gebhart/patrepeval huggingface dataset:
Genomic structure and strain-specific expression of the natural killer cell receptor NKR-P1 (1992)

NK cells are able to lyse a variety of virally infected and neoplastic cells in an MHC-unrestricted manner. The cell-surface protein NKR-P1 is thought to play a key role in this process. NKR-P1, initially identified in rat IL-2 activated NK cells, is encoded in the mouse by at least three similar, but not identical, genes. We previously reported the isolation and characterization of three different NKR-P1 cDNA, termed cDNA 2, 34, and 40, from IL-2 activated mouse NK cells. This report describes the structure of the gene encoding NKR-P1 cDNA 2, the smallest of these three cDNA. Gene 2 is composed of six exons spanning approximately 14 kb of genomic DNA. The first exon encodes the N-terminal intracellular domain, and exons 4, 5, and 6 contain the sequences coding for the CRD. This organization is similar to that of other genes that encode C-type animal lectins. The expression of the NKR-P1 genes in A-LAK cells from 13 mouse strains was examined by Northern blot analysis. NKR-P1 expression appears to coincide with that of the NK1.1 Ag. This observation further supports the hypothesis that the NK1.1 Ag is encoded by one of the NKR-P1 genes. Nucleotide sequence analysis of the promoter region of the three NKR-P1 genes in BALB/c and C57BL/6 mice suggests that differences in the level of expression probably do not result from alterations in the upstream regions of these genes, but may be caused by the expression of strain-specific transacting factors.
Domain-Specific Modeling and Code Generation for Product Lines (2006)

Current modeling languages provide surprisingly little, if any, support for product line development. They are either based on the code world using the semantically well-defined concepts of programming languages (e.g. UML, SA/SD) or based on an architectural view using a simple component-connector concept. In both cases, the languages themselves say nothing about a product family or its variants. This situation could be compared to that of a programmer being asked to write object-oriented programs where the language does not support any object-oriented concepts.
Purification of a human liver cytochrome P-450 immunochemically related to several cytochromes P-450 purified from untreated rats. (1987)

Among characterized forms of liver microsomal cytochromes P-450 in rats are four related isozymes (P-450f-i) notable for their lack of inducibility. Immunoblot analyses demonstrated that human livers microsomes contained several proteins related to these rat P-450s. A human liver P-450, termed HLx, was purified and found by immunochemical assays to resemble rat P-450g. Analysis of the NH2-terminal amino acid sequence of HLx indicates that it is related to rat P-450s f-i and human liver P-450MP. A monoclonal antibody was used to measure the amounts of HLx in 21 human liver specimens. No correlation between the levels of HLx protein in these specimens and the patients' environmental histories was observed. However, statistical analysis of the data suggests that the distribution of HLx is at least bimodal. We conclude that HLx is a member of a family of human liver P-450s that resembles in its structure, and possibly in its distribution, several liver P-450s found in other animals.
Integrated Computational Approaches and Tools for Allosteric Drug Discovery (2020)

Understanding molecular mechanisms underlying the complexity of allosteric regulationin proteins has attracted considerable attention in drug discovery due to the benefits and versatilityof allosteric modulators in providing desirable selectivity against protein targets while minimizingtoxicity and other side effects. The proliferation of novel computational approaches for predictingligand-protein interactions and binding using dynamic and network-centric perspectives has ledto new insights into allosteric mechanisms and facilitated computer-based discovery of allostericdrugs. Although no absolute method of experimental and <i>in silico</i> allosteric drug/site discoveryexists, current methods are still being improved. As such, the critical analysis and integration ofestablished approaches into robust, reproducible, and customizable computational pipelines withexperimental feedback could make allosteric drug discovery more efficient and reliable. In this article,we review computational approaches for allosteric drug discovery and discuss how these tools can beutilized to develop consensus workflows for <i>in silico</i> identification of allosteric sites and modulatorswith some applications to pathogen resistance and precision medicine. The emerging realization thatallosteric modulators can exploit distinct regulatory mechanisms and can provide access to targetedmodulation of protein activities could open opportunities for probing biological processes and <i>in</i><i>silico</i> design of drug combinations with improved therapeutic indices and a broad range of activities.
Stereoscopic Imaging Technology: A Review of Patents and the Literature (1995)

This article contains comments on the nature of stereo perception as it relates to stereo video displays as well as a discussion of interfaces for stereo graphics and the interaction of stereo video and stereo graphics. A number of areas of interest are briefly reviewed and accompanied by extensive citations from the patent and technical literature. These include single camera (70 references) and dual camera (100 references) stereoscopy, compatible 3D recording and transmission (57 references), head mounted displays (85 references), field sequential stereo (285 references), and autostereoscopic systems including lenticular (64 references), parallax barrier (22 references), stereoptiplexer (17 references), integral imaging (24 references), direction selective mirrors, lenses or screens (26 references), volumetric displays (133 references), holovision (13 references), stereoendoscopy (14 references), and stereosculpting (15 references). Also discussed are interfaces for stereo graphics and the interaction of stereo video and stereo graphics.
Phenotypic correction of a mouse model of hemophilia A using AAV2 vectors encoding the heavy and light chains of FVIII (2003)

Using separate adeno-associated viral 2 (AAV2) vectors to deliver the heavy and light chains of factor VIII (FVIII) we have overcome the packaging limitations of AAV, achieving phenotypic correction of hemophilia A in mice. AAV vectors were constructed that use a liver-specific promoter and the cDNA sequences of either the human or canine heavy and light chains of FVIII. After intraportal vein injection of these vectors in hemophilia-A mice, therapeutic to superphysiologic levels of active FVIII were achieved in plasma in a dose-dependent manner. Phenotypic correction of the bleeding diathesis was demonstrated by survival of all treated mice after tail clipping. Biochemical analysis demonstrated lower levels of heavy-chain (25- to 100-fold) compared with light-chain protein in the plasma of treated animals. Differences in gene transfer and transcription did not account for the differences in protein expression. We hypothesize that improvements in FVIII activity could be achieved by improvements in FVIII heavy-chain expression. This work demonstrates that cotransduction of liver with AAV vectors expressing the heavy and light chains of FVIII corrects hemophilia A in vivo, providing an alternative approach to the use of a single vector. This strategy may potentially be useful for other large therapeutic proteins that contain functionally distinct domains.
Three-dimensional Hi-Vision System for Microneurosurgical Documentation Based on Wide-vision Telepresence System Using One Camera and One Monitor (1993)

A three-dimensional (3-D) high-definition television (Hi-Vision) system suitable for attachment to a stereoscopic operating microscope allowing 3-D medical documentation using one Hi-Vision camera and one Hi-Vision monitor is described. The system provides 3-D high-definition microneurosurgical recorded images suitable for viewing on a screen or monitor, or for printing.
RAMA-1 highly dexterous 48DOF robotic hand using magnetic spherical joints (2013)

Here we present the design of a highly dexterous 48 dof robotic hand. This high dexterity was possible because of the unique design of joints based on magnetic sliding and spherical spheres. The hand is tendon driven and is portable. We believe this is the robotic hand with the highest degree of freedom till date. Dexterity in robotic hands is an important parameter towards the complexity of the tasks they can do. It has been a design challenge to build an anthropomorphic robotic hand that can completely replicate the human hand in terms of its motion, torque and form factor. Here we have looked at the problem from a design perspective and achieved a hand with degrees of freedom more than the human hand in itself.
NRZ-DPSK and RZ-DPSK Signals Signed Chromatic Dispersion Monitoring Using Asynchronous Delay-Tap Sampling (2009)

In this paper, we demonstrated a signed chromatic dispersion (CD) monitoring method of 10 GHz nonreturn-to-zero differential phase-shift keying (NRZ-DPSK) and return-to-zero differential phase-shift keying (RZ-DPSK) signals by using asynchronous delay-tap sampling and an imperfect tuned delay interferometer. This method could monitor not only the value but also the polarity of residual CD. The demodulated signals show amplitude shoulders on the rising edge or the trailing edge with CD accumulation. Delay-tap sampling scatter plots could reflect this signal distortion by a unique characteristic and realize the signed CD monitoring. The monitoring range can be up to plusmn400 and plusmn720 ps/nm for NRZ-DPSK and RZ-DPSK signals, respectively. Simulation and experimental results are also proposed.
Electrochemistry and Structural Chemistry of Li[CrTi]O[sub 4] (Fd3m) in Nonaqueous Lithium Cells (2000)

having a spinel‐framework structure was prepared and examined in nonaqueous lithium cells. cells showed the flat operating voltages of 1.50 V and rechargeable capacity of 150 mAh/g. The X‐ray diffraction examinations in this region indicated that was reduced to in a topotactic manner. Electrochemical oxidation of was also examined. Redox potential of 4.7 V vs. Li was observed while reversibility was poor due to the destruction of crystallite. Differences and similarities between and were discussed with respect to operating voltage, reversibility, and insertion scheme. © 2000 The Electrochemical Society. All rights reserved.
The complete DNA sequence of minute virus of mice, an autonomous parvovirus (1983)

We have determined the complete nucleotide sequence of the genome of Minute Virus of Mice, an autonomous parvovirus. This single-stranded DNA is 5081 nucleotides long. The 3'-and 5'-ends of the viral strand contain imperfect palindromic sequences which consist, respectively, of 115 and 206 nucleotides. The 3'-terminal palindrome is composed of a unique sequence, whereas the 5'-terminal palindrome contains two sequences in equimolar amounts; these are related in that one is the inverted complement of the other. The DNA strand complementary to that which is encapsidated into virions contains two large open reading frames which together span almost the entire genome. Transcriptional and translational signals within the sequence have been identified and related to the known map coordinates of the viral transcripts. In this report we summarize some of the salient structural and organizational features of the MVM genome.
Development and initial evaluation of a spectral microdensitometer for analysing radiochromic films (2004)

Radiation dose deposited on a radiochromic film is considered as a dose image. A precise image extraction system with commensurate capabilities is required to measure the transmittance of the image and translate it to radiation dose. This paper describes the development of a spectral microdensitometer which has been designed to achieve this goal under the conditions of (a) the linearity and sensitivity of the dose response curve of the radiochromic film being highly dependent on the wavelength of the analysing light, and (b) the inherent high spatial resolution of the film. The microdensitometer consists of a monochromator which provides an analysing light of variable wavelength, a film tray on a high-precision scanning stage, a transmission microscope coupled to a thermoelectrically cooled CCD camera, a microcomputer and corresponding interfaces. The measurement of the transmittance of the radiochromic film is made at the two absorption peaks with maximum sensitivities. The high spatial resolution of the instrument, of the order of micrometres, is achieved through the use of the microscope combined with a measure-and-step technique to cover the whole film. The performance of the instrument in regard to the positional accuracy, system reproducibility and dual-peak film calibration was evaluated. The results show that the instrument fulfils the design objective of providing a precise image extraction system for radiochromic films with micrometre spatial resolution and sensitive dose response.
Ccl2 and Ccl3 Mediate Neutrophil Recruitment via Induction of Protein Synthesis and Generation of Lipid Mediators (2009)

Ccl2/JE/MCP-1 and Ccl3/MIP-1alpha mediate firm adherence and (subsequent) transmigration of neutrophils via protein synthesis and secondary generation of leukotrienes and PAF, which in turn directly activate neutrophils. Thereby, neutrophils facilitate basement membrane remodeling and promote microvascular leakage.
Multi-templated Pb-Zn-Hg Ion Imprinted Polymer for the Selective and Simultaneous Removal of Toxic Metallic Ions from Wastewater (2017)

A multi-templated Pb-Zn-Hg ion imprinted polymer was synthesized to demonstrate the selective and simultaneous removal of the named targeted ions. Molecular Imprinting Technology was employed, guided by thermal bulk polymerization method, methacrylic acid as the functional monomer and ethylene glycol dimethylacrylate as crosslinking agent in the presence of the initiator azobisisobutyronitrile; Pb(II), Zn(II) and Hg(II) ions as template ions, and 1,10-phenanthroline as the complexing agent. Rigorous, optimal template removal method was employed. Physical and chemical properties of the sorbent were investigated using Fourier Transform Infrared Spectroscopy, X-ray Diffraction and Atomic Force Microscopy. Operational parameters: time, pH and sorbent dosage for the rebinding batch experiments were optimized and found to be 15 min, 7.5 and 666.7 mg/L respectively. Percentage recoveries of the removed targeted ions from spiked samples were: 92.14 ± 0.16%, 106.09 ± 0.17% and 99.86 ± 0.04%. The synthesized sorbents showed good selectivity towards the targeted metal ion by removing 90% - 98% of the templated ions as compared to 58% - 62% of the competitive ions.
Kinetics of the polysulfide-thiosulfate disproportionation up to 240.deg. (1974)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTKinetics of the polysulfide-thiosulfate disproportionation up to 240.deg.Werner F. GiggenbachCite this: Inorg. Chem. 1974, 13, 7, 1730–1733Publication Date (Print):July 1, 1974Publication History Published online1 May 2002Published inissue 1 July 1974https://pubs.acs.org/doi/10.1021/ic50137a039https://doi.org/10.1021/ic50137a039research-articleACS PublicationsRequest reuse permissionsArticle Views483Altmetric-Citations55LEARN 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 optionsGet e-Alertsclose Get e-Alerts
Characterization of Human γ-Tryptases, Novel Members of the Chromosome 16p Mast Cell Tryptase and Prostasin Gene Families (2000)

Previously, this laboratory identified clusters of alpha-, beta-, and mast cell protease-7-like tryptase genes on human chromosome 16p13.3. The present work characterizes adjacent genes encoding novel serine proteases, termed gamma-tryptases, and generates a refined map of the multitryptase locus. Each gamma gene lies between an alpha1H Ca2+ channel gene (CACNA1H) and a betaII- or betaIII-tryptase gene and is approximately 30 kb from polymorphic minisatellite MS205. The tryptase locus also contains at least four tryptase-like pseudogenes, including mastin, a gene expressed in dogs but not in humans. Genomic DNA blotting results suggest that gammaI- and gammaII-tryptases are alleles at the same site. betaII- and betaIII-tryptases appear to be alleles at a neighboring site, and alphaII- and betaI-tryptases appear to be alleles at a third site. gamma-Tryptases are transcribed in lung, intestine, and in several other tissues and in a mast cell line (HMC-1) that also expresses gamma-tryptase protein. Immunohistochemical analysis suggests that gamma-tryptase is expressed by airway mast cells. gamma-Tryptase catalytic domains are approximately 48% identical with those of known mast cell tryptases and possess mouse homologues. We predict that gamma-tryptases are glycosylated oligomers with tryptic substrate specificity and a distinct mode of activation. A feature not found in described tryptases is a C-terminal hydrophobic domain, which may be a membrane anchor. Although the catalytic domains contain tryptase-like features, the hydrophobic segment and intron-exon organization are more closely related to another recently described protease, prostasin. In summary, this work describes gamma-tryptases, which are novel members of chromosome 16p tryptase/prostasin gene families. Their unique features suggest possibly novel functions.
A simulation approach based on negotiation and cooperation between agents: a case study (1999)

Presents AGENDA (A GENeral testbed for Distributed AI Applications), a simulation tool developed for the simulation and design of applications involving interacting entities. This testbed consists of two different levels, the architecture level and the system development level. The architecture level describes a methodology for designing software agents by providing several important functionalities an agent should have. On the other hand, the system development level provides the basic knowledge representation formalism, general inference mechanisms, and a simulation tool-box supporting visualization and monitoring of agents. Following this, the applicability of AGENDA to the transportation domain is presented in detail. The main challenge of AGENDA in the context of this domain has been to provide different cooperation-scalable methods based on negotiation, leading to different scheduling mechanisms, and to experimentally evaluate these mechanisms. This evaluation shows that: (1) AGENDA is suitable for realistic application in the transportation domain; (2) the mechanisms used for vertical negotiation (between trucks considered as agents) and for horizontal negotiation (between companies considered as agents) are applicable for the real-world transportation domain applications. Finally, a complete study of the scalability of the simulation tool and the algorithms used for the negotiation is presented. This study, along with the evaluation of the different mechanisms, can help designers of transportation companies, particularly in the case of large companies.
Securing RTP Packets Using Per-Packet Selective Encryption Scheme for Real-Time Multimedia Applications (2013)

To secure multimedia communications, existing encryption techniques usually encrypt the whole data stream using the same session key during a session period. The use of online session key usually confronts with tradeoff problem between latency caused when session key is created and security strengths for the real-time multimedia stream. In this paper, we propose a selective packet key encryption scheme that selectively encrypts RTP packets using different keys in the same session for real-time multimedia applications. Our proposed scheme has two important features. First, a one-time packet key, which was already been used, will never be reused throughout a session. This feature improves security strength of real-time multimedia. Second, each packet is selectively encrypted. This contributes to reduce the average latency caused by one-time packet key exchange.
MQsim: a framework for enabling realistic studies of modern multi-queue SSD devices (2018)

Solid-state drives (SSDs) are used in a wide array of computer systems today, including in datacenters and enterprise servers. As the I/O demands of these systems continue to increase, manufacturers are evolving SSD architectures to keep up with this demand. For example, manufacturers have introduced new high-bandwidth interfaces to replace the conventional SATA host-interface protocol. These new interfaces, such as the NVMe protocol, are designed specifically to enable the high amounts of concurrent I/O bandwidth that SSDs are capable of delivering.

While modern SSDs with sophisticated features such as the NVMe protocol are already on the market, existing SSD simulation tools have fallen behind, as they do not capture these new features. We find that state-of-the-art SSD simulators have three shortcomings that prevent them from accurately modeling the performance of real off-the-shelf SSDs. First, these simulators do not model critical features of new protocols (e.g., NVMe), such as their use of multiple application-level queues for requests and the elimination of OS intervention for I/O request processing. Second, these simulators often do not accurately capture the impact of advanced SSD maintenance algorithms (e.g., garbage collection), as they do not properly or quickly emulate steady-state conditions that can significantly change the behavior of these algorithms in real SSDs. Third, these simulators do not capture the full end-to-end latency of I/O requests, which can incorrectly skew the results reported for SSDs that make use of emerging non-volatile memory technologies. By not accurately modeling these three features, existing simulators report results that deviate significantly from real SSD performance.

In this work, we introduce a new simulator, called MQSim, that accurately models the performance of both modern SSDs and conventional SATA-based SSDs. MQSim faithfully models new high-bandwidth protocol implementations, steady-state SSD conditions, and the full end-to-end latency of requests in modern SSDs. We validate MQSim, showing that it reports performance results that are only 6%-18% apart from the measured actual performance of four real state-of-the-art SSDs. We show that by modeling critical features of modern SSDs, MQSim uncovers several real and important issues that were not captured by existing simulators, such as the performance impact of inter-flow interference. We have released MQSim as an open-source tool, and we hope that it can enable researchers to explore directions in new and different areas.