gebhart/patrepeval huggingface dataset:
The kinetic and equilibrium parameters of subunit association and gonadotropin dissociation. (1982)

The kinetics of subunit association (a + p -+ a$) and hormone dissociation (ap + a + p) have been determined for the glycoprotein hormones human choriogonadotropin (hCG), ovine lutropin (oLH), and porcine lutropin (pLH) at pH 6.8 and 37 "C.Each gonadotropin was studied at three concentrations ranging from 0.1 p~ to 8 p ~.The amounts of free a subunit and intact hormone were measured at various times and concentrations using tracer amounts of iodinated hormones (labeled at the a subunit) and low temperature (1 "C) polyacrylamide gel electrophoresis in the presence of sodium dodecyl sulfate.This method was validated by performing radioimmunoassays on individual gel slices.The average second order association rate constants for the subunits of hCG, oLH, and pLH were 70, 170, and 296 M" min", respectively.The dissociation of these three gonadotropins was also extremely slow and the measured half-times were 37, 11, and 46 days, respectively.Each hormone exhibited biphasic dissociation and the slowly dissociating component comprised the largest relative population (87 f 6%).The first order dissociation rate constants of this component were LO, 3.7, and 0.94 x min" for hCG, oLH, and pLH, respectively.The rate constants for the rapidly dissociating components were approximately 10fold higher.The intersubunit equilibrium dissociation constants (Kd) were experimentally determined and found to be 0.60 p~ (hCG), 0.42 ELM (oLH), and 0.06 ,UM (pLH).The kinetic results were also used to calculate the Kd of each hormone, with corrections being made for the two components of dissociation, and the results were, respectively, 0.46,0.42,and 0.07 p ~. Thus, the equilibrium and kinetic results are in excellent agreement.These Kd values are considerably higher than one would expect from the low physiological concentrations of these hormones in circulation.Hence, it appears that gonadotropin integrity in vivo is a kinetically regulated process since the half-life of hormone dissociation is much greater than the circulatory half-life.
A charging model for sessions on the Internet (2003)

A chargeable session on the Internet may consist of more than one underlying chargeable service. Typically there will be two, one at the network layer and one at the session layer. Since different applications can have different demands from the network, a generic charging scheme has to separate the service provided by the network from the service provided by an application/service provider. In this paper we propose a pricing model which is session-based and we look at the impact of this on real-time multimedia conferencing over the Internet. In this model, we are trying to allow for the optional integration of charging at the network layer with charging at the session layer, while keeping the underlying technologies still cleanly apart. This paper also highlights the fact that the main problem of pricing application on the Internet is not just a simple case of analyzing the most technically feasible pricing mechanism but also making the solution acceptable to users. We take the position that session-based pricing is easier for end users to accept and understand and show why this is the case in this paper.
Live Deduplication Storage of Virtual Machine Images in an Open-Source Cloud (2011)

Deduplication is an approach of avoiding storing data blocks with identical content, and has been shown to effectively reduce the disk space for storing multi-gigabyte virtual machine (VM) images. However, it remains challenging to deploy deduplication in a real system, such as a cloud platform, where VM images are regularly inserted and retrieved. We propose LiveDFS, a live deduplication file system that enables deduplication storage of VM images in an open-source cloud that is deployed under low-cost commodity hardware settings with limited memory footprints. LiveDFS has several distinct features, including spatial locality, prefetching of metadata, and journaling. LiveDFS is POSIX-compliant and is implemented as a Linux kernel-space file system. We deploy our LiveDFS prototype as a storage layer in a cloud platform based on OpenStack, and conduct extensive experiments. Compared to an ordinary file system without deduplication, we show that LiveDFS can save at least 40% of space for storing VM images, while achieving reasonable performance in importing and retrieving VM images. Our work justifies the feasibility of deploying LiveDFS in an open-source cloud.
Peroxisome Proliferator-Activated Receptor Genetic Polymorphisms and Nonalcoholic Fatty Liver Disease: Any Role in Disease Susceptibility? (2013)

Nonalcoholic fatty liver disease (NAFLD) defines a wide spectrum of liver diseases that extend from simple steatosis, that is, increased hepatic lipid content, to nonalcoholic steatohepatitis (NASH), a condition that may progress to cirrhosis with its associated complications. Nuclear hormone receptors act as intracellular lipid sensors that coordinate genetic networks regulating lipid metabolism and energy utilization. This family of transcription factors, in particular peroxisome proliferator-activated receptors (PPARs), represents attractive drug targets for the management of NAFLD and NASH, as well as related conditions such as type 2 diabetes and the metabolic syndrome. The impact on the regulation of lipid metabolism observed for PPARs has led to the hypothesis that genetic variants within the human PPARs genes may be associated with human disease such as NAFLD, the metabolic syndrome, and/or coronary heart disease. Here we review the available evidence on the association between PPARs genetic polymorphism and the susceptibility to NAFLD and NASH, and we provide a meta-analysis of the available evidence. The impact of PPAR variants on the susceptibility to NASH in specific subgroup of patients, and in particular on the response to therapies, especially those targeting PPARs, represents promising new areas of investigation.
Review: Nucleation in solutions revisited (2003)

Abstract Existing and new results in nucleation in solutions are outlined from a unified point of view. The thermodynamics of the process is considered and expressions are given for the supersaturation, the nucleation work and the size of the nucleus in homogeneous or heterogeneous nucleation. It is shown how the nucleation theorem can be used for a model‐independent determination of the nucleus size from experimental data. The mechanism and kinetics of nucleation are also considered and formulae are presented for the supersaturation dependence of the monomer attachment frequency and the stationary rate of homogeneous or heterogeneous nucleation. General expressions for the induction time and the critical supersaturation ratio for crystallization are given. An approximate formula is derived for estimating the width of the metastable zone with the help of data for the solubility of the substance crystallized. Existing experimental data are used for verification of the validity of some of the presented theoretical dependences.
The mouse as a model for human cardiovascular disease and hyperlipidemia (1994)

The mouse has been used as an experimental model for atherosclerosis research for only a short time; however, the sophisticated genetics of this species has resulted in a number of innovative approaches that are not possible with other models. The availability of inbred, congenic, recombinant inbred, and mutant strains has resulted in the discovery of a number of genes affecting atherosclerosis susceptibility. More importantly, the newer genetic technologies such as quantitative trait-loci mapping, transgenic mice, and gene-targeted mice are producing important insights into atherosclerosis. This review, focusing on murine models of cardiovascular disease and hyperlipidemia, will be divided into two parts: naturally occurring models and genetically engineered models.
The Genome of the Natural Genetic Engineer Agrobacterium tumefaciens C58 (2001)

The 5.67-megabase genome of the plant pathogen Agrobacterium tumefaciens C58 consists of a circular chromosome, a linear chromosome, and two plasmids. Extensive orthology and nucleotide colinearity between the genomes of A. tumefaciens and the plant symbiont Sinorhizobium meliloti suggest a recent evolutionary divergence. Their similarities include metabolic, transport, and regulatory systems that promote survival in the highly competitive rhizosphere; differences are apparent in their genome structure and virulence gene complement. Availability of the A. tumefaciens sequence will facilitate investigations into the molecular basis of pathogenesis and the evolutionary divergence of pathogenic and symbiotic lifestyles.
Electrochemical Processing of Carbon Dioxide (2008)

With respect to the negative role of carbon dioxide on our climate, it is clear that the time is ripe for the development of processes that convert CO(2) into useful products. The electroreduction of CO(2) is a prime candidate here, as the reaction at near-ambient conditions can yield organics such as formic acid, methanol, and methane. Recent laboratory work on the 100 A scale has shown that reduction of CO(2) to formate (HCO(2)(-)) may be carried out in a trickle-bed continuous electrochemical reactor under industrially viable conditions. Presuming the problems of cathode stability and formate crossover can be overcome, this type of reactor is proposed as the basis for a commercial operation. The viability of corresponding processes for electrosynthesis of formate salts and/or formic acid from CO(2) is examined here through conceptual flowsheets for two process options, each converting CO(2) at the rate of 100 tonnes per day.
Recent progress in optical current sensing techniques (1995)

This paper reviews recent developments in the field of current measurement which employ a wide range of optical and fiber optic techniques. Depending on the current sensing mechanisms involved and the sensing materials used, optical current sensors (OCSs) may be categorized into four main groups: (i) OCSs employing optical fiber as their sensing elements, (ii) OCSs using bulk glass to sense the current, (iii) OCSs using electro-optic hybrid sensing devices, and (iv) OCSs using magnetic field sensing devices. The operational modes of a variety of OCSs have been grouped and discussed, and several examples given. It can be seen that as a result of an intensive and wide ranging research effort using various approaches, substantial progress in the differing aspects of the optical current sensing techniques considered, such as the sensing material used, the configurations of sensing elements introduced, and the detection schemes adapted, has been achieved during the past years. An overall view of the field shows it to be as an active and exciting research area, highlighting several recently introduced and novel sensing materials and configurations which provide impressive results in this field of instrumentation. Examples of applications for the electric power industry are discussed more extensively.
Separate Basic Region Motifs within the Adeno-Associated Virus Capsid Proteins Are Essential for Infectivity and Assembly (2006)

Adeno-associated virus (AAV) is gaining momentum as a gene therapy vector for human applications. However, there remain impediments to the development of this virus as a vector. One of these is the incomplete understanding of the biology of the virus, including nuclear targeting of the incoming virion during initial infection, as well as assembly of progeny virions from structural components in the nucleus. Toward this end, we have identified four basic regions (BR) on the AAV2 capsid that represent possible nuclear localization sequence (NLS) motifs. Mutagenesis of BR1 ((120)QAKKRVL(126)) and BR2 ((140)PGKKRPV(146)) had minor effects on viral infectivity ( approximately 4- and approximately 10-fold, respectively), whereas BR3 ((166)PARKRLN(172)) and BR4 ((307)RPKRLN(312)) were found to be essential for infectivity and virion assembly, respectively. Mutagenesis of BR3, which is located in Vp1 and Vp2 capsid proteins, does not interfere with viral production or trafficking of intact AAV capsids to the nuclear periphery but does inhibit transfer of encapsidated DNA into the nucleus. Substitution of the canine parvovirus NLS rescued the BR3 mutant to wild-type (wt) levels, supporting the role of an AAV NLS motif. In addition, rAAV2 containing a mutant form of BR3 in Vp1 and a wt BR3 in Vp2 was found to be infectious, suggesting that the function of BR3 is redundant between Vp1 and Vp2 and that Vp2 may play a role in infectivity. Mutagenesis of BR4 was found to inhibit virion assembly in the nucleus of transfected cells. This affect was not completely due to the inefficient nuclear import of capsid subunits based on Western blot analysis. In fact, aberrant capsid foci were observed in the cytoplasm of transfected cells, compared to the wild type, suggesting a defect in early viral assembly or trafficking. Using three-dimensional structural analysis, the lysine- and arginine-to-asparagine change disrupts hydrogen bonding between these basic residues and adjacent beta strand glutamine residues that may prevent assembly of intact virions. Taken together, these data support that the BR4 domain is essential for virion assembly. Each BR was also found to be conserved in serotypes 1 to 11, suggesting that these regions are significant and function similarly in each serotype. This study establishes the importance of two BR motifs on the AAV2 capsid that are essential for infectivity and virion assembly.
Interleukin-13 receptor alpha 2 cooperates with EGFRvIII signaling to promote glioblastoma multiforme (2017)

The interleukin-13 receptor alpha2 (IL-13Rα2) is a cancer-associated receptor overexpressed in human glioblastoma multiforme (GBM). This receptor is undetectable in normal brain which makes it a highly suitable target for diagnostic and therapeutic purposes. However, the pathological role of this receptor in GBM remains to be established. Here we report that IL-13Rα2 alone induces invasiveness of human GBM cells without affecting their proliferation. In contrast, in the presence of the mutant EGFR (EGFRvIII), IL-13Rα2 promotes GBM cell proliferation in vitro and in vivo. Mechanistically, the cytoplasmic domain of IL-13Rα2 specifically binds to EGFRvIII, and this binding upregulates the tyrosine kinase activity of EGFRvIII and activates the RAS/RAF/MEK/ERK and STAT3 pathways. Our findings support the "To Go or To Grow" hypothesis whereby IL-13Rα2 serves as a molecular switch from invasion to proliferation, and suggest that targeting both receptors with STAT3 signaling inhibitor might be a therapeutic approach for the treatment of GBM.
Three-Dimensional Reconstruction of Blood Vessels from in vivo Color Doppler Optical Coherence Tomography Images (1999)

This study shows that color Doppler OCT is a potential tool for improving laser treatment of vascular disorders.
Heparin type IV collagen interactions: equilibrium binding and inhibition of type IV collagen self-assembly. (1988)

Interactions between type IV collagen and heparin were examined under equilibrium conditions with rotary shadowing, solid-phase binding assays, and affinity chromatography. With the technique of rotary shadowing and electron microscopy, heparin appeared as thin, short strands and bound to the following three sites: the NC1 domain, and in the helix, at 100 and 300 nm from the NC1 domain. By solid-phase binding assays the binding of [3H]heparin in solution to type IV collagen immobilized on a solid surface was found to be specific, since it was saturable and could be displaced by an excess of unlabeled heparin. Scatchard analysis indicated three classes of binding sites for heparin-type IV collagen interactions with dissociation constants of 3, 30, and 100 nM, respectively. Furthermore, by the solid-phase binding assays, the binding of tritiated heparin could be competed almost to the same extent by unlabeled heparin and chondroitin sulfate side chains. This finding indicates that chondroitin sulfate should also bind to type IV collagen. By affinity chromatography, [3H]heparin bound to a type IV collagen affinity column and was eluted with a linear salt gradient, with a profile exhibiting three distinct peaks at 0.18, 0.22, and 0.24 M KCl, respectively. This suggested that heparin-type IV collagen binding was of an electrostatic nature. Finally, the effect of the binding of heparin to type IV collagen on the process of self-assembly of this basement membrane glycoprotein was studied by turbidimetry and rotary shadowing. In turbidity experiments, the presence of heparin, even in small concentrations, drastically reduced maximal aggregation of type IV collagen which was prewarmed to 37 degrees C. By using the morphological approach of rotary shadowing, lateral associations and network formation by prewarmed type IV collagen were inhibited in the presence of heparin. Thus, the binding of heparin resulted in hindrance of assembly of type IV collagen, a process previously described for interactions between various glycosaminoglycans and interstitial collagens. Such regulation may influence the assembly of basement membranes and possibly modify functions. Furthermore, qualitative and quantitative changes of proteoglycans which occur in certain pathological conditions, such as diabetes mellitus, may alter molecular assembly and possibly permeability functions of several basement membranes.
Biological functions of hCG and hCG-related molecules (2010)

hCG has numerous functions. hCG promotes progesterone production by corpus luteal cells; promotes angiogenesis in uterine vasculature; promoted the fusion of cytotrophoblast cell and differentiation to make syncytiotrophoblast cells; causes the blockage of any immune or macrophage action by mother on foreign invading placental cells; causes uterine growth parallel to fetal growth; suppresses any myometrial contractions during the course of pregnancy; causes growth and differentiation of the umbilical cord; signals the endometrium about forthcoming implantation; acts on receptor in mother's brain causing hyperemesis gravidarum, and seemingly promotes growth of fetal organs during pregnancy. Hyperglycosylated hCG functions to promote growth of cytotrophoblast cells and invasion by these cells, as occurs in implantation of pregnancy, and growth and invasion by choriocarcinoma cells. hCG free beta-subunit is produced by numerous non-trophoblastic malignancies of different primaries. The detection of free beta-subunit in these malignancies is generally considered a sign of poor prognosis. The free beta-subunit blocks apoptosis in cancer cells and promotes the growth and malignancy of the cancer. Pituitary hCG is a sulfated variant of hCG produced at low levels during the menstrual cycle. Pituitary hCG seems to mimic luteinizing hormone actions during the menstrual cycle.
Commercial Extracellular Matrix Scaffolds for Rotator Cuff Tendon Repair (2006)

Our data demonstrate chemical and mechanical differences among the four commercial extracellular matrices that we evaluated. Probably, the source (dermis or small intestine submucosa), species (human, porcine, or bovine), age of the donor (fetal or adult), and processing of these matrices all contribute to the unique biophysical properties of the delivered product. The biochemical composition of commercial extracellular matrices is similar to that of tendon. However, the elastic moduli of these materials are an order of magnitude lower than that of tendon, suggesting a limited mechanical role in augmentation of tendon repair.
StellaTUM: current consensus and discussion on pancreatic stellate cell research (2011)

The field of pancreatic stellate cell (PSC) biology is very young, as the essential in-vitro tools to study these cells (ie, methods to isolate and culture PSC) were only developed as recently as in 1998. Nonetheless, there has been an exponential increase in research output in this field over the past decade, with numerous research groups around the world focusing their energies into elucidating the biology and function of these cells. It is now well established that PSC are responsible for producing the stromal reaction (fibrosis) of two major diseases of the pancreas—chronic pancreatitis and pancreatic cancer. Despite exponentially increasing data, the methods for studying PSC remain variable. Although within individual laboratories methods are consistent, different methodologies used by various research groups make it difficult to compare results and conclusions. This article is not a review article on the functions of PSC. Instead, members of the Pancreatic Star Alliance (http://www.pancreaticstaralliance.com) discuss here and consolidate current knowledge, to outline and delineate areas of consensus or otherwise (eg, with regard to methodological approaches) and, more importantly, to identify essential directions for future research.
IGF-I treatment in adults with type 1 diabetes: effects on glucose and protein metabolism in the fasting state and during a hyperinsulinemic-euglycemic amino acid clamp. (2000)

Type 1 diabetes is associated with abnormalities of the growth hormone (GH)-IGF-I axis. Such abnormalities include decreased circulating levels of IGF-I. We studied the effects of IGF-I therapy (40 microg x kg(-1) x day(-1)) on protein and glucose metabolism in adults with type 1 diabetes in a randomized placebo-controlled trial. A total of 12 subjects participated, and each subject was studied at baseline and after 7 days of treatment, both in the fasting state and during a hyperinsulinemic-euglycemic amino acid clamp. Protein and glucose metabolism were assessed using infusions of [1-13C]leucine and [6-6-2H2]glucose. IGF-I administration resulted in a 51% rise in circulating IGF-I levels (P < 0.005) and a 56% decrease in the mean overnight GH concentration (P < 0.05). After IGF-I treatment, a decrease in the overnight insulin requirement (0.26+/-0.07 vs. 0.17+/-0.06 U/kg, P < 0.05) and an increase in the glucose infusion requirement were observed during the hyperinsulinemic clamp (approximately 67%, P < 0.05). Basal glucose kinetics were unchanged, but an increase in insulin-stimulated peripheral glucose disposal was observed after IGF-I therapy (37+/-6 vs. 52+/-10 micromol x kg(-1) x min(-1), P < 0.05). IGF-I administration increased the basal metabolic clearance rate for leucine (approximately 28%, P < 0.05) and resulted in a net increase in leucine balance, both in the basal state and during the hyperinsulinemic amino acid clamp (-0.17+/-0.03 vs. -0.10+/-0.02, P < 0.01, and 0.25+/-0.08 vs. 0.40+/-0.06, P < 0.05, respectively). No changes in these variables were recorded in the subjects after administration of placebo. These findings demonstrated that IGF-I replacement resulted in significant alterations in glucose and protein metabolism in the basal and insulin-stimulated states. These effects were associated with increased insulin sensitivity, and they underline the major role of IGF-I in protein and glucose metabolism in type 1 diabetes.