gebhart/patrepeval huggingface dataset:
Inhibition of human immunodeficiency virus type 1 replication in human T cells by retroviral-mediated gene transfer of a dominant-negative Rev trans-activator. (1992)

Human immunodeficiency virus type 1 (HIV-1) is the causative agent of the acquired immunodeficiency syndrome (AIDS). Currently, no satisfactory treatment for this viral disease is available. Somatic gene therapy has been proposed as an alternative to conventional therapies. Several antiviral gene therapy approaches including ribozymes, antisense inhibition, and RNA-decoy strategies, as well as dominant-negative mutants of HIV-1 proteins (Gag, Tat, and Rev) have been suggested. To prove the concept of trans-dominant inhibition of HIV-1 replication, we transduced CEM cells with a retroviral vector encoding a dominant-negative rev gene. Amplification of integrase-specific proviral sequences from high molecular weight DNA indicated successful HIV-1 human T-lymphotropic virus type IIIB (HTLV-IIIB) infection of all cells. In contrast to CEM cells and CEM cells expressing the rev wild-type (wt) gene, infection of two CEM-RevM10 clones with HIV-1 did not result in the release of significant levels of p24 Gag antigen as measured by antigen capture assay, indicating a block in HIV-1 replication due to the presence of the trans-dominant Rev protein. Furthermore, the parental CEM cells as well as CEM cells expressing the Rev wt protein were effectively killed in the course of the HIV-1 infection, whereas all CEM cells expressing the RevM10 protein were unaffected in their growth rate.
Protective, Anti-Tumor Monoclonal Antibody Recognizes a Conformational Epitope Similar to Melibiose at the Surface of Invasive Murine Melanoma Cells (2002)

Polyclonal and monoclonal antibodies (MAbs) have been raised against B16F10 cells collected from growing tumors in vivo or grown in culture media supplemented with normal mouse serum to avoid xenogeneic reactivity. Antibody binding to glutaraldehyde-fixed melanoma cells and Melan A melanocytes was assayed using chemiluminescent-enzyme-linked immunosorbent assay (CL-ELISA) for increased sensitivity. Most of the reactivity of antitumor polyclonal IgG (92%) was inhibitable by a carbohydrate pool consisting of melibiose, mannose, lactose, and sialic acid. Two monoclonal IgG(2a) antibodies, A4 and B11, had their reactivity to melanoma cells completely and specifically inhibited by melibiose. MAb A4 did not bind to alpha-galactosyl residues abundantly expressed in a protozoan mucin used as substrate, and its binding to the tumor cells was not affected by alpha-galactosidase treatment or addition of alpha-methyl-galactopyranoside or raffinose. Recognition of a mimotope similar to melibiose is suggested. MAb is cytotoxic in vitro in a complement-mediated reaction and effectively neutralizes melanoma cells protecting syngeneic mice against tumor development in vivo. This MAb is thus an important tool for further studies on antitumor adjuvant therapy combined with other agents associated with immuno- and chemotherapy of invasive melanoma.
Identification of a Novel 1,2,3,4-Tetrahydrobenzo[b][1,6]naphthyridine Analogue as a Potent Phosphodiesterase 5 Inhibitor with Improved Aqueous Solubility for the Treatment of Alzheimer’s Disease (2017)

Phosphodiesterase 5 (PDE5) hydrolyzes cyclic guanosine monophosphate (cGMP) leading to increased levels of the cAMP response element binding protein (CREB), a transcriptional factor involved with learning and memory processes. We previously reported potent quinoline-based PDE5 inhibitors (PDE5Is) for the treatment of Alzheimer's disease (AD). However, the low aqueous solubility rendered them undesirable drug candidates. Here we report a series of novel PDE5Is with two new scaffolds, 1,2,3,4-tetrahydrobenzo[b][1,6]naphthyridine and 2,3-dihydro-1H-pyrrolo[3,4-b]quinolin-1-one. Among them, compound 6c, 2-acetyl-10-((3-chloro-4-methoxybenzyl)amino)-1,2,3,4-tetrahydrobenzo[b][1,6]naphthyridine-8-carbonitrile, the most potent compound, has an excellent in vitro IC<sub>50</sub> (0.056 nM) and improved aqueous solubility as well as good efficacy in a mouse model of AD. Furthermore, we are proposing two plausible binding modes obtained through in silico docking, which provide insights into the structural basis of the activity of the two series of compounds reported herein.
Vacuum-Assisted Wound Closure (VAC Therapy) for the Management of Patients With High-Energy Soft Tissue Injuries (2003)

The vacuum-assisted closure appears to be a viable adjunct for the treatment of open high-energy injuries. Application can be performed as a bedside procedure but additional soft tissue reconstruction may be needed for definitive coverage. This device does not replace the need for formal debridement of necrotic tissue, but it may avoid the need for a free tissue transfer in some patients with large traumatic wounds.
The Role of Corticotropin-releasing Hormone in Blastocyst Implantation and Early Fetal Immunotolerance (2007)

During blastocyst implantation, the maternal endometrial response to the invading semi-allograft has characteristics of an acute, aseptic inflammatory response. However, once implanted, the embryo suppresses this response and prevents rejection. Simultaneously, the mother's immune system prevents a graft VS. host reaction deriving from the fetal immune system. We have shown that embryonic trophoblast and maternal decidua cells, i.e., cells located in the interface between the fetal placenta and the maternal endometrium, produce corticotropin-releasing hormone (CRH) and express Fas ligand. CRH may play a crucial role in the implantation and the anti-rejection process that protects the fetus from the maternal immune system, primarily by killing activated T cells through the Fas-FasL interaction. In experimental animals, type 1 CRH receptor (CRH-R1) blockade by antalarmin, a specific type 1 CRH receptor antagonist, decreased implantation sites by approximately 70%. CRH is also involved in controlled trophoblast invasion, by downregulating the synthesis of the carcinoembryonic antigen-related cell adhesion molecule 1 by extravillous trophoblast cells. IN VITRO findings showed that CRH-R1 blockade by antalarmin increased trophoblast invasion by approximately 60%. Defective uterine CRH/CRH-R1 system during early pregnancy may be implicated in the pathophysiology of recurrent miscarriage, placenta accreta, and preeclampsia.
Transcriptional regulation of the fad regulon genes of Escherichia coli by ArcA (2006)

ArcA is a global transcription factor required for optimal growth of Escherichia coli during anaerobic growth. In this study, the role of ArcA on the transcriptional regulatory subnetwork of the fad regulon was investigated. Gene expression profiles of deletion mutants (Delta arcA, Delta fadR and Delta arcA/Delta fadR) indicated that (i) ArcA is a major transcription factor for the transcriptional regulation of fatty acid metabolism in the absence of oxygen, and (ii) ArcA and FadR cooperatively regulate the fad regulon under anaerobic conditions. To determine the direct interaction between ArcA and the promoters of the fad regulon genes, chromatin immunoprecipitation (ChIP) analysis was performed. ChIP analysis suggested that ArcA directly binds to the promoter regions of the fad regulon genes in vivo. An ArcA-binding motif was identified from known binding sequences and predicted putative binding sites in the promoter regions of the fad regulon genes. These results indicate that ArcA directly represses the expression of fad regulon genes during anaerobic growth.
Distributed Amplification (1948)

This paper presents a new principle in wide-band amplifier design. It is shown that, by an appropriate distribution of ordinary electron tubes along artificial transmission lines, it is possible to obtain amplification over much greater bandwidths than would be possible with ordinary circuits. The ordinary concept of "maximum bandwidth-gain product" does not apply to this distributed amplifier. The high-frequency limit of the distributed amplifier appears to be determined by the grid-loading effects. The distributed amplifier provides means for designing amplifiers either of the low-pass or band-pass types. The low-pass amplifiers can be made to have a uniform frequency response from dc to frequencies as high as several hundred Mc using commercially available tubes. The general design considerations included in this paper are: The effect of improper termination of transmission lines; methods for controlling the frequency response and phase characteristic; the design which provides the required gain with fewest possible number of tubes; and a discussion of high-frequency limitations. The noise factor of the amplifier is evaluated. Practical amplifiers, designed according to the principles described in this paper, have been built and have verified the theoretical predictions. Experimental work will be described in a forthcoming paper.
Electrochromism in the mixed-valence hexacyanides. 2. Kinetics of the reduction of ruthenium purple and Prussian blue (1982)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTElectrochromism in the mixed-valence hexacyanides. 2. Kinetics of the reduction of ruthenium purple and Prussian blueKainila P. Rajan and Vernon D. NeffCite this: J. Phys. Chem. 1982, 86, 22, 4361–4368Publication Date (Print):October 1, 1982Publication History Published online1 May 2002Published inissue 1 October 1982https://pubs.acs.org/doi/10.1021/j100219a017https://doi.org/10.1021/j100219a017research-articleACS PublicationsRequest reuse permissionsArticle Views557Altmetric-Citations96LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access options Get e-Alerts
Heterocyclic rearrangements. Part X. A generalised monocyclic rearrangement (1967)

A. J. Boulton, A. R. Katritzky and A. M. Hamid, J. Chem. Soc. C, 1967, 2005 DOI: 10.1039/J39670002005
Structural basis of redox-dependent modulation of galectin-1 dynamics and function (2014)

Galectin-1 (Gal-1), a member of a family of multifunctional lectins, plays key roles in diverse biological processes including cell signaling, immunomodulation, neuroprotection and angiogenesis. The presence of an unusual number of six cysteine residues within Gal-1 sequence prompted a detailed analysis of the impact of the redox environment on the functional activity of this lectin. We examined the role of each cysteine residue in the structure and function of Gal-1 using both experimental and computational approaches. Our results show that: (i) only three cysteine residues present in each carbohydrate recognition domain (CRD) (Cys2, Cys16 and Cys88) were important in protein oxidation, (ii) oxidation promoted the formation of the Cys16-Cys88 disulfide bond, as well as multimers through Cys2, (iii) the oxidized protein did not bind to lactose, probably due to poor interactions with Arg48 and Glu71, (iv) in vitro oxidation by air was completely reversible and (v) oxidation by hydrogen peroxide was relatively slow (1.7 ± 0.2 M(-1) s(-1) at pH 7.4 and 25°C). Finally, an analysis of key cysteines in other human galectins is also provided in order to predict their behaviour in response to redox variations. Collectively, our data provide new insights into the structural basis of Gal-1 redox regulation with critical implications in physiology and pathology.
Symbiotic Nitrogen Fixation and Phosphorus Acquisition. Plant Nutrition in a World of Declining Renewable Resources (2001)

Since 1960, the world's population has doubled to 6 billion people. During the next 40 years, the population is projected to increase and stabilize at 8 to 9 billion people (Table [I][1]). In the 1960s, agricultural specialists predicted that food production would not keep pace with the burgeoning
[Intraoperative treatment of cyst contents in abdominal echinococcosis]. (2004)

Treatment of the cyst contents with 5% formaldehyde may lead to intestinal fistula, and 25% NaCl solution may give rise to the risk of recurrence, so that both methods need improvement.
Use of Cepheid Xpert Carba-R® for Rapid Detection of Carbapenemase-Producing Bacteria in Abdominal Septic Patients Admitted to Intensive Care Unit (2016)

Early institution of effective antibiotic therapy and source control are pivotal to improve survival of abdominal septic patients. Xpert® Carba-R is a real time polymerase chain reaction assay for rapid detection and differentiation of five genes (blaKPC, blaVIM, blaOXA-48, blaIMP-1, blaNDM) responsible for carbapenem resistance. We performed an observational study investigating the clinical usefulness and applicability of Xpert® Carba-R to detect carbapenem resistance in abdominal septic patients admitted to intensive care unit. We compared the results of Xpert® Carba-R with standard microbiological culture. We collected a set of two rectal/stomia swabs and two swabs from abdominal drainage fluid for each patient. We included 20 patients for a total of 45 comparisons between the two methods. In our clinical setting, the overall performance of Xpert® Carba-R for detection of carbapenem resistance in the presence of genes detectable and non-detectable by the method was: sensitivity 50% (95% CI 24.6-75.3); specificity 93.1% (95% CI 77.2-99.1); positive predictive value (PPV) 80% (95% CI 44.4-97.5); negative predictive value (NPV) 77.1% (95% CI 56.9-89.6). The inter-rater agreement was 0.47 (SE 0.14; 95% CI 0.20-0.74). When considering the only 5 mechanisms of resistance detected by both methods, the overall diagnostic performance was: sensitivity 100% (95% CI 69.1-100), specificity 94.2 (95% CI 80.8-99.3), PPV 83.3 (95% CI 59.6-97.9) and NPV 100% (95% CI 89.4-100). The inter-rater agreement was 0.88 (SE 0.08; 95% CI 0.71-1). Xpert® Carba-R may be considered an additional diagnostic tool for early diagnosis of carbapenem resistance in abdominal septic patients. Clinicians should be aware of their epidemiology before its introduction in the diagnostic protocol of their intensive care units.
Endovascular Approaches to Acute Stroke, Part 2: A Comprehensive Review of Studies and Trials (2009)

Reperfusion remains the mainstay of acute ischemic stroke treatment. Endovascular therapy has become a promising alternative for patients who are ineligible for or have failed intravenous (IV) thrombolysis. The conviction that recanalization of properly selected patients is essential for the achievement of good clinical outcomes has led to the rapid and widespread growth in the adoption of endovascular stroke therapies. However, comparisons of the recent reperfusion studies have brought into question the strength of the association between revascularization and improved clinical outcome. Despite higher rates of recanalization, the mechanical thrombectomy studies have demonstrated substantially lower rates of good outcomes compared with IV and/or intra-arterial thrombolytic trials. However, such analyses disregard important differences in clot location and burden, baseline stroke severity, time from stroke onset to treatment, and patient selection in these studies. Many clinical trials are testing novel devices and drugs as well as the paradigm of physiology-based stroke imaging as a treatment-selection tool. The objective of this article is to provide a comprehensive review of the relevant past, current, and upcoming data on endovascular stroke therapy with a special focus on the prospective studies and randomized clinical trials.
Stability of the Dense Plasma Focus (1969)

The influence of small dc axial magnetic fields upon the stability of the focused plasma column is shown in the light of soft x rays. The material damage to the center electrode and the intense x-ray emission at the electrode face as a result of electron bombardment is considerably reduced. Although the final heating of the ions and electrons is inhibited as expected due to a trapped magnetic field, the spatial stability of the focused column offers a greater possibility for scaling to higher energies.
A diffusion theory model of spatially resolved, steady-state diffuse reflectance for the noninvasive determination of tissue optical properties in vivo (1992)

A model based upon steady-state diffusion theory which describes the radial dependence of diffuse reflectance of light from tissues is developed. This model incorporates a photon dipole source in order to satisfy the tissue boundary conditions and is suitable for either refractive index matched or mismatched surfaces. The predictions of the model were compared with Monte Carlo simulations as well as experimental measurements made with tissue simulating phantoms. The model describes the reflectance data accurately to radial distances as small as 0.5 mm when compared to Monte Carlo simulations and agrees with experimental measurements to distances as small as 1 mm. A nonlinear least-squares fitting procedure has been used to determine the tissue optical properties from the radial reflectance data in both phantoms and tissues in vivo. The optical properties derived for the phantoms are within 5%-10% of those determined by other established techniques. The in vivo values are also consistent with those reported by other investigators.
Phase 2 study of the efficacy and safety of the combination of arsenic trioxide, interferon alpha, and zidovudine in newly diagnosed chronic adult T-cell leukemia/lymphoma (ATL) (2009)

Adult T-cell leukemia/lymphoma (ATL) is resistant to chemotherapy and carries a dismal prognosis particularly for the acute and lymphoma subtypes. Promising results were obtained with the combination of zidovudine and interferon-alpha. Chronic ATL has a relatively better outcome, but poor long-term survival is noted when patients are managed with a watchful-waiting policy or with chemotherapy. In ATL cell lines, arsenic trioxide shuts off constitutive NF-kappaB activation and potentiates interferon-alpha apoptotic effects through proteasomal degradation of Tax. Clinically, arsenic/interferon therapy exhibits some efficacy in refractory aggressive ATL patients. These results prompted us to investigate the efficacy and safety of the combination of arsenic, interferon-alpha, and zidovudine in 10 newly diagnosed chronic ATL patients. An impressive 100% response rate was observed including 7 complete remissions, 2 complete remissions but with more than 5% circulating atypical lymphocytes, and 1 partial response. Responses were rapid and no relapse was noted. Side effects were moderate and mostly hematologic. In conclusion, treatment of chronic ATL with arsenic, interferon-alpha, and zidovudine is feasible and exhibits an impressive response rate with moderate toxicity. Long-term follow up will clarify whether this will translate to disease cure. Overall, these clinical results strengthen the concept of oncogene-targeted cancer therapy.
PaScal-- A New Parallel and Scalable Server IO Networking Infrastructure for Supporting Global Storage/File Systems in Large-size Linux Clusters (2006)

This paper presents the design and implementation of a new I/O networking infrastructure, named PaScal (parallel and scalable I/O networking framework). PaScal is used to support high data bandwidth IP based global storage systems for large scale Linux clusters. PaScal has several unique properties. It employs (1) Multi-level switch-fabric interconnection network by combining high speed interconnects for computing inter-process communication (IPC) requirements and low-cost Gigabit Ethernet interconnect for global IP based storage/file access, (2) A bandwidth on demand scaling I/O networking architecture, (3) open-standard IP networks (routing and switching), (4) multipath routing for load balancing and failover, (5) open shortest path first (OSPF) routing software, and (6) Supporting a global file system in multi-cluster and multi-platform environments. We describe both the hardware and software components of our proposed PaScal. We have implemented the PaScal I/O infrastructure on several large-size Linux clusters at LANL. We have conducted a sequence of parallel MPI-IO assessment benchmarks on LANL's Pink 1024 node Linux cluster and the Panasas global parallel file system. Performance results from our parallel MPI-IO benchmarks on the Pink cluster demonstrate that the PaScal I/O Infrastructure is robust and capable of scaling in bandwidth on large-size Linux clusters
Histamine-sensitive intrinsic cardiac and intrathoracic extracardiac neurons influence cardiodynamics (1996)

Studies were performed to determine whether 1) histamine can modify the spontaneous activity of mammalian intrinsic cardiac neurons in situ, 2) histamine-sensitive neurons exist in intrathoracic intrinsic cardiac and extracardiac ganglia that are involved in cardiac regulation, and 3) histamine-sensitive intrathoracic cardiac neurons possess H1 or H2 receptors. histamine (10 microliters; 100 microM), when applied adjacent to spontaneously active canine right atrial neurons in situ, increased ongoing activity in some of them. Histamine, when administered into the local arterial blood supply of these neurons (0.1 ml; 100 microM) not only increased their activity but induced cardiac augmentation. Cardioaugmentor responses were also elicited when histamine (10 microliters or 0.1 ml; 100 microM) was administered into limited loci within stellate and middle cervical ganglia that were connected to the heart, but not in ganglia surgically disconnected the heart. Neuronal and cardiac responses no longer were elicited after local administration of the H1-selective receptor antagonist triprolidine. They were unaffected by local application of the H2-selective receptor antagonist cimetidine. No cardiac augmentation was elicited when histamine was applied to intrathoracic autonomic neurons following timolol (1 mg/kg i.v.) administration. These data indicate that 1) histaminergic neurons exist in intrinsic cardiac and intrathoracic extracardiac ganglia that are involved in cardiac regulation, 2) these neurons possess H1 receptors, and 3) histamine-sensitive intrathoracic neurons directly or indirectly activate cardiac adrenergic neurons, thereby inducing cardiac augmentation