gebhart/patrepeval huggingface dataset:
Crystallographic Studies of Antigen–Antibody Interactions (2003)

X-ray crystallography provides a powerful tool for the study of antigen- antibody interactions. Information provided by crystallographic studies of antigen-antibody complexes includes the topological description of intermolecular contacts and the nature of interactions between amino acid residues. In cases where structures of both liganded and unliganded forms of an antigen or antibody fragment are known, crystallographic studies have led to a more dynamic view of binding, often showing conformational changes (induced fit) in the antibody or antigen and displacement of water molecules at the binding interface.
Evaluating window joins over unbounded streams (2004)

We investigate algorithms for evaluating sliding window joins over pairs of unbounded streams. We introduce a unit-time-basis cost model to analyze the expected performance of these algorithms. Using this cost model, we propose strategies for maximizing the efficiency of processing joins in three scenarios. First, we consider the case where one stream is much faster than the other. We show that asymmetric combinations of join algorithms, (e.g., hash join on one input, nested-loops join on the other) can outperform symmetric join algorithm implementations. Second, we investigate the case where system resources are insufficient to keep up with the input streams. We show that we can maximize the number of join result tuples produced in this case by properly allocating computing resources across the two input streams. Finally, we investigate strategies for maximizing the number of result tuples produced when memory is limited, and show that proper memory allocation across the two input streams can result in significantly lower resource usage and/or more result tuples produced.
The weediness of wild plants: molecular analysis of genes influencing dispersal and persistence of johnsongrass, Sorghum halepense (L.) Pers. (1995)

Many major weeds rely upon vegetative dispersal by rhizomes and seed dispersal by "shattering" of the mature inflorescence. We report molecular analysis of these traits in a cross between cultivated and wild species of Sorghum that are the probable progenitors of the major weed "johnsongrass." By restriction fragment length polymorphism mapping, variation in the number of rhizomes producing above-ground shoots was associated with three quantitative trait loci (QTLs). Variation in regrowth (ratooning) after overwintering was associated with QTLs accounting for additional rhizomatous growth and with QTLs influencing tillering. Vegetative buds that become rhizomes are similar to those that become tillers--one QTL appears to influence the number of such vegetative buds available, and additional independent genes determine whether individual buds differentiate into tillers or rhizomes. DNA markers described herein facilitate cloning of genes associated with weediness, comparative study of rhizomatousness in other Poaceae, and assessment of gene flow between cultivated and weedy sorghums--a risk that constrains improvement of sorghum through biotechnology. Cloning of "weediness" genes may create opportunities for plant growth regulation, in suppressing propagation of weeds and enhancing productivity of major forage, turf, and "ratoon" crops.
Localized RhoA GTPase activity regulates dynamics of endothelial monolayer integrity (2013)

Spontaneous RhoA activity at membrane protrusions is spatially associated with closure, but not formation of inter-endothelial gaps, whereas RhoA activity at distant contractile filaments contributes to thrombin-induced disruption of junctional integrity. Thus, these data indicate that distinct RhoA activities are associated with disruption and re-annealing of endothelial junctions.
Non-alcoholic fatty liver disease and thyroid dysfunction: A systematic review (2014)

Thyroid hormones are totally involved in the regulation of body weight, lipid metabolism, and insulin resistance. Therefore it is anticipated that thyroid hormones may have a role in the pathogenesis of non alcoholic fatty liver disease (NAFLD) and non alcoholic steatohepatitis (NASH). In this study, we reviewed the current literature on the association between thyroid dysfunction and NAFLD/NASH. A search for English language medical literature reporting an association between thyroid dysfunction and NAFLD/NASH in humans was conducted across PubMed, ISI Web of Science, and Scopus in August, 2013. Out of 140 studies initially identified through the search, 11 relevant articles were included in the final review. Thyroid dysfunctions in the form of overt or subclinical hypothyroidism are prevalent among patients with NAFLD/NASH. Hypothyroidism appears to be an independent risk factor for NAFLD/NASH in some studies; however, other newly published studies failed to find such an association. The results of the studies on the role of thyroid abnormalities in NAFLD/NASH are inconsistent, and further research is recommended to determine the relationship between hypothyroidism and NAFLD/NASH and the underlying mechanisms.
Shielded Coupled-Strip Transmission Line (1955)

An analysis is made of the odd and even TEM modes on a pair of parallel co-planar strips midway between ground planes. Rigorous formulas are presented for the case of zero-thickness strips, while approximate formulas are given for strips of finite thickness and for strips printed on opposite sides of a thin dielectric sheet supported in air between ground planes (AIL construction). The characteristic impedances and the phase velocities of the two modes are necessary and sufficient information for the design of directional couplers, coupled-line filters, and other components utilizing the coupling between parallel-strip lines. In order to facilitate design work, nomograms are included in the paper which give the dimensions of the coupled-strip cross section in terms of the odd- and even-mode characteristic impedances. The characteristic-impedance scales of these nomograms may be read to an accuracy of better than one per cent over a wide range of values that is sufficient for most purposes.
Plasmacytoid precursor dendritic cells facilitate allogeneic hematopoietic stem cell engraftment (2005)

Bone marrow transplantation offers great promise for treating a number of disease states. However, the widespread application of this approach is dependent upon the development of less toxic methods to establish chimerism and avoid graft-versus-host disease (GVHD). CD8+/TCR- facilitating cells (FCs) have been shown to enhance engraftment of hematopoietic stem cells (HSCs) in allogeneic recipients without causing GVHD. In the present studies, we have identified the main subpopulation of FCs as plasmacytoid precursor dendritic cells (p-preDCs). FCs and p-preDCs share many phenotypic, morphological, and functional features: both produce IFN-alpha and TNF-alpha, both are activated by toll-like receptor (TLR)-9 ligand (CpG ODN) stimulation, and both expand and mature after Flt3 ligand (FL) treatment. FL-mobilized FCs, most of which express a preDC phenotype, significantly enhance engraftment of HSCs and induce donor-specific tolerance to skin allografts. However, p-preDCs alone or p-preDCs from the FC population facilitate HSC engraftment less efficiently than total FCs. Moreover, FCs depleted of preDCs completely fail to facilitate HSC engraftment. These results are the first to define a direct functional role for p-preDCs in HSC engraftment, and also suggest that p-preDCs need to be in a certain state of maturation/activation to be fully functional.
Quantitative Validation of Media for Transportation and Storage of Streptococcus pneumoniae (2003)

The need to design effective Streptococcus pneumoniae vaccines and to monitor resistance means that it is essential to have efficient methods to determine carriage rates. Two liquid media, consisting of skim milk, glycerol, glucose, and tryptone soya broth (STGG) or skim milk, glycerol, and glucose (SGG) alone, were evaluated for their ability to maintain pneumococcal viability. Optimal recovery of S. pneumoniae was achieved when swabs were transferred to STGG medium prior to plating onto blood agar-gentamicin selective plates (22%) compared to 7% when plated out directly (P < 0.0001 by Fisher's exact test). Both STGG and SGG media are appropriate for the long-term storage of pneumococci and primary swab samples at -70 degrees C, with no decrease in viable count observed following repeated freeze-thaw cycles. Samples could be stored refrigerated for up to 3 days in either STGG or SGG medium with no significant loss of viability. Viability decreased progressively in storage at 20 to 30 degrees C, with greater losses of viability occurring at the higher temperatures. There were no significant differences in viability between isolates in the two media. STGG preserved pneumococci significantly better (about twofold) than SGG medium at 21 degrees C (P < 0.0001) and 30 degrees C (P < 0.0001). Samples can be stored for 4 and 2.5 days at 6 to 8 degrees C, 28 and 17 h at 21 degrees C, and 15 and 7 h at 30 degrees C in STGG and SGG media, respectively. For field studies undertaken in resource-limited environments, SGG medium can be prepared by using locally available materials. The quantitative data reported in this study will enable researchers to plan appropriate transport and storage protocols.
Peracetylated Bovine Carbonic Anhydrase (BCA-Ac18) Is Kinetically More Stable than Native BCA to Sodium Dodecyl Sulfate (2006)

Bovine carbonic anhydrase (BCA) and its derivative with all lysine groups acetylated (BCA-Ac18) have different stabilities toward denaturation by sodium dodecyl sulfate (SDS). This difference is kinetic: BCA-Ac18 denatures more slowly than BCA by several orders of magnitude over concentrations of SDS ranging from 2.5 to 10 mM. The rates of renaturation of BCA-Ac18 are greater than those of BCA, when these proteins are allowed to refold from a denatured state ([SDS]=10 mM) to a folded state ([SDS]=0.1 to 1.5 mM). On renaturation, the yields of the correctly folded protein (either BCA or BCA-Ac18) decrease with increasing concentration of SDS. At intermediate concentrations of SDS (from 0.7 to 2 mM for BCA, and from 1.5 to 2 mM for BCA-Ac18), both unfolding and refolding of the proteins are too slow to be observed; an alternative process-probably aggregation-competes with refolding of the denatured proteins at those intermediate concentrations. Because it is experimentally impractical to prove equilibrium, it is not possible to establish whether there is a difference in the thermodynamics of unfolding/refolding between BCA and BCA-Ac18.
Verification of coupling gap dependence in coupled-cavity lasers (1984)

Work on coupled-cavity lasers, either of the etched-groove1,2 or cleaved3 (C3) variety, has shown that electronically tunable single-wavelength sources can be obtained by adding a simple processing step after a preferred laser structure is grown. Such sources are desired for long-haul high-data-rate transmission systems in the 1.3- 1.6-μm range.
Monitoring Radiographic Brain Tumor Progression (2011)

Determining radiographic progression in primary malignant brain tumors has posed a significant challenge to the neuroncology community. Glioblastoma multiforme (GBM, WHO Grade IV) through its inherent heterogeneous enhancement, growth patterns, and irregular nature has been difficult to assess for progression. Our ability to detect tumor progression radiographically remains inadequate. Despite the advanced imaging techniques, detecting tumor progression continues to be a clinical challenge. Here we review the different criteria used to detect tumor progression, and highlight the inherent challenges with detection of progression.
Polysome profiling reveals translational control of gene expression in the human malaria parasite Plasmodium falciparum (2013)

These different layers of translational regulation are likely to contribute to a complex network that controls gene expression in this eukaryotic pathogen. Disrupting the mechanisms involved in such translational control could provide novel anti-malarial strategies.
Binaural processing model based on contralateral inhibition. II. Dependence on spectral parameters (2001)

This and two accompanying articles [Breebaart et al., J. Acoust. Soc. Am. 110, 1074-1088 (2001); 110, 1105-1117 (2001)] describe a computational model for the signal processing in the binaural auditory system. The model consists of several stages of monaural and binaural preprocessing combined with an optimal detector. In the present article the model is tested and validated by comparing its predictions with experimental data for binaural discrimination and masking conditions as a function of the spectral parameters of both masker and signal. For this purpose, the model is used as an artificial observer in a three-interval, forced-choice adaptive procedure. All model parameters were kept constant for all simulations described in this and the subsequent article. The effects of the following experimental parameters were investigated: center frequency of both masker and target, bandwidth of masker and target, the interaural phase relations of masker and target, and the level of the masker. Several phenomena that occur in binaural listening conditions can be accounted for. These include the wider effective binaural critical bandwidth observed in band-widening NoS(pi) conditions, the different masker-level dependence of binaural detection thresholds for narrow- and for wide-band maskers, the unification of IID and ITD sensitivity with binaural detection data, and the dependence of binaural thresholds on frequency.
Effects of systemic inhibition of prostaglandin production on protein metabolism in tumor-bearing rats (1989)

Two rat tumors, Morris hepatoma 7777 (MH) and Yoshida ascites hepatoma AH130 (YAH) were compared, and the influence of systemic inhibition of prostaglandin (PG) synthesis on muscle protein metabolism was evaluated. Tumor-bearing rats were compared with ad libitum- and pair-fed controls. Rats were also treated with naproxen, an inhibitor of PG synthesis. Tumors caused progressive anorexia and weight loss and resulted in decreased weight and/or protein content of the soleus, extensor digitorum longus, and epitrochlearis muscles. The extent of this wasting varied with muscle and tumor type. Muscle wasting induced by the tumors appeared to result from increased protein degradation and/or decreased protein synthesis, as determined in isolated epitrochlearis muscle. In YAH, reduced feed intake did not appear to be responsible for muscle wasting; however, in MH, it accounted for a significant proportion of the muscle loss. YAH produced large amounts of PGE2. Treatment of rats with naproxen inhibited tumor PGE2 production and muscle protein loss in rats bearing YAH. Naproxen had no effect on muscle weight or protein degradation in rats bearing MH. These results would appear to implicate PGE2 in the development of cachexia in the laboratory rat.
Tryptophan Catabolism in Cancer: Beyond IDO and Tryptophan Depletion (2012)

Tryptophan catabolism in cancer is increasingly being recognized as an important microenvironmental factor that suppresses antitumor immune responses. It has been proposed that the essential amino acid tryptophan is catabolized in the tumor tissue by the rate-limiting enzyme indoleamine-2,3-dioxygenase (IDO) expressed in tumor cells or antigen-presenting cells. This metabolic pathway creates an immunosuppressive milieu in tumors and in tumor-draining lymph nodes by inducing T-cell anergy and apoptosis through depletion of tryptophan and accumulation of immunosuppressive tryptophan catabolites. Competitive inhibitors of IDO are currently being tested in clinical trials in patients with solid cancer, with the aim of enhancing the efficacy of conventional chemotherapy. There are, however, certain tumor types that are capable of catabolizing tryptophan but are largely IDO-negative. Recent evidence from studies in malignant gliomas and other types of cancers points to alternative enzymatic pathways of tryptophan catabolism involving tryptophan-2,3-dioxygenase (TDO). TDO, which is considered responsible for regulating systemic tryptophan levels in the liver, is constitutively expressed in some cancers and is equally capable of suppressing antitumor immune responses. Depletion of tryptophan induces signaling events in T cells, leading to anergy and apoptosis; however, active immunomodulation by accumulating tryptophan catabolites, most notably kynurenine, appears to play an equally important role. These immunomodulatory effects of kynurenine are mediated by the aryl hydrocarbon receptor. This intracellular transcription factor has classically been viewed as a receptor for environmental toxins, such as dioxin, and its important role in influencing immune responses, especially in epithelial barriers, is only beginning to emerge. This review summarizes the exciting developments in our understanding of tryptophan catabolism as a key factor in the immunobiology of cancer.
Mitotically Inactivated Embryonic Stem Cells Can Be Used as an In Vivo Feeder Layer to Nurse Damaged Myocardium after Acute Myocardial Infarction (2012)

As a result of irradiation before injection, ex vivo and in vivo iESC existence is transient, yet iESCs provide a significant improvement in cardiac function after acute myocardial infarction. The mechanism(s) of action of iESCs seems to be related to cell-cell exchange, paracrine factors, and a scaffolding effect between iESCs and neighboring host cardiomyocytes.
Regulation of Osteoblast, Chondrocyte, and Osteoclast Functions by Fibroblast Growth Factor (FGF)-18 in Comparison with FGF-2 and FGF-10 (2002)

This study investigated the actions of fibroblast growth factor (FGF)-18, a novel member of the FGF family, on osteoblasts, chondrocytes, and osteoclasts and compared them with those of FGF-2 and FGF-10. FGF-18 stimulated the proliferation of cultured mouse primary osteoblasts, osteoblastic MC3T3-E1 cells, primary chondrocytes, and prechondrocytic ATDC5 cells, although it inhibited the differentiation and matrix synthesis of these cells. FGF-18 up-regulated the phosphorylation of extracellular signal-regulated kinase in both osteoblasts and chondrocytes and up-regulated the phosphorylation of p38 mitogen-activated protein kinase only in chondrocytes. FGF-18 mitogenic actions were blocked by a specific inhibitor of extracellular signal-regulated kinase in both osteoblasts and chondrocytes and by a specific inhibitor of p38 mitogen-activated protein kinase in chondrocytes. With regard to the action of FGF-18 on bone resorption, FGF-18 not only induced osteoclast formation through receptor activator of nuclear factor-kappaB ligand and cyclooxygenase-2 but also stimulated osteoclast function to form resorbed pits on a dentine slice in the mouse coculture system. All these effects of FGF-18 bore a close resemblance to those of FGF-2, whereas FGF-10 affects none of these cells. FGF-18 may therefore compensate for the action of FGF-2 on bone and cartilage.
Relay detects downed wires by fault-current harmonics (1994)

When an energized conductor falls on the ground, the fault current, although small, quickly glassifies the soil in the vicinity of the arc. The fault current then ceases. The wire looks dead, but it is still lethal. The amount of time for glassification to occur depends on the ground conditions. It is thus important to identify the downed conductor promptly while there is still an indication of a ground fault. The problem of making a relay that can detect a downed conductor has long been recognized as a matter of discriminating very small ground-fault current on a distribution feeder carrying a load current that routinely exceeds the fault currents. Recently, Nordon Technologies, Inc, Sarasota, Florida, developed the Hifas relay, which can distinguish a small fault current by detecting the rich, lower-order harmonics that it contains. 4 figs.
Nitrobenzophenone oxime based resins for the solid-phase synthesis of protected peptide segments (1989)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTNitrobenzophenone oxime based resins for the solid-phase synthesis of protected peptide segmentsMark A. Findeis and Emil Thomas KaiserCite this: J. Org. Chem. 1989, 54, 14, 3478–3482Publication Date (Print):July 1, 1989Publication History Published online1 May 2002Published inissue 1 July 1989https://pubs.acs.org/doi/10.1021/jo00275a041https://doi.org/10.1021/jo00275a041research-articleACS PublicationsRequest reuse permissionsArticle Views448Altmetric-Citations23LEARN 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 InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Role of lopinavir/ritonavir in the treatment of SARS: initial virological and clinical findings (2004)

The apparent favourable clinical response with lopinavir/ritonavir and ribavirin supports further randomised placebo controlled trials in patients with SARS.
ChemInform Abstract: Synthesis of Unsymmetrically Substituted Tetrathiafulvalenes by the “Ylide Route”. Investigations of Selectivity. (1988)

Abstract Treatment of the hexafluorophosphates (I) with PPh 3 (II) yields the phosphonium salts (III).
Antitumor activity of 5-substituted 2-acylamino-1,3,4-thiadiazoles against transplantable rodent tumors. (1985)

The antitumor activities of twelve 2-N-and/or 5-substituted 2-amino-1, 3, 4-thiadiazole analogs were tested on Lewis lung carcinoma in mice by intraperitoneal administration. 2-Amino-1, 3, 4-thiadiazole (ATDA), 2-formamido-1, 3, 4-thiadiazole and 2-trifluoroacetamido-1, 3, 4-thiadiazole significantly prolonged the life span of tumor bearing mice. 5-Substituted analogs and 2-urethane and 2-carbamate type compounds were inactive. 2-Formamido-1, 3, 4-thiadiazole showed more potent activity than the parent compound ATDA against P388, L1210 leukemia, B16 melanoma and Lewis lung carcinoma. The differences in the antitumor activity among ATDA analogs are discussed.
A new approach to depth range detection by producing depth-dependent blurring effect (2002)

This paper presents a new method for detecting the depth range of a scene from two differently focused images. This method first generates three images with differently emphasized blur using linear filtering of the two acquired images for more depth-sensitive estimation. In this point, this method is different from conventional approaches. The discrete Fourier transform of the ratio between the generated images is then introduced as a criterion of the depth range. Finally, through the thresholding process of the criterion according to its correspondence to the depth on the basis of the imaging model, the depth range is estimated in five depth steps. Experiments for synthesized and real images are performed to test the proposed method.