gebhart/patrepeval huggingface dataset:
CpG-C Immunostimulatory Oligodeoxyribonucleotide Activation of Plasmacytoid Dendritic Cells in Rhesus Macaques to Augment the Activation of IFN-γ-Secreting Simian Immunodeficiency Virus-Specific T Cells (2004)

There are two principle subsets of dendritic cells (DCs); CD11c(+)CD123(-) myeloid DCs (MDCs) and CD11c(-)CD123(+) plasmacytoid DCs (PDCs). DC activation via TNF-TNFRs (e.g., CD40L) and TLRs (e.g., immunostimulatory oligodeoxyribonucleotides (ISS-ODNs)) is crucial for maximal stimulation of innate and adaptive immunity. Macaque DC biology is being studied to improve HIV vaccines using the SIV macaque model. Using lineage (Lin) markers to exclude non-DCs, Lin(-)HLA-DR(+)CD11c(+)CD123(-) MDCs and Lin(-)HLA-DR(+)CD11c(-)CD123(+) PDCs were identified in the blood of uninfected macaques and healthy macaques infected with SIV or simian-human immunodeficiency virus. Overnight culture of DC-enriched Lin-depleted cells increased CD80 and CD86 expression. IL-12 production and CD80/CD86 expression by MDC/PDC mixtures was further enhanced by CD40L and ISS-ODN treatment. A CpG-B ISS-ODN increased CD80/CD86 expression by PDCs, but resulted in little IFN-alpha secretion unless IL-3 was added. In contrast, a CpG-C ISS-ODN and aldrithiol-2-inactivated (AT-2) SIV induced considerable PDC activation and IFN-alpha release without needing exogenous IL-3. The CpG-C ISS-ODN also stimulated IL-12 release (unlike AT-2 SIV) and augmented DC immunostimulatory activity, increasing SIV-specific T cell IFN-gamma production induced by AT-2 SIV-presenting MDC/PDC-enriched mixtures. These data highlight the functional capacities of MDCs and PDCs in naive as well as healthy, infected macaques, revealing a promising CpG-C ISS-ODN-driven DC activation strategy that boosts immune function to augment preventative and therapeutic vaccine efficacy.
Rateless Coding on Experimental Temporally Correlated FSO Channels (2010)

We present a demonstration of two error-correction coding schemes that can successfully operate on a free-space optical (FSO) communication channel subject to atmospheric turbulence. The codes (a puntured Low-density parity-check code and a Raptor code) operate by continuously adapting the information rate to accommodate the varying channel conditions. Because these coding schemes require the use of a feedback channel, we evaluate the bandwidth cost incurred. The evaluation of the codes is performed offline and uses experimental optical signals recorded from an FSO link. We analyze the temporal characteristics of the experimental channels and compare the performance of the codes for different bit rates to asses the effect of temporal correlation and imperfect channel state information.
Low-dose (1.25 mg/kg) cyclosporin A: treatment of psoriasis and investigation of the influence on lipid profile. (1997)

This study was designed to investigate the therapeutical efficacy of a comparatively low dose cyclosporin A (1.25 mg/kg/day) in the treatment of psoriasis and to assess the influence of cyclosporin A on lipid profiles. In the first, double-blind part of the study, 133 patients with moderate to severe psoriasis were randomized to receive a daily dose of 1.25 or 2.5 mg cyclosporin A/kg or placebo for a period of 10 weeks (period I). Subsequently, the patients entered a second open-label 12-week study (period II), in which the dosage could be increased up to 5.0 mg/kg/day. This was followed by a period of 4 weeks without treatment. After 10 weeks the percentage improvement from baseline in the Psoriasis Area and Severity Index (PASI) was 5.9% on placebo, 27.2% on 1.25 mg/kg/day and 51.0% on 2.5 mg/kg/day cyclosporin A. The final average dose at the end of study period II was 2.99 mg cyclosporin A/kg/day. At this time the PASI was reduced by at least 75% in 63.0% of the patients. From this group of good responders no patient relapsed (PASI > 50% of baseline) during the four weeks after termination of active treatment. No significant effects of the drug on the lipid profiles were detected. We conclude that 1.25 mg cyclosporin A/kg/day is superior to placebo in the treatment of psoriasis vulgaris and that a dose reduction to 1.25 mg/kg/day should be considered in patients responding well to a conventional dose between 2.5 and 5.0 cyclosporin A/kg/day.
Traffic Engineering (TE) Extensions to OSPF Version 2 (2003)

2 to support intra-area Traffic Engineering (TE), using Opaque Link State Advertisements.
Meis1 and pKnox1 bind DNA cooperatively with Pbx1 utilizing an interaction surface disrupted in oncoprotein E2a-Pbx1 (1997)

E2a-Pbx1 is a chimeric transcription factor oncoprotein produced by the t(1;19) translocation in human pre-B cell leukemia. Class I Hox proteins bind DNA cooperatively with both Pbx proteins and oncoprotein E2a-Pbx1, suggesting that leukemogenesis by E2a-Pbx1 and Hox proteins may alter transcription of cellular genes regulated by Pbx-Hox motifs. Likewise, in murine myeloid leukemia, transcriptional coactivation of Meis1 with HoxA7/A9 suggests that Meis1-HoxA7/9 heterodimers may evoke aberrant gene transcription. Here, we demonstrate that both Meis1 and its relative, pKnox1, dimerize with Pbx1 on the same TGATTGAC motif selected by dimers of Pbx proteins and unidentified partner(s) in nuclear extracts, including those from t(1;19) pre-B cells. Outside their homeodomains, Meis1 and pKnox1 were highly conserved only in two motifs required for cooperativity with Pbx1. Like the unidentified endogenous partner(s), both Meis1 and pKnox1 failed to dimerize significantly with E2a-Pbx1. The Meis1/pKnox1-interaction domain in Pbx1 resided predominantly in a conserved N-terminal Pbx domain deleted in E2a-Pbx1. Thus, the leukemic potential of E2a-Pbx1 may require abrogation of its interaction with members of the Meis and pKnox families of transcription factors, permitting selective targeting of genes regulated by Pbx-Hox complexes. In addition, because most motifs bound by Pbx-Meis1/pKnox1 were not bound by Pbx1-Hox complexes, the leukemic potential of Meis1 in myeloid leukemias may involve shifting Pbx proteins from promoters containing Pbx-Hox motifs to those containing Pbx-Meis motifs.
Implantable biomedical devices: Wireless powering and communication (2012)

In recent years, there has been major progress on implantable biomedical systems that support most of the functionalities of wireless implantable devices. Nevertheless, these devices remain mostly restricted to research, in part due to limited miniaturization, power supply constraints, and lack of a reliable interface between implants and external devices. This article provides a tutorial on the design of implantable biomedical devices that addresses these limitations. Specifically, it presents analysis and techniques for wireless power transfer and efficient data transfer from both theoretical and practical standpoints. Their potential implementations are also discussed.
Plasminogen Activator Inhibitor-1 in Neointima of Vein Grafts (1997)

Upregulation of PAI-1 mRNA expression and markedly increased amounts of PAI-1 antigen were detected in the vein grafts after the development of neointima. Furthermore, augmented UPA activity was found in the graft wall, but TPA was clearly depleted. Altogether, our findings imply decreased fibrinolytic potential in the stenosed graft, which may contribute to the graft occlusion.
Power Collection and Integration on the Electric Grid from Offshore Wind Parks (2008)

Abstract—There is a lot of potential in offshore wind parks due to the amount of available area. The parks get bigger in size and will continue to grow in the future. In this article a new converter topology for offshore wind parks is proposed. This topology is meant to be for large offshore wind parks sited far from shore and it is based on DC collection and transmission. All the converters are located in the nacelle of the wind turbines and the turbines are connected in series directly connected to shore without any transformation stages. The electrical system, from the generator to the grid connection of the turbine, is modeled in PSCAD. The model consists of an induction machine, a 3-phase AC to 1-phase AC converter, a high frequency high power transformer and a full-bridge converter. The AC-AC converter has a new type of reverse-blocking IGBTs and the switches are controlled with a dedicated switching pattern. The simulations show that the switching pattern gives the expected square wave voltage from the AC-AC converter. The new converter topology reduces the converter losses due to fewer converter stages, the architecture of the reverse-blocking IGBT and the new switching pattern. Index Terms—Bidirectional/AC-AC converter, reverse-blocking IGBT, offshore wind parks, HVDC, switching pattern AC-AC
Block of Long-Term Potentiation by Naturally Secreted and Synthetic Amyloid β-Peptide in Hippocampal Slices Is Mediated via Activation of the Kinases c-Jun N-Terminal Kinase, Cyclin-Dependent Kinase 5, and p38 Mitogen-Activated Protein Kinase as well as Metabotropic Glutamate Receptor Type 5 (2004)

The mechanisms of action of human synthetic and naturally secreted cell-derived amyloid beta-peptide (Abeta)(1-42) on the induction of long-term potentiation (LTP) were investigated in the medial perforant path to dentate granule cell synapses in hippocampal slices. Synthetic and cell-derived Abeta strongly inhibited high-frequency stimulation (HFS)-induced LTP at peak HFS and 1 hr after HFS. Cell-derived Abeta was much more potent than synthetic Abeta at inhibiting LTP induction, with threshold concentrations of approximately 1 and 100-200 nm, respectively. The involvement of various kinases in Abeta-mediated inhibition of LTP induction was investigated by applying Abeta in the presence of inhibitors of these kinases. The c-Jun N-terminal kinase (JNK) inhibitor JNKI prevented the block of LTP induction by both synthetic and cell-derived Abeta. The block of LTP induced by synthetic Abeta was also prevented by the JNK inhibitor anthra[1,9-cd]pyrazol-6(2H)-one, the cyclin-dependent kinase 5 (Cdk5) inhibitors butyrolactone and roscovitine, and the p38 MAP kinase (MAPK) inhibitor 4-(4-fluorophenyl)-2-(4-methylsulfonylphenyl)-5-(4-pyridyl)-1H-imidazole but not by the p42-p44 MAP kinase inhibitor 1,4-diamino-2,3-dicyano-1,4-bis(2-aminophenylthio)butadiene. The group I-group II metabotropic glutamate receptor (mGluR) antagonist 2S-2-amino-2-(1S,2S-2-carboxycyclopropyl-1-yl)-3-(xanth-9-yl)propanoic acid and the mGluR5 antagonist methyl-6-(phenylethynyl)pyridine prevented the block of LTP induction by Abeta. However, thealpha7 nicotinic ACh receptor antagonist methylcaconatine did not prevent the inhibition of LTP induction by Abeta. These studies provide evidence that the Abeta-mediated inhibition of LTP induction involves stimulation of the kinases JNK, Cdk5, and p38 MAPK after the activation of both the Abeta receptor(s) and mGluR5.
Behavior coordination in structured environments (2003)

Behavior coordination is a notorious problem in mobile robotics. Behaviors are either in competition or collaborating to achieve the goals of a system, which leads to requirements for arbitration and/or fusion of control signals. In most systems the arbitration is specified in terms of 'events' that denote positions or sensory input. The detection of these events allows discrete switching between groups of behaviors. In contrast, the fusion of behaviors is often achieved using potential fields, fuzzy rules or superposition. In most cases, the underlying theoretical foundation is rather weak and the behavior switching results in discrete changes in the overall system dynamics. In this paper, we present a scheme for behavior coordination that is grounded in the dynamical systems approach. The methodology provides a solid theoretical basis for analysis and design of individual behaviors and their coordination. This coordination framework is demonstrated in the context of a domestic robot for fetch-and-carry-type tasks. It is shown here that behavior coordination can be analyzed as an integral part of the design to facilitate smooth transition and fusion between behaviors.
Structure-Based Identification of Inhibitory Fragments Targeting the p300/CBP-Associated Factor Bromodomain (2016)

The P300/CBP-associated factor plays a central role in retroviral infection and cancer development, and the C-terminal bromodomain provides an opportunity for selective targeting. Here, we report several new classes of acetyl-lysine mimetic ligands ranging from mM to low micromolar affinity that were identified using fragment screening approaches. The binding modes of the most attractive fragments were determined using high resolution crystal structures providing chemical starting points and structural models for the development of potent and selective PCAF inhibitors.
Chemiresistive Vapor Sensing with Microscale Films of Gold Monolayer Protected Clusters (2005)

Here we report the stability, conductivity, and vapor-sensing properties of microcontact-printed films of 1.6-nm average diameter hexanethiolate-coated gold monolayer protected clusters (C6 Au MPCs). The C6 Au MPCs were stamped into parallel lines (approximately 1.2 microm wide and 400 nm thick) across two Au electrodes separated by a 1-microm gap. The chemiresistive vapor-sensing properties were measured for saturated toluene and 2-propanol vapors. As-prepared patterned Au MPC films were unstable in the presence of saturated toluene vapor, and their current response was irreversible. Chemically linking the films with vapor-phase hexanedithiol greatly improves their stability and leads to reversible responses. The extent of Au MPC cross-linking and vapor response to organic vapors varies with different exposure times to dithiol vapor. The response to toluene changed from 61 to 8% for exposures of 1 and 60 min, respectively, which is likely due to greater film flexibility with less dithiol exposure. The current measured through the films varies from 10(-11) to 10(-3) Angstroms as a function of the temperature between 250 and 320 degrees C, which correlates with the loss of organic material as measured by FT-IR spectroscopy and the change in thickness and width of the film as measured by atomic force microscopy. The vapor-sensing properties vary with temperature, current, and organic content in the film, which are all interrelated. Response to toluene decreased with increasing temperature and conductivity, while the response to 2-propanol was less predictable. Reducing the size of vapor-sensing devices based on Au MPCs is important for creating highly portable devices that can simultaneously detect multiple analytes. This work demonstrates a simple method for reducing the size of such devices down to the microscale and describes methods for maximizing response, stability, and reversibility.
Crystal structure of a hydrophobic 19-residue peptide helix containing three centrally located d amino acids (2003)

The design of the synthetic 19-residue peptide Boc-Leu-Aib-Val-Ala-Leu5-Aib-Val-D-Ala-d-Leu-Leu10-Val-Phe-Val-Aib-D-Val15-Leu-Phe-Val-Val-OMe (Aib, alpha-aminoisobutyric acid; OMe, methyl ester) was intended to produce a crystalline peptide with independent helical and hairpin domains. The design was partially based on an octapeptide with the same sequence as residues 11-18 above, which was shown to fold into a beta-hairpin in the crystal. However, the crystal structure of the present peptide provided a surprising result. The conformation is the longest characterized right-handed alpha-helix, with as many as three internal d residues in the sequence. The completely helical structure was also unexpected, because beta-branched residues such as Val have a low propensity for helix formation in proteins. The helical peptides in the present structure assemble to form hydrophobic channels that accommodate five toluene molecules per peptide along the length of the channel. The structural results illustrate the similarity in energetics between helical and beta-hairpin conformations for peptides containing Aib residues. The crystallographic parameters for C107H179N19O22.3H2O.2.5 toluenes are: space group C2, a = 34.679(3) A, b = 12.866(1) A, c = 31.915(3) A, beta = 96.511(8) degrees, V = 14,148 A3, Z = 4, dcalc = 1.099 g/cm3, and agreement factor R1 = 10.2%.
Homophilic adhesion between Ig superfamily carcinoembryonic antigen molecules involves double reciprocal bonds (1993)

Both carcinoembryonic antigen (CEA) and neural cell adhesion molecule (NCAM) belong to the immunoglobulin supergene family and have been demonstrated to function as homotypic Ca(++)-independent intercellular adhesion molecules. CEA and NCAM cannot associate heterotypically indicating that they have different binding specificities. To define the domains of CEA involved in homotypic interaction, hybrid cDNAs consisting of various domains from CEA and NCAM were constructed and were transfected into a CHO-derived cell line; stable transfectant clones showing cell surface expression of CEA/NCAM chimeric-proteins were assessed for their adhesive properties by homotypic and heterotypic aggregation assays. The results indicate that all five of the Ig(C)-like domains of NCAM are required for intercellular adhesion while the COOH-terminal domain containing the fibronectin-like repeats is dispensable. The results also show that adhesion mediated by CEA involves binding between the Ig(V)-like amino-terminal domain and one of the Ig(C)-like internal repeat domains: thus while transfectants expressing constructs containing either the N domain or the internal domains alone were incapable of homotypic adhesion, they formed heterotypic aggregates when mixed. Furthermore, peptides consisting of both the N domain and the third internal repeat domain of CEA blocked CEA-mediated cell aggregation, thus providing direct evidence for the involvement of the two domains in adhesion. We therefore propose a novel model for interactions between immunoglobulin supergene family members in which especially strong binding is effected by double reciprocal interactions between the V-like domains and C-like domains of antiparallel CEA molecules on apposing cell surfaces.
Design, prototypes, and performances of an image slicer system for integral field spectroscopy (2003)

A research and development activity on an Image Slicer System for Integral Field Spectroscopy is conducted with possible applications on future instrumentation for major ground-based (VLT second-generation instruments) and space (NGST, SNAP) observatories. These instruments need high-photometric accuracy, compactness and will possibly work under cryogenic environment, while multi-integral field units may require mass production. Several prototypes have been manufactured since March 2000. This paper provides an overview of the difficulties and limits of the design for different applications, and will describe technology developments and performance evaluation. In particular, the assembly of Zerodur micro-optical elements required an original method of assembly using high precision molecular adhesion, in order to comply with optical tolerances. Following the exact characteristics of the optical elements, diffraction and straylight analyses have been performed in the NIR range. It was found that diffraction effects due to the image slicer induce energy losses less than a few percents and do not induce any crosstalk between pseudo-slits. With a good baffling, scatter can be controlled to minimize the background increase to less than 10<sup>-4</sup> times the incident flux.
The Immune Status of Healthy Centenarians (1984)

The immune status of 17 healthy individuals 100-103 years of age (centenarians) was investigated. Qualitative values for immunoglobulins IgG, IgM, IgA, and IgE were within normal ranges for subjects more than 60 years of age with the exception of elevated IgM in one individual. Cell marker studies employing a panel of 27 monoclonal antibodies delineating T and B lymphocytes, monocytes, natural killer cells, granulocytes, and functional and developmental subsets of each were performed to phenotype the peripheral blood leukocytes. Although the total lymphocyte count was normal in every subject, the numbers of T4-positive helper-inducer T lymphocytes were profoundly depressed, as were responses to the mitogen phytohemagglutinin and interleukin-2 production. Activated immature T lymphocytes and the number of cells bearing the phenotype of natural killer cells were increased, but natural killer cell activity was normal. Early B lymphocytes were also increased. The relative concentration of monocytes was normal. Taken together these findings indicate that the immune system in centenarians is similar to that in younger but still elderly individuals, i.e., discriminating T-lymphoid functions are reduced in association with an apparent failure of some T, B, and natural killer cells to differentiate to functional maturity.
Cyclin-A1 represents a new immunogenic targetable antigen expressed in acute myeloid leukemia stem cells with characteristics of a cancer-testis antigen (2012)

Targeted T-cell therapy is a potentially less toxic strategy than allogeneic stem cell transplantation for providing a cytotoxic antileukemic response to eliminate leukemic stem cells (LSCs) in acute myeloid leukemia (AML). However, this strategy requires identification of leukemia-associated antigens that are immunogenic and exhibit selective high expression in AML LSCs. Using microarray expression analysis of LSCs, hematopoietic cell subpopulations, and peripheral tissues to screen for candidate antigens, cyclin-A1 was identified as a candidate gene. Cyclin-A1 promotes cell proliferation and survival, has been shown to be leukemogenic in mice, is detected in LSCs of more than 50% of AML patients, and is minimally expressed in normal tissues with exception of testis. Using dendritic cells pulsed with a cyclin-A1 peptide library, we generated T cells against several cyclin-A1 oligopeptides. Two HLA A*0201-restricted epitopes were further characterized, and specific CD8 T-cell clones recognized both peptide-pulsed target cells and the HLA A*0201-positive AML line THP-1, which expresses cyclin-A1. Furthermore, cyclin-A1-specific CD8 T cells lysed primary AML cells. Thus, cyclin-A1 is the first prototypic leukemia-testis-antigen to be expressed in AML LSCs. The pro-oncogenic activity, high expression levels, and multitude of immunogenic epitopes make it a viable target for pursuing T cell-based therapy approaches.
Serum concentrations of E‐selectin, P‐selectin, ICAM‐1 and interleukin 6 in acute leukaemia patients with chemotherapy‐induced leucopenia and bacterial infections (1995)

Serum concentrations of E-selectin (CD62E), P-selectin (CD62P), ICAM-1 (CD54) and interleukin 6 were investigated in acute leukaemia patients with chemotherapy-induced leucopenia and complicating bacterial infections. Serum concentrations of both E-selectin and P-selectin were decreased in the leucopenic patients without infections when compared with levels before chemotherapy; and serum concentrations of both E-selectin and P-selectin showed a further decrease during complicating bacterial infections. In contrast to the leukaemia patients, previously healthy individuals with meningococcal disease showed markedly elevated serum concentrations of E-selectin and normal levels of P-selectin during infection. Serum concentrations of ICAM-1 and interleukin 6 increased during bacterial infections in the acute leukaemia patients with chemotherapy-induced leucopenia. The alterations in serum concentrations of soluble adhesion molecules and interleukin 6 reversed when clinical signs of bacterial infections resolved during antibiotic therapy. Our results demonstrate that acute leukaemia patients with chemotherapy-induced cytopenia show altered levels of both soluble adhesion molecules and interleukin 6 during complicating bacterial infections.