lymph nodes metastasis in lung cancer. IHC and qRT-PCR were performed and found PKD2 was elevated in lung adenocarcinoma and negatively related with OS (p = 0.015), PFS (p = 0.006) and the level of E-cadherin (p = 0.021). Experiment in lung adenocarcinoma cell lines demonstrated up-regulation of PKD2 led to high expression of mesenchymal markers (N-cadherin, vim, mmp9 et al.) and EMT transcription factors(zeb1, twist, snail), and the results were reversed when PKD2 was knocked down. Further investigation showed that abrogation of PKD2 inhibited A549 cell migration, invasion, proliferation and induced cell arrest in G2/M phase. We concluded that high expression of PKD2 was associated with poor prognosis and cancer progression in lung adenocarcinoma patients by promoting EMT.
Endogenous Neurosteroid (3α,5α)3-Hydroxypregnan-20-one Inhibits Toll-like-4 Receptor Activation and Pro-inflammatory Signaling in Macrophages and Brain
Authors: Balan Irina , Beattie Matthew C. , O’Buckley Todd K. , Aurelian Laure , Morrow A. Leslie 
Published: February 2019

AbstractThe endogenous neurosteroid (3α,5α)3-hydroxypregnan-20-one (3α,5α-THP, allopregnanolone) has protective activity in animal models of alcoholism, depression, traumatic brain injury, schizophrenia, multiple sclerosis, and Alzheimer’s disease that is poorly understood. Because these conditions involve proinflammatory signaling through toll-like receptors (TLRs), we examined the effects of 3α,5α-THP, and pregnenolone on TLR4 activation in both the periphery and the central nervous system (CNS). We used monocytes/macrophages (RAW264.7) as a model of peripheral immune signaling and studied innately activated TLR4 in the ventral tegmental area (VTA) of selectively bred alcohol-preferring (P) rats. LPS activated the TLR4 pathway in RAW264.7 cells as evidenced by increased levels of p-TAK1, TRAF6, NF-κB p50, phospho-NF-κB- p65, pCREB, HMGB1, and inflammatory mediators, including MCP-1 and TNFα. Both 3α,5α-THP and pregnenolone (0.5–1.0μM) substantially (~80%) inhibited these effects, indicating pronounced inhibition of TLR4 signaling. The mechanism of inhibition appears to involve blockade of TLR4/MD-2 protein interactions in RAW246.7 cells. In VTA, 3α,5α-THP (15 mg/kg, IP) administration reduced TRAF6 (~20%), CRF (~30%), and MCP-1 (~20%) levels, as well as TLR4 binding to GABAA receptor α2 subunits (~60%) and MyD88 (~40%). The data suggest that inhibition of proinflammatory neuroimmune signaling underlies protective effects of 3α,5α-THP in immune cells and brain, apparently involving blocking of protein-protein interactions that initiate TLR4-dependent signaling. Inhibition of pro-inflammatory TLR4 activation represents a new mechanism of 3α,5α-THP action in the periphery and the brain.
High percentages and activity of synovial fluid NK cells present in patients with advanced stage active Rheumatoid Arthritis
Authors: Yamin Rachel , Berhani Orit , Peleg Hagit , Aamar Suhail , Stein Natan , Gamliel Moriya , Hindi Issam , Scheiman-Elazary Anat , Gur Chamutal 
Published: February 2019

AbstractRheumatoid Arthritis (RA) causes chronic inflammation of joints. The cytokines TNFα and IFNγ are central players in RA, however their source has not been fully elucidated. Natural Killer (NK) cells are best known for their role in elimination of viral-infected and transformed cells, and they secrete pro-inflammatory cytokines. NK cells are present in the synovial fluids (SFs) of RA patients and are considered to be important in bone destruction. However, the phenotype and function of NK cells in the SFs of patients with erosive deformative RA (DRA) versus non-deformative RA (NDRA) is poorly characterized. Here we characterize the NK cell populations present in the blood and SFs of DRA and NDRA patients. We demonstrate that a distinct population of activated synovial fluid NK (sfNK) cells constitutes a large proportion of immune cells found in the SFs of DRA patients. We discovered that although sfNK cells in both DRA and NDRA patients have similar phenotypes, they function differently. The DRA sfNK secrete more TNFα and IFNγ upon exposure to IL-2 and IL-15. Consequently, we suggest that sfNK cells may be a marker for more severely destructive RA disease.
Critical comparison of methods for fault diagnosis in metabolomics data
Authors: Koeman M. , Engel J. , Jansen J. , Buydens L. 
Published: February 2019

AbstractPlatforms like metabolomics provide an unprecedented view on the chemical versatility in biomedical samples. Many diseases reflect themselves as perturbations in specific metabolite combinations. Multivariate analyses are essential to detect such combinations and associate them to specific diseases. For this, usually targeted discriminations of samples associated to a specific disease from non-diseased control samples are used. Such targeted data interpretation may not respect the heterogeneity of metabolic responses, both between diseases and within diseases. Here we show that multivariate methods that find any set of perturbed metabolites in a single patient, may be employed in combination with data collected with a single metabolomics technology to simultaneously investigate a large array of diseases. Several such untargeted data analysis approaches have been already proposed in other fields to find both expected and unexpected perturbations, e.g. in Statistical Process Control. We have critically compared several of these approaches for their sensitivity and their correct identification of the specifically perturbed metabolites. Also a new approach is introduced for this purpose. The newly introduced Sparse Mean approach, which we find here as most sensitive and best able to identify the specifically perturbed metabolites, turns metabolomics into an untargeted diagnostic platform. Aside from metabolomics, the proposed approach may greatly benefit fault diagnosis with untargeted analyses in many other fields, such as Industrial Process Control, food Adulteration Detection, and Intrusion Detection.