gebhart/patrepeval huggingface dataset:
Human Immunodeficiency Virus Replication and Genotypic Resistance in Blood and Lymph Nodes after a Year of Potent Antiretroviral Therapy (1998)

Potent antiretroviral therapy can reduce human immunodeficiency virus (HIV) in plasma to levels below the limit of detection for up to 2 years, but the extent to which viral replication is suppressed is unknown. To search for ongoing viral replication in 10 patients on combination antiretroviral therapy for up to 1 year, the emergence of genotypic drug resistance across different compartments was studied and correlated with plasma viral RNA levels. In addition, lymph node (LN) mononuclear cells were assayed for the presence of multiply spliced RNA. Population sequencing of HIV-1 pol was done on plasma RNA, peripheral blood mononuclear cell (PBMC) RNA, PBMC DNA, LN RNA, LN DNA, and RNA from virus isolated from PBMCs or LNs. A special effort was made to obtain sequences from patients with undetectable plasma RNA, emphasizing the rapidly emerging lamivudine-associated M184V mutation. Furthermore, concordance of drug resistance mutations across compartments was investigated. No evidence for viral replication was found in patients with plasma HIV RNA levels of <20 copies/ml. In contrast, evolving genotypic drug resistance or the presence of multiply spliced RNA provided evidence for low-level replication in subjects with plasma HIV RNA levels between 20 and 400 copies/ml. All patients failing therapy showed multiple drug resistance mutations in different compartments, and multiply spliced RNA was present upon examination. Concordance of nucleotide sequences from different tissue compartments obtained concurrently from individual patients was high: 98% in the protease and 94% in the reverse transcriptase regions. These findings argue that HIV replication differs significantly between patients on potent antiretroviral therapy with low but detectable viral loads and those with undetectable viral loads.
Design of Carbon Nanotube-Based Hybrid Catalyst for Nonhumid Fuel Cell (2010)

Abstract not Available.
Hydrophobization and bioconjugation for enhanced siRNA delivery and targeting (2007)

RNA interference (RNAi) is an evolutionarily conserved process by which double-stranded small interfering RNA (siRNA) induces sequence-specific, post-transcriptional gene silencing. Unlike other mRNA targeting strategies, RNAi takes advantage of the physiological gene silencing machinery. The potential use of siRNA as therapeutic agents has attracted great attention as a novel approach for treating severe and chronic diseases. RNAi can be achieved by either delivery of chemically synthesized siRNAs or endogenous expression of small hairpin RNA, siRNA, and microRNA (miRNA). However, the relatively high dose of siRNA required for gene silencing limits its therapeutic applications. This review discusses several strategies to improve therapeutic efficacy as well as to abrogate off-target effects and immunostimulation caused by siRNAs. There is an in-depth discussion on various issues related to the (1) mechanisms of RNAi, (2) methods of siRNA production, (3) barriers to RNAi-based therapies, (4) biodistribution, (5) design of siRNA molecules, (6) chemical modification and bioconjugation, (7) complex formation with lipids and polymers, (8) encapsulation into lipid particles, and (9) target specificity for enhanced therapeutic effectiveness.
3D Etching profile evolution simulations: Time dependence analysis of the profile charging during SiO2etching in plasma (2007)

The ability to simulate feature charging was added to the 3D level set profile evolution simulator described earlier. A comprehensive simulation of etching profile evolution requires knowledge of the etching rates at all the points of the profile surface during the etching process. Electrons do not contribute directly to the material removal, but they are the source, together with positive ions, of the profile charging that has many negative consequences on the final outcome of the process especially in the case of insulating material etching. The ion and electron fluxes were computed along the feature using Monte Carlo method. The surface potential profiles and electric field for the entire feature were generated by solving Laplace equation using finite elements method. Calculations were performed in the case of simplified model of Ar+/CF4 non-equilibrium plasma etching of SiO2. The time dependence of the profile charging during SiO2 etching in plasma is presented.
Structure, chromosome localization, and tissue distribution of the mouse twik K+ channel gene (1998)

We have recently discovered a new class of potassium channels with two pore-forming domains and four membrane-spanning domains. When heterologously expressed, these channels produce time- and voltage-independent currents that classify them as background or leak channels. TWIK (for tandem of P domains in a weak inwardly rectifying K+ channel) was the first member of this family to be cloned. Here, we describe the genomic organization of TWIK in the mouse. The coding sequence as well as the untranslated sequences are contained in three exons. The twik gene (or KCNK1) has been mapped to chromosome 8, consistent with its localization to 1q42-43 in human. The twik gene is expressed in virtually all mouse tissues. It is most abundantly expressed in brain and moderately in other organs such as kidney. The level of expression is increased in brain and kidney from neonate to adult animals, but the TWIK message is also detected during embryogenesis, as early as day 7 post conception.
Kinetic Analysis of Yeast Inactivation by High Pressure Treatment at Low Temperatures (1995)

Inactivation of Saccharomyces cerevisiae by high pressure treatment from 120 to 300 MPa in the range of -20 to 50 degrees C followed pseudo first order reaction kinetics. The regression analysis of 43 inactivation rates showed that pressurization at sub-zero temperatures (-20 and -10 degrees C) enhanced the effects of pressure as pressurization at higher temperatures: i.e., pressurization at 190 MPa and -20 degrees C gave the same effect as pressurization at 320 MPa and room temperature. The results imply that high pressure treatment applied to food sterilization at lower temperatures has a greater effect with smaller pressure without destroying the original taste and flavor. Additional effects of sugars and salts on inactivation of yeast are also described.
Management of antimicrobials in infectious diseases : impact of antibiotic resistance (2001)

Optimal antimicrobial use is essential in this era of escalating antibiotic resistance. Clinicians, particularly those on the frontlines of care, need an understanding of the management of common infectious diseases and the appropriate use of antimicrobials in the context of resistant pathogens. In Management of Antimicrobials in Infectious Diseases, Arch Mainous, PhD and Claire Pomeroy, MD and a group of antimicrobial experts and experienced clinicians provide an eminently practical summary of the most effective evidence-based antimicrobial treatments encountered in both the hospital and outpatient settings. At the forefront of this book is the clinical impact of appropriate diagnosis and treatment, as well as an emphasis on the newer aspects of infectious disease management necessitated by the increasing problem of resistant pathogens. Further, the book provides useful information on major pathogens to help practicing clinicians not only diagnose but treat effectively infections and their concomitant complications. Multidisciplinary and highly practical, Management of Antimicrobials in Infectious Diseases offers busy clinicians, nurse practitioners, as well as residents and medical students a comprehensive and informed guide for management and treatment in the contemporary environment fraught with resistant pathogens
Endothelial cell markers CD31, CD34, and BNH9 antibody to H- and Y-antigens--evaluation of their specificity and sensitivity in the diagnosis of vascular tumors and comparison with von Willebrand factor. (1994)

Sixty vascular tumors including 23 angiosarcomas, 300 nonvascular tumors, and selected normal tissues were immunohistochemically evaluated with antibodies to CD31, CD34, and von Willebrand factor (vWF), and monoclonal antibody BNH9, to test the sensitivity and specificity of these markers in the identification of endothelial cells and vascular tumors. Formaldehyde-fixed paraffin-embedded tissues and avidin biotin complex immunostaining were used. All markers labeled normal vascular and lymphatic endothelial cells approximately equally with the exception of CD34 which showed inconsistent expression within the lymphatics. In addition, antibody to CD31 reacted with platelets and megakaryocytes, CD34 with fibroblasts and aortic smooth muscle cells, and BNH9 with many epithelial cells including squamous and gastrointestinal epithelia. Antibody to vWF often showed significant stromal background staining which made the staining occasionally uninterpretable. Benign vascular tumors showed rather uniform staining with all antibodies. However, angiosarcomas were heterogeneous; CD31 was positive in 21/27, CD34 in 25/27 cases, BNH9 in 22/25, and vWF in 18/27 cases. Epithelioid hemangioendotheliomas showed consistent labeling for vWF, but were inconsistently labeled with antibodies to the other markers. Kaposi's sarcoma was positive for both CD31 and CD34. In addition, antibody to CD34 labeled the tumor cells in hemangiopericytoma, cerebellar hemangioblastoma, meningioma, most epithelioid sarcomas, dermatofibrosarcomas, and in a few other sarcomas. CD31, in turn, was not found in sarcomas other than angiosarcomas, but labeled weakly occasional carcinomas and mesotheliomas. Many adenocarcinomas and the glandular component of synovial sarcoma were BNH9 positive.(ABSTRACT TRUNCATED AT 250 WORDS)
New concepts of cytokines in asthma: Is the Th2/Th1 paradigm out the window? (2003)

Although asthma is clearly associated with a systemic propensity for allergic T helper type 2 (Th2) cell cytokine responses, independent local immune events appear to be responsible for the development of allergic airways inflammation. There is growing interest in how local immune networks interact with resident airway cell populations such as epithelial cells, which are now also recognized as key producers of cytokines, chemokines and growth factors. As well as their recognized role in airway remodelling, epithelial cells are now thought to have a role in initiating events. This review examines the role of cytokines produced by these and other cells in the development of asthma. It also highlights emerging concepts that the excessive and inappropriate immune responses seen in allergic disease may be related to dysfunction of various interleukin-10 producing regulatory cell populations.
Homologs of the Shigella IpaB and IpaC invasins are required for Salmonella typhimurium entry into cultured epithelial cells (1995)

Entry into host cells is an essential feature in the pathogenicity of Salmonella spp. The inv locus of Salmonella typhimurium encodes several proteins which are components of a type III protein secretion system required for these organisms to gain access to host cells. We report here the identification of several proteins whose secretion into the culture supernatant of S. typhimurium is dependent on the function of the inv-encoded translocation apparatus. Nucleotide sequence analysis of the genes encoding two of these secreted proteins, SipB and SipC, indicated that they are homologous to the Shigella sp. invasins IpaB and IpaC, respectively. An additional gene was identified, sicA, which encodes a protein homologous to IpgC, a Shigella protein that serves as a molecular chaperone for the invasins IpaB and IpaC. Nonpolar mutations in sicA, sipB, and sipC rendered S. typhimurium unable to enter cultured epithelial cells, indicating that these genes are required for bacterial internalization.
Problems of a thermonuclear reactor with a rotating plasma (1980)

The authors consider the physical problems involved in the design of a thermonuclear reactor with a rotating plasma. Detailed consideration is given to a version of the reactor in which the plasma is stabilized mainly by radial variation of the rate of rotation of the plasma (electric shear). Such aspects as the heating, longitudinal confinement, stability and equilibrium of the plasma as well as the problem of impurities are considered and a calculation of the reactor's efficiency is made. The authors discuss the engineering problems of the creation of a high-intensity radial electric field in the plasma and describe a modification of this type of reactor – a system without magnetic mirrors (a 'centrifugal trap').
INFLUENCE OF THE PURITY OF THE IODINATED TRACER ON THE SPECIFICITY OF THE RADIOIMMUNOASSAY OF HUMAN LUTEINIZING HORMONE (1978)

Human luteinizing hormone (HLH) iodinated with 125I by the use of a lactoperoxidase method, was fractionated by either cellulose adsorption, gel filtration or by the combination of these methods. The products of iodination were characterized by their in vitro biological LH activity and by their binding profiles with antisera to HLH, HLHalpha and HLHbeta subunits. Several radioactive components were obtained after gel filtration with or without an initial cellulose adsorption step. One of these fractions was identified as biologically active HLH and another as the HLHalpha subunit. Radioimmunoassay studies were conducted with different iodinated fractions as tracers, using three well defined and widely available antisera to HLH. The standard used was the HLH International Reference Preparation for immunoassay (68/40). Cross-reactivity was examined with several purified pituitary preparations, such as HFSH, HTSH, HLHalpha and HLHbeta subunit. A significantly higher cross-reactivity with HLHalpha, HFSH and HTSH was obtained with the [125I]HLHalpha fraction as tracer than with biologically active [125I]HLH. Furthermore, in the radioimmunoassay of HLH preparations of varying purity, significantly higher estimates of immunological activity were obtained with the [125I]HLHalpha tracer than with the biologically active [125I]HLH. It is concluded that the presence of [125I]HLHalpha in the [125I]HLH tracer can result in serious overestimates of the immunological activity in the measurement of LH. Therefore [125I]HLHalpha should be separated from [125I]HLH prior to radioimmunoassay. Many of the fractionation methods commonly used (cellulose adsorption and short column gel filtration systems) are inadequate for this purpose. However, an adequate separation can be achieved by the use of high resolution gel filtration systems.
The full greenhouse gas balance of an abandoned peat meadow (2007)

Abstract. Globally, peat lands are considered to be a sink of CO2, but a source when drained. Additionally, wet peat lands are thought to emit considerable amounts of CH4 and N2O. Hitherto, reliable and integrated estimates of emissions and emission factors for this type of land cover have been lacking and the effects of wetland restoration on methane emissions have been poorly quantified. In this paper we estimate the full greenhouse gas (GHG) balance of a restored natural peat land by determining the fluxes of CO2, CH4 and N2O through atmosphere and water, while accounting for the different Global Warming Potentials (GWP's). The site is an abandoned agricultural peat meadow, which has been converted into a wetland nature reserve ten years ago, after which the water level was raised. GHG fluxes were measured continuously with an eddy covariance system (CO2) and flux chamber measurements (CH4 and N2O). Meteorological and hydrological measurements were collected as well. With growing seasons of respectively 192, 168 and 129 days, the annual net ecosystem exchange of CO2 (NEE) was −446+±83 g C m−2 yr−1 for 2004, −311±58 g C m−2 yr−1 for 2005 and −232±57 g m−2 yr−1 for 2006. Ecosystem respiration (Reco) was estimated as 869±668 g C m−2 yr−1 for 2004, 866±666 g C m−2 yr−1 for 2005 and 924±711 g C m−2 yr−1 for 2006. CH4 emissions from the saturated land and water surfaces were high compared to the relatively dry land. Annual weighted CH4 emissions were 31.27±20.40 g C m−2 yr−1 for 2005 and 32.27±21.08 g C m−2 yr−1 for 2006. N2O fluxes were too low to be of significance. The water balance of the area was dominated by precipitation and evapotranspiration and therefore fluxes of carbon and CH4 through seepage, infiltration and drainage were relatively small (17.25 g C m−2 yr−1). The carbon-balance consisted for the largest part of CO2 uptake, CO2 respiration and CH4 emission from water saturated land and water. CO2 emission has decreased significantly as result of the raised water table, while CH4 fluxes have increased. In GWP's the area was a small net GHG sink given as CO2-equiv. of −86 g m−2 yr−1 (over a 100-year period).
Interferon resistance promotes oncolysis by influenza virus NS1‐deletion mutants (2004)

NS1 protein of influenza virus is a virulence factor that counteracts Type I interferon (IFN)-mediated antiviral response by the host. A recombinant influenza A virus that lacks the NS1 protein only replicates efficiently in systems that contain defective IFN pathways. We demonstrate that the conditional replication properties of NS1-modified influenza A virus mutants can be exploited for the virus-mediated oncolysis of IFN-resistant tumor cells. IFN resistance in analyzed tumor cell lines correlated with a reduced expression of STAT1. Addition of exogenous IFNalpha or supernatant of virus-infected endothelial cells inhibited viral oncolysis in IFN-sensitive but not in IFN-resistant cell lines. The oncolytic potential of NS1-modified influenza A virus mutants could be exploited in vivo in a SCID mouse model of a subcutaneously-implanted human IFN-resistant melanoma. The data indicate that IFN-resistant tumors are a suitable target for oncolysis induced by NS1-modified influenza virus mutants. STAT1 might serve as a marker to identify these IFN-resistant tumors.
The regions of the herpes simplex virus type 1 immediate early protein Vmwl75 required for site specific DNA binding closely correspond to those involved in transcriptional regulation (1988)

The immediate-early (IE) protein Vmw175 (ICP4) of HSV-1 is required for the transcription of later classes of viral genes and the repression of IE gene expression. We have previously constructed a panel of plasmid-borne insertion and deletion mutants of the gene encoding Vmw175 and assayed their ability to regulate transcription in transient transfection assays. By this approach we have mapped the regions of the Vmw175 amino acid sequence that are required for transcriptional activation and repression of herpes virus promoters. This paper describes the use of nuclear extracts, made from cells transfected with these mutant plasmids, in gel retardation DNA binding assays in order to define the regions of Vmw175 involved in binding to a specific Vmw175 DNA binding site. The results show that amino acid residues 275-495 (a region which is highly conserved between Vmw175 and the varicella-zoster virus "IE" 140K protein) include structures which are critically required for specific DNA binding, transactivation and repression. This raises the interesting paradox that although the specific DNA sequence recognized by Vmw175 is not commonly found in its target promoters, the protein domain required for recognition of this sequence is required for promoter activation.
Processing and properties of polymeric nano‐composites (2001)

Abstract Polymeric nano‐composites are prepared by melt intercalation in this study. Nano‐clay is mixed with either a polymer or a polymer blend by twin‐screw extrusion. The clay‐spacing in the composites is measured by X‐ray diffraction (XRD). The morphology of the composites and its development during the extrusion process are observed by scanning electron microscopy (SEM). Melt viscosity and mechanical properties of the composites and the blends are also measured. It is found that the clay spacing in the composites is influenced greatly by the type of polymer used. The addition of the nano‐clay can greatly increase the viscosity of the polymer when there is a strong interaction between the polymer and the nano‐clay. It can also change the morphology and morphology development of nylon 6/PP blends. The mechanical test shows that the presence of 5–10 wt.% nano‐clay largely increases the elastic modulus of the composites and blends, while significantly decreases the impact strength. The water absorption of nylon 6 is decreased with the presence of nano‐clay. The effect of nano‐clay on polymers and polymer blends is also compared with Kaolin clay under the same experimental conditions.
Oral Fingolimod (FTY720) for Relapsing Multiple Sclerosis (2006)

In this proof-of-concept study, fingolimod reduced the number of lesions detected on MRI and clinical disease activity in patients with multiple sclerosis. Evaluation in larger, longer-term studies is warranted. (Clinicaltrials.gov numbers, NCT00333138 [core study] and NCT00235430 [ClinicalTrials.gov] [extension].).
In vivo RNA-RNA recombination of coronavirus in mouse brain (1988)

RNA-RNA recombination between different strains of the murine coronavirus mouse hepatitis virus (MHV) occurs at a very high frequency in tissue culture. To demonstrate that RNA recombination may play a role in the evolution and pathogenesis of coronaviruses, we sought to determine whether MHV recombination could occur during replication in the animal host of the virus. By using two selectable markers, i.e., temperature sensitivity and monoclonal antibody neutralization, we isolated several recombinant viruses from the brains of mice infected with two different strains of MHV. The recombination frequency was very high, and recombination occurred at multiple sites on the viral RNA genome. This finding suggests that RNA-RNA recombination may play a significant role in natural evolution and neuropathogenesis of coronaviruses.
Murine B cell proliferation and protection from apoptosis with an antibody against a 105-kD molecule: unresponsiveness of X-linked immunodeficient B cells. (1994)

We established a novel monoclonal antibody, RP/14, that can protect B cells from apoptosis induced by irradiation or dexamethasone. A molecule recognized by RP/14 (the RP antigen) was expressed on B cells with B220bright, IgMdull, and IgDbright. Immunoprecipitation experiments revealed that RP/14 recognized a monomeric protein with an approximate molecular mass of 105 kD. Stimulation of B cells with RP/14 for 48 h induced B cell proliferation and blastogenesis. In contrast to B cells of wild-type mice, X-linked immunodeficient (XID) B cells did not proliferate upon stimulation with RP/14, although the RP antigen was expressed to the same extent as that of wild-type B cells. These results suggest that the RP antigen-mediated signaling pathway is important for rescuing B cells from apoptosis and is deficient in XID B cells.
An Eicosapentaenoic Acid Supplement Versus Megestrol Acetate Versus Both for Patients With Cancer-Associated Wasting: A North Central Cancer Treatment Group and National Cancer Institute of Canada Collaborative Effort (2004)

This EPA supplement, either alone or in combination with MA, does not improve weight or appetite better than MA alone.