gebhart/patrepeval huggingface dataset:
Human adenovirus-host cell interactions: comparative study with members of subgroups B and C (1990)

Host cell interactions of human adenovirus serotypes belonging to subgroups B (adenovirus type 3 [Ad3] and Ad7) and C (Ad2 and Ad5) were comparatively analyzed at three levels: (i) binding of virus particles with host cell receptors; (ii) cointernalization of macromolecules with adenovirions; and (iii) adenovirus-induced cytoskeletal alterations. The association constants with human cell receptors were found to be similar for Ad2 and Ad3 (8 x 10(9) to 9 x 10(9) M-1), and the number of receptor sites per cell ranged from 5,000 (Ad2) to 7,000 (Ad3). Affinity blottings, competition experiments, and immunofluorescence stainings suggested that the receptor sites for adenovirus were distinct for members of subgroups B and C. Adenovirions increased the permeability of cells to macromolecules. We showed that this global effect could be divided into two distinct events: (i) cointernalization of macromolecules and virions into endocytotic vesicles, a phenomenon that occurred in a serotype-independent way, and (ii) release of macromolecules into the cytoplasm upon adenovirus-induced lysis of endosomal membranes. The latter process was found to be type specific and to require unaltered and infectious virus particles of serotype 2 or 5. Perinuclear condensation of the vimentin filament network was observed at early stages of infection with Ad2 or Ad5 but not with Ad3, Ad7, and noninfectious particles of Ad2 or Ad5, obtained by heat inactivation of wild-type virions or with the H2 ts1 mutant. This phenomenon appeared to be a cytological marker for cytoplasmic transit of infectious virions within adenovirus-infected cells. It could be experimentally dissociated from vimentin proteolysis, which was found to be serotype dependent, occurring only with members of subgroup C, regardless of the infectivity of the input virus.
Self-stabilized antisense oligodeoxynucleotide phosphorothioates: properties and anti-HIV activity (1993)

A new class of oligodeoxyribonucleotides has been designed, referred to here as 'self-stabilized' oligonucleotides. These oligonucleotides have hairpin loop structures at their 3' ends, and show increased resistance to degradation by snake venom phosphodiesterase, DNA polymerase I and fetal bovine serum. The self-stabilized region of the oligonucleotide does not interfere in hybridization with complementary nucleic acids as shown by melting temperature, mobility-shift and RNase H cleavage studies. Various self-stabilized oligonucleotides containing increasingly stable hairpin loop regions were studied for their anti-HIV activity. Pharmacokinetic and stability studies in mice showed increased in vivo persistence of self-stabilized oligonucleotides with respect to their linear counterparts.
Combination of mutations in human immunodeficiency virus type 1 reverse transcriptase required for resistance to the carbocyclic nucleoside 1592U89 (1997)

The carbocyclic nucleoside 1592U89 is a selective inhibitor of the human immunodeficiency virus (HIV), targeting the reverse transcriptase (RT). In vitro selection studies were undertaken to generate resistant variants with both HIV type 1 (HIV-1) wild-type strain HIV-1(HXB2) and 3'-azido-3'-deoxythymidine (AZT)-resistant strain HIV-1(RTMC). At least two or three mutations in RT were required to produce a 10-fold reduction in susceptibility. The first RT mutation selected was at codon 184, methionine (M) to valine (V), for HIV-1(HXB2) and HIV-1(RTMC), conferring two- and fivefold resistance, respectively. Two additional mutations were selected with HIV-1(HXB2), either leucine (L) 74 to V and lysine (K) 65 to arginine (R) (first-passage series) or L74 to V and tyrosine (Y) 115 to phenylalanine (F) (second-passage series). Cloned variants, obtained from the 1592U89 selection, were either double RT mutants 65R/184V and 74V/184V or triple RT mutant 74V/115Y/184V. Molecular clones were constructed with single, double, and triple combinations of these mutations for resistance analysis with different RT inhibitors. Each individual mutation conferred only low-level resistance (two- to fourfold) to 1592U89 in the HXB2 background. Double mutants containing the 184V mutation and triple mutants showed slightly greater levels of resistance to 1592U89 (7- to 11-fold). Some of the 1592U89-resistant variants were cross-resistant with 2',3'-dideoxycytidine, 2',3'-dideoxyinosine, and (-)-2'-deoxy-3'-thiacytidine, but none were resistant to 2',3'-didehydro-3'-deoxythymidine or AZT.
Mechanisms of MHC class I‐restricted antigen processing and cross‐presentation (2005)

In this review, we discuss recent data from our laboratory that address two aspects of major histocompatibility complex (MHC) class I-restricted antigen processing. First, we consider the nature of the peptide-loading complex, which is the assembly of proteins in the endoplasmic reticulum (ER) into which newly synthesized MHC class I-beta(2) microglobulin (beta(2)m) heterodimers are incorporated, and the mechanisms involved in MHC class I assembly and peptide loading that are facilitated by the peptide-loading complex. Second, we discuss mechanisms of cross-presentation, the phenomenon whereby extracellular and luminal protein antigens can be processed by antigen-presenting cells, particularly dendritic cells, and presented by MHC class I molecules to CD8(+) T cells. The focus of the discussion is mainly on the human MHC class I system.
White Sorghum (Sorghum bicolor(L.) Moench) Bran Extracts Suppressed IgE Production by U266 Cells (2009)

Sorghum, Sorghum bicolor (L.) Moench, is the fifth most important cereal crop in the world. In this study, we identified the IgE production-suppressing activity of white sorghum bran extracts. White sorghum is one of the genotypes of sorghum. White sorghum bran extracts in 10 mM sodium phosphate buffer (pH 7.4) suppressed IgE production in human myeloma cell line U266. The extracts suppressed IgE production by decreasing mRNA transcription level of IgE, but they did not affect IgA or IgG production of mice splenocytes in vitro. Heat treatment and trypsin digestion did not affect IgE production-suppressing activity. The white sorghum bran extracts were fractionated by ultrafiltration, and the molecular weight of the active substance was estimated to be less than 1,000.
Involvement of β-chemokines in the development of inflammatory demyelination (2005)

The importance of beta-chemokines (or CC chemokine ligands - CCL) in the development of inflammatory lesions in the central nervous system of patients with multiple sclerosis and rodents with experimental allergic encephalomyelitis is strongly supported by descriptive studies and experimental models. Our recent genetic scans in families identified haplotypes in the genes of CCL2, CCL3 and CCL11-CCL8-CCL13 which showed association with multiple sclerosis. Complementing the genetic associations, we also detected a distinct regional expression regulation for CCL2, CCL7 and CCL8 in correlation with chronic inflammation in multiple sclerosis brains. These observations are in consensus with previous studies, and add new data to support the involvement of CCL2, CCL7, CCL8 and CCL3 in the development of inflammatory demyelination. Along with our own data, here we review the literature implicating CCLs and their receptors (CCRs) in multiple sclerosis and experimental allergic encephalomyelitis. The survey reflects that the field is in a rapid expansion, and highlights some of the pathways which might be suitable to pharmaceutical interventions.
The root of the matter (2004)

We consider the possibility of having a (recursive) name server act as a slave to the root zone, rather than caching information after it is requested. Tests, described here, indicate that this technique seems to be comparable to the traditional hints mechanism for moderately busy name servers and may offer other benefits such as reducing the number of bogus requests going to the root servers. With further refinement the technique may be operationally useful, but the impact on root servers would have to be fully assessed.
Polymeric gels and hydrogels for biomedical and pharmaceutical applications (2009)

Abstract Hydrogels are formed when a three‐dimensional polymeric network is loosely crosslinked. They are swollen by water but not dissolved in it. Hydrogels may display reversible sol–gel transitions, induced by changes in the environmental conditions such as temperature, pH, ionic strength, phase separation, wave length of light, crystallinity, etc. Hydrogel is described as smart or intelligent when sharp transition is induced by small change in such conditions. For the shape‐memory hydrogels, reversible change in shape may also be induced by such stimuli. The preparation and applications of the molecularly imprinted polymeric hydrogels (MIPs) are illustrated by a few examples. The use of shape sensitive hydrogels in microfluidic is mentioned. Application of hydrogels for chronobiology and chronotherapy is outlined. The conversion of hydrogels into aerogels and their respective properties is discussed. Copyright © 2009 John Wiley &amp; Sons, Ltd.
Temperature dependence of the disintegration times of compressed tablets containing hydroxypropyl-cellulose as binder (1978)

Abstract The dependence of the disintegration times of placebo and active tablets containing hydroxy-propylcellulose (HPC), as binder on the temperature of the test medium in the region of 37° is reported. The degree of temperature dependence varied with the HPC lot and concentration in the formulations. These dependences could be accentuated by the presence in the formulation of certain drugs, such as caffeine. The extent of the temperature dependence could be diminished by reducing the HPC concentration in the formulations. Corresponding trends were observed in drug release behaviour from some of these formulations. The effects observed were interpreted in terms of the thermodynamic behaviour of HPC systems and a specific drug-HPC interaction.
Anaerobic degradation of alkylated benzenes in denitrifying laboratory aquifer columns (1988)

Toluene and m-xylene were rapidly mineralized in an anaerobic laboratory aquifer column operated under continuous-flow conditions with nitrate as an electron acceptor. The oxidation of toluene and m-xylene was coupled with the reduction of nitrate, and mineralization was confirmed by trapping 14CO2 evolved from 14C-ring-labeled substrates. Substrate degradation also took place when nitrous oxide replaced nitrate as an electron acceptor, but decomposition was inhibited in the presence of molecular oxygen or after the substitution of nitrate by nitrite. The m-xylene-adapted microorganisms in the aquifer column degraded toluene, benzaldehyde, benzoate, m-toluylaldehyde, m-toluate, m-cresol, p-cresol, and p-hydroxybenzoate but were unable to metabolize benzene, naphthalene, methylcyclohexane, and 1,3-dimethylcyclohexane. Isotope-dilution experiments suggested benzoate as an intermediate formed during anaerobic toluene metabolism. The finding that the highly water-soluble nitrous oxide served as electron acceptor for the anaerobic mineralization of some aromatic hydrocarbons may offer attractive options for the in situ restoration of polluted aquifers.
Identification of Tyrosine Sulfation in Extracellular Leucine-rich Repeat Proteins Using Mass Spectrometry (2003)

Multiple and variable tyrosine sulfation in extracellular class II leucine-rich repeat proteins/proteoglycans were characterized by mass spectrometry. The sulfogroup on tyrosine is labile and is released from peptides under normal mass spectrometric conditions. Thus, special approaches must be considered in order to identify this modification. By using a combination of mass spectrometry studies operating in negative and positive ion mode, tyrosine sulfation could be identified. In positive mode, the peptides normally appeared non-sulfated, whereas in negative mode a mixture of sulfated and non-sulfated species was observed. A combination of peptides released by different proteinases was used to obtain details on the locations of sulfate groups. Multiple tyrosine sulfates were observed in the N-terminal region of fibromodulin (up to 9 sites), osteoadherin (up to 6 sites), and lumican (2 sites). Osteoadherin contains two additional sulfated tyrosine residues close to its C terminus. We also identified an error in the published sequence of bovine fibromodulin, resulting in the replacement of Thr37 by Tyr37-Gly38, thus increasing its homology with its human counterpart.
Hybrid-ARQ Reed-Solomon coding in an adaptive rate system (2003)

The performance of a channel estimation procedure based on retransmission statistics is examined for a two-state channel. Throughput performance is derived from the ability of the estimation mechanism to determine which of the two states the channel is in at any given moment. The throughput analysis is then used to derive a simple rule for maximizing throughput through careful selection of the code set. The performance of Reed-Solomon codes in type-I hybrid-ARQ protocols is considered. The tradeoff between throughput and reliability is derived for the general case and plotted for several specific examples. An example is presented in which a pair of Reed-Solomon codes is used in an adaptive rate coding system on a two-state channel.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Developing drugs that can cross the blood-brain barrier: applications to Alzheimer's disease (2008)

Development of therapeutics for the central nervous system is one of the most challenging areas in drug development. This is primarily because, in addition to all of the other complications one faces in developing new drugs targeting peripheral sites, one must also negotiate the blood-brain barrier (BBB). There are dozens of strategies to overcome the obstacle of the BBB, but many of these are bound to fail, barring extreme serendipity, because they are based on an inaccurate or incomplete picture of the BBB. This article therefore starts with a brief review of the BBB as it pertains to drug development. It then examines some examples of the delivery of drugs to the central nervous system that are relevant to Alzheimer's disease, placing emphasis on peptides, antibodies, and antisense oligonucleotides.
[Preparation of the estradiol benzoate injection suspension]. (1978)

This paper deals with scheduling complex tasks with an inhomogeneous set of resources. The problem is to assign technicians to tasks with multi-level skill requirements. Here, the requirements are merely the presence of a set of technicians that possess the necessary capabilities. An additional complication is that a set of combined technicians stays together for the duration of a work day. This typically applies to scheduling of maintenance and installation operations. We build schedules by repeated application of a \nexible matching model that selects tasks to be processed and forms groups of technicians assigned to combinations of tasks. The underlying mixed integer programming (MIP) model is capable of revising technician-task allocations and performs very well, especially in the case of rare skills.
Characterization of an endogenous gene expressed in Aedes aegypti using an orally infectious recombinant Sindbis virus (2001)

Sindbis virus expression vectors have been used successfully to express and silence genes of interest in vivo in several mosquito species, including Aedes aegypti, Ae. albopictus, Ae. triseriatus,Culex pipiens, Armigeres subalbatus and Anopheles gambiae. Here we describe the expression of an endogenous gene, defensin, in Ae. aegypti using the orally infectious Sindbis virus, MRE/3′2J expression vector. We optimized conditions to infect mosquito larvae per os using C6/36 Ae. albopictus cells infected with the recombinant virus to maximize virus infection and expression of defensin. Infection with the parental Sindbis virus (MRE/3′2J) did not induce defensin expression. Mosquito larvae infected by ingestion of recombinant Sindbis virus-infected C6/36 cells expressed defensin when they emerged as adults. Defensin expression was observed by western analysis or indirect fluorescent assay in all developmental stages of mosquitoes infected with MRE/3′2J virus that contained the defensin insert. The multiplicity of infection of C6/36 cells and the quantity of infected cells consumed by larvae played an important role in defensin expression. Parental viruses, missing the defensin insert, and/or other defective interfering virus may have contributed to these observations.
“Smart” Glasses: Molecular Programming of Rapid Dynamic Responses in Organosilica Sol-Gels (2002)

“Intelligent” organosilica sol–gels that show fast dynamic response to temperature, pH, and electric fields are presented. A bis-(propyl)ethylenediamine bridge is responsible for a change of water affinity under environmental stimuli, resulting in water expulsion or uptake by the polymeric network. The Figure shows the tips of a tweezer-like sol–gel device that opens and closes upon pH fluctuation.
A Comparison of Measured High Impedance Fault Data to Digital Computer Modeling Results (1985)

Staged fault tests were-cohducted by Pennsylvania Power and Light Company to verify the performance of the Ratio Ground Relay concept. Previous development and tasting efforts, regarding this relay have been reported (1, 2). This paper presents the field measured fault current data in entirety and compares the field. data with SCADA collected data and digital computer data. The paper documents that a 12-kV four-wire multi-grounded neutral distribution feeder can be accurately modeled on a. digital computer, and that the computer results are field verifiable. The favorable results of this comparison provide confidence in the modeling method for use in development, testing, and application of new relay methods.
Complexity of optimized H.26L video decoder implementation (2003)

An analysis of computational complexity is presented for an H.26L video decoder, based on extensive experiments on a general-purpose processor. In addition, platform-independent techniques to optimize an H.26L decoder implementation are given. Comparisons are carried out between our highly optimized version of H.26L, the public reference implementation of H.26L, and a highly optimized H.263+ implementation. Both QCIF and CIF-sized image sequences are used. The results show that with equal visual quality, the bit-rate savings range from 28% to 58%, while the frame decoding speed of H.26L is about 11% better than that of a highly optimized H.263+.
Intralymphatic allergen administration renders specific immunotherapy faster and safer: A randomized controlled trial (2008)

The only causative treatment for IgE-mediated allergies is allergen-specific immunotherapy. However, fewer than 5% of allergy patients receive immunotherapy because of its long duration and risk of allergic side effects. We aimed at enhancing s.c. immunotherapy by direct administration of allergen into s.c. lymph nodes. The objective was to evaluate safety and efficacy compared with conventional s.c. immunotherapy. In a monocentric open-label trial, 165 patients with grass pollen-induced rhinoconjunctivitis were randomized to receive either 54 s.c. injections with pollen extract over 3 years [cumulative allergen dose 4,031,540 standardized quality units (SQ-U)] or 3 intralymphatic injections over 2 months (cumulative allergen dose 3,000 SQ-U). Patients were evaluated after 4 months, 1 year, and 3 years by nasal provocation, skin prick testing, IgE measurements, and symptom scores. Three low-dose intralymphatic allergen administrations increased tolerance to nasal provocation with pollen already within 4 months (P < 0.001). Tolerance was long lasting and equivalent to that achievable after standard s.c. immunotherapy (P = 0.291 after 3 years). Intralymphatic immunotherapy ameliorated hay fever symptoms (P < 0.001), reduced skin prick test reactivity (P < 0.001), decreased specific serum IgE (P < 0.001), caused fewer adverse events than s.c. immunotherapy (P = 0.001), enhanced compliance (P < 0.001), and was less painful than venous puncture (P = 0.018). In conclusion, intralymphatic allergen administration enhanced safety and efficacy of immunotherapy and reduced treatment time from 3 years to 8 weeks.
Model of Multiple Metal Electrodeposition in Porous Electrodes (2006)

An electrochemical process is being developed for recovering metals from shredded waste electrical and electronic equipment by leaching and electrowinning. In a membrane-divided electrochemical reactor, chlorine is generated at the anode and used as oxidant in an external leach reactor, in which the metals are dissolved in an acidic chloride solution. As the resulting metal ion concentrations are relatively low, a porous (e.g.,graphite felt) cathode with a large specific surface area and high mass-transport rates is required to achieve acceptable rates and efficiencies of electrodeposition, the counter reaction to the anodic evolution of chlorine. Hence, as a design tool, a mathematical model was developed to predict potential, concentration, current density, and current efficiency distributions for individual metals within the (flow-through) porous cathode, as well as cell voltages and specific electrical energy consumptions of the electrochemical reactor as functions of cathode feeder potential, cathode thickness, porosity, concentrations, and flow rate and direction. To maximize current efficiencies and productivities of the predominant metal, copper, simulations suggest using an initial cathodic feeder electrode potential of -0.5V (standard hydrogen electrode) to metallize the felt, followed by electrodeposition of the bulk of the metal at -0.3V (standard hydrogen electrode), optimal felt thicknesses depending on reactant concentrations. (c) 2006 The Electrochemical Society.
Semi-Supervised Methods to Predict Patient Survival from Gene Expression Data (2004)

An important goal of DNA microarray research is to develop tools to diagnose cancer more accurately based on the genetic profile of a tumor. There are several existing techniques in the literature for performing this type of diagnosis. Unfortunately, most of these techniques assume that different subtypes of cancer are already known to exist. Their utility is limited when such subtypes have not been previously identified. Although methods for identifying such subtypes exist, these methods do not work well for all datasets. It would be desirable to develop a procedure to find such subtypes that is applicable in a wide variety of circumstances. Even if no information is known about possible subtypes of a certain form of cancer, clinical information about the patients, such as their survival time, is often available. In this study, we develop some procedures that utilize both the gene expression data and the clinical data to identify subtypes of cancer and use this knowledge to diagnose future patients. These procedures were successfully applied to several publicly available datasets. We present diagnostic procedures that accurately predict the survival of future patients based on the gene expression profile and survival times of previous patients. This has the potential to be a powerful tool for diagnosing and treating cancer.
Pharmacological manipulation of Bcl-2 family members to control cell death (2005)

The commitment to programmed cell death involves complex interactions among pro- and antiapoptotic members of the Bcl-2 family of proteins. The physiological result of a decision by these proteins to undergo cell death is permeabilization of the mitochondrial outer membrane. Pharmacologic manipulation of proteins in this family appears both feasible and efficacious, whether the goal is decreased cell death, as in ischemia of the myocardium or brain, or increased cell death, as in cancer.