gebhart/patrepeval huggingface dataset:
Interference by clustered regularly interspaced short palindromic repeat (CRISPR) RNA is governed by a seed sequence (2011)

Prokaryotic clustered regularly interspaced short palindromic repeat (CRISPR)/Cas (CRISPR-associated sequences) systems provide adaptive immunity against viruses when a spacer sequence of small CRISPR RNA (crRNA) matches a protospacer sequence in the viral genome. Viruses that escape CRISPR/Cas resistance carry point mutations in protospacers, though not all protospacer mutations lead to escape. Here, we show that in the case of Escherichia coli subtype CRISPR/Cas system, the requirements for crRNA matching are strict only for a seven-nucleotide seed region of a protospacer immediately following the essential protospacer-adjacent motif. Mutations in the seed region abolish CRISPR/Cas mediated immunity by reducing the binding affinity of the crRNA-guided Cascade complex to protospacer DNA. We propose that the crRNA seed sequence plays a role in the initial scanning of invader DNA for a match, before base pairing of the full-length spacer occurs, which may enhance the protospacer locating efficiency of the E. coli Cascade complex. In agreement with this proposal, single or multiple mutations within the protospacer but outside the seed region do not lead to escape. The relaxed specificity of the CRISPR/Cas system limits escape possibilities and allows a single crRNA to effectively target numerous related viruses.
Association between Mannose-Binding Lectin Gene Polymorphisms and Susceptibility to Severe Acute Respiratory Syndrome Coronavirus Infection (2005)

MBL gene polymorphisms were significantly associated with susceptibility to SARS-CoV infection; this might be explained by the reduced expression of functional MBL secondary to having the codon 54 variant.
Emulsifying Properties of an N‐Terminal Peptide Obtained from the Peptic Hydrolyzate of αs1‐Casein (1984)

ABSTRACT A peptide corresponding to the 23 N‐terminal residues of αs1‐casein, αs1(1‐23), was purified from a peptic hydrolyzate of αs1‐casein. The emulsifying activity of αs1(1‐23) varied depending on the concentration. When the concentration was higher than 2%, αs1(1‐23) showed a similar emulsifying activity to αs1‐casein in neutral pHs. The emulsion capacity of αs1(1‐23) was about one half that of αs1‐casein. The extent of adsorption of αs1(1‐23) onto the oil globule surface was markedly high. In the acidic pH region (pH 5.5 – 3.0), αs1(1‐23) maintained a high emulsifying activity, whereas αs1‐casein lost its emulsifying activity. These results suggest that αs1(1‐23) acts as an emulsifying agent and probably can be used in some foods such as processed cheese or fermented milk products.
BTC-VQ-DCT hybrid coding of digital images (1991)

A hybrid BTC-VQ-DCT (block truncation coding, vector quantization, and discrete cosine transform) image coding algorithm is presented. The algorithm combines the simple computation and edge preservation properties of BTC and the high fidelity and high-compression ratio of adaptive DCT with the high-compression ratio and good subjective performance of VQ, and can be implemented with significantly lower coding delays than either VQ or DCT alone. The bit-map generated by BTC is decomposed into a set of vectors which are vector quantized. Since the space of the BTC bit-map is much smaller than that of the original 8-b image, a lookup-table-based VQ encoder has been designed to 'fast encode' the bit-map. Adaptive DCT coding using residual error feedback is implemented to encode the high-mean and low-mean subimages. The overall computational complexity of BTC-VQ-DCT coding is much less than either DCT and VQ, while the fidelity performance is competitive. The algorithm has strong edge-preserving ability because of the implementation of BTC as a precompress decimation. The total compression ratio is about 10:1.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
A new remote configurable firewall system for home-use gateways (2005)

We have developed a new remote-configurable firewall system that provides secure and easy-to-use access to home-network appliances such as network cameras, PVRs, and home file senders, through the Internet. Accessing the home-network from the external network is not still popular for low-end users. This is mainly because of the complex configuration of firewall/NAT policy and of the anxiety for security vulnerability which can be caused by statically opening the external ports. To solve these problems, our system provides easy-to-configure, easy-to-use remote accessing method. With a simple Web browser operation, remote users can dynamically open and close the firewall of the home gateway. The firewall rule creation is based on an authentication of the remote client, and thus only packets from the authorized client can pass through the firewall. The system also provides simple policy-template creating system that provides easy installation of the home-network appliances.
Effects of insulin and diet on the metabolism of <scp>l</scp>(+)-lactate and glucose by the perfused rat heart (1962)

Research Article| May 01 1962 Effects of insulin and diet on the metabolism of l(+)-lactate and glucose by the perfused rat heart JR WILLIAMSON JR WILLIAMSON Search for other works by this author on: This Site PubMed Google Scholar Biochem J (1962) 83 (2): 377–383. https://doi.org/10.1042/bj0830377 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn MailTo Cite Icon Cite Get Permissions Citation JR WILLIAMSON; Effects of insulin and diet on the metabolism of l(+)-lactate and glucose by the perfused rat heart. Biochem J 1 May 1962; 83 (2): 377–383. doi: https://doi.org/10.1042/bj0830377 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Journal Search Advanced Search This content is only available as a PDF. © 1962 The Biochemical Society1962 Article PDF first page preview Close Modal You do not currently have access to this content.
Magnetic coil stimulation of straight and bent amphibian and mammalian peripheral nerve in vitro: locus of excitation. (1993)

1. According to classical cable theory, a magnetic coil (MC) should excite a linear nerve fibre in a homogeneous medium at the negative-going first spatial derivative of the induced electric field. This prediction was tested by MC stimulation of mammalian phrenic and amphibian sciatic nerve and branches in vitro, immersed in Ringer solution within a trough, and identifying the sites of excitation by recording responses of similar latency to local electrical stimulation. Subsequently, the identified sites of excitation were compared with measurements of the induced electric field and its calculated first spatial derivative. A special hardware device was used to selectively reverse MC current direction and to generate predominantly monophasic- or polyphasic-induced pulse profiles whose initial phases were identical in polarity, shape and amplitude. When using the amphibian nerve preparation, a complication was excitation at low threshold points related to cut branches. 2. Reversal of monophasic current resulted in latency shifts corresponding approximately to the distance between induced cathode and anode. The location of each site of excitation was at, or very near, the negative-going first spatial derivative peaks of the induced electric field measured parallel to the straight nerve. Significantly, excitation of the nerve did not occur at the peak of the induced electric field above the centre of the 'figure of eight' MC junction. 3. A polyphasic pulse excited the nerve at both sites, by the negative-going first phase at one location, and approximately 150 microseconds later, by the reversed negative-going second phase at the other location. Polyphasic and monophasic pulses elicited responses with similar latency when the induced current flowed towards the recording electrode. 4. Straddling a nerve with non-coding solid lucite cylinders created a localized spatial narrowing and increase in the induced electric field, resulting in a lowered threshold of excitation. The corresponding closer spacing between first spatial derivative peaks was exhibited by a significant reduction in latency shift when MC current direction was reversed. 5. When a nerve is bent and the induced current is directed along the nerve towards the bend, the threshold of excitation is reduced there. Increasing the angle of the bend from 0 deg to more than 90 deg graded the decrease in threshold. 6. In a straight nerve the threshold was lowest when current was directed towards the cut end.(ABSTRACT TRUNCATED AT 400 WORDS)
Gene Regulation by Antisense DNA Produced in Vivo (1995)

Antisense technology has been widely used for regulating gene expression. Single-stranded RNA or DNA complementary to a target mRNA can inhibit the translation of the mRNA. Antisense RNA is produced in vivo, while antisense DNA is chemically synthesized as an oligonucleotide, which is extracellularly added to the cells. To maintain the effect of antisense DNA, a synthetic oligonucleotide has to be constantly added to the system. An advantage of antisense DNA over antisense RNA is that the target mRNA hybridized with the antisense DNA can be specifically digested by ribonuclease H. Here, we attempted to produce in vivo short single-stranded DNAs complementary to a specific mRNA. We demonstrate that such antisense oligodeoxyribonucleotide of a desired sequence can be produced in Escherichia coli using a retron, a bacterial retroelement, as a vector and that the antisense DNA thus produced in vivo can effectively inhibit the expression of a specific E. coli gene, such as the gene for the major outer membrane lipoprotein.
Identification of Complement-Receptor Lymphocytes (B Cells) in Lymph Nodes and Tumor Infiltrates (1975)

To monitor the distribution of lymphocyte sub-populations infiltrating tumors, a simplified modification of standard techniques was developed to identify the complement-receptor B lymphocytes in frozen tissue sections. This technique is based on binding of antibody-coated bovine erythrocytes by B lymphocytes in the presence of sub-hemolytic concentrations of mouse complement. B lymphocytes can be identified in frozen tissue sections by adherent sensitized bovine erythrocytes. The specificity of the technique for B lymphocytes was established by 1) absence of spontaneous rosette formation with bovine erythrocytes by human T lymphocytes, 2) specific binding of bovine erythrocyte-antibody-complement complexes to B cell regions of normal lymph nodes and spleen and 3) binding of erythrocyte-antibody-complement to a high proportion of chronic lymphocytic leukemia (a B cell leukemia) lymphocytes. Five transitional carcinomas studied had regions of mononuclear infiltration that were virtually devoid of complement-receptor lymphocytes. The results suggest that lymphocytes infiltrating bladder carcinomas may be predominantly T lymphocytes.
Importance of <i>ortho</i> Proton Donors in Catalysis of Hydrazone Formation (2013)

Anthranilic acids were recently reported as superior catalysts for hydrazone and oxime formation compared to aniline, the classic catalyst for these reactions. Here, alternative proton donors were examined with varied pKa in an effort to enhance activity at biological pH. The experiments show that 2-aminobenzenephosphonic acids are superior to anthranilic acids in catalyzing hydrazone formation with common aldehyde substrates.
Scaling of Chlorosilane SiC CVD to Multi-Wafer Epitaxy System (2007)

A SiC epitaxy process based on chlorosilane/propane chemistry has been successfully transferred from a single-wafer R&amp;D system to a multi-wafer CVD reactor. The optimized process results in very smooth epi surface (RMS~0.24nm) and minimum surface pits (less than 0.5/cm2). Both n-type and p-type doping in a wide range are demonstrated using nitrogen and aluminum, respectively. The high performance benchmarks for thickness uniformity (intra-wafer variation &lt;1% and inter-wafer variation &lt;1%) and doping uniformity (intra-wafer variation &lt;6% and inter-wafer variation &lt;3%) are achieved on 5 x 3-inch wafers. The carrier lifetime in these epilayers measured by μ-PCD is over 5 μs, the longest value reported so far for SiC epitaxial wafers.
Hepatocanalicular organic-anion transport is regulated by protein kinase C (1991)

In order to investigate the regulation of canalicular organic-anion transport, we used a hepatocyte transport assay in which canalicular secretion of a model organic anion, dinitrophenyl-glutathione (GS-DNP), was measured in the presence of stimulators and inhibitors of the Ca2+/protein kinase C (PKC) second-messenger system and of the cyclic AMP (cAMP) second-messenger system. Vasopressin (24 nM) and the phorbol ester phorbol 12-myristate 13-acetate (1 microgram/ml), both stimulators of PKC, stimulated GS-DNP efflux by 65 +/- 36% and 55 +/- 28% respectively, whereas staurosporine (10 microM), an inhibitor of PKC, inhibited efflux by 53 +/- 13%. Glucagon and forskolin, both stimulators of the cAMP second-messenger system, as well as the cAMP analogue dibutyryl cAMP and the phosphodiesterase inhibitor 3-isobutyl-1-methylxanthine, did not significantly influence the GS-DNP efflux. It can be concluded that canalicular organic-anion transport in hepatocytes is either directly or indirectly regulated by PKC.
Cloning and Characterization of GRB14, a Novel Member of the GRB7 Gene Family (1996)

Screening of a human breast epithelial cell cDNA library with the tyrosine-phosphorylated C terminus of the epidermal growth factor receptor identified a novel member of the GRB7 gene family, designated GRB14. In addition to a pleckstrin homology domain-containing central region homologous to the Caenorhabditis elegans protein F10E9.6/mig 10 and a C-terminal Src homology 2 (SH2) domain, a conserved N-terminal motif, P(S/A)IPNPFPEL, can now be included as a hallmark of this family. GRB14 mRNA was expressed at high levels in the liver, kidney, pancreas, testis, ovary, heart, and skeletal muscle. Anti-Grb14 antibodies recognized a protein of approximately 58 kDa in a restricted range of human cell lines. Among those of breast cancer origin, GRB14 expression strongly correlated with estrogen receptor positivity, and differential expression was also observed among human prostate cancer cell lines. A GST-Grb14 SH2 domain fusion protein exhibited strong binding to activated platelet-derived growth factor (PDGF) receptors (PDGFRs) in vitro, but association between Grb14 and beta-PDGFRs could not be detected in vivo. In serum-starved cells, Grb14 was phosphorylated on serine residues, which increased with PDGF, but not EGF, treatment. Grb14 is therefore a target for a PDGF-regulated serine kinase, an interaction that does not require PDGFR-Grb14 association.
Secondary spasmodic torticollis and balance in hemiplegic stroke patients (2013)

Objective To observe the influence of secondary spasmodic torticollis on the balance of hemiplegic stroke survivors and to compare the effects of different treatment protocols.Methods Fifty-six secondary spasmodic torticollis patients after stroke were randomly divided into three groups based on the type of treatment.The botulinum toxin (BTX) group received BTX-A injections and common support treatment plus rehabilitation training (n =19),the medication therapy group received oral baclofen and common support treatment plus rehabilitation training (n =18),and the routine rehabilitation group received only routine rehabilitation therapy (n =19).In addition,19 stroke cases without spasmodic torticollis served as a control group.They also were treated with routine rehabilitative treatment alone.Before and after 2 months of treatment,balance was assessed using Berg's balance scale,and spasmodic torticollis was evaluated using Tsui's scale.Results Before treatment the balance of the control group members was significantly better than that of the other three groups.After 2 months of therapy,balance function had improved significantly in all four groups.The balance of the botulinum toxin group was better than that of the medication and routine rehabilitation groups.After treatment,Tsui scale scores in the medication and botulinum toxin groups were significantly lower than before treatment,and the scores in the botulinum toxin group were significantly lower than in the medication and routine rehabilitation groups.There was no significant difference in Tsui scale scores before and after treatment in the control group.Conclusions Spasmodic torticollis inflaences the recovery of balance function in hemiplegic patients after stroke.Treating the spasmodic torticollis can improve their balance.Treatment with BTX-A combined with common support treatmcnt and rehabilitation training showed significant curativeeffect.

Key words: 
Secondary spasmodic torticollis; Stroke; Balance; Hemiplegia
A novel fluorogenic substrate for ribonucleases. Synthesis and enzymatic characterization (1994)

The synthesis and enzymatic characterization of DUPAAA, a novel fluorogenic substrate for RNases of the pancreatic type is described. It consists of the dinucleotide uridylyl-3',5'-deoxyadenosine to which a fluorophore, o-aminobenzoic acid, and a quencher, 2,4-dinitroaniline, have been attached by means of phosphodiester linkages. Due to intramolecular quenching the intact substrate displayed very little fluorescence. Cleavage of the phosphodiester bond at the 3'-side of the uridylyl residue by RNase caused a 60-fold increase in fluorescence. This allowed the continuous and highly sensitive monitoring of enzyme activity. The substrate was turned over efficiently by RNases of the pancreatic type, but no cleavage was observed with the microbial RNase T1. Compared to the dinucleotide substrate UpA, the specificity constant with RNase A, RNase PL3 and RNase U(s) increased 6-, 18-, and 29-fold, respectively. These differences in increased catalytic efficiency most likely reflect differences in the importance of subsites on the enzyme in the binding of elongated substrates. Studies on the interactions of RNase inhibitor with RNase A using DUPAAA as a reporter substrate showed that it was well suited for monitoring this very tight protein-protein interaction using pre-steady-state kinetic methods.
NADPH Oxidase-4 Overexpression Is Associated With Epithelial Ciliary Dysfunction in Neutrophilic Asthma (2016)

Ciliary dysfunction is increased in neutrophilic asthma associated with increased NOX4 expression and is attenuated by NADPH oxidase inhibition.
&lt;title&gt;Iris recognition: recent progress and remaining challenges&lt;/title&gt; (2004)

The increasing demand on enhanced security has led to an unprecedented interest in automated personal identification based on biometrics. Among the various biometric identification methods, iris recognition is widely regarded as the most reliable and is one of the most active research topics in biometrics. Significant progress has been made since the concept of automated iris recognition was first proposed in 1987, not only in research and algorithm development but also in commercial exploitation and practical applications. This paper provides an overview on recent progress in iris recognition and discusses some of the remaining challenges and possible future work in this exciting field.© (2004) COPYRIGHT SPIE--The International Society for Optical Engineering. Downloading of the abstract is permitted for personal use only.
A Framework for the Optimization of Discrete-Event Simulation Models (1996)

With the growing use of computer modeling and simulation, in all aspects of engineering, the scope of traditional optimization has to be extended to include simulation models. Some unique aspects have to be addressed while optimizing via stochastic simulation models. The optimization procedure has to explicitly account for the randomness inherent in the stochastic measures predicted by the model. This paper outlines a generalpurpose framework for optimization of terminating discrete-event simulation models. The methodology combines a chance constraint approach for problem formulation, together with standard statistical estimation and analyses techniques. The applicability of the optimization framework is illustrated by minimizing the operation and support resources of a launch vehicle, through a simulation model. Introduction Simulations are used to study physical systems or processes that are too complex to permit analytical model formulation and evaluation. The complexity in the ph...
Application of Continuous Substrate Feeding to the ABE Fermentation: Relief of Product Inhibition Using Extraction, Perstraction, Stripping, and Pervaporation (1992)

Abstract The technique of continuous substrate feeding has been applied to the batch fermentation process using freely suspended cells, for ABE (acetone–butanol–ethanol) production. To avoid the product inhibition which normally restricts ABE production to less than 20 g/L and sugar utilization to 60 g/L, a product removal technique has been integrated into the fermentation process. The techniques investigated were liquid‐liquid extraction, perstraction, gas‐stripping, and pervaporation. By using a substrate of whey permeate, the reactor productivity has been improved over that observed in a traditional batch fermentation, while equivalent lactose utilization and ABE production values of 180 g and 69 g, respectively, have been achieved in a 1‐L culture volume.
Treatment of ventricular tachycardia by transcatheter radiofrequency ablation in patients with ischemic heart disease. (1994)

Transcatheter RF ablation is feasible but has only moderately high efficacy in a small, selected group of patients with ischemic heart disease and drug-refractory, highly frequent, hemodynamically tolerated, sustained VT. In the majority of the patients, this treatment technique is palliative rather than definitive, and many of the patients continue to require other methods of antiarrhythmic therapy.
Eddies (2000)

In large federated and shared-nothing databases, resources can exhibit widely fluctuating characteristics. Assumptions made at the time a query is submitted will rarely hold throughout the duration of query processing. As a result, traditional static query optimization and execution techniques are ineffective in these environments. In this paper we introduce a query processing mechanism called an eddy , which continuously reorders operators in a query plan as it runs. We characterize the moments of symmetry during which pipelined joins can be easily reordered, and the synchronization barriers that require inputs from different sources to be coordinated. By combining eddies with appropriate join algorithms, we merge the optimization and execution phases of query processing, allowing each tuple to have a flexible ordering of the query operators. This flexibility is controlled by a combination of fluid dynamics and a simple learning algorithm. Our initial implementation demonstrates promising results, with eddies performing nearly as well as a static optimizer/executor in static scenarios, and providing dramatic improvements in dynamic execution environments.