gebhart/patrepeval huggingface dataset:
Local therapy as a treatment strategy in EGFR-mutant advanced lung cancers that have developed acquired resistance to EGFR tyrosine kinase inhibitors. (2012)

7527 Background: The utility of EGFR directed therapy for the treatment of EGFR mutant lung cancer is limited by the development of acquired resistance (AR) to EGFR tyrosine kinase inhibitor (TKI) therapy, which occurs after a median of 16 months (mos). There are no approved targeted therapies after disease progression on EGFR TKI therapy. Local therapy for oligometastatic disease is used with regularity in other solid tumors, and can lead to long term survival in selected individuals. EGFR mutant lung cancers with AR to TKI therapy can follow an indolent course that is amenable to local therapy to treat progression of disease when used in conjunction with continued EGFR inhibition. Outcomes following local therapy in this setting have not been assessed. Methods: Patients (pts) with AR to EGFR TKI’s who received local therapy excluding treatment of CNS metastases or local therapy prior to AR were identified in an IRB-approved prospective registry of 184 pts with AR enrolled from August 2004- November 2011. We collected treatments as well as progression free survival (PFS) and overall survival (OS) after local therapy. Results: 18 pts received local therapy. Treatments included surgical resection and radiation to lung, lymph nodes, adrenal gland or bone. Median age was 57, 56% were women, and 61% were never smokers. 14 had EGFR Exon 19 deletions, and 4 L858R. The median time to development of AR on TKI was 19 mo (range 5-33). Known mechanisms of AR included T790M (11 pts), MET amplification (1 pt) and small cell transformation (1 pt). The median PFS after local therapy was 10 mo (95% CI: 4-NA), median time from local therapy until change in systemic therapy was 22 mo (95%CI: 6 - 30), and median OS from local therapy was 41 mo (95% CI: 26-NA). Local therapy was tolerated well, with 85% of pts restarting TKI therapy within one month of completing local therapy. Conclusions: Local therapy is well tolerated and in combination with continued EGFR TKI therapy prolongs time until change in systemic therapy is required and may lead to outcomes that are superior to currently available treatment options in selected individuals.
A microwave method for density independent determination of the moisture content of solids (1980)

An important task in industrial process control is the continuous measurement of the relative moisture content psi of the material. Present methods, however, deliver only the absolute amount of water in the sample container and psi is derived by an additional measurement of the mass. The investigation of the dielectric behaviour of moist matter at frequencies above 8 GHz shows that for certain classes of materials density independent calibration functions can be derived experimentally which allow a determination of psi solely from microwave measurements at one frequency. The physical principle is discussed and experimental results for various materials are presented.
Humoral IgG Antibodies to Oral Microbiota in a Population at Risk for Root-surface Caries (1992)

Mutans streptococci have been strongly implicated in the initiation of dental caries on coronal surfaces. Their role in development of root-surface caries is less clear. The etiologic agents of both types of dental caries are likely to elicit systemic immune responses. The objective of the present study, therefore, was to study the association of clinical variables of disease with humoral IgG antibodies to nine oral micro-organisms in 314 adult subjects, aged 45-65 years, who were at risk for root-surface caries. Antibody activity to Streptococcus mutans strain Ingbritt, S. mutans/S. sobrinus GTFs, S. faecalis strain 19433, Actinomyces viscosus strain WVU 626, Actinomyces naeslundii strain 12, Lactobacillus casei, Actinobacillus actinomycetemcomitans strain Y4, Porphyromonas gingivalis strain 381, Eikenella corrodens strain 1073, and Wolinella recta strain 371 was measured by ELISA. Pearson correlation coefficients among log10 antibody levels within subjects revealed marked positive correlations among subgingival bacteria, generally weak positive correlations among supragingival micro-organisms, and no correlations between elements of the supragingival battery with the subgingival battery. IgG antibody levels to mutans streptococcal antigens were significantly correlated with subject DMF scores (r = 0.23; p less than 0.0001). No significant correlation was seen between DMF scores and antibody to any other supragingival micro-organism tested. Further relationships between levels of S. mutans antibody and individual clinical variables were analyzed by step-wise multiple linear regression, resulting in a model that was highly significant (p = 0.0001), with an r2 = 0.14. Numbers of missing teeth, coronal caries, root-surface caries, and root-surface restorations were each positively associated with antibody levels to mutans streptococci.(ABSTRACT TRUNCATED AT 250 WORDS)
The NTS-DBL2X Region of VAR2CSA Induces Cross-Reactive Antibodies That Inhibit Adhesion of Several Plasmodium falciparum Isolates to Chondroitin Sulfate A (2011)

This study highlights an important step achieved toward development of a protective vaccine against placental malaria.
General synthesis of inositols by hydrolysis of conduritol epoxides obtained biocatalytically from halogenobenzenes: (+)-D-chiro-inositol, allo-inositol, muco-inositol and neo-inositol (1993)

Four of the nine isomeric inositols have been prepared by hydrolytic opening of epoxides derived from 3-halogenocyclohexa-3,5-diene-1,2-diol by further oxidation with potassium permanganate or by reduction of chiro-3-inosose (2L-2,3,6/4,5-pentahydroxycyclohexanone).
A+P for Proxy Mobile IPv6 (2009)

This memo specifies how to use IPv6 a+p technique in mobile networks
for Proxy Mobile IPv6 (PMIPv6). Mobile node which is a dual-stack node
can receive a shared IPv4 Home Address together with a port range from
the Local Mobility Agent (LMA). LMA is co-located with Port Range
Router (PRR). Mobile Access Gateway (MAG) encapsulates IPv4 datagrams
in IPv6 which are decapsulated at the LMA. In the binding mode, LMA as
PRR receives incoming IPv4 datagrams, determines the routing
identifier, finds the binding cache entry for this MN and then
encapsulates the IPv4 datagram in an IPv6 one and forwards the
encapsulated datagram to MN. The stateless mode is also described.
Mobile network could be WiMAX network or 3GPP Long Term Evolution
(LTE) network.
Activation of a plant nucleotide binding-leucine rich repeat disease resistance protein by a modified self protein (2012)

Nucleotide binding-leucine rich repeat (NB-LRR) proteins function as intracellular receptors for the detection of pathogens in both plants and animals. Despite their central role in innate immunity, the molecular mechanisms that govern NB-LRR activation are poorly understood. The Arabidopsis NB-LRR protein RPS5 detects the presence of the Pseudomonas syringae effector protein AvrPphB by monitoring the status of the Arabidopsis protein kinase PBS1. AvrPphB is a cysteine protease that targets PBS1 for cleavage at a single site within the activation loop of PBS1. Using a transient expression system in the plant Nicotiana benthamiana and stable transgenic Arabidopsis plants we found that both PBS1 cleavage products are required to activate RPS5 and can do so in the absence of AvrPphB. We also found, however, that the requirement for cleavage of PBS1 could be bypassed simply by inserting five amino acids at the PBS1 cleavage site, which is located at the apex of the activation loop of PBS1. Activation of RPS5 did not require PBS1 kinase function, and thus RPS5 appears to sense a subtle conformational change in PBS1, rather than cleavage. This finding suggests that NB-LRR proteins may function as fine-tuned sensors of alterations in the structures of effector targets.
High-performance wavelength-locked diode lasers (2009)

Rapidly maturing industrial laser applications are placing ever-tighter constraints on spectral width and wavelength emission stability over varying operating temperatures of high power diode laser pump sources. For example, improved power scaling and efficiency can be achieved by pumping the narrow upper laser level of Nd:YAG solid state lasers at 885 nm and the 1532-nm absorption band of Er:YAG solid state lasers, though taking full advantage of these configurations requires wavelength-locked pump sources. nLight offers a wide variety of wavelength-locked diode products based on external volume grating optics technology. It is often believed that the use of external gratings to wavelength lock diode lasers leads to an unavoidable loss in power and efficiency. nLight's design methodology is shown to eliminate the problem in our grating-locked diode laser products. These results are expected to enable improved performance in diode-pumped solid state and fiber laser systems.
PD/SOI CMOS Schmitt trigger circuits with controllable hysteresis (2002)

This paper presents an SOI circuit technique, which eliminates the uncontrollable floating-body-induce hysteretic component in the transfer characteristics of CMOS Schmitt triggers. This technique integrates a successive switching threshold shift mechanism with the systematic body contact scheme. The resulting design possesses improved noise immunity and well-defined hysteresis behavior, suitable for use as a low-noise receiver, waveform-reshaping circuit, or delay element in VLSI applications.
Recent progress on perceptual video coding (2011)

The purpose of this technical demonstration is to show how the compressed video quality can be improved by taking the characteristics of human visual system into account in the rate distortion optimization and rate control processes of a video encoder. Both the R-D performance of the video encoder and the picture quality can be evaluated subjectively by the viewers in this demonstration to witness that perceptual video coding is indeed a promising direction for next generation video coding.
Eukaryotic DNA replication (1999)

One of the fundamental characteristics of life is the ability of an entity to reproduce itself, which stems from the ability of the DNA molecule to replicate itself. The initiation step of DNA replication, where control over the timing and frequency of replication is exerted, is poorly understood in eukaryotes in general, and in mammalian cells in particular. The cis-acting DNA element defining the position and providing control over initiation is the replication origin. The activation of replication origins seems to be dependent on the presence of both a particular sequence and of structural determinants. In the past few years, the development of new methods for identification and mapping of origins of DNA replication has allowed some understanding of the fundamental elements that control the replication process. This review summarizes some of the major findings of this century, regarding the mechanism of DNA replication, emphasizing what is known about the replication of mammalian DNA. J. Cell. Biochem. Suppls. 32/33:1-14, 1999.
Precursor-Directed Biosynthesis of 5-Hydroxytryptophan Using Metabolically Engineered <i>E. coli</i> (2014)

A novel biosynthetic pathway was designed and verified reversely leading to the production of 5-hydroxytryptophan (5-HTP) from glucose. This pathway takes advantage of the relaxed substrate selectivities of relevant enzymes without employing the unstable tryptophan 5-hydroxylase. First, high-titer of 5-HTP was produced from 5-hydroxyanthranilate (5-HI) by the catalysis of E. coli TrpDCBA. Then, a novel salicylate 5-hydroxylase was used to convert the non-natural substrate anthranilate to 5-HI. After that, the production of 5-HI from glucose was achieved and optimized with modular optimization. In the end, we combined the full pathway and adopted a two-stage strategy to realize the de novo production of 5-HTP. This work demonstrated the application of enzyme promiscuity in non-natural pathway design.
On statistical multiplexing of variable-bit-rate video streams in mobile systems (2009)

We consider the problem of broadcasting multiple variable-bit-rate (VBR) video streams from a base station to many mobile devices over a wireless network, so that: (i) perceived quality on mobile devices is maximized, (ii) bandwidth utilization is maximized, and (iii) energy consumption of mobile devices is minimized. We show that this problem is NP-Complete. We propose an approximation algorithm for the base station to statistically multiplex and transmit multiple VBR streams to achieve these objectives. We analytically analyze the performance of our algorithm and prove that it achieves optimal bandwidth utilization and near-optimal energy saving. Our algorithm frees network operators from the manual and error-prone bandwidth reservation process, which is usually used in practice for broadcasting VBR streams. We implement the proposed algorithm in a trace-driven simulator, and conduct extensive simulations. The simulation results show that our algorithm outperforms the existing algorithms in many aspects, including number of late frames, number of concurrently broadcast video streams, and energy saving of mobile devices. We also implement the proposed algorithm in a real testbed for video broadcasting as a proof of concept. The results from the testbed confirm that the proposed algorithm: (i) does not result in playout glitches, (ii) achieves high energy saving, and (iii) runs in real time.
Thiol-Functionalized Undecagold Clusters by Ligand Exchange:  Synthesis, Mechanism, and Properties (2005)

Ligand exchange of phosphine-stabilized undecagold precursor particles, Au11(PPh3)8Cl3, with omega-functionalized thiols provides a convenient and general approach for the rapid preparation of large families of thiol-stabilized, subnanometer (dCORE approximately 0.8 nm) particles. The approach permits rapid incorporation of specific functionality into the stabilizing ligand shell, is tolerant of a wide range of functional groups, and provides convenient access to new materials inaccessible by other methods. Mechanistic studies and trapping experiments give insight into the progression of the ligand exchange, providing evidence that the core size of the phosphine-stabilized undecagold precursor particles is preserved during ligand exchange. The optical properties of the thiol-stabilized nanoparticles depend strongly on the composition of the ligand shell, and a series of studies suggests that this dependence is a result of the ligand shell's influence on the electronic structure of the particle core, as opposed to a structural change within the nanoparticle core.
Allocation of resources of modular sizes with an application to Internet Protocol (IP) address allocation (2005)

Abstract We consider a resource allocation problem, where resources of different capacities must satisfy multiple demands. The demand sizes and the resource capacities are limited to sizes that are power‐of‐two integers (i.e., 1, 2, 4, 8, …). The cost of the resources exhibit economies‐of‐scale savings, i.e., the cost per capacity unit is smaller for resources with larger capacity. The problem is to select the minimum‐cost set of resources that satisfies the demands, while each of the demands must be assigned to a single resource and the number of selected resources does not exceed a specified upper bound. We present algorithms that take advantage of the special structure of the problem and provide optimal solutions in a negligible computing effort. This problem is important for the allocation of blocks of Internet Protocol (IP) addresses, referred to as subnets. In typical IP networks, subnets are allocated at a large number of nodes. An effective allocation attempts to balance the volume of excess addresses that are not used versus fragmentation of addresses at nodes to too many subnets with a discontinuous range of addresses. Due to the efficiency of the algorithms, they can readily be used as valuable modules in IP address management systems. © 2005 Wiley Periodicals, Inc. Naval Research Logistics, 2005.
Correlation between the Resistance Genotype Determined by Multiplex PCR Assays and the Antibiotic Susceptibility Patterns of <i>Staphylococcus aureus</i> and <i>Staphylococcus epidermidis</i> (2000)

Clinical isolates of Staphylococcus aureus (a total of 206) and S. epidermidis (a total of 188) from various countries were tested with multiplex PCR assays to detect clinically relevant antibiotic resistance genes associated with staphylococci. The targeted genes are implicated in resistance to oxacillin (mecA), gentamicin ¿aac(6')-aph(2"), and erythromycin (ermA, ermB, ermC, and msrA). We found a nearly perfect correlation between genotypic and phenotypic analysis for most of these 394 strains, showing the following correlations: 98% for oxacillin resistance, 100% for gentamicin resistance, and 98.5% for erythromycin resistance. The discrepant results were (i) eight strains found to be positive by PCR for mecA or ermC but susceptible to the corresponding antibiotic based on disk diffusion and (ii) six strains of S. aureus found to be negative by PCR for mecA or for the four erythromycin resistance genes targeted but resistant to the corresponding antibiotic. In order to demonstrate in vitro that the eight susceptible strains harboring the resistance gene may become resistant, we subcultured the susceptible strains on media with increasing gradients of the antibiotic. We were able to select cells demonstrating a resistant phenotype for all of these eight strains carrying the resistance gene based on disk diffusion and MIC determinations. The four oxacillin-resistant strains negative for mecA were PCR positive for blaZ and had the phenotype of beta-lactamase hyperproducers, which could explain their borderline oxacillin resistance phenotype. The erythromycin resistance for the two strains found to be negative by PCR is probably associated with a novel mechanism. This study reiterates the usefulness of DNA-based assays for the detection of antibiotic resistance genes associated with staphylococcal infections.
Design and operation of a fully implantable SMA actuated implant for correcting short bowel syndrome (2009)

Short Bowel Syndrome (SBS) is medical condition characterized by insufficient small intestine length, leading to improper nutrient absorption and significant mortality rates. The complications of current treatment methods have encouraged the development of a novel treatment method based on mechanotransduction, the process through which mechanical tensile loading induces longitudinal growth of intestine. Animal based studies with simple extension devices have demonstrated the potential of the treatment to grow healthy bowel, but an implantable device suitable for clinical use remains undeveloped. This paper presents the development of an instrumented fully implantable bowel extender based upon a shape memory alloy driven linear ratchet that can be controlled and monitored remotely. The overall bowel extender system is described with respect to specifications for pig experimental tests. The functionality of the mechanical and electrical subsystems of the device are detailed and experimentally validated on the bench top, in segments of living bowel tissue removed from a pig, and in cadaveric pigs. Mechanical loading characteristics and safe load limits on bowel tissue are identified. Results from these experiments establish the readiness of the device to be tested in living pigs, enabling studies to move one step closer to clinical studies.
Inflow Performance Relationship for Horizontal Wells Producing from Multi-Layered Heterogeneous Solution Gas-Drive Reservoirs (2014)

Oil well performance is measured by the assessment of its Inflow Performance & Outflow Performance Relationships (IPR & OPR). Since 1968, Vogel equation has been used extensively for analyzing the IPR of flowing oil wells under solution gas drive. However, the Vogel curve was originally developed for vertical wells and may not be applicable to horizontal wells due to the fact that the flow into a horizontal well, with overlying gas cap, is different than flow into a vertical well. In addition, current used inflow performance relationship models for horizontal wells are impractical in nature, mainly developed for homogeneous reservoirs, and not suitable for multi-layered systems with different permeability. Thus, there is a need for new practical IPR model that considers the effects of reservoir heterogeneity on IPR curves for horizontal wells producing from two-phase reservoirs overlaid by gas cap. This study investigates the effects of reservoir heterogeneity on IPR curves for horizontal wells drilled in heterogeneous reservoirs. To achieve the desired objective, commercial simulator Eclipse, is utilized to develop IPR's for horizontal wells producing from solution gas drive reservoirs. Firstly, a simulation model is developed where a base case is considered with typical rock, fluid and reservoir properties using black oil model. Dimensionless IPR curves are generated by obtaining a set of points relating flowing bottom-hole pressures to oil production rates. The effects of several reservoir and fluid properties such as bubblepoint pressure, oil gravity, residual oil saturation, critical gas saturation, initial water saturation, porosity and absolute permeabilities on the calculated curves are investigated. Reservoir heterogeneity is included in the simulation model by introducing the concept of semi-variogram function. Finally, an attempt is made to converge the results into one simple model in order to get a new empirical IPR correlation for horizontal wells producing from heterogeneous solution gas drive reservoirs suitable for systems with different reservoir permeability. The new empirical IPR model was then compared to the published correlations and found to have a small and acceptable average absolute error of less than 2%.
Effects of inserting eight amino acid residues into the major lipoprotein on its assembly in the outer membrane of Escherichia coli (1983)

A DNA sequence consisting of 24 base pairs was inserted into the structural gene (lpp) coding for the major lipoprotein of the Escherichia coli outer membrane which was carried on a high-copy-number plasmid in which expression was regulated through a lac promoter-operator region. This modification resulted in the insertion of eight amino acid residues, Glu-Glu-Phe-Leu-Glu-Glu-Phe-Leu, between the glutamine residue at position 9 and the leucine residue at position 10 of the wild-type lipoprotein sequence. When production of the mutant lipoprotein was induced by a lac inducer, the cells became swollen, showed unusual morphology, and eventually lysed. When the membrane fraction was analyzed after the induction, the mutant lipoprotein was found to have been normally secreted across the cytoplasmic membrane and assembled in the outer membrane. This lipoprotein was modified with glycerol and palmitic acid and even formed the bound form, which was linked covalently to peptidoglycan. The major difference between the membrane-associated mutant lipoprotein and the wild-type lipoprotein was that the mutant lipoprotein became sensitive to trypsin treatment. These results indicate that the substantial alteration in mutant lipoprotein structure near the amino-terminal end does not interfere with modification of the amino-terminal cysteine residue or cleavage of the signal peptide by the prolipoprotein-specific signal peptidase. However, this mutant lipoprotein assembled in the outer membrane appears to have deleterious effects with respect to envelope structure and cellular morphology and viability.
Optical Waveguides in InGaAsP And InP by Metal Diffusion (1982)

Strip waveguides have been formed on semiconductor heterostructure planar waveguides by etching ridges to provide dielectric loading [1] or by the photoelastic effect [2] . Lateral guiding has also been produced in semiconductor lasers by various buried structures that require etching and regrowth. For the most part, these strip guides do not contain bends.