gebhart/patrepeval huggingface dataset:
Extended repertoire of permissible peptide ligands for HLA‐B*2702 (1996)

Recognition of self peptides bound to the class I major histocompatibility complex molecule HLA-B27 is thought to trigger proliferation of autoreactive T cells and result in autoimmune arthritic diseases. Previous work from other laboratories established that a predominant feature of endogenous peptides eluted from purified B27 is an arginine at position 2. We studied the binding of peptides containing both natural and unnatural amino acids by the subtype HLA-B*2702, with the goal of gaining insight into peptide binding by this B27 subtype that is associated with susceptibility to arthritic disease. A soluble from of B*2702 was depleted of endogenous peptides. We tested the binding of peptides substituted with cysteine, homocysteine, or an alpha-amino-epsilon-mercapto hexanoic acid side chain (Amh) instead of the naturally occurring arginine at position 2, to determine whether the peptide sulfhydryl residue could be covalently linked to cysteine 67 in the B*2702 binding cleft. Although none of the altered peptide sequences bound covalently to B*2702, the affinities of the homocysteine- and Amh-substituted peptides were close to that of the native peptide sequence. Substitutions at position 2 with other side chains, such as glutamine and methionine, also resulted in peptides that bound with only slightly reduced affinity. These results demonstrate that peptide side chains other than arginine at position 2 can be accomodated within the B*2702 peptide binding site with only minor reductions in affinity. This extended repertoire of permissible B27-binding peptides should be taken into account for a consideration of disease-associated peptide sequences.
Detection of the Influenza A(H1N1)pdm09 Virus Carrying the K-15E, P83S and Q293H Mutations in Patients Who Have Undergone Bone Marrow Transplant (2014)

The 2009 pandemic influenza A(H1N1)pdm09 virus emerged and caused considerable morbidity and mortality in the third world, especially in Brazil. Although circulating strains of A(H1N1)pdm09 are A/California/04/2009-like (CA-04-like) viruses, various studies have suggested that some mutations in the viral hemagglutinin (HA) may be associated with enhanced severity and fatality. This phenomenon is particularly challenging for immunocompromised individuals, such as those who have undergone bone marrow transplant (BMT), because they are more likely to display worse clinical outcomes to influenza infection than non-immunocompromised individuals. We studied the clinical and viral aspects of post-BMT patients with confirmed A(H1N1)pdm09 diagnosis in the largest cancer hospital in Brazil. We found a viral strain with K-15E, P83S and Q293H polymorphisms in the HA, which is presumably more virulent, in these individuals. Despite that, these patients showed only mild symptoms of infection. Our findings complement the discovery of mild cases of infection with the A(H1N1)pdm09 virus with the K-15E, P83S and Q293H mutations in Brazil and oppose other studies that have linked these changes with increased disease severity. These results could be important for a better comprehension of the impact of the pandemic influenza in the context of BMT.
Inverse vulcanization of trimethoxyvinylsilane particles (2022)

Inverse vulcanization of trimethoxyvinylsilane microparticles and their application as heavy metal adsorbents for environmentally hazardous Hg 2+ and Cu 2+ ions.
Sensitivity and Specificity of a Rapid rRNA Gene Probe Assay for Simultaneous Identification of Staphylococcus aureus and Detection of mecA (2005)

rRNA gene sequences were used for identification and target adequacy controls in a DNA probe assay to identify isolates as Staphylococcus and, more specifically, as S. aureus within 1 hour. mecA status was simultaneously determined using a specific DNA probe. The target adequacy control guarded against false-negative mecA results.
Identification of erythropoietin‐induced microRNAs in haematopoietic cells during erythroid differentiation (2008)

MicroRNAs (miRNAs) are small non-coding RNAs that regulate gene expression through mRNA degradation or translation inhibition. It has not yet been clearly elucidated whether miRNAs participate in haematopoietic processes such as cell differentiation, apoptosis and maintenance of adequate levels of circulating blood cells. A human miRNA microarray was used to analyze miRNA expression in the erythropoietin-dependent cell line UT-7/EPO compared to other factor-dependent UT-7 cell lines. Among 324 human miRNAs, MIRN188, MIRN362 and MIRN210 levels were significantly elevated in UT-7/EPO cells, and stimulation with EPO in UT-7 cells increased the level of these three miRNAs. Notably, knockdown of MIRN210 in UT-7/EPO cells led to apoptosis. In mouse fetal liver cells, MIRN210 expression was twofold higher in TER-119-positive cells than in TER-119-negative cells. The expression of MIRN210 was elevated during erythroid maturation in vitro. These data suggest MIRN210 to be a member a new class of regulatory miRNAs that might play an important role in erythroid maturation.
Faster Exact Reliability Computation (2017)

High reliability guarantees are a prerequisite for any critical infrastructure. In complex systems, the computation of the probability to provide a service is difficult and hence time consuming. To this end, this article presents an improved method for exact reliability computation by exploiting the existence of articulation points in graphs representing the dependency function such systems. Evaluated on generalized block graphs with many articulation points, this method provides a speed-up of 50% to 85% in general. When the network does not contain articulation points, the overhead in memory and computation time is negligible in comparison to an existing method.
Mixture kernel least mean square (2013)

Instead of using single kernel, different approaches of using multiple kernels have been proposed recently in kernel learning literature, one of which is multiple kernel learning (MKL). In this paper, we propose an alternative to MKL in order to select the appropriate kernel given a pool of predefined kernels, for a family of online kernel filters called kernel adaptive filters (KAF). The need for an alternative is that, in a sequential learning method where the hypothesis is updated at every incoming sample, MKL would provide a new kernel, and thus a new hypothesis in the new reproducing kernel Hilbert space (RKHS) associated with the kernel. This does not fit well in the KAF framework, as learning a hypothesis in a fixed RKHS is the core of the KAF algorithms. Hence, we introduce an adaptive learning method to address the kernel selection problem for the KAF, based on competitive mixture of models. We propose mixture kernel least mean square (MxKLMS) adaptive filtering algorithm, where the kernel least mean square (KLMS) filters learned with different kernels, act in parallel at each input instance and are competitively combined such that the filter with the best kernel is an expert for each input regime. The competition among these experts is created by using a performance based gating, that chooses the appropriate expert locally. Therefore, the individual filter parameters as well as the weights for combination of these filters are learned simultaneously in an online fashion. The results obtained suggest that the model not only selects the best kernel, but also significantly improves the prediction accuracy.
The Z-disc proteins myotilin and FATZ-1 interact with each other and are connected to the sarcolemma via muscle-specific filamins (2005)

Myotilin and the calsarcin family member FATZ-1 (also called calsarcin-2 or myozenin-1) are recently discovered sarcomeric proteins implicated in the assembly and stabilization of the Z-discs in skeletal muscle. The essential role of myotilin in skeletal muscle is attested by the observation that certain forms of myofibrillar myopathy and limb girdle muscular dystrophy are caused by mutations in the human myotilin gene. Here we show by transfection, biochemical and/or yeast two-hybrid assay that: (1) myotilin is able to interact with the C-terminal region of FATZ-1 and that the N- or C-terminal truncations of myotilin abrogate binding; (2) myotilin can also interact with another calsarcin member, FATZ-2 (calsarcin-1, myozenin-2); (3) myotilin and FATZ-1 bind not only to the C-terminal region of filamin-C containing the Ig repeats 19-24, but also to the other two filamins, filamin-A and filamin-B, as well as the newly identified filamin-Bvar-1variant; (4) the binding of myotilin to filamin-C involves binding sites in its N-terminal region, whereas FATZ-1 associates with filamin-C via sequences within either its N- or C-terminal region; and finally, (5) the C-terminal region of filamin-C like filamin-B and filamin-Bvar-1, shows binding activity with the beta1A integrin subunit. Our findings further dissect the molecular interactions within the Z-disc that are essential for its organization, and provide evidence for a novel connection between Z-disc proteins and the sarcolemma via filamins and beta1 integrins. These data shed new light on the complex organization of the Z-disc that is highly relevant to understanding muscular dystrophies.
High spectral resolution lidar to measure optical scattering properties of atmospheric aerosols 2: Calibration and data analysis (1983)

The high spectral resolution lidar (HSRL) measures optical properties of atmospheric aerosols by interferometrically separating the elastic aerosol backscatter from the Doppler broadened molecular contribution. Calibration and data analysis procedures developed for the HSRL are described. Data obtained during flight evaluation testing of the HSRL system are presented with estimates of uncertainties due to instrument calibration. HSRL measurements of the aerosol scattering cross section are compared with in situ integrating nephelometer measurements.
Distributed core multicast (DCM) (1999)

We present a multicast routing protocol called Distributed Core Multicast (DCM). It is intended for use within a large single Internet domain network with a very large number of multicast groups with a small number of receivers. Such a case occurs, for example, when multicast addresses are allocated to mobile hosts, as a mechanism to manage Internet host mobility or in large distributed simulations. For such cases, existing dense or sparse mode multicast routing algorithms do not scale well with the number of multicast groups. DCM is based on an extension of the centre-based tree approach. It uses several core routers, called Distributed Core Routers (DCRs) and a special control protocol among them. DCM aims: (1) avoiding multicast group state information in backbone routers, (2) avoiding triangular routing across expensive backbone links, (3) scaling well with the number of multicast groups. We evaluate the performance of DCM and compare it to an existing sparse mode routing protocol when there is a large number of small multicast groups. We also analyse the behaviour of DCM when the number of receivers per group is not a small number.
Thermoluminescence Studies of Aluminum Oxide. (1957)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTThermoluminescence Studies of Aluminum Oxide.James K. Rieke and Farrington DanielsCite this: J. Phys. Chem. 1957, 61, 5, 629–633Publication Date (Print):May 1, 1957Publication History Published online1 May 2002Published inissue 1 May 1957https://pubs.acs.org/doi/10.1021/j150551a026https://doi.org/10.1021/j150551a026research-articleACS PublicationsRequest reuse permissionsArticle Views308Altmetric-Citations59LEARN 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 InRedditEmail Other access options Get e-Alerts
Compact Architectures For Adaptive Neural Nets (1989)

A compact optical architecture capable of implementing a number of adaptive neural net models is described. Compact architectures do not involve traditional optical imaging systems and are potentially rugged, easily constructed, and scalable. The critical devices of the generic architecture include 1-D electro-optic modulators and detectors to implement the neural processing elements, along with the Pockels readout optical modulator (PROM) to encode the analog weights. The architectural advancements include an input/output compatible method of handing both positive and negative values for the elements of the neuron activation vectors and the synaptic weight matrices during learning and recall. These hybrid architectures are capable of implementing linear and nonlinear associators with adaptive learning algorithms.
Diastereoselective Synthesis of Arabino- and Ribo-like Nucleoside Analogues Bearing a Stereogenic C3′ All-Carbon Quaternary Center (2019)

The synthesis of novel nucleoside analogues bearing a C3' all-carbon quaternary center and a C2'-hydroxy substituent is described. The all-carbon stereogenic center was generated through an intramolecular 7-<i>endo</i> attack of a silyl-tethered allyl moiety on a tertiary radical using photoredox catalysis. Subsequent allylic oxidation and diastereoselective hydride reductions provided the hydroxy substituent at C2', which then controls the stereoselective introduction of pyrimidine nucleobases on the corresponding furanose scaffold. Density functional theory (DFT) calculations provided insights into the origin of the high <i>syn</i> diastereoselectivity resulting from the radical cyclization. This original methodology grants access to a wide range of 1',2'-<i>cis</i> and 1',2'-<i>trans</i> arabino- and ribo-like analogues bearing an all-carbon quaternary center at C3'. These molecules are currently being tested for their antiviral and anticancer properties.
Lithium Interaction With the Cyclooxygenase 2 Inhibitors Rofecoxib and Celecoxib and Other Nonsteroidal Anti-Inflammatory Drugs (2003)

Clinicians should consider NSAID use in the differential diagnosis of lithium toxicity, monitor patients' serum lithium concentrations during the initiation or discontinuation of NSAID therapy, and be aware that the selective COX-2 inhibitors can increase serum lithium concentrations leading to toxicity.
Antibodies against Lutzomyia longipalpis saliva in the fox Cerdocyon thous and the sylvatic cycle of Leishmania chagasi (2006)

Sera of 11 wild Cerdocyon thous foxes from an endemic area for American visceral leishmaniasis were tested for the presence of antibodies against salivary gland homogenates (SGH) of Lutzomyia longipalpis. All foxes had higher levels of anti-Lu. longipalpis SGH antibodies than foxes from non-endemic areas, suggesting contact between foxes and the vector of visceral leishmaniasis. Sera of humans and dogs living in the same area were also tested for reactivity against Lu. longipalpis SGHs and had a lower proportion of reactivity than foxes. Antibodies against Leishmania chagasi were not detected in any of the foxes, but three foxes showed the presence of parasites in the bone marrow by direct examination, PCR or by infecting the vector. Both humans and dogs had higher levels of anti-Le. chagasi IgG antibodies than C. thous. The finding of an antibody response against saliva of Lu. longipalpis among C. thous together with the broad distribution of the vector in resting areas of infected foxes suggests that the natural foci of transmission of Le. chagasi exists independently of the transmission among dogs and humans.
Spontaneous polymerization of the antibiotic peptide magainin 2 (1989)

We describe here the ability of the magainin 2 peptide to assemble spontaneously into characteristic 13-nm diameter filaments having a 30 nm periodic helical substructure. Optimal conditions for extensive polymerization into filaments of several hundred microns required low pH and high ionic strength. Polymerization of the magainin 2 peptide may be involved in its recently described in vitro membrane-disrupting and antibiotic activities.
Comparison of human platelet membrane‐cytoskeletal proteins with the plasma proteome: Towards understanding the platelet‐plasma nexus (2007)

Platelets are essential for maintaining vascular integrity. Given the anucleate nature of platelets, definition of their proteome is essential for understanding platelet pathophysiology. We describe here a detailed MS-based proteomic analysis of the platelet membrane/cytoskeletal sub-proteome from purified, normal, non-activated human platelets. In contrast to previous platelet proteomic purification strategies, the buffy-coat method was utilized in this study to isolate and purify minimally activated platelets, yielding significantly reduced contaminants for leukocytes (0.02 ± 0.007×10(6) /L) and erythrocytes (0.21 ± 0.02%). Using a false discovery rate of 1%, 203 proteins were identified and characterized with respect to their subcellular localization, biological function, and cellular processes. Of these, 16 have not been identified in previous human platelet proteome studies. As a first approach towards understanding the dynamic platelet-plasma protein composition nexus, we re-analysed the entire HUPO plasma proteome project dataset (647 plasma proteins identified) and compared these data with our platelet proteome dataset. Co-identified proteins (41) were further analysed with respect to their relative abundances (exponentially modified protein abundance index) and functional enrichment in these two proteomes, as well as their correlation with the platelet transcriptome. Both platelet membrane/cytoskeletal and plasma proteome reference datasets, comprising both processed and unprocessed MS/MS spectra, are publicly accessible (http://www.ludwig.edu.au/archive/).
Energy and traffic aware dynamic topology management for wireless cellular networks (2012)

In this paper, we study a dynamic topology management problem in the wireless cellular network, in which base stations can be switched on or off to save energy consumption of the network. To model non-uniform traffic demand over the network, we divide the entire network area into subareas, assuming that each of subareas has its own traffic demand, which can be satisfied by allocating enough bandwidth and power from a base station. With this network model, we propose a two-step algorithm for dynamic topology management. In the first step, we obtain the maximum radius of the service area for each base station by solving an optimization problem. In the second step, we first construct a graph based on the maximum radii obtained in the first step. We then identify the minimal set of base stations that should be switched on to satisfy the demand of each subarea in the network based on the shortest path algorithm on the constructed graph. From numerical results, we show that our algorithm provides a significant amount of energy saving, while adaptively considering the traffic demand of each subarea in the network.
Estrogen Modulates Inflammatory Mediator Expression and Neutrophil Chemotaxis in Injured Arteries (2004)

E2 attenuates the early vascular injury response, at least in part, by negatively modulating proinflammatory mediator expression and the resultant chemotactic activity of injured vessels for neutrophils.
Optimal reconstruction bandwidth scheme for Zigzag-decodable code with combination property in cloud storage system (2015)

A data reconstruction scheme for the storage code that possesses the combination property (CP) and zigzag decod-able (ZD) is proposed for distributed storage system. (n, k) CP is defined as follows: k message with each containing L bits are encoded to n ≥ k packets and then stored into n storage nodes, respectively. Any k from these n storage nodes can recover the original message. The code operates within binary field. Straightforward utilization of binary field to design storage code cannot support (n, k) CP for n greater than 3. Therefore, bit shift technique is needed, which requires some storage overhead to tackle the n constraint problem. In the data reconstruction process, however, it is shown that no overhead is required. In other words, our proposed scheme contacts k storage nodes and only fetches L bits from each storage node, namely the amount of bits fetched is equal to the amount of bits to recover which indicates optimal bandwidth consumption. Though the optimal bandwidth reconstruction scheme is designed dedicated for (8, 4) CP at current stage, it sheds light on further generalizing for arbitrary (n, k).
Automatic 3D model acquisition and generation of new images from video sequences (1998)

We describe a method to completely automatically recover 3D scene structure together with 3D camera positions from a sequence of images acquired by an unknown camera undergoing unknown movement. Unlike tuned systems which use calibration objects or markers to recover this information, and are therefore often limited to a particular scale, the approach of this paper is more general and can be applied to a large class of scenes. It is demonstrated here for interior and exterior sequences using both controlled-motion and handheld cameras. The paper reviews Computer Vision research into structure and motion recovery, providing a tutorial introduction to the geometry of multiple views, estimation and correspondence in video streams. The core method, which simultaneously extracts the 3D scene structure and camera positions, is applied to the automated recovery of VRML 3D textured models from a video sequence.
MR Aortography and Serum Cholesterol Levels in Patients With Long-Term Nonspecific Lower Back Pain (2004)

The study indicates that lumbar and middle sacral arteries are often occluded in patients with nonspecific long-term lower back pain. Occlusion of these arteries may also be associated with disc degeneration.
Theoretical Aspects of GPCR–Ligand Complex Pharmacology (2016)

Over the past 50 years in pharmacology, an understanding of seven transmembrane (7TMR) function has been gained from the comparison of experimental data to receptor models. These models have been constructed from building blocks composed of systems consisting of series and parallel mass action binding reactions. Basic functions such as the the isomerization of receptors upon ligand binding, the sequential binding of receptors to membrane coupling proteins, and the selection of multiple receptor conformations have been combined in various ways to build receptor systems such as the ternary complex, extended ternary complex, and cubic ternary complex models for 7TMR function. Separately, the Black/Leff operational model has furnished an extremely valuable method of quantifying drug agonism. In the past few years, incorporation of the basic allosteric nature of 7TMRs has led to additional useful models of functional receptor allosteric mechanisms; these models yield valuable methods for quantifying allosteric effects. Finally, molecular dynamics has provided yet another new set of models describing the probability of formation of multiple receptor states; these radically new models are extremely useful in the prediction of functionally selective drug effects.