gebhart/patrepeval huggingface dataset:
Reperfusion after thrombolytic therapy in ischemic stroke measured by single-photon emission computed tomography. (1994)

These findings suggest that at least some reperfusion during the first 48 hours of ischemic stroke is a common natural occurrence and is of prognostic significance. The observed trend toward better reperfusion indexes among patients treated with streptokinase is encouraging, but larger controlled trials are required to answer this definitively.
Multi-anode ionization chamber (2023)

The present invention includes a high-energy detector having a cathode chamber, a support member, and anode segments. The cathode chamber extends along a longitudinal axis. The support member is fixed within the cathode chamber and extends from the first end of the cathode chamber to the second end of the cathode chamber. The anode segments are supported by the support member and are spaced along the longitudinal surface of the support member. The anode segments are configured to generate at least a first electrical signal in response to electrons impinging thereon.
Targeted sequencing reveals expanded genetic diversity of human transfer RNAs (2019)

Transfer RNAs are required to translate genetic information into proteins as well as regulate other cellular processes. Nucleotide changes in tRNAs can result in loss or gain of function that impact the composition and fidelity of the proteome. Despite links between tRNA variation and disease, the importance of cytoplasmic tRNA variation has been overlooked. Using a custom capture panel, we sequenced 605 human tRNA-encoding genes from 84 individuals. We developed a bioinformatic pipeline that allows more accurate tRNA read mapping and identifies multiple polymorphisms occurring within the same variant. Our analysis identified 522 unique tRNA-encoding sequences that differed from the reference genome from 84 individuals. Each individual had ~66 tRNA variants including nine variants found in less than 5% of our sample group. Variants were identified throughout the tRNA structure with 17% predicted to enhance function. Eighteen anticodon mutants were identified including potentially mistranslating tRNAs; e.g., a tRNA<sup>Ser</sup> that decodes Phe codons. Similar engineered tRNA variants were previously shown to inhibit cell growth, increase apoptosis and induce the unfolded protein response in mammalian cell cultures and chick embryos. Our analysis shows that human tRNA variation has been underestimated. We conclude that the large number of tRNA genes provides a buffer enabling the emergence of variants, some of which could contribute to disease.
Influence of hydrodynamic stress on the frictional drag of biofouling communities (2016)

The role of hydrodynamic wall shear stresses on the development of the fouling community structure and resulting frictional drag were examined using a commercially available fouling release coating. Immersed test panels were exposed to three different hydrodynamic treatments, one static and two dynamic (corresponding to an estimated wall shear stress of 7.0 and 25.5 Pa). The drag of the panels was measured in a hydrodynamic test chamber at discrete time intervals over 35 days. The fouling community composition on the static panels was significantly different from the organisms observed on the dynamic panels. Despite different fouling community composition, the drag forces measured on the panels were very similar. This suggests that the frictional drag of low form and soft fouling communities are similar and that there may be a stepwise increase in frictional drag associated with the presence of mature calcareous organisms.
Transient fault detection via simultaneous multithreading (2002)

Smaller feature sizes, reduced voltage levels, higher transistor counts, and reduced noise margins make future generations of microprocessors increasingly prone to transient hardware faults. Most commercial fault-tolerant computers use fully replicated hardware components to detect microprocessor faults. The components are lockstepped (cycle-by-cycle synchronized) to ensure that, in each cycle, they perform the same operation on the same inputs, producing the same outputs in the absence of faults. Unfortunately, for a given hardware budget, full replication reduces performance by statically partitioning resources among redundant operations.
Dye-sensitised preparation of chiral plasmonic Ag nanoparticles on helical polysaccharides (2013)

AbstractWe demonstrate a new method for the preparation of silver nanoparticles (AgNPs) utilising dye-sensitised photo-reduction on triple-stranded β-1,3-glucans. Reflecting the chiral helical structure of these polysaccharides, the chiral plasmonic AgNPs were yielded when hydrophobic dyes strongly interacting with the helical β-1,3-glucan main-chain were used. This system offers a new strategy to create chiral plasmonic AgNPs and a new idea to utilise helix-forming polysaccharides as a chiral template.Keywords:: silver nanoparticlepolysaccharidedye-sensitisationphoto-reduction AcknowledgementsThis work was financially supported by the Ministry of Education, Culture, Sports, Science and Technology (MEXT) and Grant-in-Aid for Exploratory Research [grant number 22655046] and was partly supported by Nanotechnology Platform Program (Molecule and Material Synthesis) of MEXT, Japan.
Optimal economic design and operation of single and multi-column chromatographic processes (2005)

Single-column chromatography is widely used in the biopharmaceutical industries, although multi-column alternatives in the form of simulated moving bed (SMB) processes are now emerging. It may be difficult, however, to determine which column alternative will be best suited for a given application, and this work sets out to address this issue. A systematic approach is presented that is based on a full economic appraisal of each process alternative based on an optimization of the net annual profit. Single-column processes with and without recycling are considered, as are both the SMB and the Varicol process. The cyclic steady state for the SMB and Varicol processes is determined directly by complete discretization. The approach is applied to a case study based on a linear isotherm where it is found that for this particular system, a recycling policy is not necessary for the single column. When comparing the single-column process with the multi-column alternatives, the single column is the most economical provided the life time of the project is short; however, the economic benefits of the more capital-intensive multi-column processes are greater if the life time of the project is over 5 years. The SMB process is found to perform marginally better than the Varicol process over 15 years; however, this may be because not all extra degrees of freedom for the Varicol process were considered.
NUCLEATION AND CRYSTAL GROWTH FROM CERAMIC MELTS. Selected Bibliography, 1947-1964 (1965)

sedimented. The one component system proved unreliable as occasional nucleation lead to significant crystals growing on the heat transfer surfaces during cooling. The two component system functioned when crystal concentration was sufficiently low (approx. 1 cm/sup -3/) to permit sufficient growth for sedimentation; otherwise crystals remained in suspension throughout the cycle. The operating characteristics and thermal efficiency of these systems were investigated for two pilot units, and optimum operating conditions for constant power output are delineated. Studies were made of solution nucleation, secondary crystal production, linear crystal growth velocity, habit and solution viscosity, refractive index and density within the operating range of concentrations to be used in a storage system, for both supersaturated and undersaturated solutions.
Highly manufacturable FinFETs with sub-10nm fin width and high aspect ratio fabricated with immersion lithography (2007)

We investigate scalability, performance and variability of high aspect ratio trigate FinFETs fabricated with 193 nm immersion lithography and conventional dry etch. FinFETs with fin widths down to 5nm are achieved with record aspect ratios of 13. Excellent nMOS and pMOS performance is demonstrated for narrow fins and short gates. Further improvement in nMOS performance can be achieved by eliminating access resistance that is currently attributed to poor re-crystallization of implantation damage in narrow fins. Fully-depleted FinFETs show strongly improved short channel effect (SCE) control when the fin width is scaled, even without halo-implants. Nearly ideal DIBL and sub-threshold slope (SS) are achieved down to 30nm gate length. Low leakage devices are realized by combining a fully depleted channel, HfSiO high-k dielectric, mid-gap TiN metal electrodes, and aggressive fin width scaling. Symmetrical threshold voltages (±0.35 V) are achieved. It is demonstrated that selective epitaxial growth on source and drain regions is essential to limit parasitic resistance in narrow fin devices. Parametric spread is dominated by gate length variations in short devices but within-die fin width variations are still evident for long devices.
The electronic structure change with Gd doping of HfO2 on silicon (2007)

Gd-doped HfO2 films deposited on silicon substrates undergo a crystallographic change from monoclinic to fluorite (cubic) phase with increasing Gd concentrations. The crystallographic phase change is accompanied by a small increase in the valence bandwidth and in the apparent band offset in the surface region. Electrical measurements show pronounced rectification properties for lightly doped Gd:HfO2 films on p-Si and for heavily-doped Gd:HfO2 films on n-Si, suggesting a crossover from n-type to p-type behavior with increasing doping level.
Signals and Systems II (2016)

This article discusses the concept of flipped classroom. The flipped classroom concept aims to make the most of the personal contact between students and instructor, using online tools to carry some basic material that can be consulted at all times and releasing contact hours for a more creative, dynamic exchange. Creating intelligent, yet empathetic, digital technology to guide students along a personal, enjoyable, and, most importantly, effective learning experience is difficult and expectedly so. Beyond their use as teaching and learning media, online tools also serve to monitor class progress, both at the level of individual students and at the level of the class. This information allows the instructor to tailor subsequent material to the current state of learning of the class as a whole. The researchers hope that with a blended learning approach, and with digital solutions for lecture preparation, classroom engagement, and personalized learning, each student has the opportunity to obtain the best learning experience for him or herself.
PERCEIVED ORGANIZATIONAL STRUCTURE AND ALIENATION AMONG MANAGEMENT TRAINEES. (1977)

The article discusses a study on perceived organizational structure and alienation among management trainees. The results indicated that the sentiments of management trainees with regard to their c...
Identification of Campylobacter jejuni surface proteins that bind to Eucaryotic cells in vitro (1990)

To understand the role of Campylobacter jejuni surface proteins in the interaction of C. jejuni with cultured mammalian cell lines in vitro, we developed a ligand-binding assay. This procedure allowed us to antigenically identify C. jejuni outer membrane proteins (OMPs) that attach to intact host cell membranes. OMPs isolated from an invasive strain and a less invasive strain were antigenically indistinguishable. However, we found that proteins with molecular masses of 28 and 32 kilodaltons (kDa) from just the invasive strain bound to HEp-2 cell monolayers. Binding of the 32-kDa OMP was cell line specific and correlated directly with the ability of the invasive C. jejuni strain to penetrate. Such a correlation was probably also true for the 28-kDa OMP. We also investigated the binding of glycine acid extracts with cell line HEp-2. We identified four proteins with apparent molecular masses of 28, 32, 36, and 42 kDa in the invasive strain extracts that bound to HEp-2 cells. In contrast, only the 36-kDa protein from the less invasive strain bound to HEp-2 cells. Our data suggest that binding of these surface exposed proteins may play a key role in C. jejuni-host cell interactions and ultimate invasion.
Re-evaluation of plant sulpholipid labelling from UDP-[14C]glucose in pea chloroplasts (1999)

The sulphoquinovosyldiacylglycerol (sulpholipid) zone obtained by TLC of pea chloroplast lipids yields, on hydrolysis, not only sulphoquinovose but also galactose and glucose. Following incorporation from UDP-[(14)C]glucose, the percentages of the total radioactivity in these three sugars were typically 1, 5 and 85%, respectively. The occurrence of the glucolipid causes difficulties in elucidating further the biosynthetic pathway for sulphoquinovose.
Biomedical behavior of synthetic polyion complexes toward blood platelets (1980)

Abstract A group of polyion complexes (PICs) was checked as candidate for non‐thrombogenic biomaterials. To evaluate blood‐compatibility of different types of PIC, the interaction of the PICs with blood platelets was examined by passing fresh blood through a column packed with glass beads which were precoated with PIC. The course of morphological change of the platelets adhered on the surface was observed by scanning electron microscopy. The behavior (adhesion, aggregation, and deformation) of the platelets on the beads' surface was found to be significantly influenced by the mole ratio of polyanion to polycation in the PIC. The blood‐compatibility could be shown to depend also on the chemical structure of the polycation component of the PIC. Among the PICs examined, the newly synthesized PIC 5 showed the best results in terms of the number of adherent platelets and the degree of their deformation. The good blood‐compatibility of 5 is presumabley attributable to the easiness in getting to stoichiometric neutralization.
The advantages of abstract control knowledge in expert system design (1983)

A poorly designed knowledge base can be as cryptic as an arbitrary program and just as difficult to maintain. Representing control knowledge abstractly, separately from domain facts and relations, makes the design more transparent and explainable. A body of abstract control knowledge provides a generic framework for constructing knowledge bases for related problems in other domains and also provides a useful starting point for studying the nature of strategies.
Non-AIDS-Defining Events in Human Immunodeficiency Virus Controllers Versus Antiretroviral Therapy–Controlled Patients: A Cohort Collaboration From the French National Agency for Research on AIDS CO21 (CODEX) and CO06 (PRIMO) Cohorts (2023)

HICs experienced 2 times more nADEs than virologically suppressed patients on ART, mainly non-AIDS-related benign infections. Older age was associated with nADE occurrence, independent of immune or virologic parameters. These results do not argue in favor of expanding the ART indication for HICs but rather a case-by-case approach considering clinical outcomes such as nADEs besides immune activation.
Intrinsic Disorder is a Common Feature of Hub Proteins from Four Eukaryotic Interactomes (2005)

Recent proteome-wide screening approaches have provided a wealth of information about interacting proteins in various organisms.To test for a potential association between protein connectivity and the amount of predicted structural disorder, the disorder propensities of proteins with various numbers of interacting partners from four eukaryotic organisms (Caenorhabditis elegans, Saccharomyces cerevisiae, Drosophila melanogaster, and Homo sapiens) were investigated.The results of PONDR VL-XT disorder analysis show that for all four studied organisms, hub proteins, defined here as those that interact with !10 partners, are significantly more disordered than end proteins, defined here as those that interact with just one partner.The proportion of predicted disordered residues, the average disorder score, and the number of predicted disordered regions of various lengths were higher overall in hubs than in ends.A binary classification of hubs and ends into ordered and disordered subclasses using the consensus prediction method showed a significant enrichment of wholly disordered proteins and a significant depletion of wholly ordered proteins in hubs relative to ends in worm, fly, and human.The functional annotation of yeast hubs and ends using GO categories and the correlation of these annotations with disorder predictions demonstrate that proteins with regulation, transcription, and development annotations are enriched in disorder, whereas proteins with catalytic activity, transport, and membrane localization annotations are depleted in disorder.The results of this study demonstrate that intrinsic structural disorder is a distinctive and common characteristic of eukaryotic hub proteins, and that disorder may serve as a determinant of protein interactivity.
Epidemiology of Trichinellosis in Germany, 1996–2006 (2008)

The epidemiology of trichinellosis in Germany was investigated by analyzing national surveillance data from 1996-2006. During this period, 95 laboratory-confirmed infections and 12 outbreaks were reported. The highest mean annual incidence was found in immigrants from southeast European countries (0.3 cases/100,000 vs. 0.01 cases/100,000 in the German population) with an incidence rate ratio of 26.0 (95% confidence interval 11.6-51.8). The predominant clinical symptom was muscle pain in 79 patients (83%). Mean diagnostic delay was 49 days. Among patients with reported source of infection (85%; n = 81), the consumption of pork (mostly originating from endemic countries) represented the most frequent exposure (93%; n = 75). In addition, trichinellosis cases were associated with both indigenous (n = 1) and imported (n = 5) wild boar meat. Although domestic pigs in Germany are practically free from Trichinella spp., the parasite was found in German wild animals such as wild boars, foxes, and racoon dogs. We conclude that trichinellosis still remains a public health issue in Germany, especially among individuals with a migrational background. Immigrants from endemic countries need to be educated about the risks of consuming raw or inadequately cooked pork and wild boar products from their homeland. In addition, German healthcare providers need to be aware of trichinellosis, especially in areas with a large immigrant population.
Immunoglobulin G1 Transfer into induced Mammary Secretions: The Effect of Dexamethasone (1995)

The purpose of this study was to correlate the time of administration of the synthetic glucocorticoid dexamethasone with IgG 1 concentrations in hormonally induced mammary secretions of nonpregnant cattle. Nonpregnant. nonlactating Holsteins were randomly assigned to three experimental groups of 8 cows each, and all were given .05 mglkg of estrogen and .125 mglkg of progesterone by subcutaneous injection every 12 h for 7 d. In addition, cows in groups 1 and 2 received dexamethasone (20 mg/d) on d 8 to 10 and on d 11 to 13, respectively. Group 3 cows were not given dexamethasone. The IgG I concentrations in the mammary secretions of all three treatment groups rose steadily during d 1 to 7. The IgGI concentrations in mammary secretions of groups 1 and 2 decreased sharply within 3 d of the ftrst dexamethasone injection. The IgG 1 concentrations in mammary secretions of group 3 also tended to peak and then decrease, but the decreases were generally later than those of cows receiving dexamethasone. The results indicate that the IgGI transfer that occurs during induction of lactation is affected by glucocorticoid administration in a pattern similar to that reported during colostrum formation in pregnant cows.
Mega-scale experimental analysis of protein folding stability in biology and protein design (2023)

Datasets and scripts for BioRixv manuscript titled "Mega-scale experimental analysis of protein folding stability in biology and protein design" URL: https://doi.org/10.1101/2022.12.06.519132 *** <strong>IMPORTANT!</strong> <strong>Please register your use of these data</strong> so that we can continue to release new useful datasets!! This will take 10 seconds!! *** <strong>Processed_K50_dG_datasets.zip</strong> Tsuboyama2023_Dataset1_20230416.csv Tsuboyama2023_Dataset2_Dataset3_20230416.csv<br> Single_DMS_list.csv<br> Double_DMS_list.csv <br> Triple_DMS_list.csv<br> Heat_maps_single_DMS.pdf<br> Heat_maps_double_DMS.pdf <strong>Raw_NGS_count_tables.zip</strong><br> NGS_count_lib1.csv<br> NGS_count_lib2.csv<br> NGS_count_lib3.csv<br> NGS_count_lib4.csv <strong>K50_dG_tables.zip</strong><br> K50_dG_lib1.csv<br> K50_dG_lib2.csv<br> K50_dG_lib3.csv<br> K50_dG_lib4.csv <strong>Data_tables_for_figs.zip</strong><br> dG_extdG_data_Fig1.csv<br> dG_site_feature_Fig3.csv<br> dG_for_double_mutants_Fig4.csv<br> dG_non_redundant_natural_Fig5.csv<br> dG_GEMME_non_redundant_natural_Fig6.csv <strong>Pipeline_qPCR_data.zip</strong><br> Raw_qPCR_data_FigS1.csv<br> Process_qPCR_data.ipynb <strong>Pipeline_K50_dG.zip</strong><br> STEP1_module.ipynb<br> STEP1_run.ipynb<br> STEP2_run.ipynb<br> STEP3_run.ipynb<br> STEP4_module.ipynb<br> STEP4_run.ipynb<br> STEP5_module.ipynb<br> STEP5_run.ipynb<br> Raw_NGS_counts_overlapped_seqs_STEP1_lib1_lib2.csv<br> Raw_NGS_counts_overlapped_seqs_STEP1_lib2_lib3.csv<br> Raw_NGS_counts_overlapped_seqs_STEP1_lib1_lib4.csv<br> Raw_NGS_counts_overlapped_seqs_STEP1_lib2_lib4.csv<br> Raw_NGS_counts_overlapped_seqs_STEP1_lib3_lib4.csv<br> K50_scrambles_for_STEP3.csv<br> STEP1_out_protease_concentration_trypsin<br> STEP1_out_protease_concentration_chymotrypsin<br> STEP3_unfolded_model_params <strong>Pipeline_figure_model.zip</strong><br> Burial_side_chain_contact_Fig3_Fig6.ipynb<br> Additive_model_Fig4.ipynb<br> Classification_model_Fig5.ipynb <strong> </strong>Data_quality_filtering_script.ipynb <strong>AlphaFold_model_PDBs.zip</strong> <strong>Blueprints_for_EEHH.zip</strong><br> eehh_EA_GBB_AGBB.bp<br> eehh_GG_GBB_AGBB.bp<br> eehh_XX_XXX_XXXX.bp
Oxidant stress and renal function among children with chronic kidney disease: a repeated measures study (2020)

It is hypothesized that chronic kidney disease (CKD) induces oxidant stress which contributes to the decline in kidney function. However, few studies have incorporated longitudinal designs and no studies have investigated this association among children. Using data from the Chronic Kidney Disease in Children (CKiD) study, we examined longitudinal associations between urinary biomarkers of oxidant stress, 8-OH deoxyguanosine (8-OHdG) and F2-isoprostane, and measures of renal function and blood pressure among children with CKD. Baseline levels of 8-OHdG were positively associated with estimated glomerular filtration rate (eGFR) over time and a log-unit increase in baseline 8-OHdG predicted a 5.68 ml/min/1.73 m<sup>2</sup> increase in eGFR (95% Confidence Interval (CI): 3.75, 7.61). This association was attenuated when longitudinal measures of 8-OHdG were analyzed in relation to longitudinal eGFR (per log-unit increase in 8-OHdG, β = 0.81, 95% CI: 0.22, 1.39). Baseline 8-OHdG concentrations were also associated with decreased proteinuria over time, as measured by urinary protein:creatinine ratio. In addition, F2-isoprostane concentrations were associated with increases in eGFR, but only when baseline levels (vs. longitudinal levels) were considered in relation to longitudinal eGFR. There were no significant associations between either 8-OHdG or F2-isoprostane and blood pressure over time. Urinary measures of oxidant stress are not associated with worsening GFR over time. Our findings suggest that excretion of these biomarkers may be influenced by changes in glomerular and tubular function in varying patterns, which would limit their value in evaluating the impact of oxidant stress on CKD progression in children.