gebhart/patrepeval huggingface dataset:
Involvement of 70-kD heat-shock proteins in peroxisomal import. (1994)

This report describes the involvement of 70-kD heat-shock proteins (hsp70) in the import of proteins into mammalian peroxisomes. Employing a microinjection-based assay (Walton, P. A., S. J. Gould, J. R. Feramisco, and S. Subramani. 1992. Mol. Cell Biol. 12:531-541), we demonstrate that proteins of the hsp70 family were associated with proteins being imported into the peroxisomal matrix. Import of peroxisomal proteins could be inhibited by coinjection of antibodies directed against the constitutive hsp70 proteins (hsp73). In a permeabilized-cell assay (Wendland and Subramani. 1993. J. Cell Biol. 120:675-685), antibodies directed against hsp70 proteins were shown to inhibit peroxisomal protein import. Inhibition could be overcome by the addition of exogenous hsp70 proteins. Purified rat liver peroxisomes were shown to have associated hsp70 proteins. The amount of associated hsp70 was increased under conditions of peroxisomal proliferation. Furthermore, proteinase protection assays indicated that the hsp70 molecules were located on the outside of the peroxisomal membrane. Finally, the process of heat-shocking cells resulted in a considerable delay in the import of peroxisomal proteins. Taken together, these results indicate that heat-shock proteins of the cytoplasmic hsp70 family are involved in the import of peroxisomal proteins.
Biomaterials: Historical Overview and Current Directions (2004)

Similarly, the National Institutes of Health consensus development conference of 1982 deﬁned a biomaterial as “any substance other than a drug, or combination of substances, synthetic or natural in origin which can be used for any period of time as a whole or as a part of the system that treats, augments, or replaces any tissue, organ or function of the body.”
Crustal development in the terrestrial planets (1985)

The development of planetary crusts may be divided into primary, resulting from melting during accretion, and secondary crusts developed by partial melting from planetary mantles. The Mercurian crust is probably primary with no compelling evidence of later basaltic extrusions. Reflectance spectral evidence for the existence Fe2(+) is equivocal. The Viking Lander XRF data on Mars indicate basaltic material at both sites 4,000 km apart. Surface aeolian processes would be expected to provide a homogeneous average of the crust, but no evidence of more siliceous material is present. This conclusion is weakly supported by the Russian gamma ray data. No evidence for granite appears from the Russian Venera XRF data which indicates MORB-type and alkali basalt (4% K2O) surface compositions. The highlands of Ishtar Terra and Aphrodite probably owe their elevation to tectonic processes rather than compositional effects. Venus may thus resemble the early Archean Earth. The terrestrial granitic continental crust is a product of episodic multiple partial melting events, probably a consequence of the presence of surface water.
Benchmarking cloud serving systems with YCSB (2010)

While the use of MapReduce systems (such as Hadoop) for large scale data analysis has been widely recognized and studied, we have recently seen an explosion in the number of systems developed for cloud data serving. These newer systems address "cloud OLTP" applications, though they typically do not support ACID transactions. Examples of systems proposed for cloud serving use include BigTable, PNUTS, Cassandra, HBase, Azure, CouchDB, SimpleDB, Voldemort, and many others. Further, they are being applied to a diverse range of applications that differ considerably from traditional (e.g., TPC-C like) serving workloads. The number of emerging cloud serving systems and the wide range of proposed applications, coupled with a lack of apples-to-apples performance comparisons, makes it difficult to understand the tradeoffs between systems and the workloads for which they are suited. We present the "Yahoo! Cloud Serving Benchmark" (YCSB) framework, with the goal of facilitating performance comparisons of the new generation of cloud data serving systems. We define a core set of benchmarks and report results for four widely used systems: Cassandra, HBase, Yahoo!'s PNUTS, and a simple sharded MySQL implementation. We also hope to foster the development of additional cloud benchmark suites that represent other classes of applications by making our benchmark tool available via open source. In this regard, a key feature of the YCSB framework/tool is that it is extensible--it supports easy definition of new workloads, in addition to making it easy to benchmark new systems.
Betulinic acid-induced mitochondria-dependent cell death is counterbalanced by an autophagic salvage response (2014)

Betulinic acid (BetA) is a plant-derived pentacyclic triterpenoid that exerts potent anti-cancer effects in vitro and in vivo. It was shown to induce apoptosis via a direct effect on mitochondria. This is largely independent of proapoptotic BAK and BAX, but can be inhibited by cyclosporin A (CsA), an inhibitor of the permeability transition (PT) pore. Here we show that blocking apoptosis with general caspase inhibitors did not prevent cell death, indicating that alternative, caspase-independent cell death pathways were activated. BetA did not induce necroptosis, but we observed a strong induction of autophagy in several cancer cell lines. Autophagy was functional as shown by enhanced flux and degradation of long-lived proteins. BetA-induced autophagy could be blocked, just like apoptosis, with CsA, suggesting that autophagy is activated as a response to the mitochondrial damage inflicted by BetA. As both a survival and cell death role have been attributed to autophagy, autophagy-deficient tumor cells and mouse embryo fibroblasts were analyzed to determine the role of autophagy in BetA-induced cell death. This clearly established BetA-induced autophagy as a survival mechanism and indicates that BetA utilizes an as yet-undefined mechanism to kill cancer cells.
The cDNA of the neutrophil antibiotic Bac5 predicts a pro-sequence homologous to a cysteine proteinase inhibitor that is common to other neutrophil antibiotics. (1993)

Bac5 is a 5-kDa proline- and arginine-rich antibiotic, stored as inactive precursor (proBac5) in the large granules of bovine neutrophils. A full-length cDNA encoding the precursor form of Bac5 has been cloned. The encoded protein (pre-proBac5) has a calculated mass of 20,031 Da and a pI of 9.21. This comprises a putative signal peptide of 29 amino acid residues and a 101-residue pro-sequence that precede the mature antibiotic. The pro-sequence is acidic and may neutralize the highly cationic Bac5, thus accounting for the inactivation of the antibiotic activity observed in in vitro experiments. The structure of mature Bac5 agrees closely with the amino acid sequence previously determined, with an additional tripeptide tail predicting carboxyl-terminal amidation. A valyl residue is deduced at the cleavage site for the proteolytic maturation of proBac5, consistent with a previous observation showing elastase as the enzyme involved in this processing step. The region upstream of Bac5 reveals high identity to corresponding regions of two neutrophil antimicrobial polypeptides, CAP18 from rabbit and bovine indolicidin. The COOH-terminal sequences of these antibiotics are completely unrelated. The proregion also exhibits remarkable similarity to pig cathelin, an inhibitor of cathepsin L, indicating a common evolutionary origin.
Performance analysis of HEVC-based intra coding for still image compression (2012)

Preliminary performance comparisons between the current test model encoder of the upcoming high efficiency video coding (HEVC) standard and an H.264/AVC High Profile conforming encoder report average bit-rate savings of about 40% and 25% for a random-access and an all-intra configuration, respectively. Even though H.264/AVC and HEVC are primarily designed for video coding applications, it might be interesting to find out how their corresponding intra-coding tools perform when applied to still images, especially when compared to current state-of-the-art still image coding standards. To this end, we evaluated the intra-only coding modes of HEVC and H.264/AVC together with popular image-coding standards like JPEG, JPEG 2000, and JPEG XR as well as the proprietary WebP scheme. By using a representative test set of photographic still images, we obtained a clear ranking in terms of objective coding performance with average bit-rate savings in the range of 17-44% for HEVC intra-only coding relative to all other competing coding schemes.
A switchable light-input, light-output system modelled and constructed in yeast (2009)

Our model, methods and materials together constitute a novel system for a eukaryotic host with the potential to convert a dynamic pattern of light input into a predictable gene expression response. This system could be applied for the regulation of genetic networks - both known and synthetic.
Mutant recombinant serpins as highly specific inhibitors of human kallikrein 14 (2006)

The reactive center loop (RCL) of serpins plays an essential role in the inhibition mechanism acting as a substrate for their target proteases. Changes within the RCL sequence modulate the specificity and reactivity of the serpin molecule. Recently, we reported the construction of alpha1-antichymotrypsin (ACT) variants with high specificity towards human kallikrein 2 (hK2) [Cloutier SM, Kündig C, Felber LM, Fattah OM, Chagas JR, Gygi CM, Jichlinski P, Leisinger HJ & Deperthes D (2004) Eur J Biochem271, 607-613] by changing amino acids surrounding the scissile bond of the RCL and obtained specific inhibitors towards hK2. Based on this approach, we developed highly specific recombinant inhibitors of human kallikrein 14 (hK14), a protease correlated with increased aggressiveness of prostate and breast cancers. In addition to the RCL permutation with hK14 phage display-selected substrates E8 (LQRAI) and G9 (TVDYA) [Felber LM, Borgoño CA, Cloutier SM, Kündig C, Kishi T, Chagas JR, Jichlinski P, Gygi CM, Leisinger HJ, Diamandis EP & Deperthes D (2005) Biol Chem386, 291-298], we studied the importance of the scaffold, serpins alpha1-antitrypsin (AAT) or ACT, to confer inhibitory specificity. All four resulting serpin variants ACT(E8), ACT(G9), AAT(E8) and AAT(G9) showed hK14 inhibitory activity and were able to form covalent complex with hK14. ACT inhibitors formed more stable complexes with hK14 than AAT variants. Whereas E8-based inhibitors demonstrated a rather relaxed specificity reacting with various proteases with trypsin-like activity including several human kallikreins, the two serpins variants containing the G9 sequence showed a very high selectivity for hK14. Such specific inhibitors might prove useful to elucidate the biological role of hK14 and/or its implication in cancer.
Neuroregulatory and Neuropathological Actions of the Ether-Phospholipid Platelet-Activating Factor (1988)

Platelet-activating factor (PAF) is a naturally occurring phospholipid that serves as a critical mediator in diverse biological and pathophysiological processes. In this study of the interactions of PAF with neuronal cells, it was found that PAF increased the intracellular levels of free calcium ions in cells of the clones NG108-15 and PC12. The increase was dependent on extracellular calcium and was inhibited by the antagonistic PAF analog CV-3988 and by the calcium-influx blockers prenylamine and diltiazem. A functional consequence of this interaction was revealed by measuring a PAF-elicited, Ca2+-dependent secretion of adenosine triphosphate from PC12 cells. Exposure of NG108-15 cells for 3 to 4 days to low concentrations of PAF induced neuronal differentiation; higher concentrations were neurotoxic. Thus, by influencing Ca2+ fluxes, PAF may play a physiological role in neuronal development and a pathophysiological role in the degeneration that occurs when neurons are exposed to circulatory factors as a result of trauma, stroke, or spinal cord injury.
“True” Antiandrogens—Selective Non-Ligand-Binding Pocket Disruptors of Androgen Receptor–Coactivator Interactions: Novel Tools for Prostate Cancer (2012)

Prostate cancer (PCa) therapy typically involves administration of "classical" antiandrogens, competitive inhibitors of androgen receptor (AR) ligands, dihydrotestosterone (DHT) and testosterone (tes), for the ligand-binding pocket (LBP) in the ligand-binding domain (LBD) of AR. Prolonged LBP-targeting leads to resistance, and alternative therapies are urgently required. We report the identification and characterization of a novel series of diarylhydrazides as selective disruptors of AR interaction with coactivators through application of structure and ligand-based virtual screening. Compounds demonstrate full ("true") antagonism in AR with low micromolar potency, selectivity over estrogen receptors α and β and glucocorticoid receptor, and partial antagonism of the progesterone receptor. MDG506 (5) demonstrates low cellular toxicity in PCa models and dose responsive reduction of classical antiandrogen-induced prostate specific antigen expression. These data provide compelling evidence for such non-LBP intervention as an alternative approach or in combination with classical PCa therapy.
Groups II and III Metabotropic Glutamate Receptors Differentially Modulate Brief and Prolonged Nociception in Primate STT Cells (2000)

The heterogeneous family of G-protein-coupled metabotropic glutamate receptors (mGluRs) provides excitatory and inhibitory controls of synaptic transmission and neuronal excitability in the nervous system. Eight mGluR subtypes have been cloned and are classified in three subgroups. Group I mGluRs can stimulate phosphoinositide hydrolysis and activate protein kinase C whereas group II (mGluR2 and 3) and group III (mGluR4, 6, 7, and 8) mGluRs share the ability to inhibit cAMP formation. The present study examined the roles of groups II and III mGluRs in the processing of brief nociceptive information and capsaicin-induced central sensitization of primate spinothalamic tract (STT) cells in vivo. In 11 anesthetized male monkeys (Macaca fascicularis), extracellular recordings were made from 21 STT cells in the lumbar dorsal horn. Responses to brief (15 s) cutaneous stimuli of innocuous (brush), marginally and distinctly noxious (press and pinch, respectively) intensity were recorded before, during, and after the infusion of group II and group III mGluR agonists into the dorsal horn by microdialysis. Different concentrations were applied for at least 20 min each (at 5 microliter/min) to obtain cumulative concentration-response relationships. Values in this paper refer to the drug concentrations in the microdialysis fibers; actual concentrations in the tissue are about three orders of magnitude lower. The agonists were also applied at 10-25 min after intradermal capsaicin injection. The group II agonists (2S,1'S,2'S)-2-(carboxycyclopropyl)glycine (LCCG1, 1 microM-10 mM, n = 6) and (-)-2-oxa-4-aminobicyclo[3.1.0]hexane-4, 6-dicarboxylate (LY379268; 1 microM-10 mM, n = 6) had no significant effects on the responses to brief cutaneous mechanical stimuli (brush, press, pinch) or on ongoing background activity. In contrast, the group III agonist L(+)-2-amino-4-phosphonobutyric acid (LAP4, 0. 1 microM-10 mM, n = 6) inhibited the responses to cutaneous mechanical stimuli in a concentration-dependent manner, having a stronger effect on brush responses than on responses to press and pinch. LAP4 did not change background discharges significantly. Intradermal injections of capsaicin increased ongoing background activity and sensitized the STT cells to cutaneous mechanical stimuli (ongoing activity > brush > press > pinch). When given as posttreatment, the group II agonists LCCG1 (100 microM, n = 5) and LY379268 (100 microM, n = 6) and the group III agonist LAP4 (100 microM, n = 6) reversed the capsaicin-induced sensitization. After washout of the agonists, the central sensitization resumed. Our data suggest that, while activation of both group II and group III mGluRs can reverse capsaicin-induced central sensitization, it is the actions of group II mGluRs in particular that undergo significant functional changes during central sensitization because they modulate responses of sensitized STT cells but have no effect under control conditions.
Three-dimensional microplate-enhanced alveolar ridge augmentation--an alternative to nerve transposition. (1997)

The placement of endosseous implants in the atrophic posterior mandible has presented a challenge to the surgeon and restorative dentist. Traditional procedures either require nerve transposition or utilization of implants placed at less than favorable angles. A technique is presented for the three-dimensional augmentation of the atrophic alveolar ridge utilizing microplate-enhanced guided bone regeneration technology. The applications of this technique in other intraoral and extraoral sites are currently under investigation by the authors.
ATP- and Adenosine-Mediated Signaling in the Central Nervous System: Adenosine Receptor Activation by ATP Through Rapid and Localized Generation of Adenosine by Ecto-nucleotidases (2004)

Extracellular ATP is now recognized as a neurotransmitter or neuromodilator in the nervous system, producing diverse physiological effects by activating multiple P2 receptors. Although P2-receptor signaling is terminated by hydrolysis of ATP by the ecto-nucleotidase cascade, such a metabolic step leads to adenosine generation, thereby initiating adenosine (P1)-receptor activation. Because most cells and tissues co-express P1 and P2 receptors, ecto-nucleotidase on target tissues, especially enzymes catalyzing adenosine formation, are determinants of the cellular response to ATP. Ecto-5'-nucleotidase (E-5'-NT) has been considered to play a principal role in conversion of AMP to adenosine. In addition to E-5'-NT, we have recently demonstrated that ecto-alkaline phosphatase is also involved in ATP-induced P1-receptor activation through a rapid and localized adenosine production on the membrane surface. In this minireview, we describe the pharmacological profile of ecto-nucleotidase-dependent P1-receptor activation by ATP and molecular bases of preferential delivery of metabolically generated adenosine to P1 receptors. Several lines of evidence suggest that the close association between ecto-nucleotidases and P1 receptors may constitute a functional receptor for extracellular ATP, and some physiological responses to ATP would occur through this mechanism.
Freezing Resistance of Overwintering Buds of Four Perennial Weeds (1988)

The freezing resistance of overwintering buds of four perennial weed species was evaluated in artificial freezing experiments conducted in the winters of 1986 and 1987. Survival, dry weight of surviving shoots, and number of shoots produced/surviving section were determined at −4, −8, −12, −16, and −20 C for Canada thistle roots, leafy spurge roots, leafy spurge crowns, perennial sowthistle roots, and quackgrass rhizomes. The temperature required to reduce survival (LT 50 ) and total dry weight (GR 50 ) by 50% was determined. The response to freezing temperatures varied among species and in some cases between years. The LT 50 was −7, −13, colder than −20, −17, and colder than −20, and the GR 50 was −5, −11, −14, −15, and −13 for Canada thistle roots, leafy spurge roots, leafy spurge crowns, perennial sowthistle roots, and quackgrass rhizomes, respectively. The relative susceptibility to freezing among species appears to be directly related to the depth at which the overwintering buds generally are located.
H-2K mutation controls immune response phenotype of autoimmune thyroiditis. Critical expression of mutant gene product in both thymus and thyroid glands. (1980)

Autoimmune thyroiditis (EAT) can be induced by immunizing mice against mouse thyroglobulin. A gene critical to the phenotypical expression of EAT was mapped to the H-2K locus by studying B6 mice and its mutant strain B6.H-2ba. To identify organs in which expression of the gene was decisive for the EAT phenotype, we transplanted thyroid or irradiated thymus glands into various strains of normal mice or thymusless nude mice. We found that the pathophysiology of EAT was controlled by the expression of specific H-2 genes in both the target thyroid gland and the thymus gland.
Influence of Energy Deficiency on the Insulin-like Growth Factor I Axis in a Military Training Program (2004)

The aim of this study was to determine wether continuous heavy physical activities as well as lack of food and sleep during military training (three weeks of conditioning followed by a five-day combat course) alter serum concentrations of IGF-I and/or its binding proteins, evaluating the relationship to metabolic changes. Before and after training, we measured serum levels of both total and free IGF-I, IGFBP-1 and IGFBP-3 as well as plasma levels of branched-chain amino acids (valine, leucine and isoleucine) and glucose from 26 cadets (21 +/- 2 yr). Total and free IGF-I levels were decreased after training from 228 +/- 12 to 160 +/- 7 ng/ml and from 0.80 +/- 0.08 to 0.52 +/- 0.06 ng/ml, p < 0.001 respectively) as well as IGFBP-3 (p < 0.001), while IGFBP-1 levels were increased (p < 0.001). BCAA levels were decreased from 245.4 +/- 7.5 to 215.9 +/- 5.1 micromol/l, p < 0.001, while those of glucose remained unchanged. There were correlations between changes in total IGF-I and IGFBP-3 (p < 0.05) and between free IGF-I and IGFBP-1 (p < 0.01). Several correlations appeared between changes in all the components of the IGF-I axis and branched-chain amino acids. We concluded that responses of the IGF-I system during an intense training could represent an adaptative response to the encountered energy deficiency, resulting a diversion of substrate from growth to acute metabolic needs.
Transmit diversity schemes for broadband mobile communication systems (2002)

This paper considers the problem of incorporating orthogonal space-time block coding in broadband wireless communication systems operating in rapidly-varying high delay-spread channels. We propose simple time-domain transmission schemes for allowing the space-time encoding and decoding processes to occur completely in the frequency domain of broadband single-carrier systems. We also propose receiver-processing techniques for mitigating the loss of orthogonality caused by rapidly-varying channels. The first receiver technique mitigates the effects of channel variation across the symbols of a coding interval. With more than one receive antenna, the second technique has the ability to mitigate the effects of channel variations occurring within an FFT interval in frequency-domain processed single-carrier systems. Simulation results are presented to verify the effectiveness of the proposed algorithms in OFDM and single carrier systems.
A multimedia self-service terminal with conferencing functions (2002)

We developed a new platform for personal computer based self-service terminals with multimedia conferencing functions in order to provide networked multimedia capability and face-to-face interface. The platform is based on extending our desktop conferencing system called ConverStation/2. It provides ITU-T H.320 motion video audio communication, and shared chalkboard function between a self-service terminal and an operator terminal. It also provides scanned image data transmission for browsing and co-editing of images between a customer and an operator. We clearly separate the platform with application modules, by providing a string command interface between them; we enhanced our conferencing features to meet the requirements of self-service applications. The major new features include: 1) asymmetric operation and user interface of a shared chalkboard; 2) dynamic line connection/disconnection control, and 3) dynamic media (video/audio/data) control on ISDN communication. With these conferencing functions, more complex services such as consultation can be provided through self-service terminals.