gebhart/patrepeval huggingface dataset:
Gene Therapy for Attenuating Cardiac Allograft Arteriopathy Using Ex Vivo E2F Decoy Transfection by HVJ-AVE–Liposome Method in Mice and Nonhuman Primates (2000)

Cardiac allograft arteriopathy, which limits the long-term survival of recipients, is characterized by diffuse intimal thickening composed of proliferative smooth muscle cells. The transcription factor E2F plays a pivotal role in the coordinated transcription of cell-cycle regulatory genes. To test the hypothesis that double-stranded DNA with specific affinity for E2F (E2F decoy) is effective in preventing intimal hyperplasia, we performed ex vivo single intraluminal delivery of E2F decoy into cardiac allografts of mice and Japanese monkeys using the hemagglutinating virus of Japan (HVJ) artificial viral envelope-liposome method. In murine models, antisense cyclin-dependent kinase 2 (cdk2) kinase oligodeoxynucleotide (ODN) and no transfers were performed to compare the effects. Severe intimal thickening was observed, and multiple cell-cycle regulatory genes were enhanced in untreated allografts. E2F decoy prevented neointimal formation and suppressed these genes for up to 8 weeks, whereas antisense cdk2 kinase ODN had limited effects. In primate models, E2F decoy dramatically prevented neointimal thickening and suppressed multiple cell-cycle regulatory genes, whereas intimal thickening developed in the nontransfected or mismatch decoy-transfected allografts. Gel mobility shift assay proved the specific effects of E2F decoy, and reverse transcriptase-polymerase chain reaction documented that neither complication nor dissemination of HVJ into other organs was observed. We demonstrate that ex vivo gene delivery to allografts is a potent strategy to modify allograft gene expression, resulting in prevention of graft arteriopathy without systemic adverse effects.
Iron acquisition systems in the pathogenic Neisseria (1999)

Pathogenic neisseriae have a repertoire of high-affinity iron uptake systems to facilitate acquisition of this essential element in the human host. They possess surface receptor proteins that directly bind the extracellular host iron-binding proteins transferrin and lactoferrin. Alternatively, they have siderophore receptors capable of scavenging iron when exogenous siderophores are present. Released intracellular haem iron present in the form of haemoglobin, haemoglobin-haptoglobin or free haem can be used directly as a source of iron for growth through direct binding by specific surface receptors. Although these receptors may vary in complexity and composition, the key protein involved in the transport of iron (as iron, haem or iron-siderophore) across the outer membrane is a TonB-dependent receptor with an overall structure presumably similar to that determined recently for Escherichia coli FhuA or FepA. The receptors are potentially ideal vaccine targets in view of their critical role in survival in the host. Preliminary pilot studies indicate that transferrin receptor-based vaccines may be protective in humans.
VR-based Teleoperation of a Mobile Robotic Assistant: Progress Report (2000)

This report presents work in progress within the framework of a research project aiming at the development of a mobile robotic system to perform assistive tasks in a hospital environment. This robotic assistant will consist of a mobile robot platform equipped with a variety of on-board sensing and processing equipment as well as a small manipulator for performing simple fetch-and-carry operations. In this report, we focus on the design of the teleoperation system integrating virtual reality techniques and Web-based capabilities in the human operator interface. Relative work found in the literature in the fleld of intervention and service telerobotics is reviewed, and an overview of the methodologies that will be followed is presented. Some speciflc issues requiring particular attention for the design of a teleoperation system for the mobile robotic assistant are investigated and include: (a) the speciflcation of the teleoperation modes supported by the system, integrating various automatic computer assistance and shared-autonomy behaviour-based control modes, (b) the design of the user interface, built on Java technology to enable web-operation and support various multimodal VR-based functionalities, and (c) the integration with the other subsystems and control modules of the mobile robotic assistant, in the framework of a general teleoperation/telemanipulation control architecture.
A Lagrangian drifter with inexpensive wide area differential GPS positioning (2002)

Autonomous drifting buoys that acquire position data using Global Positioning System (GPS) navigation have proven valuable in Lagrangian measurement applications requiring greater accuracy and data density than is available through other technologies such as ARGOS satellite tracking. The limits on measurement accuracy in a GPS drifter are set by the geographic accuracy of the GPS position. Standard civilian receivers are affected by the purposeful degradation of GPS accuracy (termed Selective Availability or SA), which result in position measurement inaccuracies of up to +/- 100 meters. A 100 meter error over a 30 minute timespan between drifter positions results in a 6 cm/sec error in computed current velocity, a potential error which grows larger as shorter position recording intervals are used. Improvement of the accuracy of GPS positioning would allow use of GPS drifters in an even wider range of current measurement applications that demand tine spatial and temporal resolution. Differential GPS (DGPS) refers to a technique that uses GPS data from a reference station at a well known location to calculate corrections that are then used to improve the accuracy of GPS positions at a less well known location. DGPS can increase the accuracy of standard civilian receivers to +/$20 meters or better. Conventional DGPS relies on real-time telemetry of correction data from one or more reference station to the GPS receiver that requires correction. This method can be difficult, expensive, and is not available at all locations. A drifter equipped for conventional DGPS must have a telemetry receiver which adds cost and requires power. Moreover, the telemetry link must be maintained reliably during data acquisition or DGPS position accuracy is lost. If real-time results are not required, however, a Wide Area Differential GPS (WADGPS) method can be used in pose-processing to remove the effects of SA from drifter data. The requirements in the drifter are some additional data memory, minor firmware changes, and a GPS engine configured to output raw GPS satellite data (called "pseudoranges"). During a deployment, the pseudorange data is stored in drifter memory while standard GPS positions are telemetered and stored to assist in deployment logistics. After retrieval, the pseudoranges are converted to DGPS-accurate positions using software and correction data provided by the Canadian Active Control System (CACS). CACS is a global network of automated GPS reference stations pioneered by the Canadian government for survey applications. Correction information is available from CACS at a modest fee with a few days delay from real time. Dockside testing of WADGPS correction showed a reduction in 2 dimensional rms position errors from +/- 33.5 to +/$9.3 meters. Several Brightwaters Modal 104AV autonomous GPS drifters have been fitted with a WADGPS upgrade. A full field test of WADGPS correction of drifter data will be conducted in August 1996.
Water-Soluble, Exfoliated, Nonroping Single-Wall Carbon Nanotubes (2004)

The scalable superacid solvent, radical-initiated aryldiazonium functionalization process produces individual SWNTs without the need for surfactant wrapping, centrifugation, or sonication. This work provides a facile pathway to aryl sulfonic acid-functionalized SWNTs that are not roped or bundled, and the functionalized nanotubes are water soluble.
Role of heterologous and homologous glycoproteins in phenotypic mixing between Sendai virus and vesicular stomatitis virus (1989)

Phenotypic mixing between Sendai virus and vesicular stomatitis virus (VSV) or the mutant VSV ts045 was studied. Conditions were optimized for double infection, as shown by immunofluorescence microscopy. Virions from double-infected cells were separated by sequential velocity and isopycnic gradient centrifugations. Two types of particles with mixed protein compositions were found. One type was VSV particles with Sendai virus spikes, i.e., phenotypically mixed particles. A second type was Sendai virus-VSV associations, which in plaque assays also behaved as phenotypically mixed particles. The ratio of VSV G protein to Sendai virus glycoproteins on the cell surface was varied, using the VSV mutant ts045 in double infections. Thus, different amounts of the VSV G protein were allowed to reach the cell surface at 32, 38, and 39 degrees C in Sendai virus-infected cells. However, a fixed number of Sendai virus spikes was always found in the ts045 virions. This represented 12 to 16% of the number of G proteins present in normal VSV. Furthermore, the yield of ts045 virions was radically reduced during double infection when the temperature was raised to block G-protein transport to the cell surface, suggesting that the Sendai virus glycoproteins were not able to compensate for G protein in budding. These results emphasize the role of the G protein in VSV assembly.
Simian virus 40 DNA directs synthesis of authentic viral polypeptides in a linked transcription-translation cell-free system. (1975)

A linked cell-free system has been developed which is capable of transcribing and translating mamalian viral DNA, and its characteristics and requirements are outlined. In this system, simian virus 40 (SV40) DNA Form I (supercoiled) directed the synthesis of discrete polypeptides up to 85,000 daltons in size. One of these products was indistingusihable from authentic major virus capsid protein VPI, as judged by mobility on sodium dodecyl sulfate/polyacrylamide gels, antibody predipitation, and peptide analyses. The cell-free products larger than VPI comprised a number of polypeptides ranging in molecular weight from 50,000 to 85,000. These polypeptides demonstrated no immunological relationship whatsoever to the structural protein VPI. However, two of these products, along with one of approximately 25,000 dlatons, were precipitated with antiserum to SV40 tumor antigen. Linear SV40 DNA generated by the cleavage of Form I DNA with the restriction endonuclease EcoR1 was an efficient template in this system and also directed the synthesis of a polypeptide migrating with VPI on polyacrylamide gels. The potential of this system for defining a functional map of a DNA genome is discussed.
Ookinete antigens of Plasmodium berghei. Appearance on the zygote surface of an Mr 21 kD determinant identified by transmission‐blocking monoclonal antibodies (1988)

Zygotes and ookinetes of the rodent malaria Plasmodium berghei can be enriched 50-fold, from whole blood cultures by ammonium chloride lysis. Three monoclonal antibodies (MoAbs) raised against such enriched preparations specifically bind to a determinant of Mr 21 kD as assessed by 125I-labelled goat anti-mouse IgG probed immunoblots of Western transfers of SDS-PAGE gels. Indirect immunofluorescence indicates that the 21 kD determinant bound by specific MoAbs, whilst not detectable on gametocytes or gametes, appears on the parasite surface within 2 h of exflagellation/fertilization and increases thereafter. The three MoAbs specifically binding the 21 kD determinant block oocyst development in mosquitoes by at least 90%, as assessed either by in-vitro membrane feeds or by live feeds on passively immunized mice. These MoAbs reduce ookinete formation in vitro by between 52 and 100%. Possible mechanisms of action of these MoAbs are discussed.
FOXP3+ Tregs and B7-H1+/PD-1+T lymphocytes co-infiltrate the tumor tissues of high-risk breast cancer patients: Implication for immunotherapy (2008)

Accumulation of TIL-expressing such inhibitory molecules may deteriorate the immunity of high-risk breast cancer patients and this should encourage vigorous combinatorial immunotherapeutic approaches targeting Tregs and B7-H1/PD-1 molecules.
Purification and characterization of a plasminogen activator inhibitor 1 binding protein from human plasma. Identification as a multimeric form of S protein (vitronectin). (1988)

A binding protein for plasminogen activator inhibitor 1 (PAI-1-BP) was isolated from human plasma by a four-step procedure. 1) The 7 S globulin fraction of plasma was isolated by gel filtration on Sephacryl S-300. 2) Human endothelial cell-type plasminogen activator inhibitor (PAI-1), pretreated with 12 M urea, was added to this fraction (22 micrograms of PAI-1/ml of plasma), and a PAI-1 antigen peak with apparent mass 450 kDa (representing 65% of PAI-1 antigen and 85% of PAI activity) was isolated by gel filtration of this mixture. 3) The PAI-1.PAI-1-BP complex was further purified by immunoadsorption on an immobilized murine monoclonal antibody directed against PAI-1 (MA-7D4) and by elution with 4 M KSCN. 4) The complex was then dissociated by addition of excess human tissue-type plasminogen activator (t-PA), and t-PA and PAI-1 antigen (t-PA.PAI-1 complexes and free t-PA and PAI-1) were removed by immunoadsorption on monoclonal antibodies directed against t-PA (MA-62E8) and against PAI-1 (MA-7D4 and MA-12A4). Sodium dodecyl sulfate-gel electrophoresis of the purified material under nonreducing conditions revealed two bands with apparent mass approximately equal to 150 kDa and two bands with mass 74 and 68 kDa. Reduced sodium dodecyl sulfate-gel electrophoresis displayed two main bands with apparent masses of 73 and 64 kDa. The PAI-1-BP reacts with urea-treated, but not with inactive PAI-1. t-PA dissociates the complex between PAI-1 and PAI-1-BP. PAI-1 in complex with PAI-1-BP is 2-3-fold more stable at 37 degrees C than purified PAI-1, suggesting that PAI-1-BP may stabilize PAI-1 in blood. The concentration of PAI-1-BP in plasma determined by titration with PAI-1 is approximately 130 mg/liter. The isolated PAI-1-BP was shown to be identical to S protein (vitronectin) both by cross-reactivity with monospecific rabbit antisera and by NH2-terminal amino acid sequence analysis. The gel filtration behavior, mobility on sodium dodecyl sulfate-gel electrophoresis, and concentration in plasma suggest that PAI-1-BP is a multimer (presumably a dimer) of S protein accounting for approximately 35% of the S protein in plasma.
Dynamics of exosome internalization and trafficking (2012)

Cells release exosomes into extracellular medium. Although the important roles of exosomes in many physiological and pathological processes are being revealed, the mechanism of exosome-cell interaction remains unclear. In this article, employing real-time fluorescence microscopy, the motion of exosomes on the plasma membrane or in the cytoplasm of recipient PC12 cells was observed directly. In addition, several motion modes of exosomes were revealed by single particle tracking (SPT). The changes between motion modes were also detected, presenting the dynamic courses of exosome attachment onto plasma membrane and exosome uptake. Octadecyl rhodamine B chloride (R18) was found to be useful to distinguish endocytosis from fusion during exosome uptake. Colocalization with organelle markers showed exosomes were sorted to acidic vesicles after internalization. The results provide new sight into the exosome-cell interaction mode and the intercellular trafficking of exosomes. This study will help to understand the roles of exosomes at cell level.
β-Catenin Signaling Promotes Proliferation of Progenitor Cells in the Adult Mouse Subventricular Zone (2007)

The subventricular zone (SVZ) is the largest germinal zone in the mature rodent brain, and it continuously produces young neurons that migrate to the olfactory bulb. Neural stem cells in this region generate migratory neuroblasts via highly proliferative transit-amplifying cells. The Wnt/beta-catenin signaling pathway partially regulates the proliferation and neuronal differentiation of neural progenitor cells in the embryonic brain. Here, we studied the role of beta-catenin signaling in the adult mouse SVZ. beta-Catenin-dependent expression of a destabilized form of green fluorescent protein was detected in progenitor cells in the adult SVZ of Axin2-d2EGFP reporter mice. Retrovirus-mediated expression of a stabilized beta-catenin promoted the proliferation of Mash1+ cells and inhibited their differentiation into neuroblasts. Conversely, the expression of Dkk1, an inhibitor of Wnt signaling, reduced the proliferation of Mash1+ cells. In addition, an inhibitor of GSK3 beta promoted the proliferation of Mash1+ cells and increased the number of new neurons in the olfactory bulb 14 days later. These results suggest that beta-catenin signaling plays a role in the proliferation of progenitor cells in the SVZ of the adult mouse brain.
Minimum crosstalk channel routing (1993)

As technology advances, interconnection wires are placed in closer proximity and circuits operate at higher frequencies. Consequently, reduction of crosstalk between interconnection wires becomes an important consideration in VLSI design. In this paper, we study the gridded channel routing problem with the objective of satisfying crosstalk constraints for the nets. We proposed a new approach to the problem which utilizes existing channel routing algorithms and improves upon the routing results by permuting the routing tracks. The permutation problem is proven to be NP-complete. A novel mixed ILP formulation and effective procedures for reducing the number of variables and constraints in the mixed ILP formulation are then presented. The new algorithm is tested on three large benchmark circuits as well as many randomly generated circuits. The experimental results are very promising.
DAP—a distributed array processor (1973)

An array of very simple processing elements is described each with a local semiconductor store. The array may also be used as main storage. Bit-organisation gives great flexibility, including the minimisation of word length. Use of MSI and LSI is helped by the simplicity of the serial design. Using 15-bit fixed point, the theoretical performance of a 72 × 128 array is about 10 8 multiplications or 10 9 additions per second. Comparisons are made with other architectures. Meteorology is considered as an application. It is attractive to have the whole problem in the array storage.
A sparse weight Kalman filter approach to simultaneous localisation and map building (2002)

This paper describes a sparse weight Kalman filter algorithm for simultaneous localisation and map building (SLAM). This algorithm trades optimality for a form of the weight equation which confers computational advantages. For a map of n beacons, the storage is O(n/sup 2/) and the computational costs are O(n). We show that, in a simulation, the method yields results which are similar to the optimal Kalman filter and the suboptimal update method proposed by Guivant et al. (2000).
Spatial and temporal localization of immune transcripts defines hallmarks and diversity in the tuberculosis granuloma (2019)

Granulomas are the pathological hallmark of tuberculosis (TB) and the niche where bacilli can grow and disseminate or the immunological microenvironment in which host cells interact to prevent bacterial dissemination. Here we show 34 immune transcripts align to the morphology of lung sections from Mycobacterium tuberculosis-infected mice at cellular resolution. Colocalizing transcript networks at <10 μm in C57BL/6 mouse granulomas increase complexity with time after infection. B-cell clusters develop late after infection. Transcripts from activated macrophages are enriched at subcellular distances from M. tuberculosis. Encapsulated C3HeB/FeJ granulomas show necrotic centers with transcripts associated with immunosuppression (Foxp3, Il10), whereas those in the granuloma rims associate with activated T cells and macrophages. We see highly diverse networks with common interactors in similar lesions. Different immune landscapes of M. tuberculosis granulomas depending on the time after infection, the histopathological features of the lesion, and the proximity to bacteria are here defined.
Integration host factor stimulates both FimB‐ and FimE‐mediated site‐specific DNA inversion that controls phase variation of type 1 fimbriae expression in Escherichia coli (1997)

The site-specific DNA inversion that controls phase variation of type 1 fimbriation in E. coli is catalysed by two recombinases, FimB and FimE. Efficient inversion by either recombinase also requires the leucine-responsive regulatory protein (Lrp). In addition, FimB recombination is stimulated by the integration host factor (IHF). The effect of IHF on FimE inversion has not previously been reported. Here it is shown that IHF stimulates FimE recombination; In strain MG1655, mutants containing lesions in either the alpha (ihfA) or beta (ihfB) subunits of IHF show a marked decrease in both FimB- (100-fold) and FimE (15,000-fold)-promoted switching. IHF is shown to bind with high affinity to sites both adjacent to (site I) and within (site II) the fim invertible element. Furthermore, mutations in site I or site II that lower the affinity of IHF binding In vitro were found to lower the frequency of FimE and/ or FimB recombination in vivo. Although site I and site II mutations in combination have an effect on FimB-promoted switching comparable to that of IHF knockout mutations (100-fold), the cis site mutations have a much less marked effect (100-fold) on FimE-promoted switching.
VHL tumor suppressor regulates Cl−/HCO3−exchange and Na+/H+exchange activities in renal carcinoma cells (2001)

Mutations in the von Hippel-Lindau (VHL) tumor suppressor gene are thought to play a critical role in the pathogenesis of both sporadic and VHL disease-associated clear-cell renal carcinomas (RCC). Differential display-PCR identified the AE2 anion exchanger as a candidate VHL target gene. AE2 mRNA and polypeptide levels were approximately threefold higher in 786-O VHL cells than in 786-O Neo cells. In contrast, Cl(-)/HCO(3)(-) exchange activity in 786-O VHL cells was 50% lower than in 786-O Neo cells. Since resting intracellular pH (pH(i)) values were indistinguishable, we postulated that Na(+)/H(+) exchange activity (NHE) might be similarly reduced in 786-O VHL cells. NHE-mediated pH(i) recovery from acid load was less than 50% that in 786-O Neo cells, whereas hypertonicity-stimulated, amiloride-sensitive NHE was indistinguishable in the two cell lines. The NHE3 mRNA level was higher in 786-O VHL than 786-O Neo cells, but NHE1 mRNA levels did not differ. AE2 and NHE3 are the first transcripts reported to be upregulated by pVHL. Elucidation of mechanisms responsible for downregulation of both ion exchange activities will require further investigation.
In Vivo Molecular Chemotherapy and Noninvasive Imaging With an Infectivity-Enhanced Adenovirus (2002)

RGDTKSSTR shows antitumor efficacy against ovarian cancer in vivo in animal models. The virus can be imaged noninvasively and may have the potential to be a useful agent for treating ovarian cancer.
ISA, ISSAM, EAU, EAA and ASA recommendations: investigation, treatment and monitoring of late-onset hypogonadism in males (2008)

SCOPUS: re.j