gebhart/patrepeval huggingface dataset:
Biosynthesis in Escherichia coli of sn-glycerol-3-phosphate, a precursor of phospholipid. Further kinetic characterization of wild type and feedback-resistant forms of the biosynthetic sn-glycerol-3-phosphate dehydrogenase. (1980)

Homogeneous wild type and feedback-resistant forms of the biosynthetic glycerol-3-phosphate dehydrogenase (NAD+) of Escherichia coli (EC 1.1.1.8)were employed for studies of substrate and inhibitor specificity.The phosphonate analog of dihydroxyacetone-P, 4-hydroxy-3-oxybutyl 1-phosphonate, and glycolaldehyde phosphate proved to be substrates of both enzymes.NADPH, NADH, and nicotinamide hypoxanthine dinucleotide were used as substrates about equally well by both enzymes.Both enzymes were inhibited to the same degree by a number of compounds which were competitive inhibitors with respect to NADPH.The enzymes were shown to have B-type stereospecificity for NADPH.All of these kinetic characterizations indicate that the active sites of the two enzymes are virtually identical.The phosphonate analog of glycerol-P, 3,4-dihydroxybutyl l-phosphonate, resembled glycerol-P in that it was a competitive inhibitor with respect to dihydroxyacetone-P and its Ki was greater than 10-fold higher for the feedback-resistant than the wild type glycerol-P dehydrogenase.The Ki values for ethylene glycol-P were similar (about 1.4 mM) for both enzymes.The Ki for the ethylene glycol-P
Pathologic Characteristics of GIST (2003)

위장관 간엽성 종양(mesenchymal tumor)
Exploring Lua for Concurrent Programming (2020)

The popularization of multi-core processors and of technologies such as hyper-threading demonstrates a fundamental change in the way processors have been evolving and also increases interest in concurrent programming, particularly as a means to improve software performance. However, concurrent programming is still considered complex, mostly due to difficulties in using the available programming models, which have been subject to recurring criticism. The increased interest in concurrency and the lack of proper models to support it stimulates the development of proposals aimed at providing alternative models for concurrent programming. In this paper, we explore some of Lua’s facilities to devise such a model, based on user threads and message passing. We also demonstrate why Lua was particularly well suited for this objective, describe the main characteristics of our model and present a library developed to implement it, along with results of a performance evaluation.
Multiparticle adhesive dynamics: Hydrodynamic recruitment of rolling leukocytes (2001)

The slow rolling motion of leukocytes along the walls of blood vessels mediated by specific receptor-ligand adhesion is important in inflammation and occurs in postcapillary venules over a wide range of wall shear stresses and vessel diameters. The ability of hydrodynamic collisions between cells to induce capture of free-stream leukocytes to a selectin-bearing surface under shear flow was studied experimentally by using a cell-free assay. It was found that carbohydrate-coated spherical beads, representing model leukocytes, tend to attach to the adhesive wall 4-5 cell diameters up- or downstream of a slowly rolling or stationary adhesive bead. A key feature of such "hydrodynamic recruitment" is that only glancing, indirect collisions occurring close to the plane will result in downstream attachment. A direct numerical simulation of cell capture and rolling that includes multiparticle hydrodynamic interactions is shown to reproduce the observed behavior accurately. The theory predicts that hydrodynamic recruitment will occur in the absence of buoyancy effects and over a range of shear rates, suggesting that the mechanism may be important in vivo. This theory is supported by measurements of leukocyte capture in vivo using the hamster cheek pouch model.
Cooperative strategies and capacity theorems for relay networks (2005)

Coding strategies that exploit node cooperation are developed for relay networks. Two basic schemes are studied: the relays decode-and-forward the source message to the destination, or they compress-and-forward their channel outputs to the destination. The decode-and-forward scheme is a variant of multihopping, but in addition to having the relays successively decode the message, the transmitters cooperate and each receiver uses several or all of its past channel output blocks to decode. For the compress-and-forward scheme, the relays take advantage of the statistical dependence between their channel outputs and the destination's channel output. The strategies are applied to wireless channels, and it is shown that decode-and-forward achieves the ergodic capacity with phase fading if phase information is available only locally, and if the relays are near the source node. The ergodic capacity coincides with the rate of a distributed antenna array with full cooperation even though the transmitting antennas are not colocated. The capacity results generalize broadly, including to multiantenna transmission with Rayleigh fading, single-bounce fading, certain quasi-static fading problems, cases where partial channel knowledge is available at the transmitters, and cases where local user cooperation is permitted. The results further extend to multisource and multidestination networks such as multiaccess and broadcast relay channels.
Phosphorylation and Activation of the DNA Binding Activity of Purified Stat1 by the Janus Protein-tyrosine Kinases and the Epidermal Growth Factor Receptor (1995)

The activation of Janus protein-tyrosine kinases (Jaks) and the subsequent phosphorylation and activation of latent signal transducers and activators of transcription (Stats) are common elements in signal transduction through the cytokine receptor superfamily. To assess the role and specificity of Jaks in Stat activation, we have utilized baculovirus expression systems to produce Stat1 and the Jaks. Co-expression of Stat1 with Tyk2, Jak1, or Jak2 resulted in the specific tyrosine phosphorylation of Stat1 at Tyr701, the residue phosphorylated in mammalian cells stimulated with interferon gamma. Alternatively, Stat1, purified to apparent homogeneity from insect cell extracts, was phosphorylated at Tyr701 in Jak immune complex kinase reactions. Phosphorylation of purified Stat1 was necessary and sufficient for the acquisition of DNA binding activity. The specificity in both systems was indicated by the inability of a Jak2 catalytically inactive mutant (Jak2-Glu882) or the Tec protein-tyrosine kinase to phosphorylate Stat1. However, immune complex-purified epidermal growth factor receptor was capable of phosphorylating purified Stat1 at Tyr701 and activating its DNA binding activity in in vitro reactions.
Multielectron Photoreduction of a Bridged Ruthenium Dimer, [(phen)2Ru(tatpp)Ru(phen)2][PF6]4:  Aqueous Reactivity and Chemical and Spectroelectrochemical Identification of the Photoproducts (2004)

The dinuclear ruthenium(II) complex [(phen)(2)Ru(tatpp)Ru(phen)(2)][PF(6)](4) (P) (where phen is 1,10-phenanthroline and tatpp is 9,11,20,22-tetraazatetrapyrido[3,2-a:2'3'-c:3' ',2' '-l:2' ",3' "]pentacene) is shown to accept up to four electrons and two protons on the central tatpp bridging ligand via a combination of stoichiometric chemical reductions and protonations and spectroelectrochemistry (SEC) in acetonitrile. The absorption spectra of seven distinct species related by reduction and/or protonation of the central tatpp ligand were obtained and the two sequential photoproducts obtained from visible irradiation of P in acetonitrile (with 0.25 M triethylamine (TEA)) thus identified as P(-) (singly reduced, nonprotonated P) and HP(-) (doubly reduced, monoprotonated P), respectively. Importantly, the photochemical activity is maintained in mixed water-acetonitrile (1:4) solutions under basic conditions, and the protonation state of the photoproducts is readily controlled by varying the solution pH between 8 and 12. Absorption spectra obtained by SEC under similar solvent conditions were virtually identical to those obtained photochemically, and thus the doubly reduced photoproducts were identified as P(2)(-) (pH 12), HP(-) (pH 10), and H(2)()P (pH 8). This last photoproduct, H(2)()P, is particularly promising with respect to solar hydrogen production in that it can be produced in the presence of water and its dehydrogenation under appropriate conditions could yield H(2) and regenerate P. A qualitative MO diagram is presented as a framework for understanding the observed optical transitions as a function of oxidation and protonation state.
Palifermin for management of treatment-induced oral mucositis in cancer patients (2009)

Oral mucositis (OM) remains a major side effect of various cancer therapies, which exacts a significant price in terms of morbidity and cost of care. Efforts aimed at prevention and/or therapy of OM have been largely unsuccessful. Few agents have shown efficacy, and even those were applicable to limited types of patients. The advent of small-molecule targeted agents opened new possibilities for intervention in the mucopathogenic processes induced by cancer therapies. One of these agents, recombinant human keratinocyte growth factor (KGF), has been studied extensively and has shown promising results in reducing chemotherapy induced OM. This drug's effects on stem cell engraftment, graft-versus-host disease and other treatment-induced morbidities remain undefined. In this article we evaluate the pre-clinical and clinical evidence and discuss the clinical applications of KGF as an adjunct therapeutic agent in oncology.
Continuous character control with low-dimensional embeddings (2012)

Interactive, task-guided character controllers must be agile and responsive to user input, while retaining the flexibility to be readily authored and modified by the designer. Central to a method's ease of use is its capacity to synthesize character motion for novel situations without requiring excessive data or programming effort. In this work, we present a technique that animates characters performing user-specified tasks by using a probabilistic motion model, which is trained on a small number of artist-provided animation clips. The method uses a low-dimensional space learned from the example motions to continuously control the character's pose to accomplish the desired task. By controlling the character through a reduced space, our method can discover new transitions, tractably precompute a control policy, and avoid low quality poses.
Image plane interaction techniques in 3D immersive environments (1997)

This paper presents a set of interaction techniques for use in headtracked immersive virtual environments. With these techniques, the user interacts with the 2D projections that 3D objects in the scene make on his image plane. The desktop analog is the use of a mouse to interact with objects in a 3D scene based on their projections on the monitor screen. Participants in an immersive environment can use the techniques we discuss for object selection, object manipulation, and user navigation in virtual environments.
Design of a thermal imaging diagnostic using 90-degree off-axis parabolic mirrors (2006)

Thermal imaging is an important, though challenging, diagnostic for shockwave experiments. Shock-compressed materials undergo transient temperature changes that cannot be recorded with standard (greater than ms response time) infrared detectors. A further complication arises when optical elements near the experiment are destroyed. We have designed a thermal-imaging system for studying shock temperatures produced inside a gas gun at Sandia National Laboratories. Inexpensive, diamond-turned, parabolic mirrors relay an image of the shocked target to the exterior of the gas gun chamber through a sapphire vacuum port. The 3000-5000-nm portion of this image is directed to an infrared camera which acquires a snapshot of the target with a minimum exposure time of 150 ns. A special mask is inserted at the last intermediate image plane, to provide dynamic thermal background recording during the event. Other wavelength bands of this image are split into high-speed detectors operating at 900-1700 nm and at 1700-3000 nm, for time-resolved pyrometry measurements. This system incorporates 90-degree, off-axis parabolic mirrors, which can collect low f/# light over a broad spectral range, for high-speed imaging. Matched mirror pairs must be used so that aberrations cancel. To eliminate image plane tilt, proper tip-to-tip orientation of the parabolic mirrors is required. If one parabolic mirror is rotated 180 degrees about the optical axis connecting the pair of parabolic mirrors, the resulting image is tilted by 60 degrees. Different focal-length mirrors cannot be used to magnify the image without substantially sacrificing image quality. This paper analyzes performance and aberrations of this imaging diagnostic.
Anticonvulsants: aspects of their mechanisms of action (2002)

An ideal anticonvulsant drug would prevent or inhibit excessive pathological neuronal discharge without interfering with physiological neuronal activity and without producing untoward effects. Such an ideal compound is not yet available. However, during the last few years several new anticonvulsants have appeared (e.g. vigabatrine, gabapentin, topiramate, lamotrigine, tiagabine, felbamate and oxcarbazepine) which may challenge the older, more established substances (i.e. phenytoin, benzodiazepines, phenobarbital, valproate, carbamazepine and ethosuximide). Interestingly, several of the old and new anticonvulsants are beneficial in the treatment of various psychiatric conditions (most notably mood disorders) as well as neuropathic pain. The reason these various drugs are effective in the treatment of such disparate clinical conditions is unknown. The answer may be that the neuronal dysfunctions underlying these conditions are similar in a mechanistic sense, but are manifested in different neurons/locations of the nervous system, or that the drugs possess several mechanisms of action that contribute in different ways to the favourable effect depending on the condition studied. Even though all these drugs inhibit excessive neuronal activity, this acute effect appears to be produced by several mechanisms, which fall into three major categories: (1) blockade of voltage-gated sodium channels; (2) indirect or direct enhancement of inhibitory gamma-aminobutyric acid [GABAergic] neurotransmission; or (3) inhibition of excitatory glutamatergic neurotransmission. Moreover, several of these drugs fall into more than one category, and it is often unclear which category is responsible for a given effect of a drug. It is plausible that some of the beneficial effects observed in the clinic can be explained by the secondary neural depressant mechanisms of action of these substances, whereas other benefits may be due to long-term neuroplastic effects, which may either be common or different across the various conditions treated.
Protein engineering of antibody binding sites: recovery of specific activity in an anti-digoxin single-chain Fv analogue produced in Escherichia coli. (1988)

A biosynthetic antibody binding site, which incorporated the variable domains of anti-digoxin monoclonal antibody 26-10 in a single polypeptide chain (Mr = 26,354), was produced in Escherichia coli by protein engineering. This variable region fragment (Fv) analogue comprised the 26-10 heavy- and light-chain variable regions (VH and VL) connected by a 15-amino acid linker to form a single-chain Fv (sFv). The sFv was designed as a prolyl-VH-(linker)-VL sequence of 248 amino acids. A 744-base-pair DNA sequence corresponding to this sFv protein was derived by using an E. coli codon preference, and the sFv gene was assembled starting from synthetic oligonucleotides. The sFv polypeptide was expressed as a fusion protein in E. coli, using a leader derived from the trp LE sequence. The sFv protein was obtained by acid cleavage of the unique Asp-Pro peptide bond engineered at the junction of leader and sFv in the fusion protein [(leader)-Asp-Pro-VH-(linker)-VL]. After isolation and renaturation, folded sFv displayed specificity for digoxin and related cardiac glycosides similar to that of natural 26-10 Fab fragments. Binding between affinity-purified sFv and digoxin exhibited an association constant [Ka = (3.2 +/- 0.9) x 10(7) M-1] that was about a factor of 6 smaller than that found for 26-10 Fab fragments [Ka = (1.9 +/- 0.2) x 10(8) M-1] under the same buffer conditions, consisting of 0.01 M sodium acetate, pH 5.5/0.25 M urea.
From association to alert—a revised approach to international signal analysis (1999)

From the inception of the WHO international drug monitoring programme, the main aim has been to detect signals of adverse reaction problems as early as possible. The Uppsala Monitoring Centre (UMC), is now in a better position to fulfil this mission. Using the latest technology, new tools have been developed which allow for rapid, robust and comprehensive data mining of the WHO database. Based on retrospective time scans made during the pilot phase the current threshold used is the 97.5% confidence level of difference from the generality of the database. To maximize the capacity for picking up signals, we intend to extend today's panel of expert consultants, as well as doing our own review. The new system includes an enhanced follow-up list of signals, a 're-signalling' procedure and a cumulative historical file of all drug-ADR associations. Already we produce some 50 signals per year, cisapride and tachycardia being an example of a controversial signal only recently accepted. With the addition of new tools for follow-up of important signals such as complex variable data mining techniques, and the combination of WHO ADR data with sales and prescription figures from the IMS, we will be able to provide more information that should benefit regulators, producers, prescribers, and most importantly, the users of medicines.
Liver Steatosis in Children With Chronic Hepatitis C (2006)

Steatosis is associated with BMI in children with chronic hepatitis C due mainly to genotype 1, and with no confounding hepatotoxic factors (alcohol or drugs). This may reflect its metabolic rather than viral origin and raise new issues in the management of children with hepatitis C.
Spectroscopy of Quantum Levels in Charge-Tunable InGaAs Quantum Dots (1994)

Imbedding self-assembled lens-shaped InGaAs quantum dots in a suitably designed field-effect-type GaAs/AlAs heterostructure allows us to charge the lowest discrete quantum levels in the dots with single electrons. Because of their small diameters of about 20 nm the Coulomb charging energy is significantly smaller than the quantization energies. We extract energy spacings of about 41 meV between the $s$-like ground state and the first excited $p$-like state from capacitance as well as infrared transmission spectroscopy at low temperatures and under application of high magnetic fields.
Stability of solitons in birefringent optical fibers II Arbitrary amplitudes (1988)

Propagation of short pulses in birefringent single-mode fibers is considered. Initial pulses are assumed to be linearly polarized at an arbitrary angle with respect to the polarization axes. The Kerr nonlinearity leads to a substantial interaction between the partial pulses in each of the two polarizations. When the amplitudes of the partial pulses are equal, it is found that above a certain amplitude threshold, whose size increases with birefringence, the two partial pulses lock together and travel as one unit. This unit can be a single soliton or, at higher amplitudes, a breather. At the same time, the central frequencies of both polarizations shift just far enough so that, if a rapid oscillation is ignored, their group velocities become identical. When the initial amplitudes are unequal, it is found as before that above a certain threshold one or more solitons emerge from the initial pulse. However, the breathers that appeared when the amplitudes were equal are unstable; they break up into two distinct solitons moving at different velocities when the amplitudes become slightly unequal. It is further shown that realistic fiber attenuation has little effect on these results. The numerical method used to obtain these results is described in detail.
Modulation of peripheral B cell tolerance by CD72 in a murine model (2008)

CD72 is required to maintain B cell anergy and functions as a regulator of peripheral B cell tolerance. Thus, altered CD72 expression may play a role during the development of systemic lupus erythematosus.
Bioenergetic studies in adult patients recovering from semi-starvation. (1985)

A model of energy-nitrogen balance developed in animals was adapted to the study of human bioenergetics. By creating balance conditions and steady-state formula infusion rates, each of the needed components of energy and nitrogen balance can now be measured with a high level of accuracy. A comprehensive description of energetic efficiency at the whole body level is possible using appropriate mathematical modeling. Key questions in human bioenergetics await these results, and our laboratory is currently undertaking these studies.