gebhart/patrepeval huggingface dataset:
Quantitative Analysis of the Immunosuppressant CP-690,550 in Whole Blood by Column-Switching High-Performance Liquid Chromatography and Mass Spectrometry Detection (2005)

A fast and accurate method to quantify the new immunosuppressive JAK3 inhibitor CP-690,550 in whole blood using a dual-pump liquid chromatography-liquid chromatography-mass spectrometry (LC/LC-MS) system was developed and validated in nonhuman primate blood. Before injection, blood samples were prepared by precipitation with a reagent that included methanol and acetonitrile (30:70, vol/vol) along with the internal standard (CP-istd). Column-switching LC/LC-MS analysis used online extraction followed by separation on a C8 analytic column and MS detection of the [M + H] CP-690,550 (m/z = 313.1) and CP internal standard (m/z = 288.1). Linearity was always better than r = 0.99 (n = 7) for CP-690,550 (range 2.5-750 ng/mL), with a lower limit of quantification (LLOQ) of 2.5 ng/mL. The intrarun accuracy and precision ranged from 103.0% to 105.4% and 2.7% to 4.3%, respectively (n = 5), and the interday precision ranged from 8.7% to 11.1%, and the interday accuracy ranged from 98.1% to 103.8% of nominal values (n = 14). The injection repeatability for the method was 1.3% (n = 7). Except for the LLOQ, the intraday accuracy and precision in human blood were also within 15% (n = 5). The combination of simple sample preparation and short analytic run time of this sensitive procedure makes it effective for monitoring the concentration of CP-690,550 in whole blood in organ-transplant recipients.
LOCAL WEED PROBLEMS (1955)

In the past the farmer in Hawkes Bay regarded weeds as a natural hazard. As such he accepted them. With the development of selective weedkillers.there is at least a straw for him to clutch at. In a 1954 survey the most important problems listed for Hawkes Bay were the pasture weeds, barley grass, thistles, blackberry and gorse, and the crop weeds in lucerne, red clover, brassicas, small seed crops and peas. The list also included over 20 other prevalent weeds, docks, weeds in drains, etc. In this paper I intend discussing the more important problems for which chemical weedkillers are of value.
Environmentally Safe Oil-Based Fluids for Drilling Activities (1999)

Abstract Diesel based drilling fluids had been widely used in the past due to its low price in the market. However, it has been well documented the adverse health and environmental effects of Diesel mostly due to the high aromatic hydrocarbon content which makes it toxic. As an alternative to the use of Diesel, PDVSA-Intevep has addressed efforts toward the development of environmentally safe drilling fluids. In that sense, new oil based mud formulated with mineral oil (&lt; 0.1% aromatics) and palm tree oil (without aromatic), both produced in Venezuela, have been used for drilling operation proposes to overcome the environmental and health risks. The present work evaluated the toxicity and biodegradability of mineral and palm tree oil-base drilling fluids compared to those formulated with Diesel. Standard procedures were performed for both tests. US-EPA protocols were followed for toxicity evaluation and A.S.T.M for biodegradability tests. Biodegradation rate of drilling cuttings impregnated with the three fluids were estimated in soil pans at laboratory scale to determine bioremediation process of the waste. The results indicate that mineral and palm tree oil based fluids are no toxic (LC50 &gt; 30,000 ppm) while Diesel showed high toxicity levels (LC50 19,000 ppm). Under anaerobic conditions, the palm tree oil based fluid was the only biodegraded (&gt;70%). From the soil pan studies, the three types of oil impregnated cuttings showed to be bioremediated; nevertheless, the palm tree cuttings biodegrade in soil compost even without aeration.
Quantifying the Link between Anatomical Connectivity, Gray Matter Volume and Regional Cerebral Blood Flow: An Integrative MRI Study (2011)

Connectivity and perfusion are systematically linked throughout a number of brain regions, thus we discuss these results as a starting point for further research on the role of homology in the formation of functional connectivity networks and on how structure/function relationships can manifest in the form of such trait interdependency.
Broadband acquisition, deblending, and imaging employing dispersed source arrays (2016)

With the latest advancements and improvements in recording equipment, field management systems, and vibrator mechanical and hydraulic systems, along with lighter detector/channel receiver station distributions, the quest for broadband acquisition, processing, and interpretation is more intense than ever. In an effort to reduce the acquisition cycle time and improve seismic imaging and resolution while optimizing costs, a number of unique land acquisition experiments were conducted, employing aggressive and nonaggressive blended source effort rules. The acquired data were used to demonstrate the effectiveness of source deblending technologies and full-waveform inversion (FWI) capabilities in such a unique data set. These experiments were unique in that the key field parameters needed for FWI, such as low frequencies (1.5–6 Hz), were recorded in combination with mid- and high-sweep frequency bandwidths and variable sweep lengths. This concept is described in the industry as a dispersed source array field acquisition configuration. This fit-for-purpose seismic land acquisition scheme can significantly increase field productivity and produce data that can be employed for near-surface characterization (high frequencies), accurate subsurface velocity estimation (low frequencies), and, thus, broadband high-resolution subsurface images.
A Digital Approach to Time-Delay Spectrometry (1989)

The design and the development of a completely digital implementation of a TDS) system using an IBM-AT and the Ariel DSP-16 data acquisition board are explained. Employing a technique similar to that used for TDS measurements, the energy-time curve (ETC) of acoustical systems can be obtained. The theory and mathematical analysis of the TDS/ETC system are discussed with emphasis on the actual digital implementation. Examples demonstrate the operation of the system and, at the same time, disclose some of its subtle limitations
Synthesis and Characterization of Cyclotetraphosphato Complexes of Rh(I), Ir(I), Ru(II), and Pd(II) (2003)

The cyclotetraphosphate ion (P(4)O(12)(4)(-)) as a PPN (PPN = (PPh(3))(2)N(+)) salt reacts with [MCl(cod)](2) (M = Rh, Ir; cod = 1,5-cyclooctadiene) to give the dinuclear complexes (PPN)(2)[[M(cod)](2)(P(4)O(12))], in which the two metal moieties are situated trans to each other with respect to the P(4)O(4) ring in the solid state. In solution, however, these complexes exist as mixtures of trans and cis isomers. On the other hand, the P(4)O(12)(4)(-) ion reacts with 4 equiv of [Rh(cod)(MeCN)(x)](+) cation to give the tetranuclear complex [[Rh(cod)](4)(P(4)O(12))], where the four Rh(cod) fragments are bound to the P(4)O(12) platform alternately on both sides of the P(4)O(4) ring. Dinuclear P(4)O(12) complexes of ruthenium and palladium are also synthesized.
Measurement of the Humoral Immune Response following an Incident Human Papillomavirus Type 16 or 18 Infection in Young Women by a Pseudovirion-Based Neutralizing Antibody Assay (2008)

We have evaluated a neutralizing antibody assay which uses human papillomavirus (HPV) type 16 (HPV-16) and HPV-18 pseudovirions carrying a secretory alkaline phosphatase reporter gene and which can potentially measure functionally relevant HPV type-specific neutralizing antibodies. The reproducibility of the assay was excellent; for HPV-16, the intra- and interassay kappa values were 0.95 and 0.90, respectively; and for HPV-18, the corresponding values were 0.90 and 0.90. This assay was used to describe the kinetics of the neutralizing antibody response in a cohort of 42 young women who were recruited soon after first intercourse and who first tested positive for HPV-16 DNA or HPV-18 DNA, or both, during follow-up. Most women seroconverted following the first detection of type-specific HPV DNA and remained seropositive until the end of follow-up. Our findings are broadly consistent with those of two other cohort studies which have measured the serological response following an incident infection by using the technically simpler virus-like-particle-based enzyme-linked immunosorbent assay.
More Microproblematica from the Middle East (1962)

Favreina spp. (crustacean pellets) are described from horizons ranging from Triassic to Miocene in the Middle East. Three new Jurassic species and two new genera are also described from the same area. The problematic organisms Tubiphytes (=Nigriporella), Pseudovermiporella, Tubulites, Hensonella and Distichoplax are recorded and discussed.
An improved current-comparator-based 1000-A transconductance amplifier for the in-situ calibration of transformer loss measuring systems (1993)

A current comparator technique and an error feedforward control strategy are applied to the design of a high current transconductance amplifier to obtain a highly stable and accurate output current. The transconductance amplifier features a current output range of 1000 A with a compliance voltage of 3 V. It has the ability to provide a highly accurate current to a circuit that is operated at high voltage. This high-current transconductance amplifier is used in a system for the in-situ calibration of transformer loss measuring systems. The output current has accuracies of better than +or-10 ppm (parts-per-million) in both magnitude and phase.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
R$^3$: Reinforced Reader-Ranker for Open-Domain Question Answering (2017)

In recent years researchers have achieved considerable success applying neural network methods to question answering (QA). These approaches have achieved state of the art results in simplified closed-domain settings such as the SQuAD (Rajpurkar et al., 2016) dataset, which provides a pre-selected passage, from which the answer to a given question may be extracted. More recently, researchers have begun to tackle open-domain QA, in which the model is given a question and access to a large corpus (e.g., wikipedia) instead of a pre-selected passage (Chen et al., 2017a). This setting is more complex as it requires large-scale search for relevant passages by an information retrieval component, combined with a reading comprehension model that "reads" the passages to generate an answer to the question. Performance in this setting lags considerably behind closed-domain performance. In this paper, we present a novel open-domain QA system called Reinforced Ranker-Reader $(R^3)$, based on two algorithmic innovations. First, we propose a new pipeline for open-domain QA with a Ranker component, which learns to rank retrieved passages in terms of likelihood of generating the ground-truth answer to a given question. Second, we propose a novel method that jointly trains the Ranker along with an answer-generation Reader model, based on reinforcement learning. We report extensive experimental results showing that our method significantly improves on the state of the art for multiple open-domain QA datasets.
The Legalization of Racism in a Constitutional State: Democracy's Suicide in Vichy France (1998)

This Article is a study of how a constitutional democracy can undermine itself from within, without resorting to illegal methods, and how institutional mechanisms for perpetuating democracy can be perverted to achieve the demise of the very goals they were designed'to safeguard. Vichy France is examined as a system of polysemic symbols created both constructively and destructively from the system of symbols of the regime that preceded it. Finally, Vichy's legacy is analyzed in terms of the recent trial of Maurice Papon, a trial which raised discomfiting issues about judicial constructions of collective memory.
Electron knock-on cross section of carbon and boron nitride nanotubes (2007)

We present a theoretical description of electron irradiation of single-walled carbon and boron nitride nanotubes. In a first step, the anisotropy of the atomic emission energy threshold is obtained within extended molecular-dynamics simulations based on the density-functional tight-binding method. In a second step, we numerically derive the total Mott cross section for different emission sites as a function of the incident electron energy. Two regimes are then described: at low irradiation energies (below $300\phantom{\rule{0.3em}{0ex}}\mathrm{keV}$), the atoms are preferentially ejected from the upper and lower parts of the tube, while at high energies (above $300\phantom{\rule{0.3em}{0ex}}\mathrm{keV}$), the atoms are preferentially ejected from the side walls. Typical values from a fraction of barn (at side wall for $150\phantom{\rule{0.3em}{0ex}}\mathrm{keV}$ electron) up to around $20\phantom{\rule{0.3em}{0ex}}\text{barn}$ (for $1\phantom{\rule{0.3em}{0ex}}\mathrm{MeV}$ electrons) are obtained for the total cross section of knock-on processes for both C and BN nanotubes. These values are smaller than those previously reported using isotropic models and the main reasons for the discrepancies are discussed. Finally, in boron nitride nanotubes, we report that the emission energy threshold maps show boron sputtering to be more favorable for low irradiation energies, while nitrogen sputtering is more favorable at high energies. These calculations of the total knock-on cross section for various nanotubes can be used as a guideline for transmission electron microscopy experimentalists using high energy focused beams to shape nanotubes, and also more generally if electron irradiation is to be used to change nanotube properties such as their optical behavior or conductivity.
Autoimmunity to collagen in adult periodontal disease (1988)

Although it has been documented that exogenous antigens of microbial origin are involved in the induction of the local inflammatory responses in human adult periodontitis (AP), endogenous antigens may contribute to the chronicity of this common disease. In this study, we used the enzyme-linked immunospot (ELISPOT) test to enumerate antibody-secreting cells to human collagen Types I-VI by cells isolated from the gingivae and peripheral blood of AP patients. Analyses of dissociated cells from gingivae of 39 AP patients revealed the presence of high numbers of cells that secrete antibodies to Type I collagen, and to a lesser extent, Type III. Although the majority of such cells produced specific antibodies of the IgG class, IgA- and IgM- anti-collagen -secreting cells were also detected. When compared to the total antibody-producing cells, the numbers of cells forming specific antibodies to collagen Type I were surprisingly high. In contrast, anti-collagen antibody-producing cells were rarely detected in the peripheral blood of patients with adult periodontal disease and only low levels of anti-collagen antibodies were present in the serum. The finding of local production of anti-collagen antibodies in AP suggests that autoimmunity may contribute to the pathogenesis of this common disease.
Thermoradiotherapy in human head and neck squamous cell carcinoma cell lines (2002)

Thermoradiosensitivity of 8 cell lines of head and neck squamous cell carcinoma (HO-1-u-1, HSC2, HSC3, HSC4, SAS, KB, Hep2, and Ca9-22) was investigated. The differences of radiosensitivity between the cell line with the highest radiosensitivity and the cell line with the lowest radiosensitivity were 1.7-, 7.7-, and 41-fold at 2, 6 and 8 Gy, respectively. The differences between the cell line with the highest thermosensitivity and the cell line with the lowest thermosensitivity were 2.4-, 6.2- and 34.4-fold at 43 degrees C for 40, 60 and 100 min, and 2.6-, 4.9- and 127-fold at 44 degrees C for 20, 30 and 50 min, respectively. These findings indicated that there were large differences in both radiosensitivity and thermosensitivity among the 8 cell lines. There was a negative relationship between radiosensitivity and thermosensitivity (43 degrees C: r=-0.600, 44 degrees C: r=-0.848) in 7 of 8 cell lines, the exception being the HSC4 cell line, which was resistant to both therapies. Four of the 8 cell lines at 43 degrees C and 5 at 44 degrees C in the radiotherapy combined with thermotherapy showed actual survival rates smaller than the theoretical survival rates. Thus, thermoradiotherapy was deemed effective in the head and neck carcinoma cell lines, although 1 of 8 cell lines was resistant to both radiotherapy and thermotherapy.
Automated counting of white blood cells in synovial fluid (2003)

The WBC count in synovial fluid can be reliably determined using the DIFF channel of the Sysmex XE-2100. Automated counting of WBC in synovial fluid offers more precise and faster results than manual counting.
Poly(vinyl alcohol) Physical Hydrogels: Noncryogenic Stabilization Allows Nano- and Microscale Materials Design (2011)

Physical hydrogels based on poly(vinyl alcohol), PVA, have an excellent safety profile and a successful history of biomedical applications. However, highly inhomogeneous and macroporous internal organization of these hydrogels as well as scant opportunities in bioconjugation with PVA have largely ruled out micro- and nanoscale control and precision in materials design and their use in (nano)biomedicine. To address these shortcomings, herein we report on the assembly of PVA physical hydrogels via "salting-out", a noncryogenic method. To facilitate sample visualization and analysis, we employ surface-adhered structured hydrogels created via microtransfer molding. The developed approach allows us to assemble physical hydrogels with dimensions across the length scales, from ∼100 nm to hundreds of micrometers and centimeter sized structures. We determine the effect of the PVA molecular weight, concentration, and "salting out" times on the hydrogel properties, i.e., stability in PBS, swelling, and Young's modulus using exemplary microstructures. We further report on RAFT-synthesized PVA and the functionalization of polymer terminal groups with RITC, a model fluorescent low molecular weight cargo. This conjugated PVA-RITC was then loaded into the PVA hydrogels and the cargo concentration was successfully varied across at least 3 orders of magnitude. The reported design of PVA physical hydrogels delivers methods of production of functionalized hydrogel materials toward diverse applications, specifically surface mediated drug delivery.
A water soluble parthenolide analog suppresses <i>in vivo</i> tumor growth of two tobacco‐associated cancers, lung and bladder cancer, by targeting NF‐κB and generating reactive oxygen species (2010)

Dimethylaminoparthenolide (DMAPT) is a water soluble parthenolide analog with preclinical activity in hematologic malignancies. Using non-small lung cancer (NSCLC) cell lines (A549 and H522) and an immortalized human bronchial epithelial cell line (BEAS2B) and TCC cell lines (UMUC-3, HT-1197 and HT-1376) and a bladder papilloma (RT-4), we aimed to characterize DMAPT's anticancer activity in tobacco-associated neoplasms. Flow cytometric, electrophoretic mobility gel shift assays (EMSA), and Western blot studies measured generation of reactive oxygen species (ROS), inhibition of NFκB DNA binding, and changes in cell cycle distribution and apoptotic proteins. DMAPT generated ROS with subsequent JNK activation and also decreased NFκB DNA binding and antiapoptotic proteins, TRAF-2 and XIAP. DMAPT-induced apoptotic cell death and altered cell cycle distribution with upregulation of p21 and p73 levels in a cell type-dependent manner. DMAPT suppressed cyclin D1 in BEAS2B. DMAPT retained NFκB and cell cycle inhibitory activity in the presence of the tobacco carcinogen nitrosamine ketone, 4(methylnitrosamino)-1-(3-pyridyl)-1-butanone (NNK). Using a BrdU accumulation assay, 5-20 μM of DMAPT was shown to inhibit cellular proliferation of all cell lines by more than 95%. Oral dosing of DMAPT suppressed in vivo A549 and UMUC-3 subcutaneous xenograft growth by 54% (p = 0.015) and 63% (p < 0.01), respectively, and A549 lung metastatic volume by 28% (p = 0.043). In total, this data demonstrates DMAPT's novel anticancer properties in both early and late stage tobacco-associated neoplasms as well as its significant in vivo activity. The data provides support for the conduct of clinical trials in TCC and NSCLC.
Convenient syntheses of [20,20,20‐<sup>2</sup>H<sub>3</sub>]‐arachidonic acid and [20,20,‐<sup>2</sup>H<sub>2</sub>]‐20‐hydroxyeicosatetraenoic acid (2006)

Deuterated arachidonic acid and 20-HETE were prepared in good overall yields and high stereoselectivities. Key transformations include a trans-specific vinyl dibromide reduction and Suzuki cross-couplings to a lithium borate or a 9-BBN borane. These standards are three and two mass units higher, respectively, than their naturally occurring counterparts and are useful in mass spectrometry analysis.
Clinical Actionability Enhanced through Deep Targeted Sequencing of Solid Tumors (2015)

Abstract BACKGROUND Further advances of targeted cancer therapy require comprehensive in-depth profiling of somatic mutations that are present in subpopulations of tumor cells in a clinical tumor sample. However, it is unclear to what extent such intratumor heterogeneity is present and whether it may affect clinical decision-making. To study this question, we established a deep targeted sequencing platform to identify potentially actionable DNA alterations in tumor samples. METHODS We assayed 515 formalin-fixed paraffin-embedded (FFPE) tumor samples and matched germline DNA (475 patients) from 11 disease sites by capturing and sequencing all the exons in 201 cancer-related genes. Mutations, indels, and copy number data were reported. RESULTS We obtained a 1000-fold mean sequencing depth and identified 4794 nonsynonymous mutations in the samples analyzed, of which 15.2% were present at &lt;10% allele frequency. Most of these low level mutations occurred at known oncogenic hotspots and are likely functional. Identifying low level mutations improved identification of mutations in actionable genes in 118 (24.84%) patients, among which 47 (9.8%) otherwise would have been unactionable. In addition, acquiring ultrahigh depth also ensured a low false discovery rate (&lt;2.2%) from FFPE samples. CONCLUSIONS Our results were as accurate as a commercially available CLIA-compliant hotspot panel but allowed the detection of a higher number of mutations in actionable genes. Our study reveals the critical importance of acquiring and utilizing high sequencing depth in profiling clinical tumor samples and presents a very useful platform for implementing routine sequencing in a cancer care institution.
The treatment of primary pulmonary hypertension. (1991)

The treatment of primary pulmonary hypertension Primary puhnonary hypertension caused by narrowing of the small resistance arteries, well described by Wood,' is