gebhart/patrepeval huggingface dataset:
Roles of Adhesion Molecules in T‐Cell Recognition: Fundamental Similarities between Four Integrins on Resting Human T Cells (LFA‐1, VLA‐4, VLA‐5, VLA‐6) in Expression, Binding, and Costimulation (1990)

This review summarizes our recent work on expression and function of 4 integrins on resting human CD4+ T cells. Three themes are highlighted: multiplicity of molecular pathways of adhesion, regulation of adhesion, and costimulation by adhesion molecules. Four distinct receptor/ligand interactions have been elucidated: LFA-1/ICAM-1, VLA-5/fibronection, VLA-4/fibronectin, and VLA-6/laminin. Our studies indicate fundamental similarities in function and regulation of these four receptor/ligand interactions: 1) acute activation of the T cell (by CD3/TCR crosslinking or by PMA) induces rapid but transient integrin binding function; and 2) higher expression of each integrin on memory T cells compared to naive T cells results in greater binding of memory cells to each ligand. The identification of T-cell integrins (VLA-4, VLA-5, VLA-6) which interact with ECM components directs attention to the potential importance of T-cell interactions with ECM components which either may be immobilized in ECM or which may act as molecular bridges between cells. The existence of multiple adhesion pathways, of multiple ligands for a single receptor (such as LFA-1/ICAM-1 and LFA-1/ICAM-2), multiple receptors for a single ligand (such as VLA-4/FN and VLA-5/FN), and regulation of ligand expression (ICAM-1) provides opportunities for co-operativity, rebundancy and diversity which the T cell utilizes to exquisitely regulate its adhesive interactions. The thesis that adhesion molecules can be multifunctional receptors that also influence signalling is demonstrated by our findings that each of these integrin receptor/ligand interactions is capable of providing a potent costimulatory signal to CD3-mediated T-cell activation. The importance of interactions of T-cell integrins with their cell surface and ECM ligands is discussed with respect to T-cell migration, differentiation and recognition. Analysis of the precise mechanisms by which T cells regulate and exploit these multiple receptor/ligand interactions and the resulting functional consequences of those interactions will be exciting areas of future research.
Role of Wnt/β‐catenin signaling pathway in epithelial‐mesenchymal transition of human prostate cancer induced by hypoxia‐inducible factor‐1α (2007)

Our data suggests that activation of the Wnt/beta-catenin signaling pathway correlates with the characteristic of EMT and potency of invasiveness and proliferation. This may be the critical factor that directly controls the process of EMT induced by HIF-1alpha in prostate cancer cells.
Multilevel LINC System Design for Wireless Transmitters (2007)

Linear amplifier with nonlinear components (LINC) is a power linearization method which offers both high linearity and high power amplifier (PA) efficiency in wireless transmitters. While LINC increases the power efficiency of PAs, this linearization technique requires an extra power combiner which results in low power efficiency of whole system. To improve this drawback, we propose a multi-level LINC (ML-LINC) method to not only increase power combiner efficiency but also maintain high linearity of wireless transmitters. We also derive the optimal value of each scaling level to maximize the power combiner efficiency. Finally, we demonstrate a four-level scaling ML-LINC as a design example which enhances power combiner efficiency from 44.5% to 80.8% and maintains high linearity to fulfill WCDMA specifications.
Biosynthesis of hyaluronic acid by Streptococcus. (1979)

Synthesis of hyaluronic acid was investigated in a cell-free system derived from a strain of Group A streptococci. Preparative procedures were improved so that an enzyme system 70 times more active than that previously reported was obtained. The hyaluronic acid synthesized could be separated into trichloroacetic acid-soluble and -insoluble fractions. On the basis of pulse-chase experiments, it was shown that the trichloroacetic acid-insoluble fraction is a precursor of the soluble fraction. The release of the trichloroacetic acid-insoluble hyaluronic acid is specifically blocked with p-chloromercuribenzoate, without inhibition of chain elongation. The addition of butanol to trichloroacetic acid resulted in solubilization of all of the hyaluronic acid. No detectable difference in molecular size was observed between the two hyaluronic acid fractions, both of which were estimated to be more than one million daltons in size. Testicular hyaluronidase digestion of either one of the two types of hyaluronic acid yielded no high molecular weight fragments, indicating that hyaluronic acid is not bound covalently to protein. However, following incubation of enzyme assay mixtures with UDP-[14C]GlcUA, even in the absence of UDP-GlcNAc, radioactive high molecular weight hyaluronic acid was obtained which suggests that the enzyme system elongates rather than initiates hyaluronic acid chains. Tunicamycin did not inhibit hyaluronic acid synthesis, indicating lack of participation of an intermediate of pyrophosphorylpolyisoprenol type. The results obtained are consistent with the hypothesis that chain elongation of hyaluronic acid proceeds by alternate addition of monosaccharides from UDP-sugars by a membrane-bound synthesizing system followed by release of completed hyaluronic acid chains.
Structure of the prothrombin- and blood clotting factor X-membrane complexes (1977)

The configuration of the prothrombin- and factor X-membrane complexes was investigated by the technique of quasielastic light scattering. It is concluded that the fragment 1 region of prothrombin is located at one end of the prothrombin molecule and that the membrane binding site is at the tip of the fragment 1 region. Prothrombin binds to the surface of the membrane with no detected penetration into the lipophilic region of the membrane. The remainder of the prothrombin molecule extends radially from the membrane surface with maximum protrusion into solution. Factor X also binds to the membrane at one end of the molecule and extends into solution. Based on the evidence presented here and in other communications [Nelsestuen, G. L., and Lim, T. K. (1977), Biochemistry 16, and Nelsestuen, G. L., and Broderius, M. (1977), Biochemistry 16 (respectively the first and second in a series of three papers in this issue)] a model for prothrombin-membrane interaction is given. Quasielastic light scattering appears to be a valuable new method for studying protein-membrane interactions.
Biotechnology in agriculture and forestry 34: Plant protoplasts and genetic engineering VI. (1995)

This correspondence presents several parallel algorithms for image template matching on an SIMD array processor with a hypercube interconnection network. For an N by N image and an M by M window, the time complexity is reduced from O(N2M2) for the serial algorithm to O(M2/K2 + M * log2 N/K + log2 N * log2 K) for the N2K2-PE system (1 ¿ K ¿ M), or to O(N2M2/L2) for the L2-PE system (L ¿ N). With efficient use of the inter-PE communication network, each PE requires only a small local memory, many unnecessary data transmissions are eliminated, and the time complexity is greatly reduced.
Burden of Systolic and Diastolic Ventricular Dysfunction in the Community (2003)

In the community, systolic dysfunction is frequently present in individuals without recognized CHF. Furthermore, diastolic dysfunction as rigorously defined by comprehensive Doppler techniques is common, often not accompanied by recognized CHF, and associated with marked increases in all-cause mortality.
Inhibition of Geranylgeranyl Diphosphate Synthase by Bisphosphonates and Diphosphates:  A Potential Route to New Bone Antiresorption and Antiparasitic Agents (2002)

We report the inhibition of a human recombinant geranylgeranyl diphosphate synthase (GGPPSase) by 23 bisphosphonates and six azaprenyl diphosphates. The IC50 values range from 140 nM to 690 microM. None of the nitrogen-containing bisphosphonates that inhibit farnesyl diphosphate synthase were effective in inhibiting the GGPPSase enzyme. Using three-dimensional quantitative structure-activity relationship/comparative molecular field analysis (CoMFA) methods, we find a good correlation between experimental and predicted activity: R2 = 0.938, R(cv)2 = 0.900, R(bs)2 = 0.938, and F-test = 86.8. To test the predictive utility of the CoMFA approach, we used three training sets of 25 compounds each to generate models to predict three test sets of three compounds. The rms pIC50 error for the nine predictions was 0.39. We also investigated the pharmacophore of these GGPPSase inhibitors using the Catalyst method. The results demonstrated that Catalyst predicted the pIC50 values for the nine test set compounds with an rms error of 0.28 (R2 between experimental and predicted activity of 0.948).
Introducing a selectively biodegradable filament wound arterial prosthesis: A short‐term implantation study (1992)

This article introduces a new compliant and selectively biodegradable filament wound vascular graft and reports the findings of a short-term implantation study. A basic feature of filament winding is its ability to tailor and better control the mechanical properties of the prosthesis, so that a closer match with the anisotropic properties of native arteries is achieved. The elastomeric vascular grafts comprise poly(ether urethane urea) fibers (Lycra) embedded in a two-component matrix consisting of poly(ether urethane) (Pellethane) and a highly flexible poly(ethylene glycol)/poly(lactic acid) biodegradable segmented copolymer (PELA). Typical tensile modulus values fall in the few megapascals (MPa) range, this being comparable to that of natural arteries. The wound graft exhibits excellent handling and suturability characteristics as well as enhanced burst strength. Furthermore, due to its biodegradable constituent, the prosthesis combines minimal intraoperative blood loss and high healing porosity. The graft displays initially negligible in vitro water permeation, which increases gradually with time. In this short-term study, the prostheses were implanted in the canine carotid, and their biological performance was compared to that of expanded Gore-Tex. The luminal surface of the wound grafts was coated with a thin layer of pseudointima, strongly adhered to the prosthesis surface. Contrasting with the very stiff Gore-Tex grafts, the filament wound prostheses retained their high compliance, being highly pulsatile upon explanation. Histological studies fully corroborated these findings, underscoring the healing properties of these new filament wound vascular prostheses.
Authentication of Optical Physical Unclonable Functions Based on Single-Pixel Detection (2021)

Physical unclonable function (PUF) has been proposed as a promising and trustworthy solution to a variety of cryptographic applications. Here we propose a nonimaging-based authentication scheme for optical PUFs materialized by random scattering media, in which the characteristic fingerprints of optical PUFs are extracted from stochastical fluctuations of the scattered light intensity with respect to laser challenges, which are detected by a single-pixel detector. The randomness, uniqueness, unpredictability, and robustness of the extracted fingerprints are validated to be qualified for real authentication applications. By increasing the key length and improving the signal-to-noise ratio, the false accept rate of a fake PUF can be dramatically lowered to the order of ${10}^{\ensuremath{-}28}$. In comparison to the conventional laser-speckle-imaging-based authentication with unique identity information obtained from textures of laser-speckle patterns, this nonimaging scheme can be implemented at small speckle size bellowing the Nyquist--Shannon sampling criterion of the commonly used CCD or CMOS cameras, offering benefits in system miniaturization and immunity against reverse engineering attacks simultaneously.
Induction of chondrogenesis in limb mesenchymal cultures by disruption of the actin cytoskeleton. (1984)

Cell shape is known to influence the chondrogenic differentiation of cultured limb bud mesenchyme cells (Solursh, M., T. F. Linsenmayer, and K. L. Jensen, 1982, Dev. Biol., 94: 259-264). To test whether specific cytoskeletal components mediate this influence of cell shape, we examined different cytoskeleton disrupting agents for their ability to affect chondrogenesis. Limb bud cells cultured at subconfluent densities on plastic substrata normally become flattened, contain numerous cytoplasmic microtubules and actin bundles, and do not undergo spontaneous chondrogenesis. If such cultures are treated with 2 micrograms/ml cytochalasin D during the initial 3-24 h in culture, the cells round up, lose their actin cables, and undergo chondrogenesis, as indicated by the production of immunologically detectable type II collagen and a pericellular Alcian blue staining matrix. Cytochalasin D also induces cartilage formation by high-density cultures of proximal limb bud cells, which normally become blocked in a protodifferentiated state. In addition, cytochalasin D was found to reverse the normal inhibition by fibronectin of chondrogenesis by proximal limb bud cells cultured in hydrated collagen gels. Agents that disrupt microtubules have no apparent effect on the shape or chondrogenic differentiation of limb bud mesenchymal cells. These results suggest an involvement of the actin cytoskeleton in controlling cell shape and chondrogenic differentiation of limb bud mesenchyme. Interactions of the actin cytoskeleton and extracellular matrix components may provide a regulatory mechanism for mesenchyme cell differentiation into cartilage or fibrous connective tissue in the developing limb.
A Secure and Scalable Time Synchronization Protocol in IEEE 802.11 Ad Hoc Networks (2006)

IEEE 802.11 standards support ad hoc mode which are ad hoc networks with all nodes within each other's transmission range. Time synchronization is crucial in such ad hoc networks. A distributed timing synchronization function (TSF) is specified by IEEE 802.11 to provide synchronization service, but it suffers from the scalability problem due to its inefficient synchronization mechanism. Furthermore, TSF is designed without taking into account security. Such an insecure time synchronization protocol may cause serious problems on the applications and protocols based on synchronized time. To the best of our knowledge, currently no secure time synchronization mechanisms are proposed for such environments. In this paper we propose our scalable and secure time synchronization protocol SSTSP. We prove that SSTSP can synchronize the networks with the maximum clock difference under 20mus without any uncontinuous leaps in clocks. We also conduct simulations to evaluate the performance of SSTSP. The results show that without attacks, the performance of our approach is significantly superior to TSF and is among the best of currently proposed solutions in terms of accuracy and scalability. Besides, our approach can maintain the network synchronized even under malicious attacks
Codon preferences in free-living microorganisms (1990)

A popular interpretation of the major codon preference is that it reflects the operation of a regulatory device that controls the expression of individual proteins. In this popular model, rapidly translated codons are thought to promote the accumulation of the highly expressed proteins and slowly translated codons are thought to retard the expression of poorly expressed proteins. However, this widely accepted model is not supported by kinetic theory or by experimental results. A less fashionable model in which the major codon preference has nothing to do with the expression level of the individual proteins is forwarded. In this model, the major codon preference is viewed as a global strategy to support the efficient function of the translation system and thereby to maximize the growth rates of cells under favorable conditions.
Laser Produced Cadmium Plasma As A Laser Source (1989)

Laser induced plasmas remain after many years of research, mainly for thermonuclear fusion, a field of investigation with new applications, such as X-ray lithography, X-ray microscopy, multicharged ions spectroscopy, material processing, laser induced recombina-tion plasma a.s.o.
GAMOLA: A New Local Solution for Sequence Annotation and Analyzing Draft and Finished Prokaryotic Genomes (2003)

Laboratories working with draft phase genomes have specific software needs, such as the unattended processing of hundreds of single scaffolds and subsequent sequence annotation. In addition, it is critical to follow the "movement" and the manual annotation of single open reading frames (ORFs) within the successive sequence updates. Even with finished genomes, regular database updates can lead to significant changes in the annotation of single ORFs. In functional genomics it is important to mine data and identify new genetic targets rapidly and easily. Often there is no need for sophisticated relational databases (RDB) that greatly reduce the system-independent access of the results. Another aspect is the internet dependency of most software packages. If users are working with confidential data, this dependency poses a security issue. GAMOLA was designed to handle the numerous scaffolds and changing contents of draft phase genomes in an automated process and stores the results for each predicted ORF in flatfile databases. In addition, annotation transfers, ORF designation tracking, Blast comparisons, and primer design for whole genome microarrays have been implemented. The software is available under the license of North Carolina State University. A website and a downloadable example are accessible under (http://fsweb2.schaub. ncsu.edu/TRKwebsite/index.htm).
Color digital halftoning taking colorimetric color reproduction into account (1996)

Taking colorimetric color reproduction into account, the conventional error diffusion method is modified for color digital halftoning. Assuming that the input to a bilevel color printer is given in CIE-XYZ tristimulus values or CIE-LAB values instead of the more conventional RGB or YMC values, two modified versions based on vector operation in (1) the XYZ color space and (2) the LAB color space were tested. Experimental results show that the modified methods, especially the method using the LAB color space, resulted in better color reproduction performance than the conventional methods. Spatial artifacts that appear in the modified methods are presented and analyzed. It is also shown that the modified method (2) with a thresholding technique achieves a good spatial image quality.
Selection of RNA Aptamers that Bind Specifically to the NS3 Protease of Hepatitis C Virus (1997)

The RNA genome of human hepatitis C virus (HCV) is translated into a large precursor polyprotein. The NS3 protease of HCV has a crucial role in the processing of the polyprotein into functional viral proteins. We have used an in vitro genetic-selection strategy to isolate high-affinity RNA aptamers that bind to the NS3 protein, especially to its protease domain. Starting from a RNA pool that had a random sequence core of 12-18 nucleotides, aptamers that bind specifically to the NS3 protein were selected after 10 rounds of selection and amplification. A single aptamer, 10G-1, was found predominantly (71%) in the selected pool. This aptamer could bind to the NS3 protein with a binding constant of 650 nM and inhibit the proteolytic activity in vitro. By phosphate-modification-interference analysis we showed that the phosphate residues that are critical for the binding of 10G-1 to NS3 lie within the selected regions of the aptamer and that binding involves electrostatic contacts with the phosphates of regions G28-U34 and A47-A55. The NS3-binding region in 10G-1 can serve as a basis for designing more potential inhibitors of the NS3 protein.
Metabolic responses of pyruvate decarboxylase-negative Saccharomyces cerevisiae to glucose excess (1997)

In Saccharomyces cerevisiae, oxidation of pyruvate to acetyl coenzyme A can occur via two routes. In pyruvate decarboxylase-negative (Pdc-) mutants, the pyruvate dehydrogenase complex is the sole functional link between glycolysis and the tricarboxylic acid (TCA) cycle. Such mutants therefore provide a useful experimental system with which to study regulation of the pyruvate dehydrogenase complex. In this study, a possible in vivo inactivation of the pyruvate dehydrogenase complex was investigated. When respiring, carbon-limited chemostat cultures of wild-type S. cerevisiae were pulsed with excess glucose, an immediate onset of respiro-fermentative metabolism occurred, accompanied by a strong increase of the glycolytic flux. When the same experiment was performed with an isogenic Pdc- mutant, only a small increase of the glycolytic flux was observed and pyruvate was the only major metabolite excreted. This finding supports the hypothesis that reoxidation of cytosolic NADH via pyruvate decarboxylase and alcohol dehydrogenase is a prerequisite for high glycolytic fluxes in S. cerevisiae. In Pdc- cultures, the specific rate of oxygen consumption increased by ca. 40% after a glucose pulse. Calculations showed that pyruvate excretion by the mutant was not due to a decrease of the pyruvate flux into the TCA cycle. We therefore conclude that rapid inactivation of the pyruvate dehydrogenase complex (e.g., by phosphorylation of its E1 alpha subunit, a mechanism demonstrated in many higher organisms) is not a relevant mechanism in the response of respiring S. cerevisiae cells to excess glucose. Consistently, pyruvate dehydrogenase activities in cell extracts did not exhibit a strong decrease after a glucose pulse.
Development of Artificial Placenta: Oxygen Metabolism of Isolated Goat Fetuses with Umbilical Arteriovenous Extracorporeal Membrane Oxygenation (1990)

To assess the oxygen utilization of extrauterine goat fetuses with arteriovenous extracorporeal membrane oxygenation via umbilical vessels, oxygen delivery (OD) and oxygen consumption (OC) were investigated in 19 long-term incubations (incubation periods 58-236 h). The OCs did not change (6.4 +/- 1.3 ml/min/kg, mean +/- SD, n = 227) when the ODs were more than 10 ml/min/kg, but were significantly suppressed when the ODs were less than 10 ml/min/kg. It was suggested that the oxygen metabolism of extrauterine goat fetuses is equivalent to that of fetuses in utero.
Proline Residues in Cd28 and the Src Homology (Sh)3 Domain of Lck Are Required for T Cell Costimulation (1999)

The Src family tyrosine kinases Lck and Fyn are critical for signaling via the T cell receptor. However, the exact mechanism of their activation is unknown. Recent crystal structures of Src kinases suggest that an important mechanism of kinase activation is via engagement of the Src homology (SH)3 domain by proline-containing sequences. To test this hypothesis, we identified several T cell membrane proteins that contain potential SH3 ligands. Here we demonstrate that Lck and Fyn can be activated by proline motifs in the CD28 and CD2 proteins, respectively. Supporting a role for Lck in CD28 signaling, we demonstrate that CD28 signaling in both transformed and primary T cells requires Lck as well as proline residues in CD28. These data suggest that Lck plays an essential role in CD28 costimulation.