gebhart/patrepeval huggingface dataset:
Studies of NADP<sup>+</sup>-preferred secondary alcohol dehydrogenase from <i>Thermoanaerobium brockii</i> (1990)

Alcohol dehydrogenase has been purified from the cell-free preparation of Thermoanaerobium brockii to homogeneity, employing combined DEAE, Sephadex, and affinity chromatographic procedures. The enzyme is tetrameric having subunit molecular weight of 40.4 x 10(3). The purified alcohol dehydrogenase is capable of utilizing either NAD+ or NADP+ to oxidize primary and secondary alcohols, although it prefers NADP+ as the coenzyme and secondary alcohols as substrates. Inactivation of the enzymic activity by sensitized photooxidation and carboxymethylation implicates the presence of catalytically important histidine and cysteine residues. Kinetic studies indicate that Thermoanaerobium alcohol dehydrogenase catalyzes NADP(+)-linked oxidations of secondary alcohols by an ordered bi-bi mechanism with NADP+ as the leading reactant. The preference of the Thermoanaerobium enzyme for NADP+ is correlated with its low dissociation constants (KA and KiA) and high turnover rate (V/Et). The corresponding kinetic parameters also contribute to the preference of this enzyme for secondary alcohols.
Effects of anti-NKG2A antibody administration on leukemia and normal hematopoietic cells (2015)

Natural killer cells are key cells of the innate immune system. Natural killer cell receptor repertoires are diversified by a stochastic expression of killer-cell-immunoglobulin-like receptors and lectin-like receptors such as NKG2 receptors. All individuals harbor a subset of natural killer cells expressing NKG2A, the inhibitory checkpoint receptor for HLA-E. Most neoplastic and normal hematopoietic cells express HLA-E, the inhibitory ligand of NKG2A. A novel anti-human NKG2A antibody induced tumor cell death, suggesting that the antibody could be useful in the treatment of cancers expressing HLA-E. We found that immunodeficient mice, co-infused with human primary leukemia or Epstein-Barr virus cell lines and NKG2A(+) natural killer cells, pre-treated with anti-human NKG2A, were rescued from disease progression. Human NKG2A(+) natural killer cells reconstituted in immunodeficient mice after transplantation of human CD34(+) cells. These natural killer cells are able to kill engrafted human primary leukemia or Epstein-Barr virus cell lines by lysis after intraperitoneal administration of anti-human NKG2A. Thus, this anti-NKG2A may exploit the anti-leukemic action of the wave of NKG2A(+) natural killer cells recovering after hematopoietic stem cell transplants or adoptive therapy with natural killer cell infusions from matched or mismatched family donors after chemotherapy for acute leukemia, without the need to search for a natural killer cell alloreactive donor.
Folding of Insulin-like Growth Factor I Is Thermodynamically Controlled by Insulin-like Growth Factor Binding Protein (1994)

Insulin-like growth factor I (IGF-I) is thermodynamically unable to quantitatively form its native disulfides under reversible redox conditions in vitro [Hober et al. (1992) Biochemistry 31, 1749-1756]. These results prompted the question of how IGF-I may overcome this energetic problem in its folding in vivo. Here, we report that an IGF-I precursor, IGF-I-Ea, shows disulfide-exchange folding properties similar to those of mature IGF-I and, thus, is concluded not to overcome the identified folding problem of mature IGF-I. However, correct disulfide bonds are formed very efficiently when insulin-like growth factor binding protein 1 is added in equimolar amounts to IGF-I to the refolding mixture. On the basis of these results, we propose that one important function of at least one of the six homologous insulin-like growth factor binding proteins is to assist in the formation and maintenance of the native disulfides of IGF-I. To our knowledge, this is the first example where the folding of a mammalian protein or peptide in circulation has been demonstrated to be thermodynamically controlled by its binding protein. Speculatively, this could provide a mechanism to regulate the half-life of IGF-I in vivo by altering the interaction with insulin-like growth factor binding proteins.
NS398, a selective cyclooxygenase-2 inhibitor, induces apoptosis and down-regulates bcl-2 expression in LNCaP cells. (1998)

Cyclooxygenase (COX)-2, an inducible enzyme that catalyzes the formation of prostaglandins and other eicosanoids from arachidonic acid, is constitutively expressed in LNCaP human prostate cancer cell line. To evaluate the potential role of COX-2 in prostate cancer, LNCaP cells were treated with NS398, a selective COX-2 inhibitor, and the effects on cell viability and apoptosis were determined. NS398 treatment induced apoptosis in LNCaP cells in a time- and dose-dependent fashion. Treatment with 100 microM NS398 caused a down-regulation in bcl-2 protein expression, followed by chromatin condensation, chromosomal DNA fragmentation, and changes in nuclear morphology detected by 4,6-diamidino-2-phenylindole staining, DNA fragmentation assay, and terminal deoxynucleotidyl transferase-mediated UTP-biotin nick end-labeling assay. In contrast, NS398 treatment had no effect on either cell viability or nuclear function and morphology in human fetal prostate fibroblasts. These results demonstrate that NS398 induces apoptosis in LNCaP cells but not in human fetal prostate fibroblasts, and that this induction is associated with a decreased level of bcl-2 protein.
Mandatory role of proteinase-activated receptor 1 in experimental bladder inflammation (2007)

Our results reveal an overriding participation of PAR1 in bladder inflammation, provide a working model for the involvement of downstream signaling, and evoke testable hypotheses regarding the role of PARs in bladder inflammation. It remains to be determined whether or not mechanisms targeting PAR1 gene silencing or PAR1 blockade will ameliorate the clinical manifestations of cystitis.
Source-level timing annotation for fast and accurate TLM computation model generation (2010)

This paper proposes a source-level timing annotation method for generation of accurate transaction level models for software computation modules. While Transaction Level Modeling (TLM) approach is widely adopted now for system modeling and simulation speed improvement, timing estimation accuracy often is compromised. To have reliable and accurate estimation results at system level, we propose a timing annotation method for accurate TLM computation model generation considering processor architecture with pipeline and cache structures, which are challenging but critical to accurate timing estimation. The experiments show that our results are within 2% of cycle accurate results and the approach is three orders faster than conventional ISS approaches.
A WDM Passive Optical Network With Polarization-Assisted Multicast Overlay Control (2009)

We propose a novel wavelength-division-multiplexed passive optical network which supports simultaneous delivery of 10-Gb/s point-to-point downstream and upstream data as well as 10-Gb/s downstream multicast data. The multicast overlay control is achieved by a polarization-assisted scheme at the optical line terminal (OLT). A separate lightpath is provided for the downstream multicast differential phase-shift keying (DPSK) data without additional light sources. The upstream amplitude-shift keying signal at the optical network unit is superimposed onto the received multicast DPSK signal before being transmitted back to the OLT.
Scalable Genomic Assembly through Parallel <i>de Bruijn</i> Graph Construction for Multiple K-mers (2017)

Extraordinary progress in genome sequencing technologies has led to a tremendous increase in the number of sequenced genomes. However, biologists have run into a computational bottleneck to assemble large and complex genomes quickly, due to the lack of scalable and parallel de novo assembly algorithms. Among several approaches to assembly, the iterative de Bruijn graph (DBG) assemblers, such as IDBA-UD, generate high-quality assemblies by sequentially iterating from small to large k-values used in graph construction. However, this approach is time intensive because the creation of the graphs for increasing k-values proceeds sequentially. For example, with just eight k-values, graph construction takes 96% of the total time to assemble a metagenomic dataset with 33 million paired-end reads. In this paper, we propose ScalaDBG, which transforms the sequential process of DBG construction for a range of k values, to one where each graph is built independently and in parallel. We develop a novel mechanism whereby the graph for the higher k value can be "patched" with contigs generated from the graph with the lower k value. We show that for a variety of datasets our technique can assemble complex genomes much faster than IDBA-UD (6.7X faster for the most complex genome in our dataset) while maintaining the same accuracy for the assembled genome. Moreover, ScalaDBG's multi-level parallelism allows it to simultaneously leverage the power of mighty server machines by using all their cores and of compute clusters by scaling out.
An extension neural network based incremental MPPT method for a PV system (2011)

In this paper, a novel incremental conductance (INC) maximum power point tracking (MPPT) method based on extension neural network (ENN) is developed to make full use of photovoltaic (PV) array output power. The proposed method can adjust the step size to track the PV array's maximum power point (MPP) automatically. Compared with the conventional fixed step size INC and variable step size INC methods, the presented approach is able to effectively improve the dynamic response and steady state performance of a PV system simultaneously. A theoretical analysis and the design principle of the proposed method are described in detail. Some simulation results are performed to verify the effectiveness of the proposed ENN MPPT method.
CONTROLLABLE WAVELENGTH CHANNELS FOR MULTIWAVELENGTH BRILLOUIN BISMUTH/ERBIUM BASED FIBER LASER (2009)

Pada tugas akhir ini, diformulasikan model integer quadratic programming\ndalam menentukan keputusan optimal untuk masalah pemilihan supplier dan\npengendalian penyimpanan. Pengoptimalan tersebut diselesaikan menggunakan\nAlgoritma Branch and Bound berbasis Metode Karush Kuhn-Tucker untuk\nmenentukan keputusan supplier yang optimal dan penyimpanan yang optimal.\nPercobaan numerik diberikan untuk menganalisis model dengan multi-produk, multisupplier,\ndan multi-periode. Dari hasil percobaan tersebut, didapatkan supplier yang\noptimal untuk masing-masing jenis produk dan masing-masing periode serta jumlah\noptimal barang yang disimpan di gudang untuk masing-masing jenis produk dan\nmasing-masing periode. Keputusan optimal ini memberikan biaya total yang\nminimum untuk semua periode.\nKata kunci: Integer quadratic programming, Pemilihan Supplier, Pengendalian\nPenyimpanan, Metode Branch and Bound, Metode Karush Kuhn-Tucker
Population-Based Medication Reviews: A Descriptive Analysis of the Medication Issues Identified in a Medicare Not-for-Profit Prescription Discount Program (2004)

Iowa Priority Brown Bag Medication Reviews showed that individuals with fair/poor health, higher numbers of medications, and more chronic conditions were likely to have medication issues. Reviews generated discussions between physicians and patients, produced some medication changes, and helped individuals save money.
Learning Simplifications for Specific Target Audiences (2018)

Text simplification (TS) is a monolingual text-to-text transformation task where an original (complex) text is transformed into a target (simpler) text. Most recent work is based on sequence-to-sequence neural models similar to those used for machine translation (MT). Different from MT, TS data comprises more elaborate transformations, such as sentence splitting. It can also contain multiple simplifications of the same original text targeting different audiences, such as school grade levels. We explore these two features of TS to build models tailored for specific grade levels. Our approach uses a standard sequenceto-sequence architecture where the original sequence is annotated with information about the target audience and/or the (predicted) type of simplification operation. We show that it outperforms stateof-the-art TS approaches (up to 3 and 12 BLEU and SARI points, respectively), including when training data for the specific complex-simple combination of grade levels is not available, i.e. zero-shot learning.
Periodic Recurrence of Gangrenous Dermatitis Associated with <i>Clostridium Septicum</i> in a Broiler Chicken Operation (1996)

The association of gangrenous dermatitis (GD) of chickens with Clostridium septicum infection was well documented in the United States during the 1960s (Bickford AA: 1971, Proc 20th Western Poult Dis Conf, pp. 6, 7). At about the same time, GD was recognized as a source of considerable economic loss to broiler production operations in the United Kingdom and Australia. 1,3 Subsequently, the potentiating role of immunosuppression induced by infectious bursal disease virus (IBDV) and other viral agents was recognized. Reduction of losses caused by GD requires control procedures for IBDV and other immunosuppressive agents. Recent reports have suggested that there may be an increased incidence of the clostridial diseases of chickens in the United States. Among these diseases, GD associated with C. septicum is a major concern. At the California Veterinary Diagnostic Laboratory System (CVDLS), Turlock Branch, the diagnosis of this disease was once as frequent as 5% of all diagnostic cases (Bristow DL: 1971, Proc 20th Western Poult Dis Conf, p. 11). After producers implemented procedures to limit the effects of IBDV, the diagnosis of GD became a rare event in California. This report documents an unusual annual recurrence of C. septicum-associated GD over 3 consecutive years in a single house of a multiple-house broiler facility. The ranch involved in this report is situated on flat delta valley terrain and consists of 8 broiler houses. The houses are similar in design but differ in size. Three houses are 10,000 sq ft, 3 are 15,000 sq ft, and 2 are 17,500 sq ft. Feed sources, feed delivery systems, ventilation systems, and litter management procedures are uniform on the ranch. A single well serves as the water source for all houses, and hot-water brooding is practiced in all houses. The ranch is operated on a year-round all-in, all-out basis. On February 3, 1993, 7 dead 43-day-old broiler chickens were submitted from house 5 (15,000 sq ft) to CVDLS, Turlock Branch, for necropsy. Mortality in the house had increased suddenly to about 1% per day. Stocking density in all three 15,000-sq-ft buildings had been 19,000 chicks at placement. This density is approximately 8.5% higher than normal for these houses. Climatic conditions were normal for winter with characteristically high humidities and cool temperatures. Litter conditions in the house were described as old and wet. On January 18, 1994, a similar group of 6 dead broiler chickens was submitted from house 5. A sudden increase in mortality had occurred in this house only. The birds were
Effects of tumor necrosis factor on cell growth and expression of transferrin receptors in human fibroblasts. (1988)

Human recombinant tumor necrosis factor (TNF) stimulated the growth of confluent human fibroblasts (FS-4) in the presence of fetal calf serum. Epidermal growth factor (EGF) similarly stimulated cellular growth; however other mitogenic factors such as insulin, fibroblast growth factor, 12-O-tetradecanoyl-phorbol-12-acetate and Ca2+ ionophore A23187 did not. The growth-stimulating action of TNF was not synergistic with the activity of EGF in the presence of serum. TNF induced a rapid increase in the binding of transferrin to the cell surface, followed by a return to the basal level within 5 min. A similar increase in transferrin binding was observed in FS-4 cells exposed to EGF. In contrast, insulin caused a prolonged stimulation of transferrin binding. These results suggest that TNF and EGF generate similar or identical intracellular signals for cellular growth and the regulation of transferrin receptor expression.
Calibration Curves in Quantitative Ligand Binding Assays: Recommendations and Best Practices for Preparation, Design, and Editing of Calibration Curves (2017)

The accuracy of reported sample results is contingent upon the quality of the assay calibration curve, and as such, calibration curves are critical components of ligand binding and other quantitative methods. Regulatory guidance and lead publications have defined many of the requirements for calibration curves which encompass design, acceptance criteria, and selection of a regression model. However, other important aspects such as preparation and editing guidelines have not been addressed by health authorities. The goal of this publication is to answer many of the commonly asked questions and to present a consensus and the shared views of members of the ligand binding assay (LBA) community on topics related to calibration curves with focus on providing recommendations for the preparation and editing of calibration curves.
A new type of waveguide rotary switch (1953)

This note describes a new type of rotary waveguide switch which is capable of switching two receivers or two transmitters alternately to one aerial with a minimum of changeover time in the switching cycle. The switch is capable of high-speed operation and is particularly suitable for short centimetric wavelengths.
Self-Induced Instabilities in Nd:Y<sub>3</sub>Al<sub>5</sub>O<sub>12</sub>Ceramic Lasers (2005)

We systematically studied dynamic effects in Nd-doped Y 3 Al 5 O 12 (YAG) ceramic lasers having different Nd concentrations. A variety of dynamic instabilities, including square wave periodic pulsations, were found to take place due to the increased grain boundaries in highly-doped samples.
Temporal Query Processing using Spatially-Partitioned Method (1996)

In this paper, we propose a general spatiallypartitioned temporal operation model, called 3D-TOM, and partition-based join algorithms for various types of temporal join in the proposed model. The temporal operators addressed in this paper include overlap, precede, follow, and equal. Some factors which affect the performance of the proposed method are also discussed. 1 Introduction Conventional databases that reflect snapshots of the constantly evolving real world, are not appropriate for applications in which past and/or future data are also required. In these circumstances, what is needed is a database system that fully supports the storage and querying of information that varies over time. A Database that maintains past, present, and future data is called a temporal database[TCG + 93]. Research in temporal databases has largely focused on extensions of existing data models to handle temporal operations[Gar88]. An important aspect of these extensions is the introduction of new te...
Effects of Oral Alendronate on BMD in Adult Patients With Osteogenesis Imperfecta: A 3-Year Randomized Placebo-Controlled Trial (2006)

Oral alendronate increases BMD and increase nonsevere gastrointestinal adverse effects but does not modify the hearing loss in adult patients with osteogenesis imperfecta. More studies are needed to evaluate an effect on the fracture rate.
Diffusion-Weighted Intravoxel Incoherent Motion Imaging of Renal Tumors With Histopathologic Correlation (2012)

Intravoxel incoherent motion parameters fp and Dt can discriminate renal tumor subtypes. Perfusion fraction demonstrates good correlation with CIAUC60 and can assess degree of tumor vascularity without the use of exogenous contrast agent.
An Efficient Multi-Carrier Position-Based Packet Forwarding Protocol for Wireless Sensor Networks (2011)

Beaconless position-based forwarding protocols have recently evolved as a promising solution for packet forwarding in wireless sensor networks. However, as the node density grows, the overhead incurred in the process of relay selection grows significantly. As such, end-to-end performance in terms of energy and latency is adversely impacted. With the motivation of developing a packet forwarding mechanism that is tolerant to variation in node density, an alternative position-based protocol is proposed in this paper. In contrast to existing beaconless protocols, the proposed protocol is designed such that it eliminates the need for potential relays to undergo a relay selection process. Rather, any eligible relay may decide to forward the packet ahead, thus significantly reducing the underlying overhead. The operation of the proposed protocol is empowered by exploiting favorable features of orthogonal frequency division multiplexing (OFDM) at the physical layer. The end-to-end performance of the proposed protocol is evaluated against existing beaconless position-based protocols analytically and as well by means of simulations. The proposed protocol is demonstrated in this paper to be more efficient. In particular, it is shown that for the same amount of energy the proposed protocol transports one bit from source to destination much quicker.
OzBot and haptics: remote surveillance to physical presence (2009)

This paper reports on robotic and haptic technologies and capabilities developed for the law enforcement and defence community within Australia by the Centre for Intelligent Systems Research (CISR). The OzBot series of small and medium surveillance robots have been designed in Australia and evaluated by law enforcement and defence personnel to determine suitability and ruggedness in a variety of environments. Using custom developed digital electronics and featuring expandable data busses including RS485, I<sup>2</sup>C, RS232, video and Ethernet, the robots can be directly connected to many off the shelf payloads such as gas sensors, x-ray sources and camera systems including thermal and night vision. Differentiating the OzBot platform from its peers is its ability to be integrated directly with haptic technology or the 'haptic bubble' developed by CISR. Haptic interfaces allow an operator to physically 'feel' remote environments through position-force control and experience realistic force feedback. By adding the capability to remotely grasp an object, feel its weight, texture and other physical properties in real-time from the remote ground control unit, an operator's situational awareness is greatly improved through Haptic augmentation in an environment where remote-system feedback is often limited.
Community-based treatment of advanced HIV disease: introducing DOT-HAART (directly observed therapy with highly active antiretroviral therapy). (2001)

In 2000, acquired immunodeficiency syndrome (AIDS) overtook tuberculosis (TB) as the world's leading infectious cause of adult deaths. In affluent countries, however, AIDS mortality has dropped sharply, largely because of the use of highly active antiretroviral therapy (HAART). Antiretroviral agents are not yet considered essential medications by international public health experts and are not widely used in the poor countries where human immunodeficiency virus (HIV) takes its greatest toll. Arguments against the use of HAART have mainly been based on the high cost of medications and the lack of the infrastructure necessary for using them wisely. We re- examine these arguments in the setting of rising AIDS mortality in developing countries and falling drug prices, and describe a small community-based treatment programme based on lessons gained in TB control. With the collaboration of Haitian community health workers experienced in the delivery of home-based and directly observed treatment for TB, an AIDS-prevention project was expanded to deliver HAART to a subset of HIV patients deemed most likely to benefit. The inclusion criteria and preliminary results are presented. We conclude that directly observed therapy (DOT) with HAART, "DOT-HAART", can be delivered effectively in poor settings if there is an uninterrupted supply of high-quality drugs.