gebhart/patrepeval huggingface dataset:
Visual Analytics for Transportation Incident Data Sets (2009)

Transportation systems are being monitored at an unprecedented scope, which is resulting in tremendously detailed traffic and incident databases. Although the transportation community emphasizes developing standards for storing these incident data, little effort has been made to design appropriate visual analytics tools to explore the data, extract meaningful knowledge, and represent results. Analyzing these large multivariate geospatial data sets is a nontrivial task. A novel, web-based, visual analytics tool called Fervor is proposed as an application that affords sophisticated, yet user-friendly, analysis of transportation incident data sets. Interactive maps, histograms, two-dimensional plots, and parallel coordinates plots are four featured visualizations that are integrated to allow users to interact simultaneously with and see relationships among multiple visualizations. Using a rich set of filters, users can create custom conditions to filter data and focus on a smaller data set. However, because of the multivariate nature of the data, finding interesting relationships can be a time-consuming task. Therefore, a rank-by-feature framework has been adopted and further expanded to quantify the strength of relationships among the different fields describing the data. In this paper, transportation incident data collected by the Maryland State Highway Administration's CHART program are used; however, the tool can be easily modified to accept other transportation data sets.
Effect of flow on prostaglandin E/sub 2/ production and inositol trisphosphate levels in cultured osteoblasts (2002)

In order to determine what effects flow has on prostaglandin production, prostaglandin E/sub 2/ levels were analyzed in perfusing media. To examine the effect of flow on cultured osteoblasts, intracellular concentrations of inositol trisphosphate were measured. It is shown that prostaglandin E/sub 2/ production is increased in cells exposed to either steady or pulsatile flow. Flow-caused oscillations were observed in the intracellular levels of inositol trisphosphate. These responses are both shear and time dependent.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
A Broadband Passive Delay Line Structure in 0.18 Micron CMOS For A Gigabit Feed Forward Equalizer (2004)

This project focusses on the design of a high speed passive delay line for use in a Feed Forward Equalizer (FFE). The FFE is used to equalize a 20 Gbp/s throughput PAM-4 signal after transmission through a 20-inch FR4 backplane channel. Inductor electromagnetic simulations are used to design an inductor for use in the passive delay line and a lumped element inductor model is presented. Measurement results show performance of the delay line at 10 GSym/s.
Abstract 4759: Whole genome sequencing of sequentially acquired lung and lymph node metastatic sites from a never smoker lung adenocarcinoma patient revealed extensive genomic heterogeneity (2015)

Abstract Recent large-scale cancer genome sequencing studies have uncovered extensive diverse mutational landscapes in lung cancer patients. Furthermore, tumor heterogeneity has been widely recognized and it has significant clinical implications in selection of targeted treatment strategies as well as treatment response. Using whole genome sequencing, we demonstrate an unprecedented genomic heterogeneity between sequentially acquired lung and lymph node metastatic sites from an African American never-smoker lung adenocarcinoma patient who has survived with metastatic disease for over seven years while being treated with single or combination HER2-directed therapies. We determined that less than 1% of somatic variants were common between the two tumor sites. Copy number variations were more intense in the lung tumor than in the metastatic lymph node. We identified several novel somatic mutations in key cancer genes in both sites. Interestingly, one novel translocation, PLAG1-ACTA2 was highly expressed in both the lung and lymph node metastases resulting in overexpression of ACTA2, which has been suggested to increase the metastatic potential in lung adenocarcinoma. Using ultra deep targeted re-sequencing, we validated all non-synonymous variants, and approximately 80% of those identified in the metastatic lymph node were also present in a second lymph node biopsied two years after the first one. Although this degree of tumor heterogeneity was surprising, somatic variants affected key hallmarks of tumorigenesis in both sites. These findings suggest a model of early metastatic spread and parallel clonal evolution in disparate metastatic sites. Citation Format: Shaojian Gao, Constance Cultraro, Romi BIswas, Corey A. Carter, Tapan K. Maity, Anish Thomas, Arun Rajan, Paul Meltzer, David Schrump, Giuseppe Giaccone, Javed Khan, Udayan Guha. Whole genome sequencing of sequentially acquired lung and lymph node metastatic sites from a never smoker lung adenocarcinoma patient revealed extensive genomic heterogeneity. [abstract]. In: Proceedings of the 106th Annual Meeting of the American Association for Cancer Research; 2015 Apr 18-22; Philadelphia, PA. Philadelphia (PA): AACR; Cancer Res 2015;75(15 Suppl):Abstract nr 4759. doi:10.1158/1538-7445.AM2015-4759
Estimation based adaptable Flow Aggregation Method for reducing control traffic on Software Defined wireless Networks (2017)

Applying Software Defined Network (SDN) technology to wireless network attracts much attention. Our previous study proposed several channel utilization methods based on SDN/OpenFlow-enabled multi-channel wireless mesh network (WMN). However, since control messages are transmitted with data traffic on a same channel in WMN, it inevitably affects the network capacity. Especially, the amount of control messages for collecting statistical information of each flow (FlowStats) linearly increases in accordance with the number of flows, thereby being the dominant overhead. In this paper, we propose a method that prevents the increase of control traffic while maintaining network performance. Specifically, our proposed method uses statistical information of each interface (PortStats) instead of FlowStats, and handles multiple flows on the interface together. To handle a part of flows, we propose a way to estimate statistical information of individual flow without extra control messages. Finally, we show that the proposed method can maintain good network capacity with less packet losses and less control messages.
Effect of bovine bone morphogenetic protein and bioactive glass on demineralized bone matrix grafts in the rat muscular pouch. (1993)

New bone formation induced by allogeneic demineralized bone matrix (DBM) and bone morphogenetic protein (BMP) combined with bioactive glass (BG) was studied in a rat abdominal muscle pouch model. At four weeks the amount of new bone was not influenced by DBM combined with BMP and/or bioactive glass. The mean proportional areas of new bone varied among different DBM test groups from 8.6% to 13.4%. New bone was induced in inactivated DBM samples containing BG, while no bone formation was seen in DBM samples without BG. The results indicate that bioactive glass favours bone induction in inactivated allogeneic bone matrix.
Improved Delivery of CRISPR/Cas9 System Using Magnetic Nanoparticles into Porcine Fibroblast (2018)

Genetically modified pigs play an important role in agriculture and biomedical research; hence, new efficient methods are needed to obtain genetically engineered cells and animals. The clustered regularly interspaced short palindromic repeats (CRISPR)/Cas (CRISPR-associated) system represents an effective genome editing tool. It consists of two key molecules: single guide RNA (sgRNA) and the Cas9 endonuclease that can be introduced into the cells as one plasmid. Typical delivery methods for CRISPR/Cas9 components are limited by low transfection efficiency or toxic effects on cells. Here, we describe the use of magnetic nanoparticles and gradient magnetic field to improve delivery of CRISPR/Cas9 constructs into porcine fetal fibroblasts. Polyethylenimine-coated nanoparticles with magnetic iron oxide core were used to form magnetic plasmid DNA lipoplexes. CRISPR/Cas9 construct was prepared to induce site-specific cutting at the porcine H11 locus. Quantitative assessment of genomic cleavage by sequence trace decomposition demonstrated that the magnetofection efficiency was more than 3.5 times higher compared to the classic lipofection method. The Tracking of Indels by Decomposition web tool precisely determined the spectrum of indels that occurred. Simultaneously, no additional cytotoxicity associated with the utilization of magnetic nanoparticles was observed. Our results indicate that magnetofection enables effective delivery of the CRISPR/Cas9 construct into porcine fetal fibroblasts with low cell toxicity.
Rhoh deficiency reduces peripheral T‐cell function and attenuates allogenic transplant rejection (2010)

Rhoh is a hematopoietic system-specific GTPase. Rhoh-deficient T cells have been shown to have a defect in TCR signaling manifested during their thymic development. Our aims were to investigate the phenotype of peripheral Rhoh-deficient T cells and to explore in vivo the potential benefit of Rhoh deficiency in a clinically relevant situation, in which T-cell inhibition is desirable. In murine allogenic kidney transplantation, Rhoh deficiency caused a significant 75% reduction of acute and chronic transplant rejection accompanied by 75% lower alloantigen-specific antibody levels and significantly better graft function. This effect was independent of the lower T-cell numbers in Rhoh-deficient recipients, because injection of equal numbers of Rhoh-deficient or control T cells into kidney transplanted mice with SCID led again to a significant 60% reduction of rejection. Mixed lymphocyte reaction revealed that the weaker alloreactivity was associated with a 85% lower cytotoxicity and a 50-80% lower cytokine release in Rhoh-deficient T cells without an influence on the secretion itself. Antigen uptake and presentation in DC were unaffected by Rhoh deficiency. These findings stress the importance of Rhoh for the function of peripheral T cells.
Diagnosis of Coxiella burnetii Infection: Comparison of a Whole Blood Interferon-Gamma Production Assay and a Coxiella ELISPOT (2014)

Diagnosis of ongoing or past infection with Coxiella burnetii, the causative agent of Q fever, relies heavily on serology: the measurement of C. burnetii-specific antibodies, reflecting the host's humoral immune response. However, cell-mediated immune responses play an important, probably even more relevant, role in infections caused by the intracellular C. burnetii bacterium. Recent studies have investigated interferon-gamma (IFN-γ) based assays, including a whole-blood IFN-γ production assay and a Coxiella enzyme-linked immunospot (Coxiella ELISPOT), as potential diagnostic tools for Q fever diagnosis. Both are in-house developed assays using stimulating antigens of different origin. The main objective of this study was to compare the test performance of the IFN-γ production assay and the Coxiella ELISPOT for detecting a cellular immune response to C. burnetii in Q fever patients, and to assess the correlation between both assays. To that end, both tests were performed in a well-defined patient group of chronic Q fever patients (n = 16) and a group of healthy seronegative individuals (n = 17). Among patients, both the Coxiella ELISPOT and the IFN-γ production assay detected positive response in 14/16. Among controls, none were positive in the Coxiella ELISPOT, whereas the IFN-γ production assay detected positive results in 1/17 and 3/17, when using Henzerling and Nine Mile as stimulating antigens, respectively. These results suggest the Coxiella ELISPOT has a somewhat higher specificity than the IFN-γ production assay when Nine Mile is used as antigen stimulus. The assays showed moderate correlation: the Spearman correlation coefficient r ranged between 0.37-0.60, depending on the antigens used. Further investigation of the diagnostic potential for C. burnetii infection of both assays is warranted.
A method for charging and discharging capacitors in Modular Multilevel Converter (2011)

In this paper, a method for charging and discharging capacitors in Modular Multilevel Converter (MMC) is explained. The proposed method helps to start the converter from a de-energized condition and does not require any auxiliary voltage source. An additional resistance is inserted in the MMC arm and by appropriately switching this resistance, both charging and discharging of the MMC cells can be accomplished. A theoretical background is presented for drives applications and design examples are included. Simulation and experimental results are included at the end to validate the proposed concept.
OSTEOPONTIN GENE EXPRESSION AND IMMUNOLOCALIZATION IN THE RABBIT URINARY TRACT (2002)

Osteopontin is a highly phosphorylated, calcium binding sialoprotein characterized by a conserved arginine-glycine-aspartate sequence. Vitronectin receptor (alphavbeta3 integrin) and hyaluronan receptor (CD44) are documented as receptors for osteopontin and their expression has been established in the bladder. Based on that finding and the fact that osteopontin protein is present in urine we hypothesized that osteopontin is expressed in the lower urinary tract.Osteopontin messenger (m)RNA and protein were analyzed in 5 adult urinary tracts and 5 neonatal bladders of New Zealand White rabbits using reverse transcriptase-polymerase chain reaction and immunohistochemical testing. Analysis of mRNA expression and localization of osteopontin receptors, alphavbeta3 integrin and CD44 were also performed in adult bladders and primary cultures of detrusor myocytes.Adult renal pelvis, ureter, bladder and urethra, and neonatal bladders contained significant levels of osteopontin mRNA. Immunohistochemical staining revealed osteopontin expression in all layers of the transitional epithelium of the bladder, co-localizing with alphavbeta3 integrin mainly in the superficial layers and with CD44 mainly in the basal layers. Osteopontin was detected within the cytoplasm of smooth muscle cells, while alphavbeta3 integrin was located closer to the plasmalemma. Furthermore, primary cultured detrusor myocytes expressed osteopontin mRNA in stable fashion for up to 4 passages. Treating bladder myocyte cultures with insulin-like growth factor-1 and 17beta-estradiol resulted in up-regulation and down-regulation of osteopontin mRNA, respectively.Adult and neonatal rabbit detrusors are a prominent source of osteopontin in vivo and in vitro. Epithelial osteopontin may be a source of osteopontin in urine. The co-localization of osteopontin in the bladder epithelium with alphavbeta3 integrin and CD44 suggests a role in maintaining the integrity of the transitional epithelium by providing the sealing and adhesiveness needed for the impermeable state of the bladder.
SPERT: a VLIW/SIMD neuro-microprocessor (2003)

SPERT (synthetic perceptron testbed) is a fully programmable single chip microprocessor designed for efficient execution of artificial neural network algorithms. The first implementation will be in a 1.2 mu m CMOS technology with a peak 50 MHz clock rate. A prototype system is being designed to occupy a double SBus slot within a sun Sparcstation. With fast external SRAM, SPERT will sustain over 300*10/sup 6/ connections per second during pattern classification, and around 100*10/sup 6/ connection updates per second while running the error backpropagation training algorithm. This represents a speedup of around two orders of magnitude over a Sparcstation2 for algorithms of interest. An earlier system, the ring array processor (RAP), used commercial DSP chips. Compared with a RAP multiprocessor of similar performance, SPERT represents over an order of magnitude reduction in cost for problems where fixed-point arithmetics is satisfactory.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Catalytic activities of human cytochrome P450 2C9*1, 2C9*3 and 2C9*13 (2005)

Cytochrome P450 2C9 (CYP2C9) is a geneticly polymorphic enzyme responsible for the metabolism of some clinically important drugs. CYP2C9*13 is an allele identified in a Chinese poor metabolizer of lornoxicam which has a Leu90Pro amino acid substitution. This paper reports on a study aimed at comparing the catalytic properties of CYP2C9*13 with those of the wild-type CYP2C9*1 and mutant CYP2C9*3 (Ile359Leu) in the COS-7 expression system using various substrates. CYP2C9*3 and *13 produced far lower luminescence than CYP2C9*1 in luciferin H metabolism. CYP2C9*13 exhibited an 11-fold increase in Km but no change in Vmax with tolbutamide as the substrate, a five-fold increase in Km and an 88.8% reduction in Vmax with diclofenac. These data indicate that CYP2C9*13 exhibits reduced metabolic activity toward all studied CYP2C9 substrates. The magnitude of the CYP2C9*13-associated decrease in intrinsic clearance (Vmax/Km) is greater than that associated with CYP2C9*3.
Identification of tumor size as the only factor associated with non-diagnostic biopsies in patients with small renal masses (2019)

When evaluating SRMs for diagnostic workup, mass size is the only tumor or patient characteristic associated with a non-diagnostic RTB.
Safe Use of Radioisotopes (2007)

The pursuit of scientific knowledge has been considerably advanced by the use of biochemical molecules that incorporate radioisotopes at specific sites. The fate of these labeled molecules, and/or the radiolabeled products that result from biochemical reactions in which the parent molecule was involved, can be traced using a variety of instruments that detect radioactivity. This appendix begins with a discussion of the principles of radioactivity in order to provide the reader/user with knowledge on which to base a common sense approach to the safe use of isotopes. The characteristics of isotopes most commonly used in a molecular biology laboratory are then detailed, as well as the safety precautions and monitoring methods peculiar to each one. Detection and imaging methods used in experimental analysis are reviewed. Finally, an outline of an orderly response to a spill of radioactive material is presented.
Effect of Daily versus Once-Weekly Home Fortification with Micronutrient Sprinkles on Hemoglobin and Iron Status among Young Children in Rural Bangladesh (2007)

Home fortification of complementary foods with Sprinkles given either daily or once weekly improved iron-deficiency anemia and iron status among young children.
Constraints and Agents for a Decentralized Network Infrastructure (1997)

The irreversible trend toward decentralized information sources makes less and less adequate the current approaches to search mostly based on a centralized index. The Constraint Based Knowledge Brokers (CBKB) model is a first attempt to provide an efficient decentralized search engine, and it does so by exploiting the power of constraints. One of the reasons of its efficiency comes from sending the information providers requests based on very specific and prefiltered information. This is done via a method which splits the scope of the broker agents as the requests come. However, an exaggerated use of scope splitting may lead to an unmanageable quantity of agents. Techniques to avoid such situations may be based on several approaches, which we briefly describe in this paper, like scope merging based on anti-unification, organizing agents in disjunctive structures, and limiting scope splitting on the basis of the capabilities of the knowledge bases. Introduction The need of adequate sea...
Automatic matching using intraprostatic calcifications as a volume of interest in CBCT images during prostate radiotherapy: a comparative study (2019)

Abstract Aim: The study aimed to assess the clinical feasibility of employing an automatic match during cone beam computed tomography (CBCT) imaging using prostatic calcifications within the 95% isodose set as the region of interest. Materials and methods: CBCT images were analysed on the 5 th fraction in 34 patients evaluating the difference between standard manual soft tissue anatomy matching versus auto calcification matching. An assessment of the clinical feasibility of using prostatic calcifications during matching alongside considering the effect a more automated matching process has been conducted on interobserver variability. Results: The standard deviation values of the difference between the soft tissue match (baseline) versus automatic calcification matches fluctuated around 1 mm in all three axes for all of the matches carried out. The interobserver variability observed between the two radiographers was 0·055, 0·065 and 0·045 cm in the vertical, longitudinal and lateral axes, respectively. Findings: The clarity of the calcifications on the CBCT images might explain the low interobserver variability displayed by the two matching radiographers. A calcification provides a clear starting point for image matching before commencing a check of volumetric coverage, if the matching process begins in the same place, it can allow for a standardisation of matching technique between radiographers.
DIETARY VITAMIN C AND UTERINE CERVICAL DYSPLASIA (1981)

A case-control study of women with cervical abnormalities identified through Pap smears, was conducted in the Bronx, New York, to explore the relationship between nutritional intake and cervical dysplasia. Nutrient intake was estimated from computer analysis of three-day food records and 24-hour recall for 169 study participants (87 cases, 82 controls), including a subset of 49 pairs matched for age, race and parity. Mean vitamin C intake per day from three-day food record for controls was 107 mg, compared to 80 mg for cases (p less than 0.01). Analysis of matched pairs showed similar results; 29% of cases compared to 3% of controls in matched subset had vitamin C intake less than 50% of the recommended daily allowance, yielding a ten-fold increase in risk of cervical dysplasia as estimated by odds ratio (p less than 0.05). Younger age, greater frequency of sexual intercourse and younger age at first intercourse were associated with higher risk of cervical dysplasia. Multiple logistic analyses indicated that low vitamin C intake is an independent contributor to risk of severe cervical dysplasia when age and sexual activity variables are controlled. Approximately 35% of US women in their reproductive years have daily vitamin C intake below 30 mg, and 68% have vitamin C intake below 88 mg. If other studies confirm these findings, it may be important to explore a possible protective role of supplementary vitamin C for women at high risk of cervical cancer.