gebhart/patrepeval huggingface dataset:
Evolutionary characterization of the six internal genes of H5N1 human influenza A virus (2000)

The entire nucleotide sequences of all six internal genes of six human H5N1 influenza A viruses isolated in Hong Kong in 1997 were analysed in detail from a phylogenetic point of view and compared with the evolutionary patterns of the haemagglutinin and neuraminidase genes. Despite being isolated within a single year in the same geographical location, human H5N1 viruses were characterized by a variety of amino acid substitutions in the ribonucleoprotein complex [PB2, PB1, PA and nucleoprotein (NP)] as well as the matrix (M) proteins 1 and 2 and nonstructural (NS) proteins 1 and 2. The presence of previously reported amino acid sequences specific for human strains was confirmed in the PB2, PA, NP and M2 proteins. Nucleotide and amino acid sequence identities of the six internal genes of H5N1 viruses examined here were separated into at least two variant groups. In agreement with the above result, phylogenetic trees of the six internal genes of human H5N1 viruses were generally composed of two minor clades. Additionally, variable dendrogram topologies suggested that reassortment among viruses contributed further to the genetic variability of these viruses. As a result, it became clear that human H5N1 viruses are characterized by divergent gene constellations, suggesting the possible occurrence of genetic reassortment between viruses of the two evolutionary lineages.
APR-246 overcomes resistance to cisplatin and doxorubicin in ovarian cancer cells (2015)

Two main causes of platinum resistance are mutation in the tumor suppressor gene TP53 and drug-induced increase in intracellular glutathione concentration. Mutations in TP53 occur in about 50% of human tumors. APR-246 (PRIMA-1(MET)) is the first clinical-stage compound that reactivates mutant p53 and induces apoptosis. APR-246 is a prodrug that is converted to the active compound methylene quinuclidinone (MQ), a Michael acceptor that binds to cysteine residues in mutant p53 and restores its wild-type conformation. Here, we show that MQ also binds to cysteine in glutathione, thus decreasing intracellular free glutathione concentration. We also show that treatment with APR-246 completely restores the cisplatin and doxorubicin sensitivity to p53-mutant drug-resistant ovarian cancer cells. We propose that this unique ability of APR-246/MQ to bind to cysteines in both mutant p53 and glutathione has a key role in the resensitization as well as in the outstanding synergistic effects observed with APR-246 in combination with platinum compounds in ovarian cancer cell lines and primary cancer cells. However, MQ binding to cysteines in other targets, for example, thioredoxin reductase, may contribute as well. Strong synergy was also observed with the DNA-damaging drugs doxorubicin and gemcitabine, while additive effects were found with the taxane docetaxel. Our results provide a strong rationale for the ongoing clinical study with APR-246 in combination with platinum-based therapy in patients with p53-mutant recurrent high-grade serous (HGS) ovarian cancer. More than 96% of these patients carry TP53 mutations. Combined treatment with APR-246 and platinum or other DNA-damaging drugs could allow dramatically improved therapy of a wide range of therapy refractory p53 mutant tumors.
Use of 99mTc-anti-CD3 scintigraphy in the differential diagnosis of rheumatic diseases (2010)

99mTc-anti-CD3 scintigraphy is a useful method in the differential diagnosis of rheumatic diseases.
Flexible microactuator for miniature robots (2002)

A new type of flexible microactuator (FMA) has been developed for use in miniature robots. They are constructed using fiber-reinforced rubber and are actuated by an electropneumatic or electrohydraulic system. These microactuators have many degrees of freedom (including pitch, yaw, and stretch), making them suitable for robotic mechanisms such as arms, legs, or fingers. Pliant miniature robots can be created by combining FMAs. One example is a robot arm a few millimeters in diameter with seven degrees of freedom. The basic characteristics of the FMAs have been analyzed theoretically and experimentally. It is noted that, since the statistics and dynamics are predicted easily, FMAs can be designed efficiently.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Three‐dimensional architecture of the IgH locus facilitates class switch recombination (2012)

Immunoglobulin (Ig) class switch recombination (CSR) is responsible for diversification of antibody effector function during an immune response. This region-specific recombination event, between repetitive switch (S) DNA elements, is unique to B lymphocytes and is induced by activationinduced deaminase (AID). CSR is critically dependent on transcription of noncoding RNAs across S regions. However, mechanistic insight regarding this process has remained unclear. New studies indicate that long-range intrachromosomal interactions among IgH transcriptional elements organize the formation of the S/S synaptosome, as a prerequisite for CSR. This three-dimensional chromatin architecture simultaneously brings promoters and enhancers into close proximity to facilitate transcription. Here, we recount how transcription across S DNA promotes accumulation of RNA polymerase II, leading to the introduction of activating chromatin modifications and hyperaccessible chromatin that is amenable to AID activity.
The human c-ros gene (ROS) is located at chromosome region 6q16----6q22. (1986)

The human homolog, c-ros, of the transforming gene, v-ros, of the avian sarcoma virus, UR2, has been isolated from a human genomic library. A single-copy fragment from the human c-ros genomic clone has been used to map the human c-ros homolog (ROS) to human chromosome region 6q16----6q22 by somatic cell hybrid analysis and chromosomal in situ hybridization. Thus, the c-ros gene joins the c-myb oncogene, which is distal to the c-ros gene on the long arm of human chromosome 6, as a candidate for involvement in chromosome 6q deletions and rearrangements seen in various malignancies.
Oxidative Renaturation of Hen Egg-White Lysozyme. Folding vs Aggregation (1998)

Since the inception of recombinant DNA technology, different strategies have been developed in the isolation, renaturation, and native disulfide bond formation of proteins produced as insoluble inclusion bodies in Escherichia coli. One of the major challenges in optimizing renaturation processes is to prevent the formation of off-pathway inactive and aggregated species. On the basis of a simplified kinetic model describing the competition between folding and aggregation, it was possible to analyze the effects of denaturant and thiol/disulfide concentrations on this competition. Although higher guanidinium chloride (GdmCl) concentrations resulted in higher renaturation yields, the folding rate was negatively affected, indicating an optimum range of GdmCl for optimum renaturation rates and yields. Similarly, higher total glutathione concentrations resulted in higher yields but decreased rates, also indicating an optimum total glutathione concentration for optimum renaturation rates and yields (6-16 mM), with an optimum ratio of reduced to oxidized glutathione between 1 and 3. To characterize the nature of aggregates, aggregation experiments were performed under different oxidizing/reducing conditions. It is shown that hydrophobic interactions between partially folded polypeptide chains are the major cause of aggregation. Aggregation is fast and aggregate concentration does not significantly increase beyond the first minute of renaturation. Under conditions which promote disulfide bonding, aggregate size, but not concentration, may increase due to disulfide bond formation, resulting in covalently bonded aggregates.
The demography of Zambia (1985)

The paper reviews and analyzes all currently available demographic data for Zambia. Population size, distribution, urbanization and migration patterns are described, and estimates are made of levels, trends and regional differentials in mortality, fertility, natural increase and population growth. The construction and results of population projections for the next 30 years at national, urban and rural level are also described. In summary, fertility levels are generally high, though still depressed in some areas by widespread pathological sterility. Mortality levels are generally low by African standards and declining, though there is a clear differential between the urbanized line-of-rail provinces and the rural, less developed provinces. National population growth is therefore high and rising, though provincial growth rates vary substantially due to the massive rural to urban migration in recent decades that has made Zambia one of the most urbanized countries in Africa.
Expression, Purification, and Characterization of a Soluble Form of the First Extracellular Domain of the Human Type 1 Corticotropin Releasing Factor Receptor (2001)

The first extracellular domain (ECD-1) of the corticotropin releasing factor (CRF) type 1 receptor, (CRFR1), is important for binding of CRF ligands. A soluble protein, mNT-CRFR1, produced by COS M6 cells transfected with a cDNA encoding amino acids 1--119 of human CRFR1 and modified to include epitope tags, binds a CRF antagonist, astressin, in a radioreceptor assay using [(125)I-d-Tyr(0)]astressin. N-terminal sequencing of mNT-CRFR1 showed the absence of the first 23 amino acids of human CRFR1. This result suggests that the CRFR1 protein is processed to cleave a putative signal peptide corresponding to amino acids 1--23. A cDNA encoding amino acids 24--119 followed by a FLAG tag, was expressed as a thioredoxin fusion protein in Escherichia coli. Following thrombin cleavage, the purified protein (bNT-CRFR1) binds astressin and the agonist urocortin with high affinity. Reduced, alkylated bNT-CRFR1 does not bind [(125)I-D-Tyr(0)]astressin. Mass spectrometric analysis of photoaffinity labeled bNT-CRFR1 yielded a 1:1 complex with ligand. Analysis of the disulfide arrangement of bNT-CRFR1 revealed bonds between Cys(30) and Cys(54), Cys(44) and Cys(87), and Cys(68) and Cys(102). This arrangement is similar to that of the ECD-1 of the parathyroid hormone receptor (PTHR), suggesting a conserved structural motif in the N-terminal domain of this family of receptors.
A 3 bit K/Ka band MMIC phase shifter (2003)

A description is given of a K/Ka-band 3-bit GaAs monolithic microwave integrated circuit (MMIC) phase shifter that uses passive MESFET switching elements and is bidirectional. The phase shifter uses high-pass/low-pass filter circuits in which MESFET off-state capacitances are incorporated as filter elements. This technique allows high-performance, broadband phase shifter response to be achieved. The K/Ka-band phase shifter uses MESFETs with the same characteristics as those used in amplifiers operating in the same band, for ease of future integration. The phase shifter operates from 18 to 40 GHz, with an average insertion loss of 9 to 10 dB.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Common Elements Wideband MIMO Antenna System for WiFi/LTE Access-Point Applications (2014)

A wideband multiple-input-multiple-output (MIMO) antenna system with common elements suitable for WiFi/2.4 GHz and Long Term Evolution (LTE)/2.6 GHz wireless access point (WAP) applications is presented. The proposed MIMO antenna system consists of four wideband microstrip feedline printed monopole antennas with common radiating element and a ring-shaped ground plane. The radiator of the MIMO antenna system is designed as the shape of a modified rectangle with a four-stepped line at the corners to enhance the impedance bandwidth. According to the common elements structure of the MIMO antenna system, isolation between the antennas (ports) can be challenging. Therefore, the ground plane is modified by introducing four slots in each corner to reduce the mutual coupling. For an antenna efficiency of more than 60%, the measured impedance bandwidth for reflection coefficients below -10 dB was observed to be 1100 MHz from 1.8 to 2.9 GHz. Measured isolation is achieved greater than 15 dB by using a modified ground plane. Also, a low envelope correlation coefficient (ECC) less than 0.1 and polarization diversity gain of about 10 dB with the orthogonal mode of linear polarization and quasi-omnidirectional pattern during the analysis of radiation characteristic are achieved. Therefore, the proposed design is a good candidate for indoor WiFi and LTE WAP applications due to the obtained results.
The kinetic isotope effect in the search for deuterated drugs (2010)

The kinetic isotope effect has long been exploited by physical organic chemists to study reaction mechanisms due to its effect on reaction rates when cleavage of a C-isotope bond is rate determining. Medicinal chemists have also used the deuterium kinetic isotope effect to slow the cytochrome P450 metabolism of the deuterated versions of drug candidates, with the first in vitro microsome studies of deuterated morphine appearing in the literature in the 1960s, and a deuterated alanine compound from Merck going all the way to phase IIb in the 1970s. The recent emergence of companies such as Concert Pharmaceuticals and Auspex Pharmaceuticals, based solely on the idea of deuterium-for-hydrogen versions of existing drugs, has reinvigorated the backers of the deuterium camp, and established the strategy as a viable low-risk approach to drug development. A history of the deuterium kinetic isotope effect is presented, along with examples of deuterated drugs that span 50 years, from 1960 to present day. Specific examples of compounds from the Concert and Auspex pipelines are also analyzed and the pros and cons of their approach are discussed.
Design of power line carrier systems on multitransposed delta transmission lines (1991)

It is shown that some of the most widely accepted coupling recommendations for power line carrier (PLC) systems do not prevent modal cancellation. It is also shown that computer system programs for calculating line frequency response may fail to detect model cancellation conditions. A method of PLC system design for multitransposed horizontal and delta transmission lines is proposed. It is based in W.H. Senn's technique (1976) for calculating PLC frequency responses and allows for the consideration of line data uncertainties and line parameter variations. A technique which makes use of shunt capacitors connected to a few points along the line is also discussed. The risk of modal cancellation is decreased and, in some cases, it can be eliminated.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
The presacral space as a collector of fluid accumulations following rectal anastomosis (1982)

The amounts of fluid that collect in the presacral space after rectal anastomosis were measured in 88 such patients (85 one-stage, three two-stage) treated by one surgeon with closed suction presacral space drainage. Fluid accumulations ranged from 0 to 1816 ml (mean 258 ml) and were not influenced by various factors studied. Only one patient developed an anastomotic leak, and one died postoperatively. None of the 82 patients followed one to five years and none of five patients lost to follow-up after five to 24 months experienced anastomotic complications. These data document the presacral space as a significant collector of fluids following such operations and do not support the concern that such a tube might damage or contaminate the anastomosis more than if left undrained when measured by increased rate of anastomotic leakage, by prolonged hospitalization, or by the appearance of anastomotic complications during the follow-up period.
Butanol Production Using Clostridium beijerinckii BA101 Hyper-Butanol Producing Mutant Strain and Recovery by Pervaporation (2000)

Clostridium beijerinckii BA101 (mutant strain) and C. beijerinckii 8052 (wild type) were compared for substrate and butanol inhibition. The wild-type strain is more strongly inhibited by added butanol than is the mutant strain. Acetone and butanol were removed from a fed-batch reactor inoculated with C. beijerinckii BA101 by pervaporation using a silicone membrane. In the batch reactor, C. beijerinckii BA101 produced 25.3 g/L of total solvents, whereas in the fermentation-recovery experiment it produced 165.1 g/L of total solvents. Solvent productivity increased from 0.35 (batch reactor) to 0.98 g/L.h (fed-batch reactor). The fed-batch reactor was fed with 500 g/L of glucose-based P2 medium. Acetone selectivities ranged from 2 to 10 whereas butanol selectivities ranged from 7 to 19. Total flux varied from 26 to 31 g/m2.h.
The role of antigen and IL-12 in sustaining Th1 memory cellsin vivo: IL-12 is required to maintain memory/effector Th1 cells sufficient to mediate protection to an infectious parasite challenge (2000)

IL-12 plays a central role in both the induction and magnitude of a primary Th1 response. A critical question in designing vaccines for diseases requiring Th1 immunity such as Mycobacterium tuberculosis and Leishmania major is the requirements to sustain memory/effector Th1 cells in vivo. This report examines the role of IL-12 and antigen in sustaining Th1 responses sufficient for protective immunity to L. major after vaccination with LACK protein (LP) plus rIL-12 and LACK DNA. It shows that, after initial vaccination with LP plus rIL-12, supplemental boosting with either LP or rIL-12 is necessary but not sufficient to fully sustain long-term Th1 immunity. Moreover, endogenous IL-12 is also shown to be required for the induction, maintenance, and effector phase of the Th1 response after LACK DNA vaccination. Finally, IL-12 is required to sustain Th1 cells and control parasite growth in susceptible and resistant strains of mice during primary and secondary infection. Taken together, these data show that IL-12 is essential to sustain a sufficient number of memory/effector Th1 cells generated in vivo to mediate long-term protection to an intracellular pathogen.
delta2 opioid receptor agonist facilitates mean arterial pressure recovery after hemorrhage in conscious rats. (2005)

delta opioid receptor agonists exert potent hemodynamic effects under ischemic conditions. This study was designed to assess the cardiovascular effects of Deltorphin-D(variant) (Delt-D(var)), a selective delta(2) opioid receptor agonist, in conscious, freely moving male rats during the posthemorrhage, recompensatory phase of a hemorrhagic trauma. Rats were fitted with femoral arterial and venous catheters for measurements of mean arterial pressure (MAP), heart rate (HR), and intravenous (i.v.) injections of isotonic saline, 1 mg/kg Delt-D(var), or 2 mg/kg Delt-D(var). During hemorrhaging, 30% (approximately 5 mL) of total blood volume was collected from the arterial catheter. MAP-HR was fitted to a logistic equation to determine baroreceptor reflex properties. Hemorrhaged rats progressed through three distinct phases: compensation, decompensation, and recompensation. Saline and 1 mg/kg Delt-D(var) rats treated posthemorrhage had similar MAP and HR after hemorrhage. In contrast, 2 mg/kg Delt-D(var) administered after hemorrhaging led to a faster and more complete recovery of MAP than compared with the other groups. In hemorrhaged rats, the average HR gain (bpm/mmHg) after 2 mg/kg Delt-D(var) treatment was greater and the BP(50) (BP at one-half the HR range) was significantly lower than after saline treatment. The results show that after hemorrhage, during the recompensatory period, stimulation of delta(2) opioid receptors leads to improved MAP, and this recovery may involve a change in baroreflex sensitivity.
Electron Mobility in Inversion and Accumulation Layers on Thermally Oxidized Silicon Surfaces (1980)

Accurate modeling of MOS devices requires quantitative knowledge of carrier mobilities in surface inversion and accumulation layers. Optimization of device structures and accurate circuit simulation, particularly as technologies push toward fundamental limits, necessitate an understanding of how impurity doping levels, oxide charge densities, process techniques, and applied electric fields affect carrier surface nobilities. It is the purpose of this paper to present an extensive set of experimental results on the behavior of electron surface mobility in thermally oxidized silicon structures. EmpiricaI equations are developed which allow the calculation of electron mobility under a wide variety of substrate, process, and electrical conditions. The experimental results are interpreted in terms of the dominant physical mechanisms responsible for mobility degradation at the Si/SiO/sub 2/ interface. From the observed effects of process parameters on mobility roll-off under high vertical fields, conclusions are drawn about optimum process conditions for maximizing mobility. The implications of this work for performance limits of several types of MOS devices are described.
Counting People in Groups (2009)

Cameras are becoming a common tool for automated vision purposes due to their low cost. In an era of growing security concerns, camera surveillance systems have become not only important but also necessary. Algorithms for several tasks such as detecting abandoned objects and tracking people have already been successfully developed. While tracking people is relatively easy, counting people in groups is much more challenging. The mutual occlusions between people in a group make it difficult to provide an exact count. The aim of this work is to present a method of estimating the number of people in group scenarios. Several considerations for counting people are illustrated in this paper, and experimental results of the method are described and discussed.
Hybrid electromagnetic modeling of noise interactions in packaged electronics based on the partial-element equivalent-circuit formulation (1997)

The partial-element equivalent-circuit (PEEC) method is used to develop a flexible, hierarchical electromagnetic modeling and simulation environment for the analysis of noise generation and signal degradation mechanisms in packaged electronic components and systems. The circuit-oriented approach used by the method for the development of the numerical approximation of the electric-field integral equation leads to SPICE-compatible, yet fully dynamic, discrete approximation of the electromagnetic problem. Contrary to other full-wave formulations, the proposed method has the important attribute of lending itself to a very systematic and physical model complexity reduction on the basis of the electrical size of the various portions of the system. Thus, a hybrid electromagnetic modeling and simulation environment is established for the analysis of complex structures which exhibit large variation in electrical size over their volume, using a combination of lumped-circuit elements, transmission lines, as well as three-dimensional (3-D) distributed electromagnetic models. These models may or may not account for retardation, depending on the electrical size of the part of the structure that is being modeled. These special attributes of the proposed electromagnetic-simulation environment are demonstrated through several examples from its application to the modeling of noise interactions in generic interconnect and package geometries.