gebhart/patrepeval huggingface dataset:
Estimated Annual Number of Incident and Recurrent, Non-Fatal and Fatal Venous Thromboembolism (VTE) Events in the US. (2005)

Abstract Background The total annual number of VTE events and related deaths in the US is unknown, largely because the complete spectrum of disease (including asymptomatic events and sudden deaths) occurring in the community is under-recognized. Objective To estimate the total annual number of non-fatal and fatal deep vein thrombosis (DVT) and pulmonary embolism (PE) events (incident and recurrent) in the US. Methods We developed an incidence-based model that included both hospital- and community-acquired VTE events as well as death from recognized and unrecognized VTE. We estimated the annual number of community-acquired events using the average age-, sex-, and event-specific incidence rates in Olmsted County, MN (1966–1990) and Y2000 US census data. We estimated the annual number of hospital-acquired events using patient age and Y2002 International Classification of Disease (ICD-9) discharge diagnosis codes for major surgery types or acute medical illnesses within the Healthcare Utilization and Cost Database, which includes major discharge diagnoses from all US acute-care hospitals. Patients were included in the hospital model if they were deemed at risk of VTE according to current American College of Chest Physicians definitions. The hospital at-risk population was divided into categories according to type of surgery or medical diagnosis on admission. We estimated the annual number of VTE events based on the published probability of VTE with and without prophylaxis, and US prophylaxis rates, by risk group. Fatal and recurrent events were estimated based on published data. The effects of VTE and prophylaxis rate uncertainty on our estimates were tested using sensitivity analyses. Results The estimated total annual number of symptomatic VTE events in the US exceeded 600,000, (DVT, n=376,365; PE, n=237,058. Table). Table. Annual Number of Non-Fatal and Fatal, Community- and Hospital-Acquired Symptomatic VTE Events in the US Event Type Community Hospital Total Non-Fatal ---------n---------- DVT 108,240 268,125 376,365 PE 85,358 151,700 237,058 Total 193,598 419,825 613,423 Fatal DVT 649 1,609 2,258 PE 105,902 188,210 294,112 Total 106,550 189,819 296,370 VTE-related deaths were estimated at 296,370 annually. Of these deaths, 21,223 (7%) patients were diagnosed with VTE and treated, 101,032 (34%) were sudden fatal PE and 174,115 (59%) followed undetected PE. Approximately two-thirds of symptomatic VTE events were hospital-acquired and one-third were community-acquired. Conclusions Our study confirms that VTE is a major US health problem. Given that effective VTE prophylaxis and expert consensus prophylaxis guidelines are widely available, these data suggest that universal, safe and effective prophylaxis could significantly reduce US VTE incidence and related deaths. Future studies should address the impact of universal VTE prophylaxis on VTE incidence and survival.
Sustainable Ammonia Production Processes (2021)

Due to the important role of ammonia as a fertilizer in the agricultural industry and its promising prospects as an energy carrier, many studies have recently attempted to find the most environmentally benign, energy efficient, and economically viable production process for ammonia synthesis. The most commonly utilized ammonia production method is the Haber-Bosch process. The downside to this technology is the high greenhouse gas emissions, surpassing 2.16 kgCO 2 -eq/kg NH 3 and high amounts of energy usage of over 30 GJ/tonne NH3 mainly due to the strict operational conditions at high temperature and pressure. The most widely adopted technology for sustainable hydrogen production used for ammonia synthesis is water electrolysis coupled with renewable technologies such as wind and solar. In general, a water electrolyzer requires a continuous supply of pretreated water with high purity levels for its operation. Moreover, for production of 1 tonne of hydrogen, 9 tonnes of water is required. Based on this data, for the production of the same amount of ammonia through water electrolysis, 233.6 million tonnes/yr of water is required. In this paper, a critical review of different sustainable hydrogen production processes and emerging technologies for sustainable ammonia synthesis along with a comparative life cycle assessment of various ammonia production methods has been carried out. We find that through the review of each of the studied technologies, either large amounts of GHG emissions are produced or high volumes of pretreated water is required or a combination of both these factors occur.
Seamless Genetic Conversion of SMN2 to SMN1 via CRISPR/Cpf1 and Single-Stranded Oligodeoxynucleotides in Spinal Muscular Atrophy Patient-Specific Induced Pluripotent Stem Cells (2018)

Spinal muscular atrophy (SMA) is a kind of neuromuscular disease characterized by progressive motor neuron loss in the spinal cord. It is caused by mutations in the survival motor neuron 1 (SMN1) gene. SMN1 has a paralogous gene, survival motor neuron 2 (SMN2), in humans that is present in almost all SMA patients. The generation and genetic correction of SMA patient-specific induced pluripotent stem cells (iPSCs) is a viable, autologous therapeutic strategy for the disease. Here, c-Myc-free and non-integrating iPSCs were generated from the urine cells of an SMA patient using an episomal iPSC reprogramming vector, and a unique crRNA was designed that does not have similar sequences (≤3 mismatches) anywhere in the human reference genome. In situ gene conversion of the SMN2 gene to an SMN1-like gene in SMA-iPSCs was achieved using CRISPR/Cpf1 and single-stranded oligodeoxynucleotide with a high efficiency of 4/36. Seamlessly gene-converted iPSC lines contained no exogenous sequences and retained a normal karyotype. Significantly, the SMN expression and gems localization were rescued in the gene-converted iPSCs and their derived motor neurons. This is the first report of an efficient gene conversion mediated by Cpf1 homology-directed repair in human cells and may provide a universal gene therapeutic approach for most SMA patients.
A Bioorganometallic Approach for the Electrochemical Detection of Proteins: A Study on the Interaction of Ferrocene–Peptide Conjugates with Papain in Solution and on Au Surfaces (2007)

In this paper, a new bioorganometallic approach for the detection of proteins using surface-bound ferrocene-peptide conjugates is presented. Specifically, a series of peptide conjugates of 1'-aminoferrocene-1-carboxylic acid (ferrocene amino acid, Fca) is synthesized: Boc-Fca-Gly-Gly-Tyr(Bzl)-Arg(NO2)-OMe (2), Thc-Fca-Gly-Gly-Tyr(Bzl)-Arg(NO2)-OMe (3), Thc-Fca-Gly-Gly-Tyr(Bzl)-Arg(NO2)-OH (4), Boc-Fca-Gly-Gly-Arg(Mtr)-Tyr-OMe (7), Thc-Fca-Gly-Gly-Arg(Mtr)-Tyr-OMe (8), Thc-Fca-Gly-Gly-Arg(Mtr)-Tyr-OH (9), Thc-Fca-Gly-Gly-Arg-Tyr-OH (10). The peptide is conjugated to the C-terminal side of Fca and compounds 4, 7-10 possess a thiostic acid linked to the N-terminal side of Fca in order to facilitate formation of thin films on gold substrates. Competitive inhibition towards papain was determined for Thc-Fca-Gly-Gly-Tyr(Bzl)-Arg(NO2)-OH (4), Thc-Fca-Gly-Gly-Arg(Mtr)-Tyr-OH (9) and Thc-Fca-Gly-Gly-Arg-Tyr-OH (10). The binding interaction between the peptide modified substrates and papain enzyme was studied using real-time surface plasmon resonance (SPR) imaging. Peptide 10 showed the strongest binding affinity to papain. Adsorption/desorption rate constants were ka = 1.75+/-0.05 x 10(5) M(-1) s(-1) and kd = 2.90 +/- 0.05 x 10(-2) s(-1). Interactions of papain with Fca-peptide 10 were investigated by cyclic voltammetry. The interaction results were also verified by measuring the electrochemical response of the peptide-papain interaction as function of increasing enzyme concentration. A linear relationship was observed for papain concentration of up to 80 nM. Shifting to higher potentials as well as decrease in the overall signal intensity was observed. The detection limit was 4 x 10(-9) M.
Activity of LY146032 in vitro and in experimental enterococcal pyelonephritis (1987)

The efficacy of LY146032 (LY), a new lipopeptide antibiotic, was compared with that of vancomycin, ciprofloxacin, ceftriaxone, imipenem, and gentamicin and combinations of LY-ceftriaxone, LY-imipenem, and LY-gentamicin against 15 strains of Streptococcus (Enterococcus) faecalis by microtiter dilution and checkerboard techniques. LY was effective within a very narrow range of drug concentrations (from 0.125 to 2.0 micrograms/ml) and was more active than other agents tested against S. faecalis. Enhanced inhibition of S. faecalis was seen more frequently with combinations of either penicillin or ampicillin and an aminoglycoside than with combinations of LY and gentamicin, imipenem, or ceftriaxone. The in vivo efficacy of LY was compared with that of vancomycin and ampicillin alone and combinations of vancomycin-gentamicin, ampicillin-gentamicin, and LY-gentamicin in a rat model of chronic enterococcal pyelonephritis. At a dose of 10 mg/kg given twice daily, LY reduced the number of organisms per kidney significantly compared with that in infected untreated controls within 48 h after the initiation of therapy. At 20 mg/kg given once a day, LY was less effective but reduced colony counts significantly after 4 days of therapy, and its activity was comparable to that of vancomycin or vancomycin-gentamicin given twice daily. LY may be a promising agent for the treatment of enterococcal infections.
Direct Method for Determining Inorganic Phosphate in Serum with the "CentrifiChem" (1972)

Abstract A direct method was developed for determining inorganic phosphate in serum, which requires only a single reagent addition. The method quantitates the unreduced phosphomolybdate heteropolyacid at 340 nm and is linear to at least 10 mg of phosphate per 100 ml. Only 10 µl of serum is required. The unique blanking capabilities of centrifugal analyzers permit the "on run" elimination of serum and reagent background absorbances, which are automatically subtracted. Data on precision, correlation, and recovery are presented. Kinetics of the reaction were studied, and theoretical limits of automatic blanking when applied to a first-order reaction are discussed.
A Critical Evaluation of Indentation Techniques for Measuring Fracture Toughness: I, Direct Crack Measurements (1981)

The application of indentation techniques to the evaluation of fracture toughness is examined critically, in two parts. In this first part, attention is focused on an approach which involves direct measurement of Vickers‐produced radial cracks as a function of indentation load. A theoretical basis for the method is first established, in terms of elastic/plastic indentation fracture mechanics. It is thereby asserted that the key to the radial crack response lies in the residual component of the contact field. This residual term has important implications concerning the crack evolution, including the possibility of post indentation slow growth under environment‐sensitive conditions. Fractographic observations of cracks in selected “reference” materials are used to determine the magnitude of this effect and to investigate other potential complications associated with departures from ideal indentation fracture behavior. The data from these observations provide a convenient calibration of the Indentation toughness equations for general application to other well‐behaved ceramics. The technique is uniquely simple in procedure and economic in its use of material.
Characterization of mouse Trip6: a putative intracellular signaling protein (1999)

Trip6 is a human LIM domain-containing protein that has been identified in yeast two-hybrid screens as interacting with a variety of proteins. Trip6 has been proposed to transport signals from the cell surface to the nucleus. In this report, we have characterized a mouse cDNA encoding Trip6. Mouse Trip6 is highly similar to human Trip6, especially in the C-terminal LIM domain region, and the in vitro and in vivo mouse Trip6 cDNA directs the synthesis of a polypeptide with a relative mobility of approx. 57kDa on SDS-polyacrylomide gels. Full-length Trip6 localizes to discrete cytoplasmic patches when overexpressed in chicken embryo fibroblasts, consistent with localization to focal adhesion plaques. However, deletion of the N-terminal 115 amino acids allows Trip6 to enter the nucleus of CEF. A GAL4 fusion protein containing the LIM domain region of mouse Trip6 can activate transcription in yeast and chicken fibroblasts. Our results indicate that the functional domains and properties of mouse Trip6 are highly conserved between humans and mice, and are consistent with a model in which Trip6 relays signals from the cell surface to the nucleus.
Isolation and characterization of a 1,4-beta-D-glucan glucohydrolase from the yeast, Torulopsis wickerhamii. (1986)

1,4-beta-D-Glucan glucohydrolase (exo-1,4-beta-D-glucosidase) (EC 3.2.1.74) was isolated from growth supernatants of Torulopsis wickerhamii and was subjected to hydrodynamic, optical (CD), and kinetic analysis after purification to homogeneity by ammonium sulfate precipitation, size exclusion chromatography, ion exchange chromatography, and isopycnic banding centrifugation in cesium chloride. The last step was found to separate the enzyme from strongly associating, high molecular weight polysaccharide. Enzyme homogeneity was established by isoelectric focusing, sodium dodecyl sulfate-gel electrophoresis, and analytical high performance size exclusion chromatography using dual detection. The native exo-1,4-beta-D-glucosidase was found to be a dimer of 151,000 +/- 21,100 daltons by high performance size exclusion chromatography and 143,600 +/- 1,800 daltons by sedimentation equilibrium. The enzyme has a 12% linked carbohydrate content (mostly mannose) and no essential metal ions. Hydrolysis of p-nitrophenyl-beta-D-glucopyranoside was found to be optimal at pH 4.25 and 50 degrees C. The enzyme was found to produce beta-D-glucose from cellodextrins (indicating retention of anomeric configuration during hydrolysis) and demonstrated depolymerization from the non-reducing polymer terminus. The enzyme followed competitive type inhibition with p-nitrophenyl-beta-D-glucopyranoside as substrate and demonstrated high values of Ki for D-glucose and D-cellobiose inhibition (190 and 230 mM, respectively). The exo-1,4-beta-D-glucosidase was found to hydrolyze cellotetraose more rapidly than D-cellobiose and aryl-beta-D-glycosides more rapidly than all other substrates. Low levels of activity were found for the polymeric substrates beta-glucan (yeast cell walls), Avicel, and Walseth cellulose. Although this enzyme demonstrates broad disaccharide substrate specificity, a characteristic common to beta-D-glucosidases from many sources, the ability to hydrolyze higher cellodextrins more rapidly than cellobiose renders this enzyme the first exo-1,4-beta-D-glucosidase purified from yeast.
Dynamic expression of protective CEACAM1 on melanoma cells during specific immune attack (2008)

An efficient immune response against tumours depends on a well-orchestrated function of integrated components, but is finally exerted by effector tumour-infiltrating lymphocytes (TIL). We have previously reported that homophilic CEACAM1 interactions inhibit the specific killing and interferon-gamma (IFN-gamma) release activities of natural killer cells and TIL. In this study a model for the investigation of melanoma cells surviving long coincubation with antigen-specific TIL is reported. It is demonstrated that the surviving melanoma cells increase their surface CEACAM1 expression, which in turn confers enhanced resistance against fresh TIL. Furthermore, it is shown that this is an active process, driven by specific immune recognition and is at least partially mediated by lymphocyte-derived IFN-gamma. Similar results were observed with antigen-restricted TIL, either autologous or allogeneic, as well as with natural killer cells. The enhanced CEACAM1 expression depends, however, on the presence of IFN-gamma and sharply drops within 48 hr. This may be a mechanism that allows tumour cells to transiently develop a more resistant phenotype upon recognition by specific lymphocytes. Therefore, this work substantiates the melanoma-promoting role of CEACAM1 and marks it as an attractive target for novel immunotherapeutic interventions.
Use of estimated breeding values in a selection index to breed Yorkshire pigs for high and low immune and innate resistance factors (1992)

Abstract A random bred population of Yorkshire pigs (Go) was characterized using fourteen various indicators of immune and innate resistance. Based on initial heritability estimates and correlations between these traits, two measures of antibody (serum IgG, and antibody response to HEWL), and cellular activity (blastogenic response to Con A and cutaneous DTH to BCG/PPD), and one indicator of innate monocyte function (uptake and killing of S. typhimurium) were chosen as breeding criteria to be used in a composite selection index. Based on these five traits a combined estimated breeding value (EBV) was calculated for each animal and pigs were assigned to High, Low or Control breeding groups. Approximately 120 first generation piglets (G1) were then similarly evaluated. Based on Go plus G1 heritability estimates were 0.25, 0.23, 0.08, 0.08 and zero for secondary antibody response to HEWL, blastogenic response to Con A, cutaneous DTH to BCG/PPD, serum IgG, and monocyte function, respectively. Least squares means reflected these estimates in that there were significant (p ≤ 0.05) differences between High and Low line G1 pigs in antibody, blastogenic, and DTH responses. However, there were no significant line differences in serum IgG or uptake and killing of S. typhimurium. Response to selection was determined both by differences in least squares means and differences in average EBV between the High and Low lines. After one generation of selection, lines were separated by 1.508 (least squares) and 1.205 (EBV) index points, or slightly more than half a standard (phenotypic) deviation.
The Ullmann Ether Condensation (1974)

The review deals with the Ullmann condensation as the most important method for the synthesis of aromatic ethers. The available information about the dependence of the reactivity of the reactants on structure and the reaction mechanism is examined and the experimental condensation conditions are discussed. The bibliography includes 241 references.
Protection against membrane-mediated cytotoxicity by calcium and zinc. (1990)

Injection of S. aureus alpha toxin or ultraviolet-inactivated Sendai virus into the mammary gland of lactating mice leads to cytopathic changes in the alveolar cells compatible with a breakdown of their permeability barrier. Simultaneous administration of Ca2+ or Zn2+ prevents such changes, as it does when added to alveolar cells in vitro. It is concluded that increased levels of Zn2+ (and under certain conditions of Ca2+) may exert a protective role that is clinically significant.
Electromagnetic theory of enhanced Raman scattering by molecules adsorbed on rough surfaces (1980)

A theory for surface enhanced Raman scattering (SERS) is developed. Effects due to realistic surface geometry and dielectric properties are included. Three sources of enhanced Raman scattering are noted: the image dipole enhancement effect, the increase of local field (’’lightning rod’’ effect), and the resonant excitation of surface plasmons. The surface is modeled as a hemispheroid protruding from a conducting plane, although other models are considered. The spherical limit is discussed in some detail and molecular orientation effects are considered. Cross sections for Mie, Rayleigh, and Raman scattering are derived.
The ray engine (2002)

Assisted by recent advances in programmable graphics hardware, fast rasterization-based techniques have made significant progress in photorealistic rendering, but still only render a subset of the effects possible with ray tracing. We are closing this gap with the implementation of ray-triangle intersection as a pixel shader on existing hardware. This GPU ray-intersection implementation reconfigures the geometry engine into a ray engine that efficiently intersects caches of rays for a wide variety of host-based rendering tasks, including ray tracing, path tracing, form factor computation, photon mapping, subsurface scattering and general visibility processing.
Biomaterials Surface Characterization and Modification (2006)

This paper presents several examples of recent work in the field of surface modification and characterization of biomaterials. Due to the explosion of techniques and approaches in this area, a complete review would be unmanageable in a single paper. Rather selected examples taken from such different areas as bone-contacting devices, drug eluting stents, and immobilization of novel biomolecules are presented. The aim is to place the existing and quickly developing background of analytical and synthetic biomaterial surface science into the current perspective of this rapidly evolving discipline.
Statistical fault injection: Quantified error and confidence (2009)

Fault injection has become a very classical method to determine the dependability of an integrated system with respect to soft errors. Due to the huge number of possible error configurations in complex circuits, a random selection of a subset of potential errors is usual in practical experiments. The main limitation of such a selection is the confidence in the outcomes that is never quantified in the articles. This paper proposes an approach to quantify both the error on the presented results and the confidence on the presented interval. The computation of the required number of faults to inject in order to achieve a given confidence and error interval is also discussed. Experimental results are shown and fully support the presented approach.
CD4-independent infection of human peripheral blood dendritic cells with isolates of human immunodeficiency virus type 1 (1993)

Dendritic cells (DC) are members of a distinct family of bone marrow-derived leukocytes. DC are potent accessory cells for a number of T cell-mediated immune responses, including autologous and allogeneic mixed leukocyte reactions, and mitogen- and antigen-stimulated lymphocyte proliferation. In the present study, DC purified from human peripheral blood were inoculated with various strains (IIIB, SF2, WMJ1, SF162, 89.6 and clone HXB2) of human immunodeficiency virus type 1 (HIV-1) displaying different patterns of cellular tropism. Viral replication was demonstrated by detection of p24 antigen (Ag) intracellularly and in culture supernatants, and by Southern and Northern blot analyses for the presence of HIV DNA and RNA, respectively, within infected cells. Cell-free and cell-associated p24 Ag levels rose substantially when DC were inoculated with strains SF162, 89.6 and clone HXB2. In contrast, p24 Ag levels rose only marginally after inoculation of DC with strains IIIB, SF2 and WMJ1. Purified DC did not express detectable membrane CD4, although CD4 mRNA was detected by reverse transcriptase PCR. The presence of anti-CD4 monoclonal antibodies failed to block infection of DC by any of the HIV strains tested, suggesting the existence of a CD4-independent alternative pathway of viral entry. The possibility that DC serve as a reservoir for HIV-1 must be considered.