gebhart/patrepeval huggingface dataset:
Treatment of central nervous system inflammation with inhibitors of basement membrane degradation (1998)

Currently available anti-inflammatory drugs for the treatment of multiple sclerosis (MS) and other inflammatory diseases are generally inadequate, with disease progression not being arrested by the treatments and undesirable side effects posing problems. In response to these deficiencies our laboratories have, over the past 10 years, been developing novel drugs that interfere with the entry of leucocytes into inflammatory sites by inhibiting their passage through the subendothelial basement membrane (BM). This review initially summarizes evidence supporting the hypothesis that the subendothelial BM is a major barrier to the accumulation of leucocytes in inflammatory sites. An important point that has emerged is that breaching of the BM is probably a cooperative process, involving activation- and cytokine-induced degradative enzymes contributed by leucocytes, endothelial cells and platelets. The review then discusses the properties of three separate classes of anti-inflammatory compounds we have developed, namely sulfated polysaccharides/oligosaccharides, phosphosugars, and castanospermine (CS), which inhibit the passage of leukocytes through BM. Each drug type appears to prevent BM degradation by a different mechanism. Sulfated polysaccharides/oligosaccharides mediate their anti-inflammatory effect by inhibiting the endoglycosidase, heparanase, which plays a key role in the solubilization of BM by invading leucocytes. In fact, our studies have highlighted the heparanase enzyme as a major target for future drug development. Phosphosugars probably inhibit inflammation by displacing lysosomal enzymes, which are involved in BM degradation, from cell surface mannose 6-phosphate receptors. This mechanism of expressing degradative enzymes on the cell surface is particularly evident with activated T lymphocytes. On the other hand, CS interferes with appropriate targeting of lysosomal enzymes involved in BM degradation. For reasons which are still unclear, CS specifically inhibits BM degradation by endothelial cells, which results in a characteristic perivascular arrest of leucocytes in inflammatory sites. Overall, our studies have established that inhibitors of subendothelial BM degradation represent viable anti-inflammatory agents. It is hoped that future work will result in the development of a totally new class of highly effective, subtle and non-toxic anti-inflammatory drugs for the treatment of MS and other inflammatory diseases.
Abstract 5392: Chronic Cervical Vagus Nerve Stimulation Attenuates Systemic Inflammation and Heart Failure Progression in a Canine Rapid Ventricular Pacing Model (2008)

Following a baseline night recording, 9 narcoleptic subjects and 9 sex and age-matched control subjects were maintained on 16 hours of diurnal sleep deprivation. Thereafter subjects were submitted to a 32 hour bed rest protocol in a sound-light attenuated room. The EEG was recorded and processed using a Fast Fourier Transform. Narcoleptic patients did not differ from control subjects in total sleep time over the whole time-span. An ultradian tendency to sleep seems to be predominant in narcoleptic patients and evidence of a strong basic rest activity cycle is shown. The coupling between the homeostatic process of sleep regulation and an ultradian drive to sleep would explain the peculiar 4 hour distribution pattern of SWA in narcoleptic patients.
Always on the bright side: the climbing mechanism of Galium aparine (2010)

Galium aparine is a herbaceous climbing plant that attaches to host plants mainly via its leaves, which are covered by hooked trichomes. Although such hooks are found on both leaf surfaces, the leaves of G. aparine are mainly positioned upon the leaves of supporting plants and rarely beneath. In order to understand the mechanism underlying this observation, we have studied structural and mechanical properties of single leaf hooks, frictional properties of leaf surfaces, turgor pressure in different leaf tissues and bending properties of the leaves in different directions. Abaxial and adaxial leaf hooks differ significantly in orientation, distribution, structure and mechanical properties. In accordance with these differences, friction properties of leaves depend on the direction of the applied force and differ significantly between both leaf surfaces. This results in a ratchet mechanism. Abaxial leaf hooks provide strong attachment upon the leaves of adjacent plants, whereas adaxial hooks cause a gliding-off from the underside of the leaves of host plants. Thus, the leaves of G. aparine can function as attachment organs, and simultaneously orient themselves advantageously for their photosynthetic function. Further adaptations in turgor pressure or concerning an anisotropy of the flexural stiffness of the leaves have not been found.
Self-Powered Gate Driver for Normally ON Silicon Carbide Junction Field-Effect Transistors Without External Power Supply (2012)

The very low on-state resistance, the voltage-controlled gate, and the relative simplicity of fabrication of the normally ON silicon carbide junction field-effect transistor (JFET) make this device the most important player among all state-of-the-art silicon carbide transistors. However, the normally ON nature counts as the main factor which keeps this device far from being considered as an alternative to the silicon insulated-gate bipolar transistor. A self-powered gate driver without external power supply for normally ON silicon carbide JFETs is presented in this paper. The proposed circuit is able to handle the short-circuit currents when the devices are subjected to the dc-link voltage by utilizing the energy associated with this current. On the other hand, it supplies the necessary negative gate-source voltage during the steady-state operation. A detailed description of the operating states in conjunction with a theoretical analysis of the proposed self-powered gate driver is presented. The first part of the experimental investigation has been performed when the proposed circuit is connected to a device which is directly subjected to the dc-link voltage. The second set of measurements were recorded when the self-powered gate-driver was employed as the driver of normally ON components in a half-bridge converter. From the experimental results, it is shown that the short-circuit current is cleared within approximately 20 μs after the dc-link voltage is applied, while the power consumption when all devices are kept in the OFF state equals 0.37 W. Moreover, it is experimentally shown that the proposed gate driver can properly switch when it is employed in a half-bridge converter. Finally, limitations regarding the range of the applications where the self-powered gate drive can efficiently operate are also discussed.
Lost in quantization: Improving particular object retrieval in large scale image databases (2008)

The state of the art in visual object retrieval from large databases is achieved by systems that are inspired by text retrieval. A key component of these approaches is that local regions of images are characterized using high-dimensional descriptors which are then mapped to ldquovisual wordsrdquo selected from a discrete vocabulary.This paper explores techniques to map each visual region to a weighted set of words, allowing the inclusion of features which were lost in the quantization stage of previous systems. The set of visual words is obtained by selecting words based on proximity in descriptor space. We describe how this representation may be incorporated into a standard tf-idf architecture, and how spatial verification is modified in the case of this soft-assignment. We evaluate our method on the standard Oxford Buildings dataset, and introduce a new dataset for evaluation. Our results exceed the current state of the art retrieval performance on these datasets, particularly on queries with poor initial recall where techniques like query expansion suffer. Overall we show that soft-assignment is always beneficial for retrieval with large vocabularies, at a cost of increased storage requirements for the index.
Correlation between posttranslational modification and intrinsic disorder in protein. (2012)

Protein intrinsic disorder has been shown to play an important role in some posttranslational modifications (PTM). In this paper, we systematically investigated the correlation between protein disorder and dozens of PTMs using data from UniProt/Swiss-Prot and 3-D structures solved by NMR from Protein Data Bank. We observed that many PTMs have a preference for occurrence in disordered regions, including phospho-serine/-threonine/-tyrosine, hydroxylation, sulfotyrosine, S-geranylgeranyl cysteine, deamidated glutamine, 4-carboxyglutamate, 6'-bromotryptophan and most of methylation; while a few PTMs have a preference for occurrence in ordered regions, including 4-aspartylphosphate, S-nitrosocysteine, tele-methylhistidine, FMN conjugation, 4,5-dihydroxylysine, 3- methylthioaspartic acid, most of ADP-ribosylation, and most of FAD attachment. It is also noted that acetyllysine does not show any significant preference for occurrence in either disordered or ordered regions. Further analysis of NMR structures suggested disorder-toorder transitions might be introduced by modifications of phospho-serine/-threonine mono-/di-/tri-methyllysine, sulfotyrosine, 4-carboxyglutamate, and potentially 4-hydroxyproline. This study sheds light on the functions and mechanisms of various PTMs.
Complex formation between lamin A and the retinoblastoma gene product: identification of the domain on lamin A required for its interaction. (1994)

The retinoblastoma susceptibility gene product (pRB) has been known to function as a negative regulator of cell growth. Recent observations suggest that its biological activity might be modulated by an interaction with nuclear structures. By using in vitro binding assays, we have found that pRB can associate with lamin A, which has been known to be one of the major nuclear matrix proteins. A series of GST-lamin A deletion mutants was constructed to define the amino acid sequence required for binding to pRB. A GST-lamin A (247-355) contained an activity to associate with pRB, while the other constructs, such as GST-lamin A (37-244) or GST-lamin A (356-571), could not bind to pRB. Within the pRB-binding domain of lamin A, there exists the short amino acid sequence which is also present in the pRB-binding region of the transcription factor E2F-1. The similar experiments using a set of GST-RB deletion mutants revealed that a region containing the E1A-binding pocket B and the carboxy-terminal portion of pRB was responsible for binding to lamin A.
Electrochemical Sensors for Clinic Analysis (2008)

Demanded by modern medical diagnosis, advances in microfabrication technology have led to the development of fast, sensitive and selective electrochemical sensors for clinic analysis. This review addresses the principles behind electrochemical sensor design and fabrication, and introduces recent progress in the application of electrochemical sensors to analysis of clinical chemicals such as blood gases, electrolytes, metabolites, DNA and antibodies, including basic and applied research. Miniaturized commercial electrochemical biosensors will form the basis of inexpensive and easy to use devices for acquiring chemical information to bring sophisticated analytical capabilities to the non-specialist and general public alike in the future.
Characterization of adenosine deaminase binding to human CD26 on T cells and its biologic role in immune response (1996)

CD26, a T cell activation Ag, also known as dipeptidyl peptidase IV, is directly associated with adenosine deaminase (ADA) on the surface of T cells and T cell lines. In the present study, we examined both the binding of ADA and CD26 and the functional consequences of this interaction. We found that ADA was associated with CD26 on T cell lines lacking either ADA or dipeptidyl peptidase IV enzymatic activity, indicating that the association between dipeptidyl peptidase IV and ADA did not require enzymatic activity. Moreover, using immunoelectron microscopy, we demonstrated that CD26 and ADA co-localized on the cell surface, but not inside cells, suggesting that CD26 did not transport ADA to the surface. In keeping with this observation, we showed that human CD26-transfected murine pre-B cell lines lacking human ADA acquired ADA from an extracellular source. More importantly, adenosine in the absence of cell surface ADA inhibited T cell proliferation and IL-2 production induced by various stimuli. On the other hand, cells expressing ADA and CD26 on the surface were much more resistant to the inhibitory effect of adenosine. These data suggest that ADA on the cell surface is involved in an important immunoregulatory mechanism by which released ADA binds to cell surface CD26, and this complex is capable of reducing the local concentration of adenosine.
Correction: Use of Evidence-Based Practices in Pregnancy and Childbirth: South East Asia Optimising Reproductive and Child Health in Developing Countries Project (2008)

Background: The burden of mortality and morbidity related to pregnancy and childbirth remains concentrated in developing countries. SEA-ORCHID (South East Asia Optimising Reproductive and Child Health In Developing countries) is evaluating whether a multifaceted intervention to strengthen capacity for research synthesis, evidence-based care and knowledge implementation improves adoption of best clinical practice recommendations leading to better health for mothers and babies. In this study we assessed current practices in perinatal health care in four South East Asian countries and determined whether they were aligned with best practice recommendations.
Structure of Nucleic Acid-Poly Base Complexes (1970)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTStructure of Nucleic Acid-Poly Base ComplexesMargaret Haynes, R Garrett, and W GratzerCite this: Biochemistry 1970, 9, 22, 4410–4416Publication Date (Print):October 1, 1970Publication History Published online16 July 2003Published inissue 1 October 1970https://doi.org/10.1021/bi00824a600RIGHTS & PERMISSIONSArticle Views234Altmetric-Citations141LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (3 MB) Get e-Alerts Get e-Alerts
The Response of Seeds and Seedlings to Treatment with Indolylacetic Acid (1940)

Journal Article The Response of Seeds and Seedlings to Treatment with Indolylacetic Acid Get access Y. HWANG, Y. HWANG From the Research Institute of Plant Physiology, Imperial College of Science and Technology, and the East Malling Research Station Search for other works by this author on: Oxford Academic PubMed Google Scholar H. L. PEARSE H. L. PEARSE From the Research Institute of Plant Physiology, Imperial College of Science and Technology, and the East Malling Research Station Search for other works by this author on: Oxford Academic PubMed Google Scholar Annals of Botany, Volume 4, Issue 1, January 1940, Pages 31–37, https://doi.org/10.1093/oxfordjournals.aob.a086328 Published: 01 January 1940
Un beau désordre ? Nouvelles approches de la mondialité (1993)

La parution, à quelques mois d'intervalle, de plusieurs ouvrages traitant de la mondialité témoigne d'un renouveau de la science politique "internationaliste" comme de la géographie. En se démarquant de l'essai, du livre-collage-d'articles ou du manuel traditionnel, trois d'entre eux ont en commun le projet de lier démarche théorique innovante et visée didactique.
Milk-deteriorating exoenzymes from Pseudomonas fluorescens 041 isolated from refrigerated raw milk (2015)

The practice of refrigerating raw milk at the farm has provided a selective advantage for psychrotrophic bacteria that produce heat-stable proteases and lipases causing severe quality problems to the dairy industry. In this work, a protease (AprX) and a lipase (LipM) produced by Pseudomonas fluorescens 041, a highly proteolytic and lipolytic strain isolated from raw milk obtained from a Brazilian farm, have been purified and characterized. Both enzymes were purified as recombinant proteins from Escherichia coli . The AprX metalloprotease exhibited activity in a broad temperature range, including refrigeration, with a maximum activity at 37 °C. It was active in a pH range of 4.0 to 9.0. This protease had maximum activity with the substrates casein and gelatin in the presence of Ca (+2) . The LipM lipase had a maximum activity at 25 °C and a broad pH optimum ranging from 7.0 to 10. It exhibited the highest activity, in the presence of Ca (+2) , on substrates with long-chain fatty acid residues. These results confirm the spoilage potential of strain 041 in milk due to, at least in part, these two enzymes. The work highlights the importance of studies of this kind with strains isolated in Brazil, which has a recent history on the implementation of the cold chain at the dairy farm.
A phase II study of razoxane, an antiangiogenic topoisomerase II inhibitor, in renal cell cancer with assessment of potential surrogate markers of angiogenesis. (2000)

Renal cell carcinoma (RCC) is an angiogenic tumor resistant to standard cytotoxic chemotherapeutic agents. Although often responsive to immunomodulatory agents including interleukin 2 and IFN-alpha, the overall results in randomized Phase III studies are disappointing with only modest improvements in overall survival. This Phase II study evaluated the efficacy and tolerability of razoxane, an antiangiogenic topoisomerase II inhibitor, in 40 patients (32 men, 8 women; age: range, 31-76 years; median, 58 years) with inoperable RCC. Twenty patients received razoxane 125 mg p.o., twice a day for 5 days each week for 8 weeks (one cycle). This was repeated in patients with stable disease (StD), but was discontinued after 16 weeks if there was no evidence of an objective response. Because minimal toxicity was seen, subsequent patients (n = 20) were treated until progressive disease (PD) was documented. Of 38 evaluable patients, 11 (29%) had StD for a minimum of 4 months, and the remainder had PD. Median overall survival was 7.3 months. Duration of survival was significantly better in patients with StD compared with those with PD (P = 0.003). The effect of treatment on six potential surrogate serum/plasma (vascular endothelial growth factor (VEGF), basic fibroblast growth factor (bFGF), urokinase plasminogen activator soluble receptor (uPAsr), E-selectin, vascular cell adhesion molecule-1 (VCAM-1) and von Willebrand's factor (vWF) and two urinary (VEGF and bFGF) markers of angiogenesis was evaluated before and after 1 cycle of treatment. Pretreatment serum VEGF and E-selectin levels above the median value were associated with a poor prognosis. Serum VCAM-1 levels and urinary VEGF levels rose significantly after one cycle in patients with PD but not in those with StD. Serum VEGF, bFGF, VCAM-1 and vWF, plasma uPAsr and urinary bFGF levels were significantly higher in PD patients compared with StD patients before and/or after 1 cycle of treatment. In conclusion, razoxane is an antiangiogenic agent that has minimal toxicity and that requires further evaluation in combination with other active agents in the treatment of RCC. Surrogate serum and urinary markers of angiogenesis may have a role to play in predicting disease response and overall survival in RCC.
The Pneumococcal Cell Wall Degrading Enzymes: A Modular Design to Create New Lysins? (1997)

Autolysins are enzymes that degrade different bonds in the peptidoglycan and, eventually, cause the lysis and death of the cell. Streptococcus pneumoniae contains a powerful autolytic enzyme that has been characterized as an N-acetylmuramoyl-L-alanine amidase. We have cloned the lytA gene coding for this amidase and studied in depth the genetics and expression of this gene, which represented the first molecular analysis of a bacterial autolysin. Two observations have been fundamental in revealing further knowledge on the lytic systems of pneumococcus: (a) The well-documented dependence of the pneumococcal autolysin on the presence of choline in the cell wall for activity, and (b) the early observation that most pneumococcal phages also required the presence of this amino-alcohol in the growth medium to achieve a successful liberation of the phage progeny. We concluded that choline would serve as an element of strong selective pressure to preserve certain structures of the host and phage lytic enzymes which should lead to sequence homologies. We constructed active chimeras between the lytic enzymes of S. pneumoniae and its bacteriophages using genes that share sequence homology as well as genes that completely lack homologous regions. In this way, we demonstrated that the pneumococcal lytic enzymes are the result of the fusion of two independent functional modules where the carboxy-terminal domain might be responsible for the specific recognition of choline-containing cell walls whereas the active center of these enzymes should be localized in the N-terminal part of the protein. The modular design postulated for the pneumococcal lysins seems to be a widespread model for many types of microbial proteins and the construction of functional chimeric proteins between the lytic enzymes of pneumococcus and those of several gram-positive microorganisms, like Clostridium acetobutylicum or Lactococcus lactis, provided interesting clues on the modular evolution of proteins. The study of several genes coding for the lytic enzymes of temperate phages of pneumococcus also highlighted on some evolutionary relationships between microorganisms. We suggest that lysogenic relationships may represent a common mechanism by which pathogenic organisms like pneumococcus should undergo a rapid adaptation to an evolving environment.
Reconstitution of complete SV40 DNA replication with purified replication factors. (1994)

The identification and purification of human cell proteins required for the production of form I DNA following DNA replication from the simian virus 40 (SV40) origin is described. Using these proteins, complete SV40 DNA replication was reconstituted with only purified DNA replication factors: SV40 large tumor antigen (TAg), replication protein A (RPA), DNA topoisomerases I and II, DNA polymerase alpha-primase, replication factor C (RFC), the proliferating cell nuclear antigen (PCNA), DNA polymerase delta, maturation factor 1 (MF1), and DNA ligase I. MF1, a 5' to 3' exonuclease and DNA ligase I were both identified as essential components for production of covalently closed circular relaxed (form I) DNA. MF1 is probably the same exonuclease previously shown by others to function during DNA synthesis on artificial DNA templates or in conjunction with DNA polymerase alpha from the SV40 origin. Combined with these previous studies, our results suggest that MF1 functions to remove an RNA primer attached to every Okazaki fragment during lagging strand DNA synthesis. Interestingly, whereas mammalian DNA ligase I functioned in the reconstituted replication system, mammalian DNA ligase III did not substitute and the phage T4 DNA ligase functioned inefficiently, suggesting that DNA ligase I has a specific role as a replicative DNA ligase in eukaryotic cells.