gebhart/patrepeval huggingface dataset:
Human anti-idiotypic T cells induced by TCR peptides corresponding to a common CDR3 sequence motif in myelin basic protein-reactive T cells (2003)

T cells recognizing myelin basic protein (MBP) are potentially involved in the pathogenesis of multiple sclerosis (MS). In vivo clonal expansion of MBP-reactive T cells in MS may relate in part to dysfunction of peripheral regulatory mechanisms, including the anti-idiotypic immune network. In this study, we examined anti-idiotypic immune responses and the functional properties of anti-idiotypic T cells in patients with MS and healthy controls using TCR peptides corresponding to a CDR3 sequence motif preferentially expressed among T cells recognizing the 83-99 immunodominant peptide of MBP in some patients with MS. The study demonstrated that anti-idiotypic T cells could be induced in vitro by 8mer and 15mer peptides containing the CDR3 motif in MS patients and healthy controls respectively. The estimated precursor frequency of the anti-idiotypic T cells was slightly reduced in MS patients compared to control subjects. The obtained anti-idiotypic T cells recognizing the 15mer TCR peptide were found to express the CD4 phenotype, produce predominantly IL-10 and inhibit the proliferation of autologous T cells recognizing the immunodominant peptide of MBP. Anti-idiotypic T cells induced by the 8mer TCR peptide were predominantly CD8+ cytotoxic T cells and exhibited cytotoxic activity against autologous MBP-specific T cells expressing the CDR3 sequence. When added in primary culture, both TCR peptides had a significant inhibitory effect on the T cell responses to the immunodominant peptide of MBP. The findings suggest that anti-idiotypic immune responses can be activated by selected TCR peptides and may play an important role in the in vivo regulation of MBP-reactive T cells.
Differential protein expression in male and female human lumbar cerebrospinal fluid using iTRAQ reagents after abundant protein depletion (2007)

Cerebrospinal fluid (CSF) has become one of the most frequently used biological medium for physiological studies for neurological disorders due to its proximity to the brain and clinical availability; however, before undertaking a rational approach to biomarker discovery or diagnostics, it is crucial to understand the underlying characteristics of CSF proteome in subpopulations. In this study, we examined the differential expression of proteins in pooled male and female CSF utilizing isobaric tags for relative and absolute quantification (iTRAQ) reagents after the depletion of six high abundant proteins using a multiple affinity removal system (MARS). A total of 219 proteins were identified (95% confidence level), and 12 proteins showed difference in expression levels. Eleven out of 12 differentially expressed proteins showed ratios of male/female between 1.15 and 1.29 (duplicate average), indicating a remarkable similarity between male and female CSF. One notable exception was the slightly lower expression level of ceruloplasmin (ferroxidase) in male CSF (0.81), a copper containing protein that catalyzes the conversion of ferrous iron to ferric iron with antioxidant properties. We also examined the levels of ceruloplasmin in each individual patient sample which constituted the pooled CSF using Western blot analysis which confirmed the lower expression levels of ceruloplasmin in male CSF.
The metabolism of neuropeptides. The hydrolysis of peptides, including enkephalins, tachykinins and their analogues, by endopeptidase-24.11 (1984)

Endopeptidase-24.11 (EC 3.4.24.11), purified to homogeneity from pig kidney, was shown to hydrolyse a wide range of neuropeptides, including enkephalins, tachykinins, bradykinin, neurotensin, luliberin and cholecystokinin. The sites of hydrolysis of peptides were identified, indicating that the primary specificity is consistent with hydrolysis occurring at bonds involving the amino group of hydrophobic amino acid residues. Of the substrates tested, the amidated peptide substance P is hydrolysed the most efficiently (Km = 31.9 microM; kcat. = 5062 min-1). A free alpha-carboxy group at the C-terminus of a peptide substrate is therefore not essential for efficient hydrolysis by the endopeptidase. A large variation in kcat./Km values was observed among the peptide substrates studied, a finding that reflects a significant influence of amino acid residues, remote from the scissile bond, on the efficiency of hydrolysis. These subsite interactions between peptide substrate and enzyme thus confer some degree of functional specificity on the endopeptidase. The inhibition of endopeptidase-24.11 by several compounds was compared with that of pig kidney peptidyldipeptidase A (EC 3.4.15.1). Of the inhibitors examined, only N-[1(R,S)-carboxy-2-phenylethyl]-Phe-p-aminobenzoate inhibited endopeptidase-24.11 but not peptidyldipeptidase. Captopril (D-3-mercapto-2-methylpropanoyl-L-proline), Teprotide (pGlu-Trp-Pro-Arg-Pro-Gln-Ile-Pro-Pro) and MK422 [N-[(S)-1-carboxy-3-phenylpropyl]-L-Ala-L-Pro] were highly selective as inhibitors of peptidyldipeptidase. Although not wholly specific, phosphoramidon was a more potent inhibitor of endopeptidase-24.11 than were any of the synthetic compounds tested.
Novel Inositol Polyphosphate 5-Phosphatase Localizes at Membrane Ruffles (1999)

We have cloned a novel inositol polyphosphate 5-phosphatase from the rat brain cDNA library. It contains two highly conserved 5-phosphatase motifs, both of which are essential for its enzymatic activity. Interestingly, the proline content of this protein is high and concentrated in its N- and C-terminal regions. One putative SH3-binding motif and six 14-3-3 zeta-binding motifs were found in the amino acid sequence. This enzyme hydrolyzed phosphate at the D-5 position of inositol 1,4,5-trisphosphate, inositol 1,3,4, 5-tetrakisphosphate, and phosphatidylinositol 4,5-bisphosphate, consistent with the substrate specificity of type II 5-phosphatase, OCRL, synaptojanin and synaptojanin 2, already characterized 5-phosphatases. When the Myc-epitope-tagged enzyme was expressed in COS-7 cells and stained with anti-Myc polyclonal antibody, a signal was observed at ruffling membranes and in the cytoplasm. We prepared several deletion mutants and demonstrated that the 123 N-terminal amino acids (311-433) and a C-terminal proline-rich region containing 277 amino acids (725-1001) were essential for its localization to ruffling membranes. This enzyme might regulate the level of inositol and phosphatidylinositol polyphosphates at membrane ruffles.
Randomized Kinodynamic Planning (2001)

This paper presents the first randomized approach to kinodynamic planning (also known as trajectory planning or trajectory design). The task is to determine control inputs to drive a robot from an ini ial configuration and velocity to a goal configuration and velocity while obeying physically based dynamical models and avoiding obstacles in the robot’s environment. The authors consider generic systems that express the nonlinear dynamics of a robot in terms of the robot’s high-dimensional configuration space. Kinodynamic planning is treated as a motion-planning problem in a higher dimensional state space that has both first-order differential constraints and obstacle-based global constraints. The state space serves the same role as the configuration space for basic path planning; however, standard randomized path-planning techniques do not directly apply to planning trajectories in the state space. The authors have developed a randomized planning approach that is particularly tailored to trajectory planning problems in high-dimensional state spaces. The basis for this approach is the construction of rapidly exploring random trees, which offer benefits that are similar to those obtained by successful randomized holonomic planning methods but apply to a much broader class of problems. Theoretical analysis of the algorithm is given. Experimental results are presented for an implementation that computes trajectories for hovercrafts and satellites in cluttered environments, resulting in state spaces of up to 12 dimensions.
Electronic Properties of Graphene/<i>h</i>-BN Bilayer Superlattices (2012)

We study the electronic properties of superlattices composed of a graphene and hexagonal boron nitride ( h -BN) bilayer in the framework of density functional theory. Depending on the stacking sequences of superlattices, various interesting electronic properties are observed. The stable superlattice with the shortest stacking period is found to be a narrow-gap semiconductor with a very small effective mass. On the other hand, almost linear dispersion relations should appear around the K point in a stable superlattice with a longer stacking period. These almost linear bands are found to split owing to weak but finite inter-graphene interactions mediated by h -BN bilayers.
Kinetics and conformation in the reversible insertion of an alkene into a platinum-carbon bond in a chelated (pentenyl)platinum complex (1993)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTKinetics and conformation in the reversible insertion of an alkene into a platinum-carbon bond in a chelated (pentenyl)platinum complexSusan P. Ermer, Ginette E. Struck, Steven P. Bitler, Rosalie Richards, Robert Bau, and Thomas C. FloodCite this: Organometallics 1993, 12, 7, 2634–2643Publication Date (Print):July 1, 1993Publication History Published online1 May 2002Published inissue 1 July 1993https://doi.org/10.1021/om00031a037RIGHTS & PERMISSIONSArticle Views218Altmetric-Citations35LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (1 MB) Get e-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
Probing Thermally Induced Decomposition of Delithiated Li<sub>1.2–<i>x</i></sub>Ni<sub>0.15</sub>Mn<sub>0.55</sub>Co<sub>0.1</sub>O<sub>2</sub> by in Situ High-Energy X-ray Diffraction (2014)

Safety of lithium-ion batteries has been a major barrier to large-scale applications. For better understanding the failure mechanism of battery materials under thermal abuse, the decomposition of a delithiated high energy cathode material, Li1.2-xNi0.15Mn0.55Co0.1O2, in the stainless-steel high pressure capsules was investigated by in situ high energy X-ray diffraction. The data revealed that the thermally induced decomposition of the delithiated transition metal (TM) oxide was strongly influenced by the presence of electrolyte components. When there was no electrolyte, the layered structure for the delithiated TM oxide was changed to a disordered Li1-xM2O4-type spinel, which started at ca. 266 °C. The disordered Li1-xM2O4-type spinel was decomposed to a disordered M3O4-type spinel phase, which started at ca. 327 °C. In the presence of organic solvent, the layered structure was decomposed to a disordered M3O4-type spinel phase, and the onset temperature of the decomposition was ca. 216 °C. When the LiPF6 salt was also present, the onset temperature of the decomposition was changed to ca. 249 °C with the formation of MnF2 phase. The results suggest that a proper optimization of the electrolyte component, that is, the organic solvent and the lithium salt, can alter the decomposition pathway of delithiated cathodes, leading to improved safety of lithium-ion batteries.
Min Flow Rate Maximization for Software Defined Radio Access Networks (2014)

We consider a cloud-based heterogeneous network of base stations (BSs) connected via a backhaul network of routers and wired/wireless links with limited capacity. The optimal provision of such networks requires proper resource allocation across the radio access links in conjunction with appropriate traffic engineering within the backhaul network. In this paper, we propose an efficient algorithm for joint resource allocation across the wireless links and flow control over the entire network. The proposed algorithm, which maximizes the min-rate among all the transmitted commodities, is based on a decomposition approach that leverages both the alternating direction method of multipliers (ADMM) and the weighted-MMSE (WMMSE) algorithm. We show that this algorithm is easily parallelizable and converges globally to a stationary solution of the joint optimization problem. The proposed algorithm can also be extended to networks with multi-antenna nodes and other utility functions.
Antitracheobronchospastic interaction in vitro and in vivo between salbutamol and flunisolide. (1985)

Salbutamol and flunisolide, when administered in association, are able to potentiate their effects both in vitro and in vivo on relaxation of the tracheobronchial smooth muscle of the guinea-pig.
A preliminary evaluation of head and facial feature tracking for input on mobile devices (2009)

This paper discusses the concept of using head and facial feature tracking as an input mechanism for mobile devices. We present our concept and ideas, along with preliminary findings from two prototype implementations. Suggestions for further work and implications are presented in the final sections of the paper.
Large Enhancement of Quantum Dot Fluorescence by Highly Scalable Nanoporous Gold (2013)

Dealloyed nanoporous gold (NPG) dramatically enhances quantum dot (QD) fluorescence by amplifying near-field excitation and increasing the radiative decay rate. Originating from plasmonic coupling, the fluorescence enhancement is highly dependent upon the nanopore size of the NPG. In contrast to other nanoengineered metallic structures, NPG exhibits fluorescence enhancement of QDs over a large substrate surface.
Modification of the Expression of the Aquaporin ZmPIP2;5 Affects Water Relations and Plant Growth (2020)

The plasma membrane intrinsic protein PIP2;5 is the most highly expressed aquaporin in maize (<i>Zea mays</i>) roots. Here, we investigated how deregulation of PIP2;5 expression affects water relations and growth using maize overexpression (OE; B104 inbred) or knockout (KO; W22 inbred) lines. The hydraulic conductivity of the cortex cells of roots grown hydroponically was higher in PIP2;5 OE and lower in <i>pip2;5</i> KO lines compared with the corresponding wild-type plants. While whole-root conductivity decreased in the KO lines compared to the wild type, no difference was observed in OE plants. This paradox was interpreted using the MECHA hydraulic model, which computes the radial flow of water within root sections. The model hints that the plasma membrane permeability of the cells is not radially uniform but that PIP2;5 may be saturated in cell layers with apoplastic barriers, i.e. the endodermis and exodermis, suggesting the presence of posttranslational mechanisms controlling the abundance of PIP in the plasma membrane in these cells. At the leaf level, where the <i>PIP2;5</i> gene is weakly expressed in wild-type plants, the hydraulic conductance was higher in the PIP2;5 OE lines compared with the wild-type plants, whereas no difference was observed in the <i>pip2;5</i> KO lines. The temporal trend of leaf elongation rate, used as a proxy for that of xylem water potential, was faster in PIP2;5 OE plants upon mild stress, but not in well-watered conditions, demonstrating that PIP2;5 may play a beneficial role in plant growth under specific conditions.
Approaching the Dirac Point in High-Mobility Multilayer Epitaxial Graphene (2008)

Multilayer epitaxial graphene is investigated using far infrared transmission experiments in the different limits of low magnetic fields and high temperatures. The cyclotron-resonance-like absorption is observed at low temperature in magnetic fields below 50 mT, probing the nearest vicinity of the Dirac point. The carrier mobility is found to exceed 250,000 cm2/(V x s). In the limit of high temperatures, the well-defined Landau level quantization is observed up to room temperature at magnetic fields below 1 T, a phenomenon unusual in solid state systems. A negligible increase in the width of the cyclotron resonance lines with increasing temperature indicates that no important scattering mechanism is thermally activated.
2‐D DIGE profiling of hepatocellular carcinoma tissues identified isoforms of far upstream binding protein (FUBP) as novel candidates in liver carcinogenesis (2008)

Hepatocellular carcinoma (HCC) is a major cause of cancer worldwide and is often characterized by aggressive tumour behaviour and poor prognosis. One of the major etiologies is hepatitis B or C virus (HBV or HCV) infections. In order to better comprehend the molecular mechanisms involved in HCC progression, we performed a systematic analysis on moderately and poorly differentiated human HCC tissues using 2-D DIGE coupled to MALDI-TOF/TOF MS. A total of 52 and 26 proteins were found to be dysregulated in moderately and poorly differentiated HCC tissues, respectively. For the first time, the over-expression of a novel protein family, far upstream binding proteins (FUBPs) was identified in both stages of HCC and confirmed by western blots. FUBPs are of particular interest due to their transcriptional activity on the oncogene, c-myc. It has generally been accepted that c-myc plays an important role in HCC progression but its exact activators remain poorly understood. Interestingly, we also observed elevated c-myc levels in the tissues used in this study by western blot analysis. We therefore propose that the FUBP family of proteins may be one of the possible upstream players that are involved in modulating the c-myc levels in HCC tumorigenesis.
Investigation of BARC-Resist Interfacial Interactions (2003)

With the increasing drive towards smaller feature sizes in integrated circuits and the consequent use of shorter exposure wavelengths, the imaging resist layer and underlying bottom anti-reflective coating (BARC) layer are becoming thinner. At this scale, the performance of chemically amplified resists can be adversely affected by the BARC-resist interfacial interactions. These interactions can cause distortion of resist profiles and lead to footing, undercut, or pattern collapse. -BARC components can immensely influence the deprotection and dissolution properties of the resist. A thorough understanding of the physico-chemical interactions at these interfaces is essential to design and develop new material platforms with minimal adverse interactions and maximum compatibility between BARC and resist. Results are reported from studies of (A) surface versus bulk chemistry of BARC materials as a function of cure temperature, (B) the dependence of the thickness and composition of the residual layer (resist material remaining on the surface of the BARC after development) on BARC components, as determined by formulating the BARC or resist with an excess of various BARC components, and (C) the dependence of the residual layer thickness on crosslink density, exposure dose, and resist bake temperature. The BARC thin films and the interphase between BARC and resist were characterized with near edge x-ray absorption fine structure (NEXAFS) spectroscopy. Surface chemical properties of BARC films were derived from contact angle measurements of various liquids on these thin films. Preliminary results from these studies indicate that some BARC components may migrate to the BARC-resist interphase and act as dissolution inhibitors. Similarly, small molecule additives in the resist may migrate into the BARC layer, causing chemical modifications.
Carbon Fibre Mesh for the Repair of Abdominal Hernias in Bovines and Caprines: A Review of Nine Clinical Cases (2007)

During a 4-year period (2001-2005) 09 animals were surgically treated because of abdominal wall defects (hernia). Out of 9 animals 8 were bovines and one caprine. In each case the defect was repaired with carbon fibre mesh. All the cases were successfully treated and no complication was observed up to six months postoperatively.
Cyclosporin A and Its Analogs Inhibit Hepatitis B Virus Entry Into Cultured Hepatocytes Through Targeting a Membrane Transporter, Sodium Taurocholate Cotransporting Polypeptide (NTCP) (2013)

This study provides a proof of concept for the novel strategy to identify anti-HBV agents by targeting the candidate HBV receptor, NTCP, using CsA as a structural platform.
In-Mouth Mechanisms Leading to Flavor Release and Perception (2010)

During eating, foods are submitted to two main oral processes-chewing, including biting and crushing with teeth, and progressive impregnation by saliva resulting in the formation of a cohesive bolus and swallowing of the bolus. Texture influences the chewing behavior, including mastication and salivation, and in turn, these parameters influence texture perception and bolus formation. During this complex mouth process, flavor compounds are progressively released from the food matrix. This phenomenon is mainly dependent on the food texture, the composition and in-mouth breakdown, and on saliva impregnation and activity, but an individual's anatomical and physiological aspects characteristics should also be taken into account. This article reviews the knowledge and progresses on in-mouth processes leading to food breakdown and flavor release and affecting perception. Relationships between food texture and composition, food breakdown, oral physiology, and flavor release are developed and discussed. This review includes not only the mechanical aspects of oral physiology but also the biological aspects such as the influence of saliva composition, activity, and regulation on flavor perception. In vitro and in silico approaches are also described.
Municipal Wastewater Treatment By Electrocoagulation (2015)

This paper aims at the suitability of Electrocoagulation for the treatment of municipal wastewater. The process was evaluated with a laboratory scale model with Aluminum anode and stainless steel cathode due to its high efficiency in the removal of apparent color and organic matter. The experiment was conducted with municipal wastewater. The initial and final characterization of wastewater is done for various parameters and the Electrocoagulation is evaluated for the highest efficiency. The optimal condition COD removed found to be was 80.70% and Total Solids was 61.38% at 25 minutes of electrolysis time, 10V applied potential and 2cm inter electrode distance. Also the floating and settling behavior of the sludge is studied.
Turbocharger Turbines: An Experimental Study on the Effects of Wastegate Size and Flow Passage Design (2013)

The present study experimentally investigates three different automotive turbochargers of varying turbine/wastegate combination: two of similar turbine housing (BorgWarner) but different bypass throat diameter (20 and 26 mm), and a third of both different housing (Honeywell) and throat size from the former two (21 mm).The effects of turbine housing flow passage design and bypass throat size on open wastegate turbine performance and wastegate flow efficiency were examined at discrete wastegate valve openings: 5, 10, 20, and 40.The study also analyzes the effects of these geometrical differences on change in flow rate through the wastegate when examined independent of or in parallel with the rotor.Steady flow experiments were performed on a flow bench default approach, whereas in the proposed model the error was confined to -4.62 to 3.21%.v Dedicated to my family vi ACKNOWLEDGMENTS I would like to thank my advisor, Prof