bluuebunny/crossref_metadata_2025_split huggingface dataset:
Correlation between centromere protein-F autoantibodies and cancer analyzed by enzyme-linked immunosorbent assay
Authors: Welner Simon , Trier Nicole Hartwig , Frisch Morten , Locht Henning , Hansen Paul Robert , Houen Gunnar 
Published: August 2013

Abstract

Background
Centromere protein-F (CENP-F) is a large nuclear protein of 367 kDa, which is involved in multiple mitosis-related events such as proper assembly of the kinetochores, stabilization of heterochromatin, chromosome alignment and mitotic checkpoint signaling. Several studies have shown a correlation between CENP-F and cancer, e.g. the expression of CENP-F has been described to be upregulated in cancer cells. Furthermore, several studies have described a significant correlation between the expression of autoantibodies to CENP-F and cancer.

Methods
Autoantibodies to CENP-F were detected in a small number of samples during routine indirect immunofluorescence (IIF) analysis for anti-nuclear antibodies (ANA) using HEp-2 cells as substrate. Using overlapping synthetic peptides covering a predicted structural maintenance of chromosomes (SMC) domain, we developed an enzyme-linked immunosorbent assay (ELISA) for detection of CENP-F antibodies.

Results
Analyzing the reactivity of the sera positive in IIF for CENP-F antibodies to overlapping CENP-F peptides, we showed that autoantibodies to several peptides correlate with the presence of antibodies to CENP-F and a diagnosis of cancer, as increased CENP-F antibody expression specific for malignant cancer patients to five peptides was found (A9, A12, A14, A16, A27). These antibodies to CENP-F in clinical samples submitted for ANA analysis were found to have a positive predictive value for cancer of 50%. Furthermore, the expression of cancer-correlated CENP-F antibodies seemed to increase as a function of time from diagnosis.

Conclusion
These results conform to previous findings that approximately 50% of those patients clinically tested for ANA analyses who express CENP-F antibodies are diagnosed with cancer, confirming that these antibodies may function as circulating tumor markers. Thus, a peptide-based CENP-F ELISA focused on the SMC domain may aid in identifying individuals with a potential cancer.
In an in vitro model of human tuberculosis, monocyte-microglial networks regulate matrix metalloproteinase-1 and -3 gene expression and secretion via a p38 mitogen activated protein kinase-dependent pathway
Authors: Green Justin A , Rand Lucinda , Moores Rachel , Dholakia Shruti , Pezas Theodore , Elkington Paul T , Friedland Jon S 
Published: August 2013

Abstract

Background
Tuberculosis (TB) of the central nervous system (CNS) is characterized by extensive tissue inflammation, driven by molecules that cleave extracellular matrix such as matrix metalloproteinase (MMP)-1 and MMP-3. However, relatively little is known about the regulation of these MMPs in the CNS.

Methods
Using a cellular model of CNS TB, we stimulated a human microglial cell line (CHME3) with conditioned medium from Mycobacterium tuberculosis-infected primary human monocytes (CoMTb). MMP-1 and MMP-3 secretion was detected using ELISAs confirmed with casein zymography or western blotting. Key results of a phospho-array profile that detects a wide range of kinase activity were confirmed with phospho-Western blotting. Chemical inhibition (SB203580) of microglial cells allowed investigation of expression and secretion of MMP-1 and MMP-3. Finally we used promoter reporter assays employing full length and MMP-3 promoter deletion constructs. Student’s t-test was used for comparison of continuous variables and multiple intervention experiments were compared by one-way ANOVA with Tukey’s correction for multiple pairwise comparisons.

Results
CoMTb up-regulated microglial MMP-1 and MMP-3 secretion in a dose- and time-dependent manner. The phospho-array profiling showed that the major increase in kinase activity due to CoMTb stimulation was in p38 mitogen activated protein kinase (MAPK), principally the α and γ subunits. p38 phosphorylation was detected at 15 minutes, with a second peak of activity at 120 minutes. High basal extracellular signal-regulated kinase activity was further increased by CoMTb. Secretion and expression of MMP-1 and MMP-3 were both p38 dependent. CoMTb stimulation of full length and MMP-3 promoter deletion constructs demonstrated up-regulation of activity in the wild type but a suppression site between -2183 and -1612 bp.

Conclusions
Monocyte-microglial network-dependent MMP-1 and MMP-3 gene expression and secretion are dependent upon p38 MAPK in tuberculosis. p38 is therefore a potential target for adjuvant therapy in CNS TB.
A valid strategy for precise identifications of transcription factor binding sites in combinatorial regulation using bioinformatic and experimental approaches
Authors: Wang Hailong , Guan Shan , Zhu Zhixin , Wang Yan , Lu Yingqing 
Published: August 2013

Abstract

Background
Transcription factor (TF) binding sites (cis element) play a central role in gene regulation, and eukaryotic organisms frequently adapt a combinatorial regulation to render sophisticated local gene expression patterns. Knowing the precise cis element on a distal promoter is a prerequisite for studying a typical transcription process; however, identifications of cis elements have lagged behind those of their associated trans acting TFs due to technical difficulties. Consequently, gene regulations via combinatorial TFs, as widely observed across biological processes, have remained vague in many cases.

Results
We present here a valid strategy for identifying cis elements in combinatorial TF regulations. It consists of bioinformatic searches of available databases to generate candidate cis elements and tests of the candidates using improved experimental assays. Taking the MYB and the bHLH that collaboratively regulate the anthocyanin pathway genes as examples, we demonstrate how candidate cis motifs for the TFs are found on multi-specific promoters of chalcone synthase (CHS) genes, and how to experimentally test the candidate sites by designing DNA fragments hosting the candidate motifs based on a known promoter (us1 allele of Ipomoea purpurea CHS-D in our case) and applying site-mutagenesis at the motifs. It was shown that TF-DNA interactions could be unambiguously analyzed by assays of electrophoretic mobility shift (EMSA) and dual-luciferase transient expressions, and the resulting evidence precisely delineated a cis element. The cis element for R2R3 MYBs including Ipomoea MYB1 and Magnolia MYB1, for instance, was found to be ANCNACC, and that for bHLHs (exemplified by Ipomoea bHLH2 and petunia AN1) was CACNNG. A re-analysis was conducted on previously reported promoter segments recognized by maize C1 and apple MYB10, which indicated that cis elements similar to ANCNACC were indeed present on these segments, and tested positive for their bindings to Ipomoea MYB1.

Conclusion
Identification of cis elements in combinatorial regulation is now feasible with the strategy outlined. The working pipeline integrates the existing databases with experimental techniques, providing an open framework for precisely identifying cis elements. This strategy is widely applicable to various biological systems, and may enhance future analyses on gene regulation.
A manufacturing framework for capability-based product-service systems design
Authors: Gokula Vijaykumar Annamalai Vasantha , Komoto Hitoshi , Hussain Romana , Roy Rajkumar , Tomiyama Tetsuo , Evans Steve , Tiwari Ashutosh , Williams Stewart 
Published: August 2013

AbstractManufacturers aim to design product-service systems (PSS) which integrate services with products to attain sustained competitive advantage from a life cycle perspective. PSS design should be customised solutions which are aligned to integrated stakeholders' capabilities, a subject which the extant literature has not sufficiently addressed. This paper proposes a systematic framework for the PSS solution provider to address this aim and operationalizes this through software developed for PSS design which models stakeholders' individual activities and simulates their occurrences depending on their relations. The framework stresses that integrated stakeholders' capabilities define continuing ability to generate a desired operational outcome for the customers. The paper reports a PSS design case for a laser system manufacturer and then applies the framework to it. The industrial experts' views on this framework reveal that it helps to develop PSS design from a holistic systems approach which facilitates a change in the designer's mindset from a product-centric to a systems-centric. The level of trust and transparency required for this framework is argued to be absent in most industrial sectors, being one of the foremost limitations for implementation of PSS.
CXCL6 antibody neutralization prevents lung inflammation and fibrosis in mice in the bleomycin model
Authors: Besnard Anne-Gaëlle , Struyf Sofie , Guabiraba Rodrigo , Fauconnier Louis , Rouxel Nathalie , Proost Paul , Uyttenhove Catherine , van Snick Jacques , Couillin Isabelle , Ryffel Bernhard 
Published: August 2013

ABSTRACTIPF is a chronic, progressive pulmonary disease, leading to respiratory failure. In search of mechanisms of IPF, we used the bleomycin-induced lung-injury model in mice, which causes acute inflammation that may progress to chronic lung inflammation and fibrosis. Here, we asked whether CXCL6/GCP-2, a member of the CXC chemokine superfamily, may be involved in IPF development. First, we reported an increase of CXCL6 levels in BALF from patients with IPF, as well as in the lung of mice, 24 h after bleomycin administration. To investigate whether CXCL6 played a role in experimental bleomycin-induced pulmonary fibrosis, we treated mice with an anti-mCXCL6 mAb that has been shown to inhibit neutrophil chemotaxis in vitro. CXCL6 antibody blockade attenuated acute inflammation with a reduced pulmonary neutrophil influx, IL-1β, CXCL1, and TIMP-1 production. In the later phase (14 days after bleomycin exposure), lymphocyte recruitment and fibrosis markers, such as collagen and TIMP-1, were diminished, as well as collagen deposition and fibrotic lesion the lung. Therefore, the data suggest that CXCL6 contributes to experimental pulmonary fibrosis, and CXCL6 inhibition might be used to reduce lung toxicity associated with bleomycin treatment.
Fabrication of Photochromic Molybdenum Oxide-Based Composite Films Using Peroxoisopolymolybdic Acid
Authors: Miyazaki Hidetoshi , Ichioka Hiroaki , Suzuki Hisao , Ota Toshitaka 
Published: August 2013

Abstract
Molybdenum-based photochromic composite films were fabricated using peroxoisopolymolybdic acid (Mo-IPA) solution and transparent urethane resin. Colors of the prepared films using the α-, β-, or γ-Mo-IPA solution were transparent, slight blue, and azure, respectively. All the composite films turned brown when exposed to UV–vis light irradiation for ten minutes. The colored films bleached to the initial colors after 120 h.
Sharp J-Bands Observed for Xanthone Derivatives in Langmuir and Langmuir–Blodgett Films
Authors: Kobayashi Michio , Toma Hitoshi , Akutsu Tetsuo , Araki Kazuhide , Takayama Hisayuki , Hoshi Toshihiko 
Published: August 2013

Abstract
The first shorter-molecular-axis polarized electronic absorption band of 7-methylxanthone-2-carboxylic acid octadecyl ester shows a surface pressure dependence in Langmuir films, giving rise to a so-called J-band at higher surface pressures. In contrast, 7-methoxyxanthone-2-carboxylic acid octadecylamide in the Langmuir film exhibits the J-band even at low surface pressures. AFM images of the LB film of this amide show that the alkyl chains are regularly arranged with a spacing of 0.67 nm in accordance with the head-to-tail arrangement of the shorter molecular axes of the xanthone skeleton.
Mathematical Analysis for MHD Flow of Blood in Constricted Arteries
Authors: Sankar D. S. , Lee Usik , Md. Ismail Ahmad Izani 
Published: August 2013

Abstract
The unsteady oscillatory magneto-hydrodynamic flow of blood in small diameter arteries with mild constriction is analyzed, blood being modelled as a Herschel-Bulkley fluid. Finite difference method is employed for solving the associated initial boundary value problem. Explicit finite difference schemes for velocity distribution, flow rate, skin friction and longitudinal impedance to the flow are obtained. The effects of pressure gradient, yield stress, magnetic field, power law index and maximum depth of the stenosis on the aforesaid flow quantities are discussed through appropriate graphs. It is found that the velocity and flow rate decrease and the skin friction and longitudinal impedance to flow increase with the increase of the magnetic field parameter. It was recorded that the flow rate increases and the skin friction decreases with the increase of the phase angle. It was also noted the skin friction and longitudinal impedance to flow that increase almost linearly with the increase of maximum depth of the stenosis. The estimates of the increase in the longitudinal impedance to flow and skin friction are increased considerably by the presence of the magnetic field.
Bifurcation and Chaos in Periodically Forced and Nonlinearly Damped Pendulum
Authors: Sharma Anjali , Patidar Vinod , Purohit G. 
Published: August 2013

Abstract
In this communication, we mainly focus our attention on the global dynamical behavior of forced and nonlinearly damped pendulum. We consider the nonlinear damping term proportional to the power of velocity (v|v|
p−1). Analytically we obtain the threshold condition for the occurrence of homoclinic bifurcation using Melnikov technique. We carry out the bifurcation analysis to identify the route to chaos for various cases of damping (p = 1, 2 and 3) and analyze the topological shape and fractalness of phase space attractor by computing Kaplan-Yorke dimension and Correlation dimension. We identify the regions of 2D parameter space (consists of external forcing amplitude and damping coefficient) corresponding to various types of asymptotic dynamics through extensive Lyapunov exponent calculation and analyze the fragileness and globalness of chaos in the parameter space with the introduction of nonlinear damping. We also analyze the complexity of basin of attraction for all three cases (p = 1, 2 and 3) and compute the correlation dimension to quantify the fractalness of basin boundaries.
Fractals and Chaos Related to Ising-Onsager-Zhang Lattices vs. The Jordan-von Neumann-Wigner Procedures. Ternary Approach
Authors: Ławrynowicz Julian , Suzuki Osamu , Niemczynowicz Agnieszka 
Published: August 2013

Abstract
A fractal structure is introduced to Jordan-von Neumann-Wigner procedure and Jordan algebra, and some composition algebras are discussed from the point of view of a related fractal structure. Our approach aims at modifying and simplifying the Onsager-Zhang procedure of analyzing simple orthorhombic Ising lattices.
Reliable HRPCP Technology for Harsh Well Conditions
Authors: Bratu Christian , Caballero David , Seince Laurent 
Published: August 2013

AbstractThe HRPCP technology consists in adding HR’s - hydraulic regulators - to traditional PCP; the HR’s are distributed throughout the pump and their design corresponds to coupled pump - well requirements (1).Consequently, the HRPCP technology is capable of controlling the pump behavior in liquid and multiphase flows: uniform distribution of pressures, reduction of temperatures, handling gas compression without heat build-up and lubrication of rotor - stator interference contact.Therefore, the ultimate goal of the HRPCP technology is the significant improvement of the pump run life & production performance in liquid and multiphase flows.The HRPCP technology targets include reactivation of wells considered uneconomic in mature fields, production from complex heavy/waxy/gassy oil wells, efficiency increase of gas well dewatering, enhancement of inefficient gas lift systems, eliminating the need for gas anchors / separators.The paper focusses first on the HRPCP bench tests dedicated to HR’s optimal design: reduction of frictional torque in liquid flow, pump behavior in stationary and transient multiphase flow, energy savings.Finally, the paper summarizes the observations made on the fields (Venezuela, Argentina): the run life of HRPCP is up to 10 times that of traditional PCP (2, 3).In fact, the optimal design of HRPCP is confirmed by the pilot case stories on field (2, 3).
Case Histories of Running Progressing Cavity Pumps with Submersible Permanent Magnet Motors
Authors: Saveth Ken , Sagalovsky Andrey 
Published: August 2013

Abstract
Although conventional rod driven Progressing Cavity Pumps (PCPs) have been in use since the early 1980‘s, the industry has continued to seek alternative methods of powering the system. Initial attempts were made using conventional electric submersible induction motors however their high synchronous speeds proved to be problematic. These inherent high speeds resulted in developing motors with more poles (hence a slower synchronous speed) as well as down-hole gear boxes. All of this was in an attempt to get the motor speeds down to an acceptable range whereby the progressing cavity pump would work successfully. Using Submersible Permanent Magnet Motors (PMM) rather than conventional Induction Motors (IM) to drive the PCP is an effective and efficient method directly powering the PCP as well as eliminating the need for a downhole gear. In addition, the PMM motor’s power density is much higher, thus the motor length is significantly shorter which enhances deployment of the system in deviated wells. Over 1000 PCP-PMMs have been successfully installed in several Russian fields in differing applications with more than 250 still in operation. Their average run life exceeds 200 days and is typically in the range of 360-600 days with a maximum run time of 1091 days. This paper will share numerous case histories on PCP-PMM installations by providing a general review of the application, a summary of the PMM-PCP components installed and the overall design approach that led to the long term success.
Diagnosing PCP Failure Characteristics using Exception Based Surveillance in CSG
Authors: Knafl Matthew , Prosper Charles , Hoday John , Braas Marcel 
Published: August 2013

Abstract
The coal seam gas (CSG) industry is challenged to maximise gas recoverability while minimising the operational and maintenance costs of subsurface artificial lift technologies. Data acquisition is critical in both optimising assets and characterising early failure. Large data flows must be analysed for variations from normal operation to identify problems when and before they occur; automated processes are essential.
Exception based surveillance (EBS) utilises a systematic approach for automatically monitoring asset data (particularly continuous time-series data) for violations of acceptable operating conditions, or for trends that show deviations from expectations. EBS also provides diagnostics that assist in identifying the root cause of exceptions and providing suggestions for remediation.
Root cause analysis (RCA)-derived failure mechanisms aid in accurately identifying the source of repeatable failures in wells. Key performance indicators, measured or calculated from continuous data sources allow operators to observe operational trends, notice variations to long-term averages and begin investigatory procedures before failures occur. The information can be used to avoid failure or develop prevention strategies.
Progressive Cavity Pumps (PCP) are one of the preferred artificial lift methods for CSG production in both the Bowen and Surat basins in Australia. This paper discusses the innovative use of algorithms and software, in an automated exception based system to diagnose and detect PCP failure in a CSG environment. Using only four different parameters, this paper aims to maximise the value of information to monitor the operating conditions in each well and minimise operational costs by deciphering an in-situ volumetric efficiency variable and a frictional coefficient in parallel to the exisiting parameters without the need for additional monitoring sensors.
Well Optimization Using Fully Instrumented Progressing Cavity Pumps in the Patos Marinza Field
Authors: Gustafsson Kristofer , Noble Evan 
Published: August 2013

Abstract
Bankers Petroleum has grown its Patos Marinza field in Albania to a 16,000 barrels of oil per day (bopd) heavy oil operation over a 9 yr period, with significant potential growth possible in the future. One of the areas where significant value can be added to Bankers' operations is to extend the runlife of artificial lift systems in the field. The use of Progressing Cavity Pumps (PCPs) has allowed Bankers Petroleum to unlock significant resources; however the pump systems come with challenges. The current MTBF for the PCP systems of 120 days can be attributed to high oil viscosities, high elastomer swell, high bottom hole pressures, and high pump pressure loading. This paper discusses the collaborative effort between Bankers Petroleum and Weatherford to understand the issues affecting artificial lift system run life in this field and working to improve it. Results from an extensive laboratory test program undertaken by Weatherford to look at pressure and temperature build up in pumps running with viscous fluid and up to 95% gas are included. A field trial was undertaken with three instrumented PCPs at Patos Marinza to investigate the downhole pump pressure distribution, and the effect of various rotor fits and diluent injection rates on pump and well performance in an effort to optimize run life in this challenging environment.
From new Technology Pilots Follow up to PCP Services Contracts Deployment: Implementation of a PCP Field Track Dedicated Software
Authors: Pierchon Alban , Robert Benjamin 
Published: August 2013

Abstract
When deploying a new technology in Oil & Gas applications, there are different phases from prototype validation to pilot implementation and full field deployment. They all require a close follow up, especially when the technology is in its infancy as it’s leading to fast product improvement and optimization. Moreover, following pilots in different fields on different continents with different teams necessitates a common method: identifying relevant data, understanding them and having them organized is of the essence.
These challenges were faced when introducing a new PCP technology and it’s been decided to accompany this pilot follow up with a dedicated software for Progressing Cavity Pumps (PCP) operations, called PCM Field Track. Significant Key Performance Indicators (KPI) and production parameters were identified and a uniform method for Failure Analysis has been implemented, based on industry best practices (PCP RIFTS). The successful results obtained make this software a fundamental tool for Services teams.
This paper describes the method implemented in the Field Track and how the tool is now used to perform Services contracts for PCP tracking on field, reporting and KPI release, for the benefit of both Services Company and Operating Company. Also, examples of results are provided, showing the interest of a global tool dedicated to PCP follow up.