gebhart/patrepeval huggingface dataset:
Anaerobic production of polyunsaturated fatty acids byShewanella putrefaciensstrain ACAM 342 (1992)

The fatty acid composition of cultures of Shewanella putrefaciens strain ACAM 342 grown aero-bically and anaerobically at 15°C and 25°C were analysed by capillary gas chromatography. The bacterium was found to produce the polyunsaturated fatty acids (PUFA) 18:2ω3, 18:3ω3 and 20:5ω3 under aerobic and anaerobic conditions at both growth temperatures. This result suggests that the bacterium possesses both the aerobic and anaerobic pathways for unsaturated fatty acid synthesis, where an alternate terminal electron acceptor(s) is utilised in the absence of oxygen.
Structural basis of GM-CSF and IL-2 sequestration by the viral decoy receptor GIF (2016)

Subversion of the host immune system by viruses is often mediated by molecular decoys that sequester host proteins pivotal to mounting effective immune responses. The widespread mammalian pathogen parapox Orf virus deploys GIF, a member of the poxvirus immune evasion superfamily, to antagonize GM-CSF (granulocyte macrophage colony-stimulating factor) and IL-2 (interleukin-2), two pleiotropic cytokines of the mammalian immune system. However, structural and mechanistic insights into the unprecedented functional duality of GIF have remained elusive. Here we reveal that GIF employs a dimeric binding platform that sequesters two copies of its target cytokines with high affinity and slow dissociation kinetics to yield distinct complexes featuring mutually exclusive interaction footprints. We illustrate how GIF serves as a competitive decoy receptor by leveraging binding hotspots underlying the cognate receptor interactions of GM-CSF and IL-2, without sharing any structural similarity with the cytokine receptors. Our findings contribute to the tracing of novel molecular mimicry mechanisms employed by pathogenic viruses.
Investigation of Ni-YSZ Composite Manufactured by Electroless Ni Coating (2011)

Nickel ceramic composite has becoming highly important in mechanical engineering perspective. The paper focused on a newly developed Ni-YSZ composite manufactured by electroless nickel coating. The aims are to ensure good coating with well distributed and high ceramic particle co-deposition. Low metal to ceramic ratio increases nickel ceramic composite resistance to corrosion, wear and thermal. The 2k full factorials design of experiment was used in determining the best EN composite process parameters for high ceramic co-deposition. The composite surface microstructure and characterisation were analysed using scanning electron microscope (SEM) and the Ni composition was measured by SEM coupled with energy dispersive X-ray (EDX).
High‐throughput, high‐accuracy determination of coefficient of thermal expansion of carbon fibre–epoxy composites using digital image correlation (2017)

Abstract High‐throughput, high‐accuracy determination of thermal deformation and coefficient of thermal expansion (CTE) of carbon fibre–epoxy composites using 2D‐digital image correlation (2D‐DIC) is described. With the aid of a specially designed ultra‐stable and high fidelity imaging system, which integrates a high‐quality bilateral telecentric lens with monochromatic blue light illumination, surface images of multiple samples heated by a heating furnace can be captured simultaneously. The images of these samples at different temperatures are processed by advanced DIC algorithm to extract the thermal strains and the CTE of isotropic Al alloy, anisotropic unidirectional, and bidirectional carbon fibre–epoxy composites. Pure thermal expansions of these samples obtained after removing the small rigid‐body rotations clearly indicate the isotropic and anisotropic expansions of these samples. The well‐agreed results with literature values demonstrate the effectiveness and practicality of the proposed method for high‐throughput and high‐accuracy CTE measurements.
What transposable elements are differentially translated in lung cancer? (2013)

Meeting abstracts Transposable element (TE) expression is generally silent in somatic tissues, due to significant genomic methylation and other redundant methods of silencing. Cancer tissues, however, exhibit a marked decrease in methylation throughout the genome, which can result in de-repression
Identification of apolipoprotein A1 and immunoglobulin as components of a serum complex that mediates activation of human sperm motility (1991)

Serum is superior to other body fluids in activating the progressive motility of human spermatozoa and is used in connection with sperm separation for fertilization in vitro. The major activating capacity is localized to a macromolecular fraction, purified to homogeneity by a four-step protocol with ion-exchange chromatography, chromatofocusing, exclusion FPLC (elution corresponding to a molecular mass of about 250 kDa), and Blue Sepharose chromatography (no binding but elimination of albumin). The pure protein, at a concentration of 20-70 nmol/L, activated the motility to the same extent as serum. SDS-polyacrylamide gel electrophoresis under nonreducing conditions showed one band corresponding to a molecular mass of about 180 kDa. In the presence of mercaptoethanol, two bands are obtained corresponding to 50 kDa and about 25 kDa, respectively. Without the Blue Sepharose step, the sample after reduction revealed an additional band at about 67 kDa, suggesting that the fraction is then in complex also with albumin. Amino acid sequence analysis of the Blue Sepharose eluate identified three protein chains--those of apolipoprotein A1 and immunoglobulin heavy and light chains--suggesting that the preparation is an apolipoprotein A1-immunoglobulin complex. Antiserum raised toward the pure preparation in a rabbit inhibited human sperm motility, when added directly to spermatozoa. Pretreatment of human serum with rabbit antiserum significantly reduced its ability to activate sperm motility. The sperm activating capacity of the protein complex was destroyed by heating at 100 degrees C for 5 min, suggesting that the activity was dependent on intact protein conformations. Albumin, apolipoprotein A1, and immunoglobulins by themselves had only minor effects on sperm motility.(ABSTRACT TRUNCATED AT 250 WORDS)
ChemInform Abstract: Pyrano[4,3‐d]pyrimidinium Salts. Part 4. Transformations of 5,7‐Diaryl‐1,3‐dimethyl‐2,4‐dioxo‐1H,3H‐pyrano[4,3‐d]pyrimidinium Bromides under the Action of Phenylhydrazines and Aromatic Acid Hydrazides. (2010)

Abstract formation of hydrazides or recyclization products, i.e.pyridopyrimidine derivatives, depending on the reaction conditions and hydrazine derivative employed
Efficient RDF Representation and Parallel Join Processing Algorithm on General Purpose Many-Core (2016)

The more RDF data increase, the more difficulty we can get SPARQL query result fast when we use single processing. So it is necessary to adapt parallel processing in processing SPARQL query. This paper propose effective RDF structure and parallel SPARQL algorithm using GPU. In experiment, we evaluate our algorithm with previous work in terms of data size and query processing performance. Though experiment, we could know our system reduce averagely 50% data size and improve 20% performance in merging process.
Characterization Of Friction Stir Welded Joints Of Aa 2024-T351 - Native Vs. Treated By Laser Shock Processing (2011)

The paper presents a consistent set of results showing the ability of Laser Shock Processing (LSP) in modifying the overall properties of the Friction Stir Welded (FSW) joints made of AA 2024-T351. Based on laser beam intensities above 109 W/cm2 with pulse energies of several Joules and pulses durations of nanoseconds, LSP is able of inducing a compression residual stress field, improving the wear and fatigue resistance by slowing crack propagation and stress corrosion cracking, but also improving the overall behaviour of the structure. After the FSW and LSP procedures are briefly presented, the results of micro-hardness measurements and of transverse tensile tests, together with the corrosion resistance of the native joints vs. LSP treated are discussed. The ability of LSP to generate compressive residual stresses and to improve the behaviour of the FSW joints is underscored.
SPAID: software prefetching in pointer- and call-intensive environments (1995)

Software prefetching, typically in the context of numeric- or loop-intensive benchmarks, has been proposed as one remedy for the performance bottleneck imposed on computer systems by the cost of servicing cache misses. This paper proposes a new heuristic-SPAID-for utilizing prefetch instructions in pointer- and call-intensive environments. We use trace-driven cache simulation of a number of pointer- and call-intensive benchmarks to evaluate the benefits and implementation trade-offs of SPAID. Our results indicate that a significant proportion of the cost of data cache misses can be eliminated or reduced with SPAID without unduly increasing memory traffic.
Analysis of stripline/slot transition (1990)

An equivalent circuit model for a stripline fed half wave slot cut into a copper ground plane is described. The effect of varying various dimensions of the stripline/slot transition is monitored on the input VSWR to ensure good impedance matching over the desired frequency range.
Influence of Weighting Materials on the Properties of Oil-Well Cement (2020)

The integrity of oil and gas wells is largely dependent on the cement job. Maintaining the properties of the cement layer throughout the life of a well is a difficult task, particularly in high-temperature and -pressure conditions such as those in deep wells. Cementing deep wells require slurries with high densities. Heavyweight cement systems are those designed with weighting materials. These materials have a higher specific gravity in comparison to cement. The purpose of this work is to investigate the influence of weighting materials on the properties of Class G oil-well cement and to make necessary recommendations for their use. The rheology, fluid loss, gas migration, and dynamic elastic properties of three cement slurries containing different weighting materials, namely, hematite, barite, and ilmenite, were studied. The results indicate that cement slurry designed with barite exhibits the best rheological behavior that would provide a perfect solution for deep wells where cement placement is a concern. The barite slurry had the lowest plastic viscosity. The plastic viscosity of the hematite and ilmenite-weighted systems was higher by 11.5 and 12.4%, respectively. The barite-based slurry also had the highest yield point of 84.3 lb<sub>f</sub>/100 ft<sup>2</sup>, whereas the yield points of hematite and barite cement were 37.9 and 29.5 lb<sub>f</sub>/100 ft<sup>2</sup>, respectively. Furthermore, the gel strengths of barite cement were the highest, with 10 s and 10 min gel strengths of 11.5 and 39.5 lb<sub>f</sub>/100 ft<sup>2</sup>, respectively. Ilmenite had the most positive impact on fluid loss control, which would be appropriate in high permeable formations. It had a fluid loss of 66 mL/30 min, lower than those of the hematite (80 mL/30 min) and barite (82 mL/30 min) systems. Furthermore, the best dynamic elastic properties were exhibited by the ilmenite system, with the smallest Young's modulus (27.3 GPa) and the highest Poisson ratio (0.252). This would make the ilmenite to be very useful in developing heavyweight cement composites that could withstand severe external loads imposed on the casing and cement. The hematite cement was the most impermeable to gas migration, with a gas volume of 127.8 cm<sup>3</sup>, whereas the volume measured in the barite and ilmenite systems were 20.9 and 78% higher, respectively. This makes the hematite to be very useful in deep gas wells where gas migration control is important.
Glucose-Induced Down Regulation of Thiamine Transporters in the Kidney Proximal Tubular Epithelium Produces Thiamine Insufficiency in Diabetes (2012)

Increased renal clearance of thiamine (vitamin B(1)) occurs in experimental and clinical diabetes producing thiamine insufficiency mediated by impaired tubular re-uptake and linked to the development of diabetic nephropathy. We studied the mechanism of impaired renal re-uptake of thiamine in diabetes. Expression of thiamine transporter proteins THTR-1 and THTR-2 in normal human kidney sections examined by immunohistochemistry showed intense polarised staining of the apical, luminal membranes in proximal tubules for THTR-1 and THTR-2 of the cortex and uniform, diffuse staining throughout cells of the collecting duct for THTR-1 and THTR-2 of the medulla. Human primary proximal tubule epithelial cells were incubated with low and high glucose concentration, 5 and 26 mmol/l, respectively. In high glucose concentration there was decreased expression of THTR-1 and THTR-2 (transporter mRNA: -76% and -53% respectively, p<0.001; transporter protein -77% and -83% respectively, p<0.05), concomitant with decreased expression of transcription factor specificity protein-1. High glucose concentration also produced a 37% decrease in apical to basolateral transport of thiamine transport across cell monolayers. Intensification of glycemic control corrected increased fractional excretion of thiamine in experimental diabetes. We conclude that glucose-induced decreased expression of thiamine transporters in the tubular epithelium may mediate renal mishandling of thiamine in diabetes. This is a novel mechanism of thiamine insufficiency linked to diabetic nephropathy.
Surveillance of acute hepatitis C in Cairo, Egypt (2005)

Surveillance of acute hepatitis has been set up in two fever hospitals in Cairo to diagnose acute hepatitis C. Patients were categorized as definite acute hepatitis C with positive hepatitis C virus (HCV) RNA and without anti-HCV antibody, or probable acute hepatitis C with positive HCV RNA, positive anti-HCV antibody, alanine aminotransferase >/=4 times the upper limit of normal (ULN), and high risk parenteral exposure in the 1--3 months prior to the beginning of symptoms. From May to November 2002, 315 patients were recruited in the study. Of these, 115 (36.5%) had acute hepatitis A, 89 (28.3%) had acute hepatitis B, and 111 (35.2%) had non-A non-B acute hepatitis. Of the total with complete data (n=309), 12 (3.9%, 95% CI=2.0%-6.7%) had definite acute hepatitis C, and 11 (3.6%, 95% CI=1.8%-6.3%) had probable acute hepatitis C. In patients with definite acute hepatitis C, dental exposure (n=5) and intravenous drug use (n=2), were the only high risk procedures found in the 6 months prior to diagnosis. Five patients had no identifiable parenteral exposure. In conclusion, results from this study suggest that acute hepatitis C can be diagnosed by surveillance of acute hepatitis in hospital settings in Cairo and that minor community exposures contribute substantially to local HCV transmission.
Wordometer Systems for Everyday Life (2018)

We present in this paper a detailed comparison of different algorithms and devices to determine the number of words read in everyday life. We call our system the “Wordometer”. We used three kinds of eye tracking systems in our experiment: mobile video-oculography (MVoG); stationary video-oculography (SVoG); and electro-oculography (EoG). By analyzing the movement of the eyes we were able to estimate the number of words that a user read. Recently, inexpensive eye trackers have appeared on the market. Thus, we undertook a large-scale experiment that compared three devices that can be used for daily reading on a screen: the Tobii Eye X SVoG; the JINS MEME EoG; and the Pupil MVoG. We found that the accuracy of the everyday life devices and professional devices was similar when used with the Wordometer. We analyzed the robustness of the systems for special reading behaviors: rereading and skipping. With the MVoG, SVoG and EoG systems, we obtained estimation errors respectively, 7.2%, 13.0%, and 10.6% in our main experiment. In all our experiments, we obtained 300 recordings by 14 participants, which amounted to 109,097 read words.
Effects of Tissue Factor Pathway Inhibitor-2 Expression on Biological Behavior of BeWo and JEG-3 Cell Lines (2011)

TFPI-2 expression caused invasion and proliferation impair and induced apoptosis in TFPI-2 regulated BeWo and JEG-3 cells. It provides a clue for potential role of TFPI-2 in trophoblast.
Membrane and cytoplasmic proteome biology of anterior mice hippocampus (2008)

The prevalence of neurodegenerative diseases increases steadily and proteomics on disease-related brain areas become more and more complex, whereas suitable samples are scarce. Due to this difficulty, animal models are indispensable in understanding human biology and disease, and the most commonly used model is the mouse (Mus musculus). Mice share many genetic and physiological characteristics with humans, breed rapidly, and can be genetically modified leading to the functional characterisation of many proteins. As for human, the mouse hippocampus is one of the most important areas of the brain and has therefore been an object of intensive investigation for many years. Mouse hippocampus has served as models for degenerating brain diseases associated with Alzheimer's disease, Parkinson's disease, ischemia, epilepsy, synaptic plasticity and underlying mechanisms of learning and memory. Using 2 anterior parts of normal mouse hippocampi, we intend to characterize membrane and cytoplasmic proteome using a modified procedure previously established (WISNIEWSKI et al., 2008). This method permit the preparation and analysis of 2 individual fractions enriched in membrane and cytoplasmic proteins. The method for separation of membrane and cytoplasm fractions comprises a stepwise depletion of non-integral membrane proteins from entire tissue homogenate by high-salt, carbonate, and urea washes. The cytoplasmic proteins obtained from high-salt depletion are considered as the soluble fraction. The membrane proteins obtained from the stepwise depletion are considered as the insoluble fraction. Enzymatic digestion of both membrane and cytoplasmic fractions are carried out without use of detergents by double digestion with endoproteinase Lys-C and trypsin. Digested peptide fractions are loaded on StageTips for rapid desalting and are separated by online reversed-phase (RP) nanoscale capillary liquid chromatography (nanoLC). Separated peptides are analyzed by electrospray tandem mass spectrometry (HPLC-ESI-MS/MS). The entire procedure allows rapid processing and preparation of samples from minute amounts as 30-40 mg frozen tissue leading to about 70 g of membrane proteins and 500 g of cytoplasmic proteins. This can be extremely helpful for proteomic profiling of small pieces of tissue and clinical material. Analyses of membrane fraction identified about 45% total membrane proteins. This fraction includes glutamate receptor 1 and 2, proteins involved into the trafficking of synaptic vesicles, lipid-anchor proteins, G proteins involved in various transmembrane signalling systems, NMDAR signalling complex proteins, voltage channel proteins… Analyses of the cytoplasmic fraction identify various proteins belonging to different compartments and/or pathways. A large amount of these proteins are specifically expressed into the hippocampus and/or into the nervous system.
Supplementary figure legends from Tumor Suppressor HIPK2 Regulates Malignant Growth via Phosphorylation of Notch1 (2023)

&lt;p&gt;Supplementary figure legends&lt;/p&gt;
Segmentation, tracking, and analysis of focal adhesion dynamics in cellular microscopy imaging (2009)

Cell adhesion, a process mediated by the formation of discrete structures known as focal adhesions (FAs), is pivotal to many biological events including cell motility. Much is known about the molecular composition of FAs, although our knowledge of the spatio-temporal recruitment and the amount of the individual components present in the FAs is still incomplete. To fill this gap, an essential prerequisite is a reliable procedure for the recognition, segmentation, and tracking of FAs. While manual segmentation and tracking may provide some advantages when done by an expert, its performance is usually hindered by subjective judgement and long time required to analyse large data sets. Here, we develop a model-based segmentation and tracking algorithm that overcomes these problems. We found that our algorithm matches FA segmentation done by an expert. In addition, it contains a dedicated computational approach to correct single frame segmentation errors that may arise from the analysis of poorly defined FAs. We believe that our work establishes the basis for a comprehensive qualitative and quantitative analysis of FA dynamics and the later development of mathematical models that simulate FAs behaviour.
Cobalt Phosphate Based Zeolite Structures with the Edingtonite Framework Topology (1998)

Hydrothermal syntheses and crystal structures of five zeolite edingtonite analogues are presented. For the first time, the edingtonite framework topology is assembled using an amine-assisted synthesis approach with either 1,2-diaminopropane or 1,2-diamino-2-methylpropane. These materials are created in the cobalt phosphate system with a small concentration of trivalent cations (Al3+ and Ga3+) incorporated into the framework for the host−guest charge matching. ACP-EDI1 and GCP-EDI1 are monoclinic, whereas ACP-EDI2, ACP-EDI3, and GCP-EDI2 are tetragonal (ACP = aluminum cobalt phosphate; GCP = gallium cobalt phosphate). The difference in lattice symmetries between ACP-EDI1 and ACP-EDI2 (or GCP-EDI1 and GCP-EDI2) is related to the synthesis conditions. All five structures have three-dimensional 8-ring channels along the crystallographic [001], [110], and [1̄10] directions, regardless of the difference in symmetry. Amine molecules are more ordered in the monoclinic phases than in the tetragonal phases, and the orientational disorder of amine molecules persists at a temperature of 150 K.
Pencilbeam Irradiation Technique for Whole Brain Radiotherapy: Technical and Biological Challenges in a Small Animal Model (2013)

We have conducted the first in-vivo experiments in pencilbeam irradiation, a new synchrotron radiation technique based on the principle of microbeam irradiation, a concept of spatially fractionated high-dose irradiation. In an animal model of adult C57 BL/6J mice we have determined technical and physiological limitations with the present technical setup of the technique. Fifty-eight animals were distributed in eleven experimental groups, ten groups receiving whole brain radiotherapy with arrays of 50 µm wide beams. We have tested peak doses ranging between 172 Gy and 2,298 Gy at 3 mm depth. Animals in five groups received whole brain radiotherapy with a center-to-center (ctc) distance of 200 µm and a peak-to-valley ratio (PVDR) of ∼ 100, in the other five groups the ctc was 400 µm (PVDR ∼ 400). Motor and memory abilities were assessed during a six months observation period following irradiation. The lower dose limit, determined by the technical equipment, was at 172 Gy. The LD50 was about 1,164 Gy for a ctc of 200 µm and higher than 2,298 Gy for a ctc of 400 µm. Age-dependent loss in motor and memory performance was seen in all groups. Better overall performance (close to that of healthy controls) was seen in the groups irradiated with a ctc of 400 µm.