gebhart/patrepeval huggingface dataset:
Enhanced T cell-mediated protection against malaria in human challenges by using the recombinant poxviruses FP9 and modified vaccinia virus Ankara (2005)

Malaria is a major global health problem for which an effective vaccine is required urgently. Prime-boost vaccination regimes involving plasmid DNA and recombinant modified vaccinia virus Ankara-encoding liver-stage malaria antigens have been shown to be powerfully immunogenic for T cells and capable of inducing partial protection against experimental malaria challenge in humans, manifested as a delay in time to patent parasitemia. Here, we report that substitution of plasmid DNA as the priming vector with a specific attenuated recombinant fowlpox virus, FP9, vaccine in such prime-boost regimes can elicit complete sterile protection that can last for 20 months. Protection at 20 months was associated with persisting memory but not effector T cell responses. The protective efficacy of various immunization regimes correlated with the magnitude of induced immune responses, supporting the strategy of maximizing durable T cell immunogenicity to develop more effective liver-stage vaccines against Plasmodium falciparum malaria.
Bayesian approach to parameter estimation and interpolation of time-varying autoregressive processes using the Gibbs sampler (1997)

A nonstationary time series is one in which the statistics of the process are a function of time; this time dependency makes it impossible to utilise standard analytically defined statistical estimators to parameterise the process. To overcome this difficulty, the time series is considered within a finite time interval and is modelled as a time-varying autoregressive (AR) process. The AR coefficients that characterise this process are functions of time, represented by a family of basis vectors. The corresponding basis coefficients are invariant over the time window and have stationary statistical properties. A method is described for applying a Markov Chain Monte Carlo method known as the Gibbs sampler to the problem of estimating the parameters of such a time-varying autoregressive (TVAR) model, whose time dependent coefficients are modelled by basis functions. The Gibbs sampling scheme is then extended to include a stage which may be used for interpolation. Results on synthetic and real audio signals show that the model is flexible, and that a Gibbs sampling framework is a reasonable scheme for estimating and characterising a time-varying AR process.
The effect of prednisone on pancreatic islet autografts in dogs. (1993)

Prednisone was shown to induce hyperglycemia in dogs submitted to total pancreatectomy and pancreatic islet autotransplantation. The hyperglycemia caused by a 10-day course of prednisone, 1 mg/kg/day, starting on the day of operation was reversible within 1 week after steroid discontinuance. Three weeks after prednisone was stopped, there was no detectable adverse effect on glucose homeostasis as judged by fasting blood sugar levels and intravenous glucose tolerance test results. Four months after transplantation, glucose disappearance was delayed in animals previously treated with the prednisone compared with those previously treated with prednisone plus insulin or control animals. This was accompanied by lower insulin values on intravenous glucose tolerance testing and suggests a long-term subtle effect on islet function. The mechanism of the steroid effect is not known. However, this model could be used to test the diabetogenicity of other immunosuppressive agents including cyclosporine, FK 506, and azathioprine.
A PBMC-Based System to Assess Human T Cell Responses to Influenza Vaccine Candidates In Vitro (2019)

Vaccine development is an expensive and time-consuming process that heavily relies on animal models. Yet, vaccine candidates that have previously succeeded in animal experiments often fail in clinical trials questioning the predictive value of animal models. Alternative assay systems that can add to the screening and evaluation of functional characteristics of vaccines in a human context before embarking on costly clinical trials are therefore urgently needed. In this study, we have established an in vitro system consisting of long-term cultures of unfractionated peripheral blood mononuclear cells (PBMCs) from healthy volunteers to assess (recall) T cell responses to vaccine candidates. We observed that different types of influenza vaccines (whole inactivated virus (WIV), split, and peptide vaccines) were all able to stimulate CD4 and CD8 T cell responses but to different extents in line with their reported in vivo properties. In-depth analyses of different T cell subsets revealed that the tested vaccines evoked mainly recall responses as indicated by the fact that the vast majority of the responding T cells had a memory phenotype. Furthermore, we observed vaccine-induced activation of T follicular helper cells, which are associated with the induction of humoral immune responses. Our results demonstrate the suitability of the established PBMC-based system for the in vitro evaluation of memory T cell responses to vaccines and the comparison of vaccine candidates in a human immune cell context. As such, it can help to bridge the gap between animal experiments and clinical trials and assist in the selection of promising vaccine candidates, at least for recall antigens.
A comparison of the effects of insulin‐like growth factor‐I, insulin and combined infusions of insulin and insulin‐like growth factor4 on glucose metabolism in dogs (1995)

The effect of infusions of recombinant insulin-like growth factor-I (IGF-I) (34, 103 or 688 pmol kg-1 min-1), insulin (3.4, 10.3 or 68.8 pmol kg-1 min-1) or combined infusions (34 pmol IGF-I + 3.4 pmol kg-1 min-1 insulin or 103 pmol IGF-I + 3.4 pmol kg-1 min-1 insulin) on glucose metabolism was investigated in dogs using a [3-3H]-glucose infusion and euglycaemic clamp. All insulin doses decreased glucose production rate (Ra) in a dose-dependent manner (P < 0.05). All IGF-I doses decreased glucose Ra (P < 0.05) but this decrease was not dose dependent. The decrease in glucose Ra with the combined infusion of 34 pmol kg-1 min-1 IGF-I + 3.4 pmol kg-1 min-1 insulin was greater than 34 pmol kg-1 min-1 IGF-I (P < 0.05) but not different from 3-4 pmol kg-1 min-1 insulin. All insulin and IGF-I doses increased glucose utilization rate (Rd) in a dose-dependent manner (P < 0.01). The increase in glucose utilization was greater following both combined infusions than with either component infused alone (P < 0.05). Although at the doses selected, insulin and IGF-I had similar effects on glucose utilization with additive effects when the two peptides were combined, IGF-I was less effective than insulin in suppressing glucose production.
Monitoring of thermal therapy based on shear modulus changes: II. Shear wave imaging of thermal lesions (2011)

The clinical applicability of high-intensity focused ultrasound (HIFU) for noninvasive therapy is currently hampered by the lack of robust and real-time monitoring of tissue damage during treatment. The goal of this study is to show that the estimation of local tissue elasticity from shear wave imaging (SWI) can lead to a precise mapping of the lesion. HIFU treatment and monitoring were respectively performed using a confocal setup consisting of a 2.5-MHz single element transducer focused at 34 mm on ex vivo samples and an 8-MHz ultrasound diagnostic probe. Ultrasound-based strain imaging was combined with shear wave imaging on the same device. The SWI sequences consisted of 2 successive shear waves induced at different lateral positions. Each wave was created with pushing beams of 100 μs at 3 depths. The shear wave propagation was acquired at 17,000 frames/s, from which the elasticity map was recovered. HIFU sonications were interleaved with fast imaging acquisitions, allowing a duty cycle of more than 90%. Thus, elasticity and strain mapping was achieved every 3 s, leading to real-time monitoring of the treatment. When thermal damage occurs, tissue stiffness was found to increase up to 4-fold and strain imaging showed strong shrinkages that blur the temperature information. We show that strain imaging elastograms are not easy to interpret for accurate lesion characterization, but SWI provides a quantitative mapping of the thermal lesion. Moreover, the concept of shear wave thermometry (SWT) developed in the companion paper allows mapping temperature with the same method. Combined SWT and shear wave imaging can map the lesion stiffening and temperature outside the lesion, which could be used to predict the eventual lesion growth by thermal dose calculation. Finally, SWI is shown to be robust to motion and reliable in vivo on sheep muscle.
Novel selective and non‐selective optical detection of micro‐organisms (1997)

A new instrument, capable of detecting metabolic changes due to microbiological activity, is described. Optical changes in growth media are monitored in a semi-fluid zone that separates the liquid medium containing the sample. Data demonstrate that common media can be utilized in conjunction with this rapid automated technology. Nutrient broth with the pH dye indicator. bromocresol purple was suitable for total counts. Selective media containing dyes were utilized to assess the presence or absence of specific groups of organisms. Biochemical reactions, such as lysine decarboxylase activity, were identified by the unique generated patterns, and specific enzymatic cleavage reactions with chromogenic substrates, such as 5-bromo-4 chloro-3 indolyl-beta-D-glucuronic acid (X-GLUC), were monitored.
Studying black holes in the internet with Hubble (2008)

We present Hubble, a system that operates continuously to find Internet reachability problems in which routes exist to a destination but packets are unable to reach the destination. Hubble monitors at a 15 minute granularity the data-path to prefixes that cover 89 % of the Internet’s edge address space. Key enabling techniques include a hybrid passive/active monitoring approach and the synthesis of multiple information sources that include historical data. With these techniques, we estimate that Hubble discovers 85 % of the reachability problems that would be found with a pervasive probing approach, while issuing only 5.5 % as many probes. We also present the results of a three week study conducted with Hubble. We find that the extent of reachability problems, both in number and duration, is much greater than we expected, with problems persisting for hours and even days, and many of the problems do not correlate with BGP updates. In many cases, a multi-homed AS is reachable through one provider, but probes through another terminate; using spoofed packets, we isolated the direction of failure in 84 % of cases we analyzed and found all problems to be exclusively on the forward path from the provider to the destination. A snapshot of the problems Hubble is currently monitoring can be found at
MTA1 promotes proliferation and invasion in human gastric cancer cells (2015)

Although metastasis-associated protein 1 (MTA1) has been widely linked to tumor metastasis, the relevant mechanisms remain to be elucidated, especially in gastric cancer. The aim of this study was to examine whether the MTA1 gene is associated with the process of proliferation and invasion by regulating several molecular targets in gastric cancer. MTA1 expression in 61 gastric cancer tissue and adjacent noncancerous tissues was analyzed by immunohistochemistry. The prognostic value of MTA1 for overall survival and disease-free survival was determined by Kaplan-Meier estimates, and the significance of differences between curves was evaluated by the log-rank test. Furthermore, overexpression of MTA1 in SGC7901 and BGC823 cells promoted cell cycle progression, cell adhesion, and cell invasion. Our study found that MTA1 is overexpressed in gastric cancers, which contributes to malignant cell growth by facilitating cell cycle progression through upregulation of cyclin D1 and accelerates the migration and invasion of human gastric cancer cells by regulating expression of fibronectin and MMP2/MMP9. Taken together, MTA1 was involved in the pathogenesis of gastric cancer and might be a candidate therapeutic target in gastric cancer.
A trade-off between space and efficiency for routing tables (1989)

Two conflicting goals play a crucial role in the design of routing schemes for communication networks. A routing scheme should use paths that are as short as possible for routing messages in the network, while keeping the routing information stored in the processors' local memory as succinct as possible. The efficiency of a routing scheme is measured in terms of its stretch factor -the maximum ratio between the length of a route computed by the scheme and that of a shortest path connecting the same pair of vertices. Most previous work has concentrated on finding good routing schemes (with a small fixed stretch factor) for special classes of network topologies. In this paper the problem for general networks is studied, and the entire range of possible stretch factors is examined. The results exhibit a trade-off between the efficiency of a routing scheme and its space requirements. Almost tight upper and lower bounds for this trade-off are presented. Specifically, it is proved that any routing scheme for general n -vertex networks that achieves a stretch factor k ≥ 1 must use a total of Ω( n 1+1/(2 k +4) ) bits of routing information in the networks. This lower bound is complemented by a family K ( k ) of hierarchical routing schemes (for every k ≥ l) for unit-cost general networks, which guarantee a stretch factor of O ( k ), require storing a total of O ( k 3 n 1+(1/h) log n )- bits of routing information in the network, name the vertices with O (log 2 n )-bit names and use O (log n )-bit headers.
Potential antitumor agents. 10. Synthesis and biochemical properties of 5-N-alkylamino-, N,N-dialkylamino-, and N-alkylacetamido-1-formylisoquinoline thiosemicarbazones (1974)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTPotential antitumor agents. 10. Synthesis and biochemical properties of 5-N-alkylamino-, N,N-dialkylamino-, and N-alkylacetamido-1-formylisoquinoline thiosemicarbazonesPaul D. Mooney, Barbara A. Booth, E. Colleen Moore, Krishna C. Agrawal, and Alan C. SartorelliCite this: J. Med. Chem. 1974, 17, 11, 1145–1150Publication Date (Print):November 1, 1974Publication History Published online1 May 2002Published inissue 1 November 1974https://doi.org/10.1021/jm00257a004Request reuse permissionsArticle Views135Altmetric-Citations18LEARN 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 InReddit PDF (706 KB) Get e-Alertsclose Get e-Alerts
PRESERVATION OF PORCINE NON–HEART-BEATING DONOR LIVERS BY SEQUENTIAL COLD STORAGE AND WARM PERFUSION (2004)

Normothermic perfusion failed to resuscitate porcine livers after 60 minutes of warm ischemia and 4 hours of cold preservation. Even a short period of cold ischemia is significantly deleterious to the function of ischemically damaged (NHBD) livers.
Enhanced Sensitivity of Lateral Flow Tests Using a Two-Dimensional Paper Network Format (2011)

Point-of-care diagnostic assays that are rapid, easy-to-use, and low-cost are needed for use in low-resource settings; the lateral flow test has become the standard bioassay format in such settings because it meets those criteria. However, for a number of analytes, conventional lateral flow tests lack the sensitivity needed to have clinical utility. To address this limitation, we are developing a paper network platform that extends the conventional lateral flow test to two dimensions. The two-dimensional structures allow incorporation of multistep processes for improved sensitivity, while still retaining the positive aspects of conventional lateral flow tests. Here we create an easy-to-use, signal-amplified immunoassay based on a modified commercial strip test for human chorionic gonadotropin, the hormone used to detect pregnancy, and demonstrate an improved limit of detection compared to a conventional lateral flow assay. These results highlight the potential of the paper network platform to enhance access to high-quality diagnostic capabilities in low-resource settings in the developed and developing worlds.
Heterologous myb genes distinct fromGL1enhance trichome production when overexpressed inNicotiana tabacum (1999)

Myb-class transcription factors implicated in cell shape regulation were overexpressed in Arabidopsis thaliana and Nicotiana tabacum in an attempt to assess the extent to which cellular differentiation programs might be shared between these distantly related plants. GLABROUS 1, a myb gene required for trichome development in Arabidopsis, did not alter the trichome phenotype of the tobacco plants in which it was overexpressed. MIXTA, which in Antirrhinum majus is reported to regulate certain aspects of floral papillae development, did not complement the glabrous 1 mutant of Arabidopsis. However, 35S:MIXTA transformants of N. tabacum displayed various developmental abnormalities, most strikingly production of supernumerary trichomes on cotyledons, leaves and stems. In addition, floral papillae were converted to multicellular trichomes. CotMYBA, a myb gene which is expressed in Gossypium hirsutum ovules and has some homology to MIXTA, was also overexpressed in the two species. A similar but distinct syndrome of abnormalities, including the production of cotyledonary trichomes, was observed in 35S:CotMYBA tobacco transformants. However, CotMYBA did not alter trichome production in Arabidopsis. These results suggest that the trichomes of Arabidopsis and Nicotiana are merely analogous structures, and that the myb genes regulating their differentiation are specific and separate.
Managing and Distributing Application Software (1996)

The paper describes a project for distributing application software in the large worldwide High Energy Physics (HEP) community. Hundreds of packages are maintained centrally and users can access them directly through the network. Workstation administrators can optimise access performance and reliability by specifying in their installation scripts the packages to be copied locally or accessed remotely. Product maintainers have a set of tools to generate their packages from the sources, while site administrators can replicate (part of) the central file-base manually or automatically. The generation takes place in different physical network domains. Replication on remote domains implies only propagating changes of the repository.
Evidence for a modular structure of the homologous repetitive C-terminal carbohydrate-binding sites of Clostridium difficile toxins and Streptococcus mutans glucosyltransferases (1992)

The homologous C-terminal repeats of Clostridium difficile toxins (ToxA and ToxB) and streptococcal glucosyltransferases appear to mediate protein-carbohydrate interactions at cellular binding sites with sugar moieties as substrates. A consensus sequence of 134 repeating units from gram-positive bacteria indicates that these repeats have a modular design with (i) a stretch of aromatic amino acids proposed to be involved in the primary carbohydrate-protein interaction, (ii) an amplification of this interaction by repetition of the respective sequences, and (iii) a second domain, not characterized, that is responsible for carbohydrate specificity.
Mesothelin gene expression and promoter methylation/hypomethylation in gynecological tumors. (2010)

We detected diverse levels of methylation/hypomethylation at CpG sites in the mesothelin promoter region in ovarian and endometrial tumors. We speculate that, although methylation/hypomethylation changes may affect its transcription, other mechanisms may synergically operate in tissue-specific expression and tumor-related mesothelin overexpression.
Tet B or not tet B: Advances in tetracycline-inducible gene expression (1999)

Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans the biological, physical, and social sciences.
Photo‐assisted heterogeneous catalysis with optical fibers II. Nonisothermal single fiber and fiber bundle (1980)

Abstract A previous paper (Marinangeli and Ollis, 1977) considered light transport in a single optical fiber which was coated with a heterogeneous photoassisted catalyst. This paper analyzes simultaneous mass, heat, and light transport in a catalyst on a single fiber, and in a likely large‐scale configuration, a bundle of parallel, catalyst‐coated optical fibers. The dimensionless temperature rise is dominated by energy released by light absorption, with the heat of reaction contributing to a lesser degree.
Nerve growth factor induces P2X3 expression in sensory neurons (2001)

Glial cell line-derived neurotrophic factor (GDNF) and nerve growth factor (NGF) are neuroprotective for subpopulations of sensory neurons and thus are candidates for pain treatment. However, delivering these factors to damaged neurons will invariably result in undamaged systems also being treated, with possible consequences for sensory processing. In sensory neurons the purinergic receptor P2X(3) is found predominantly in GDNF-sensitive nociceptors. ATP signalling via the P2X(3) receptor may contribute to pathological pain, suggesting an important role for this receptor in regulating nociceptive function. We therefore investigated the effects of intrathecal GDNF or NGF on P2X(3) expression in adult rat spinal cord and dorsal root ganglia (DRG). In control spinal cords, P2X(3) expression was restricted to a narrow band of primary afferent terminals within inner lamina II (II(i)). Glial cell line-derived neurotrophic factor treatment increased P2X(3) immunoreactivity within lamina II(i) but not elsewhere in the cord. Nerve growth factor treatment, however, induced novel P2X(3) expression, with intense immunoreactivity in axons projecting to lamina I and outer lamina II and to the ventro-medial afferent bundle beneath the central canal. In the normal DRG, we found a greater proportion of P2X(3)-positive neurons at cervical levels, many of which were large-diameter and calcitonin gene-related peptide-positive. In both cervical and lumbar DRG, the number of P2X(3)-positive cells increased following GDNF or NGF treatment. De novo expression of P2X(3) in NGF-sensitive nociceptors may contribute to chronic inflammatory pain.