bluuebunny/crossref_metadata_2025_split huggingface dataset:
Interaction identification of Zif268 and TATAZF proteins with GC‐/AT‐rich DNA sequence: A theoretical study
Authors: Yang Bo , Zhu Yanyan , Wang Yan , Chen Guangju 
Published: July 2010

AbstractMolecular dynamics (MD) simulations for Zif268 (a zinc‐finger‐protein binding specifically to the GC‐rich DNA)‐d(A1G2C3G4T5G6G7G8C9A10C11)2 and TATAZF (a zinc‐finger‐protein recognizing the AT‐rich DNA)‐d(A1C2G3C4T5A6T7A8A9A10A11G12G13)2 complexes have been performed for investigating the DNA binding affinities and specific recognitions of zinc fingers to GC‐rich and AT‐rich DNA sequences. The binding free energies for the two systems have been further analyzed by using the molecular mechanics Poisson‐Boltzmann surface area (MM‐PBSA) method. The calculations of the binding free energies reveal that the affinity energy of Zif268‐DNA complex is larger than that of TATAZF‐DNA one. The affinity between the zinc‐finger‐protein and DNA is mainly driven by more favorable van‐der‐Waals and nonpolar/solvation interactions in both complexes. However, the affinity energy difference of the two binding systems is mainly caused by the difference of van‐der‐Waals interactions and entropy components. The decomposition analysis of MM‐PBSA free energies on each residue of the proteins predicts that the interactions between the residues with the positive charges and DNA favor the binding process; while the interactions between the residues with the negative charges and DNA behave in the opposite way. The interhydrogen‐bonds at the protein‐DNA interface and the induced intrafinger hydrogen bonds between the residues of protein for the Zif268‐DNA complex have been identified at some key contact sites. However, only the interhydrogen‐bonds between the residues of protein and DNA for TATAZF‐DNA complex have been found. The interactions of hydrogen‐bonds, electrostatistics and van‐der‐Waals type at some new contact sites have been identified. Moreover, the recognition characteristics of the two studied zinc‐finger‐proteins have also been discussed. © 2010 Wiley Periodicals, Inc. J Comput Chem, 2011
The induction of tuftelin expression in PC12 cell line during hypoxia and NGF‐induced differentiation
Authors: Leiser Yoav , Silverstein Nechama , Blumenfeld Anat , Shilo Dekel , Haze Amir , Rosenfeld Eli , Shay Boaz , Tabakman Rinat , Lecht Shimon , Lazarovici Philip , Deutsch Dan 
Published: July 2010

AbstractThe tuftelin protein isoforms undergo post‐translation modifications, and are ubiquitously expressed in various tissues in embryos, adults, and tumors. Developmental and pathological studies suggested an apparent correlation between oxygen deprivation and tuftelin expression. The aim of the study was therefore to investigate the effect of a pathological insult (hypoxia) and a physiological growth factor (NGF), which antagonistically regulate HIF1 expression, on tuftelin expression using the neuronal PC12 cell model. In the present study, we first demonstrated the expression of tuftelin in PC12 cells, providing an experimental system to investigate the pathophysiological role of tuftelin. Furthermore, we demonstrated the induction of tuftelin during hypoxia by oxygen deprivation and during chemical hypoxia by cobalt chloride. Down‐regulation of HIF1α mRNA blocked hypoxia‐induced HIF1α expression, and reduced by 89% hypoxia‐induced tuftelin expression. In mice, intraperitoneal injection of cobalt chloride significantly induced tuftelin mRNA and protein expression in the brain. During NGF‐mediated PC12 differentiation, tuftelin expression was significantly induced in correlation with neurite outgrowth. This induction was partially blocked by K252a, a selective antagonist of the NGF receptor TrkA, indicating the involvement of the TrkA‐signaling pathways in tuftelin induction by NGF. Revealing the physiological role of tuftelin will clarify mechanisms related to the “hypoxic genome,” and NGF‐induced neurotrophic and angiogenic effects. J. Cell. Physiol. 226: 165–172, 2010. © 2010 Wiley‐Liss, Inc.
Crossing barriers: The new dimension of 2D cell migration assays
Authors: van Horssen Remco , ten Hagen Timo L.M. 
Published: July 2010

AbstractIn our body cells move in three dimensions, embedded in an extracellular matrix that varies in composition, density and stiffness, and this movement is fundamental to life. Next to 3D cell migration assays, representing these physiological circumstances, still we need 2D migrations assays to perform detailed studies on the contribution of matrix‐components and (extra)cellular proteins to cell movements. Next to the debate on differences between 3D and 2D migration, there also are many new perspectives on the use and development of novel or modified 2D cell migration assays. Of special significance is the introduction of so‐called barrier migration assays, methods that avoid cell and matrix damage, as complementation or replacement of scratch/wound healing assays. Here, we discuss the possibilities and limitations of different 2D barrier migration assays. J. Cell. Physiol. 226: 288–290, 2010. © 2010 Wiley‐Liss, Inc.
Reciprocal modulation between TH17 and other helper T cell lineages
Authors: Bi Yujing , Liu Guangwei , Yang Ruifu 
Published: July 2010

AbstractT helper 17 (TH17) cells have well‐described roles in autoimmune disease. However, TH17 is not stable in some physiological or pathological courses. Also, TH17 cells can reciprocally modulate and convert into other helper T cell subpopulations. The fully exploring the reciprocal regulatory effects and its immunoregulatory mechanisms are becoming interesting topics in the immunological study. In this review, we summarized reciprocal modulation pattern between TH17 cell and other helper T cell subpopulations in the mouse model of autoimmune diseases and human diseases. J. Cell. Physiol. 226: 8–13, 2010. © 2010 Wiley‐Liss, Inc.
The physiology and pathology of inositide signaling in the nucleus
Authors: Ramazzotti Giulia , Faenza Irene , Fiume Roberta , Matteucci Alessandro , Piazzi Manuela , Follo Matilde Yung , Cocco Lucio 
Published: July 2010

AbstractNuclear inositide signaling is nowadays a well‐established issue and a growing field of investigation, even though the very first evidence came out at the end of the 1980's. The understanding of its biological role is supported by the recent acquisitions dealing with pathology and namely hematological malignancies. Here, we review this issue highlighting the main achievements in the last years. J. Cell. Physiol. 226: 14–20, 2010. © 2010 Wiley‐Liss, Inc.
Involvement of caveolin‐1 in fibronectin‐induced mouse embryonic stem cell proliferation: Role of FAK, RhoA, PI3K/Akt, and ERK 1/2 pathways
Authors: Park Jae Hong , Ryu Jung Min , Han Ho Jae 
Published: July 2010

AbstractFibronectin (FN) is the foremost proliferation‐associated extracellular matrix component promoting cell adhesion, migration, and survival. We examined the effect of FN on cell proliferation and the related signaling pathways in mouse embryonic stem (ES) cells. FN increased integrin β1, Src, focal adhesion kinase (FAK), and caveolin‐1 phosphorylation levels in a time‐dependent manner. Phosphorylation of Src, FAK, and caveolin‐1 was attenuated by integrin β1 neutralizing antibody. Integrin β1, Src, and FAK coimmunoprecipitated with caveolin‐1 in the presence of FN. In addition, FN increased RhoA and Rho kinase activation, which were completely blocked by PP2, FAK small interfering RNA (siRNA), caveolin‐1 siRNA, or the caveolar disruptor methyl‐β‐cyclodextrin (MβCD). FN also increased phosphorylation of Akt and ERK 1/2, which were significantly blocked by either FAK siRNA, caveolin‐1 siRNA, MβCD, GGTI‐286 (RhoA inhibitor), or Y‐27632 (Rho kinase inhibitor). FN‐induced increase of protooncogenes (c‐fos, c‐myc, and c‐Jun) and cell‐cycle regulatory proteins (cyclin D1/CDK4 and cyclin E/CDK2) expression levels were attenuated by FAK siRNA or caveolin‐1 siRNA. Furthermore, inhibition of each pathway such as integrin β1, Src, FAK, caveolin‐1, RhoA, Akt, and ERK 1/2 blocked FN‐induced [3H]‐thymidine incorporation. We conclude that FN stimulates mouse ES cell proliferation via RhoA‐PI3K/Akt‐ERK 1/2 pathway through caveolin‐1 phosphorylation. J. Cell. Physiol. 226: 267–275, 2010. © 2010 Wiley‐Liss, Inc.
Countercurrent purification of the tetrahydro iso‐α acids derived from Humulus lupulus L.
Authors: Dahlberg Clinton J. , Traub James S. , Tripp Matthew L. , Bland Jeffrey S. , Carroll Brian J. 
Published: July 2010

AbstractRecent biological research has shown that commercially available tetrahydro iso‐α acid (THIAA) extract exhibits a significant anti‐inflammatory response in cellular assays. To further elucidate the mechanism of the response, a method was developed and optimized for the purification of three THIAA cis congeners that are found in commercially available modified hop (Humulus lupulus L.) extracts. Utilizing a Pharmatech Research hydrodynamic countercurrent separation instrument, the choice of solvent, pH and buffer composition were optimized to increase the overall efficiency. It was determined that a quaternary HEMWat (7:3:5:5, pH 5.3) solvent system is optimal for separating cis and trans diastereomers, whereas the binary solvent system of hexanes and aqueous buffer (1:1, pH 6.8) is optimal for the isolation of individual congeners. The optimal countercurrent separation method allows for sample loadings of 3 mg of sample per milliliter of column volume, minimal purification times (1–4 h) and greater than 90% homogeneity of individual THIAA congeners.
Comparison of columns packed with porous sub‐2 μm particles and superficially porous sub‐3 μm particles for peptide analysis at ambient and high temperature
Authors: Ruta Josephine , Guillarme Davy , Rudaz Serge , Veuthey Jean‐Luc 
Published: July 2010

AbstractThe objective of this study was to evaluate various chromatographic approaches for peptide analysis. Initially, the ultra‐HPLC (UHPLC) strategy, which consists of using columns packed with sub‐2 μm particles at a maximal pressure of 1000 bar, was tested. To limit the backpressure generated by small particles, columns packed with superficially porous sub‐3 μm particles (fused‐core technology) that should theoretically improve mass transfer, particularly beneficial for large biomolecules, were investigated. To evaluate these claims, kinetic plots were constructed in both isocratic and gradient modes at ambient and elevated temperature (up to 90°C). For peptide analysis, both UHPLC and fused‐core technologies showed a significant gain in peak capacity when compared with conventional HPLC using 5 μm particles and monolithic supports. Additionally, it has been shown that high temperature was of utmost interest to further improve kinetic performance and peak shape due to the improvement of secondary interaction kinetics. Finally, the best conditions developed for UHPLC using the gradient kinetic plot methodology were applied to the analysis of a complex tryptic digest of various proteins. The expected and experimental peak capacity values obtained were similar. In addition, the resolving power of UHPLC at 60°C was appropriate for resolving complex mixtures of peptides.
Capillary electrophoresis characterization of molecularly imprinted polymer particles in fast binding with 17β‐estradiol
Authors: DeMaleki Zack , Lai Edward. P. C. , Dabek‐Zlotorzynska Ewa 
Published: July 2010

AbstractMolecularly imprinted polymer (MIP) submicron particles were synthesized, using either ethylene glycol dimethacrylate or trimethylolpropane trimethacrylate as a cross‐linker, specifically for recognition of 17β‐estradiol (E2). HPLC with fluorescence detection (HPLC‐FD) results showed that 90(±5)% of E2 bound onto these particles after 2 min of incubation, and 96(±3)% after long equilibrium. The binding capacity was 8(±3) μmol/g for MIP particles prepared using ethylene glycol dimethacrylate, and 33–43(±8) μmol/g for using trimethylolpropane trimethacrylate. CE separation of MIP and non‐imprinted polymer particles was successful when 50 mM borate buffer (pH 8.5) containing 0.005% w/v EOTrol™ LN in reverse polarity (−30 kV) was used. The electrophoretic mobilities of MIP and non‐imprinted polymer particles, together with dynamic light scattering measurement of particle sizes, allowed for an estimation of their surface charges. Automated injection of E2 and particles in mixture set a lower limit of 20(±1) s on incubation time for the study of fast binding kinetics. The presence of E2 and bisphenol A (BPA) together tested the selectivity of MIP particles, when the two compounds competed for available binding cavities or sites. Addition of E2 after BPA confirmed E2 occupation of the specific binding cavities, via displacement of BPA.
Plant‐based food and feed protein structure changes induced by gene‐transformation, heating and bio‐ethanol processing: A synchrotron‐based molecular structure and nutrition research program
Authors: Yu Peiqiang 
Published: July 2010

AbstractUnlike traditional “wet” analytical methods which during processing for analysis often result in destruction or alteration of the intrinsic protein structures, advanced synchrotron radiation‐based Fourier transform infrared microspectroscopy has been developed as a rapid and nondestructive and bioanalytical technique. This cutting‐edge synchrotron‐based bioanalytical technology, taking advantages of synchrotron light brightness (million times brighter than sun), is capable of exploring the molecular chemistry or structure of a biological tissue without destruction inherent structures at ultra‐spatial resolutions. In this article, a novel approach is introduced to show the potential of the advanced synchrotron‐based analytical technology, which can be used to study plant‐based food or feed protein molecular structure in relation to nutrient utilization and availability. Recent progress was reported on using synchrotron‐based bioanalytical technique synchrotron radiation‐based Fourier transform infrared microspectroscopy and diffused reflectance infrared Fourier transform spectroscopy to detect the effects of gene‐transformation (Application 1), autoclaving (Application 2), and bio‐ethanol processing (Application 3) on plant‐based food and feed protein structure changes on a molecular basis. The synchrotron‐based technology provides a new approach for plant‐based protein structure research at ultra‐spatial resolutions at cellular and molecular levels.
Pelvic organ dysfunction is more prevalent and severe in MSA‐P compared to parkinson's disease
Authors: Yamamoto T. , Sakakibara R. , Uchiyama T. , Yamaguchi C. , Nomura F. , Ito T. , Yanagisawa M. , Yano M. , Awa Y. , Yamanishi T. , Hattori T. , Kuwabara S. 
Published: July 2010

AbstractAimsIt is usually difficult to distinguish between idiopathic Parkinson's disease (PD) and parkinsonian‐type multiple system atrophy (MSA‐P) in the early stage. However, it is important to make a careful early‐stage diagnosis. Therefore, we determined whether an examination of pelvic organ dysfunction would be helpful to distinguish between PD and MSA‐P.MethodsWe recruited 61 patients with PD and 54 patients with MSA‐P who were examined at our neurology clinic. The mean ages of the patients with PD and MSA‐P were 67 and 64 years, respectively. The mean disease duration of both groups was 3.2 years. We administered a questionnaire on pelvic organ dysfunction to the PD and MSA‐P groups. The questionnaire had sections focusing on bladder, bowel, and sexual function. Dysfunction, as described in the responses, was evaluated as normal, mild (>once a month), moderate (>once a week), or severe (>once a day). The Mann–Whitney U‐test was used for statistical analysis.ResultsCompared with the PD group, the prevalence and severity of pelvic dysfunction in the MSA‐P group was significantly higher for urinary urgency (MSA‐P 76%, PD 58%, P < 0.05), retardation in initiating urination (79%, 48%, P < 0.05), prolongation in urination (79%, 72%, P < 0.05), and constipation (58%, 31%, P < 0.05). The quality‐of‐life index among pelvic organ dysfunctions indicated that urinary and bowel function was significantly more impaired in the MSA‐P group than in the PD group.ConclusionsUrinary urgency, retardation in initiating urination, prolongation in urination, and constipation are more prevalent and severe in MSA‐P compared to PD. Neurourol. Urodyn. 30:102–107, 2011. © 2010 Wiley‐Liss, Inc.
Enhanced flow behaviors of metallocene‐catalyzed linear low‐density polyethylene during ultrasound‐assisted extrusion
Authors: Wu Hong , Bao Wenting , Guo Shaoyun 
Published: July 2010

AbstractThe effect of ultrasound on flow behaviors of metallocene‐catalyzed linear low‐density polyethylene (mLLDPE) melt in capillary‐like die during the extrusion is investigated in this article. The rise in die temperature is found with increasing ultrasound power, especially at lower initial die temperature. At the same die temperature, the presence of ultrasound can decrease the apparent viscosity and the viscous flow activation energy of mLLDPE melt then increase its slip velocity at the capillary wall in the die. The flow behavior of mLLDPE melt is enhanced during ultrasound‐assisted extrusion as the presence of ultrasound can enhance the mobility and the orientation of entangled segments. It is also found that ultrasound can break the dispersed phase of mLLDPE/polyolefin elastomer (POE) blend into small pieces thus improve the homogeneous dispersion of POE phase in mLLDPE matrix. A possible mechanism for enhanced flow behaviors of mLLDPE melt because of the presence of ultrasound is also proposed. POLYM. ENG. SCI., 2010. © 2010 Society of Plastics Engineers
Modification of physical properties of thermoplastic polyurethane by incorporation of low‐molecular‐weight diurethanes
Authors: Fiorio Rudinei , Zattera Ademir José , Ferreira Carlos Arthur 
Published: July 2010

AbstractIn this study, two diurethanes were synthesized and blended with thermoplastic polyurethane (TPU), and the effects of the incorporation of these diurethanes on the physical properties of the TPU were evaluated. The diurethanes were obtained reacting 4,4′‐diphenylmethane‐diisocyanate with 1‐butanol (Additive 1) or 1‐octanol (Additive 2). An increase in the amount of Additive 1 promoted a reduction in the rigid phase glass transition temperature (Tg), while an increase in the amount of Additive 2 caused an increase in the Tg of this phase. Processing of the TPU increased the hardness and elastic modulus and decreased the tensile stress at break. Addition of diurethanes did not promote significant changes in the hardness and stress‐strain behavior, compared with the processed TPU; however, increasing the additive content decreased the elongation and tensile stress at break. Scanning electron microscopy micrographs showed that incorporation of diurethanes into TPU led to migration of these additives. POLYM. ENG. SCI., 2010. © 2010 Society of Plastics Engineers
Mechanisms involved in the formation of phosphosilicate glass from a phosphoric acid dopant source
Authors: Vais Valantis , Mrcarica Milica , Braña Alejandro F. , Leo Tony , Fernandez Juan Manuel 
Published: July 2010

AbstractThis study focused on how the formation of phosphosilicate glass (PSG) film affects the solar cell emitter profile when using an inline ultrasonic mist phosphoric acid source and an inline diffusion furnace. This investigation used a novel approach, whereby the samples were extracted from the inline furnace mid‐process that allowed for the investigation of incompletely formed PSGs. All experimentation was conducted at BP Solar Australia. Total Gravimetric Analysis found that the dilute phosphoric acid dehydrates to form a high concentration phosphoric acid layer on the top surface. X‐ray photoelectron spectroscopy then showed this top surface reacts with the silicon and is reduced to form silicon phosphide. ECV results then demonstrated that the sheet resistance and emitter surface concentration of phosphorus is dependent upon the ratio of phosphide to total phosphorus in the PSG film. Copyright © 2010 John Wiley & Sons, Ltd.
Silyloxyamines as sources of silyl radicals: ESR spin‐trapping, laser flash photolysis investigation, and photopolymerization ability
Authors: Versace Davy Louis , Tehfe Mohamad Ali , Lalevée Jacques , Casarotto Virginie , Blanchard Nicolas , Morlet‐Savary Fabrice , Fouassier Jean‐Pierre 
Published: July 2010

AbstractTwo silyloxyamines derived from 8‐(pentamethyldisilyloxy)‐julolidine and diethyl 3‐(pentamethyldisilyloxy)‐aniline are proposed as new sources of silyl radicals. The decomposition mechanism, excited state processes and the radical generation are explored by steady state photolysis, laser flash photolysis (LFP), electron spin resonance (ESR), and MO calculations. The SiSi bond cleavage is clearly demonstrated. The formation of a radical cation on the amine moiety is also observed. Moreover, these compounds work as efficient Type I and Type II photoinitiators (PI) of free radical photopolymerization (FRP). Copyright © 2010 John Wiley & Sons, Ltd.
Randomized placebo‐controlled trial of lactobacillus on asthmatic children with allergic rhinitis
Authors: Chen Yue‐Sheng , Lin Yen‐Lin , Jan Ren‐Long , Chen Hsin‐Hung , Wang Jiu‐Yao 
Published: July 2010

AbstractPrevious studies have suggested that probiotic administration may have therapeutic and/or preventive effects on atopic dermatitis in infants; however, its role in allergic airway diseases remains controversial. To determine whether daily supplementation with specific Lactobacillus gasseri A5 for 8 weeks can improve the clinical symptoms and immunoregulatory changes in school children suffering from asthma and allergic rhinitis (AR). We conducted a randomized, double‐blind, placebo‐controlled study on school children (age, 6–12 years) with asthma and AR. The eligible study subjects received either L. gasseri A5 (n = 49) or a placebo (n = 56) daily for 2 months. Pulmonary function tests were performed, and the clinical severity of asthma and AR was evaluated by the attending physicians in the study period. Diary cards with records of the day‐ and nighttime peak expiratory flow rates (PEFR), symptoms of asthma, and AR scores of the patients were used for measuring the outcome of the treatment. Immunological parameters such as the total IgE and cytokine production by the peripheral blood mononuclear cells (PBMCs) were determined before and after the probiotic treatments. Our results showed the pulmonary function and PEFR increased significantly, and the clinical symptom scores for asthma and AR decreased in the probiotic‐treated patients as compared to the controls. Further, there was a significant reduction in the TNF‐α, IFN‐γ, IL‐12, and IL‐13 production by the PBMCs following the probiotic treatment. In conclusion, probiotic supplementation may have clinical benefits for school children suffering from allergic airway diseases such as asthma and AR. Pediatr Pulmonol. 2010;45:1111–1120. © 2010 Wiley‐Liss, Inc.