gebhart/patrepeval huggingface dataset:
THE IMMUNE MICROENVIRONMENT AS A PROGNOSTIC TOOL FOR MCL PATIENTS (2019)

Introduction: Breakthroughs in immunotherapy and targeted drugs have provided increased survival among patients with mantle cell lymphoma (MCL) but companion diagnostic tools remain to be developed. Median overall survival (OS) was until recently 3-5 years but novel strategies such as the Nordic MCL2/MCL3 regiments combining high dose cytarabine with Rituximab and autologous stem cell transplantation (ASCT) have improved life-expectancy to more than 12 years for younger fit patients. Although promising, it is still not possible to stratify patients into different treatment protocols based on diagnostic markers. The molecular diversity has been explored but so far TP53 mutational status and Ki-67 expression are the only validated markers associated to poor treatment response. Based on the success of incorporating anti-CD20 antibodies and ASCT to MCL treatment, the role of an effective immune response has been pin-pointed. In this study, we aim to identify prognostic markers for patients treated within the Nordic MCL2/3 protocol with the long-term goal of developing validated predictive tools. Methods: The data set combines clinicopathological information, TP53 mutational status and FFPE samples (total n=98; Immunohistochemistry (IHC) n=52; Gene expression (GEX) n=72). The median follow-up time is 9 years. Tissue microarrays were stained with p53 and c-myc to distinguish classical MCL from more aggressive variants. Immune infiltration was accessed by staining with CD3, CD4, CD8, CD20, CD25, FoxP3 and PD1 antibodies. IHC results were digitally scored with HALO software (Indica Labs). Optimal cut-off points for immune cell numbers were selected using the maximally selected chi-square method (maxχ2). GEX was performed with Gene ST 1.0 arrays (Applied Biosystems) and analyzed with Qlucore Omics Explorer (Qlucore AB). Results: Preliminary results showed that the percentage of CD4+ cells is negatively correlated with progression free survival (PFS) (p<0.05) in linear Cox model analysis. After dichotomization with maxχ2 method, high infiltration of CD4, CD3 and CD8 cells was negatively correlated with PFS (p<0.05) and CD4, CD8 and FoxP3 high infiltration was associated to a worse OS. Efforts to expand the cohort by inclusion of material from additional MCL2/3 clinical sites are ongoing. Conclusions: Immunotherapy is an effective therapy against many cancers and immune infiltration has been proved to be an important indicator of response to therapy. Efforts to validate these findings and develop companion diagnostic test are of major importance. Our findings show that MCL tumor immune-microenvironment, with particular emphasis on the CD4+ population, is prognostic for patients treated with combinatorial protocols, including anti-CD20 treatment and ASCT. Further studies to classify T cell subsets are warranted to further refine the understanding of the molecular events associated with response to therapy. Keywords: immune system; immunochemotherapy; mantle cell lymphoma (MCL).
Detection of 7-Dehydrocholesterol and Vitamin D3 Derivatives in Honey (2020)

20(<i>S</i>)-Hydroxyvitamin D3 (20(OH)D3) is an endogenous metabolite produced by the action of CYP11A1 on the side chain of vitamin D3 (D3). 20(OH)D3 can be further hydroxylated by CYP11A1, CYP27A1, CYP24A1 and/or CYP27B1 to several hydroxyderivatives. CYP11A1 also hydroxylates D3 to 22-monohydroxyvitamin D3 (22(OH)D3), which is detectable in the epidermis. 20-Hydroxy-7-dehydrocholesterol (20(OH)-7DHC) has been detected in the human epidermis and can be phototransformed into 20(OH)D3 following the absorption of ultraviolet B (UVB) energy by the B-ring. 20(OH)D3 and its hydroxyderivatives have anti-inflammatory, pro-differentiation and anti-proliferative effects, comparable to 1,25-dihydroxyvitamin D3 (1,25(OH)<sub>2</sub>D3). Since cytochromes P450 with 20- or 25-hydroxylase activity are found in insects participating in ecdysone synthesis from 7-dehydrocholesterol (7DHC), we tested whether D3-hydroxyderivatives are present in honey, implying their production in bees. Honey was collected during summer in the Birmingham area of Alabama or purchased commercially and extracted and analyzed using LC-MS. We detected a clear peak of <i>m</i>/<i>z</i> = 423.324 [M + Na]<sup>+</sup> for 20(OH)D3 corresponding to a concentration in honey of 256 ng/g. We also detected peaks of <i>m</i>/<i>z</i> = 383.331 [M + H - H<sub>2</sub>O]<sup>+</sup> for 20(OH)-7DHC and 25(OH)D3 with retention times corresponding to the standards. We further detected species with <i>m/z</i> = 407.329 [M + Na]<sup>+</sup> corresponding to the RT of 7DHC, D3 and lumisterol3 (L3). Similarly, peaks with <i>m/z</i> = 399.326 [M + H - H<sub>2</sub>O]<sup>+</sup> were detected at the RT of 1,25(OH)<sub>2</sub>D3 and 1,20-dihydroxyvitamin D3 (1,20(OH)<sub>2</sub>D3). Species corresponding to 20-monohydroxylumisterol3 (20(OH)L3), 22-monohydroxyvitamin D3 (22(OH)D3), 20,23-dihydroxyvitamin D3 (20,23(OH)<sub>2</sub>D3), 20,24/25/26-dihydroxyvitamin D3 (20,24/25/26(OH)<sub>2</sub>D3) and 1,20,23/24/25/26-trihydroxyvitamin D3 (1,20,23/24/25/26(OH)<sub>3</sub>D3) were not detectable above the background. In conclusion, the presence of 7DHC and D3 and of species corresponding to 20(OH)-7DHC, 20(OH)D3, 1,20(OH)<sub>2</sub>D3, 25(OH)D3 and 1,25(OH)<sub>2</sub>D3 in honey implies their production in bees, although the precise biochemistry and photochemistry of these processes remain to be defined.
RpoS Contributes to Phagocyte Oxidase-Mediated Stress Resistance during Urinary Tract Infection by Escherichia coli CFT073 (2013)

UPEC must cope with a variety of stressful conditions in the urinary tract during infection. RpoS (σ(S)), the general stress response sigma factor, is known to direct the expression of many genes under a variety of stressful conditions in laboratory-adapted E. coli K-12. Here, we show that σ(S) is needed by the model UPEC strain CFT073 to cope with oxidative stress provided by phagocytes during infection. These findings represent the first report that implicates σ(S) in the fitness of UPEC during infection and support the idea of the need for a better understanding of the effects of this global regulator of gene expression during UTI.
Patch Test Interpretation Matrix-A Guided Learning Tool (2011)

Distinguishing allergic contact dermatitis reactions using patch testing is a skill that requires both verbal and visual training. We present this article to emphasize the value of hands-on learning as well, specifically using the patch test interpretation matrix we developed and debuted at the Dermatology Nurses' Association's contact dermatitis workshop in San Diego (2011).
Possible manufacturing tolerance faults in design and construction of low speed slotless permanent magnet generator (2014)

This paper describes manufacturing tolerance faults that may occur during the design of electrical machines. Examples of the manufacturing tolerances are based on the design and construction process of a slotless permanent magnet wind generator. Experiments are carried out on the reference machine.
A Case of Ectopic Adrenocorticotropic Hormone Syndrome in Small Cell Lung Cancer (2015)

Small cell lung cancer (SCLC), which originated from neuroendocrine tissue, can develop into paraneoplastic endocrine syndromes, such as Cushing syndrome, because of an inappropriate secretion of ectopic adrenocorticotropic hormone (ACTH). This paraneoplastic syndrome is known to be a poor prognostic factor in SCLC. The reason for poor survival may be because of a higher risk of infection associated with hypercortisolemia. Therefore, early detection and appropriate treatment for this syndrome is necessary. But the diagnosis is challenging and the source of ACTH production can be difficult to identify. We report a 69-year-old male patient who had severe hypokalemia, metabolic alkalosis, and hypertension as manifestations of an ACTH-secreting small cell carcinoma of the lung. He was treated with ketoconazole and spironolactone to control the ACTH dependent Cushing syndrome. He survived for 15 months after chemotherapy, which is unusual considering the poor outcome of the ectopic ATH syndrome associated with SCLC.
VIV Hydrodynamic Data Extraction From Field Data (2009)

In this paper we extend a methodology to extract a VIV hydrodynamic database from field data to accommodate partially straked cylinders. There are two databases, each consisting of the lift and added mass coefficients as functions of reduced velocity and amplitude of response; the first for the bare part of the riser, and the second for the straked part. The field data can be either in the form of acceleration, strain, or a combination of acceleration and strain time traces, together with the shape of the current profile. First, the program VIVA together with a nominal force database obtained from laboratory hydrodynamic experiments is used in order to get an initial prediction of the riser response under a particular flow profile. The nominal databases are then parameterized and altered in a systematic way until the new VIVA predicted response best matches the measured field response, thus resulting in an optimal database. Examples from the Norwegian Deepwater Program VIV experiments demonstrate the effectiveness of the methodology.
Electrochemically Synthesized Sn-O-C Composite With Nano Core/Shell Structure for Anode of Lithium Secondary Batteries (2013)

Abstract not Available.
Postmortem Central Catecholamines and Antemortem Cognitive Impairment in Elderly Schizophrenics and Controls (1985)

Central catecholamine concentrations were determined in autopsy brain samples from 19 elderly schizophrenic patients and controls. Data from the hypothalamus and nucleus accumbens demonstrate altered catecholamine metabolism associated with cognitive impairment in these subjects. Both loci show decrements of norepinephrine concentrations, while the nucleus accumbens samples also show increased dopamine, dihydroxyphenylacetic acid, and 3-methoxy-4-hydroxyphenylglycol concentrations associated with dementia in these subjects. The data argue for examination of catecholamine metabolism with respect to dementia in a broad range of elderly subjects.
Raw Material Classification by Means of Hyperspectral Imaging and Hierarchical Temporal Memories (2012)

The recently proposed hierarchical temporal memory (HTM) paradigm of soft computing is applied to the detection and classification of foreign materials in a conveyor belt carrying tobacco leaves in a cigarette manufacturing industry. The HTM has been exposed to hyperspectral imaging data from 10 types of unwanted materials intermingled with tobacco leaves. The impact of the HTM architecture and the configuration of internal parameters on its classification performance have been explored. Classification results match or surpass those attained with other methods, such as Artificial Neural Networks (ANNs), with the advantage that HTM are able to handle raw spectral data and no preprocessing, spectral compression, or reflectance correction is required. It is also demonstrated that an optimized configuration of the HTM architecture and internal values can be derived from the statistical properties of the hyperspectral data, allowing the extension of the approach to other classification problems.
Dry contact fingertip ECG-based authentication system using time, frequency domain features and support vector machine (2015)

Acquiring fingertip ECG (electrocardiogram) signal using dry contact electrodes is challenging due to the presence of noise and interference by EMG (electromyogram) potentials. In this paper, we propose a method for using the fingertip ECG signal for biometric authentication. The noisy segments of the signal are segmented out using a variance-based heuristic and the clean signal is used for subsequent processing. By applying baseline correction and band pass filtering, the filtered signal is used for beat feature extraction. The features are used to train a support vector machine (SVM) classifier. Experimental results are presented to show the optimum filter parameters and feature sets for best classification performance. The performance of the proposed method with the optimum parameters was evaluated on a public domain CYBHi dataset with 126 subjects and the beat level EER of 3.4% was obtained.
State of the Art in CyberSecurity Monitoring (2000)

This paper presents a view of the state of the art in cybersecurity monitoring technology. The paper develops the view from six sources: three prior reports (two national, one MITRE), a survey of commercially available software, a survey of government software, and a survey of government-funded research projects. The author performed the surveys for this paper. The six sources are as follows: National Info-Sec Technical Baseline (summary of findings); Report of Hill and Aguirre (summary of findings); Intrusion Detection Subgroup's Report (summary of findings); Commercial Products (summary of product types and characteristics); Government Products (summary of product types and characteristics); and Research Efforts (summary of principal lines of investigation). A summary section presents a Capsule Description of the State of the Art in CyberSecurity Monitoring.
High-throughput impedance spectroscopy biosensor array chip (2014)

Impedance spectroscopy is a powerful tool for characterizing materials that exhibit a frequency dependent behaviour to an applied electric field. This paper introduces a fully integrated multi-channel impedance extraction circuit that can both generate AC stimulus signals over a broad frequency range and also measure and digitize the real and imaginary components of the impedance response. The circuit was fabricated in a 0.5 μm complementary metal-oxide semiconductor. Tailored for cellular membrane interface characterization, the signal generator produces sinusoidal waves from 10 mHz to 10 kHz. To suit a variety of applications, the impedance extraction circuit provides a programmable current measurement range from 100 pA to 100 nA with a measured resolution of approximately 100 fA. Occupying only 0.045 mm(2) per measurement channel, the circuit is compact enough to include nearly 200 channels in a 3×3 mm(2) die area.
Design and Realization of Virtual Gate System Based on RF Technology (2010)

The construction and application of port electronic gate system benefit the entry and exit of vehicles′ quick clearance guidance,also do great help to monitoring of the implementation of a comprehensive import and export commodities,which becomes an important component of the realization of port electronic management.Because of complexity of the exit and entry environment,as opposed to traditional applications such as logistics management,electronic gate has specific technical problems.Based on the deep research of wireless network communications and radio frequency identification technology,combined with the specific characteristics of the ports,the realization of a real available port system which is named virtual E-gate system is achieved.
Active Control of Machine-Tool Vibration in a Lathe (1997)

In the turning operation the relative dynamic motion between cutting tool and workpiece, or vibration is a frequent problem, which affects the result of the machining, in particular the surface finish. The tool life is also influenced by the vibrations. When the working environment is considered, noise is frequently introduced by dynamic motion between the cutting tool and the workpiece. By proper machine design, e.g. improved stiffness of the machine structure, the problem of relative dynamic motion between cutting tool and workpiece may be partially solved. However, by active control of machine-tool vibration, a further reduction of the dynamic motion between cutting tool and workpiece can be achieved. It was found that adaptive feedback control based on the filtered-x LMS-algorithm enables a reduction of the vibration with up to 40 dB at 1.5 kHz and simultaneously with approximately 40 dB at 3 kHz. A significant improvement of the workpiece surface was observed and a substantial improvement of the acoustic noise level was obtained with adaptive control.
Land Mobile Satellite Antenna Development at JPL (1993)

JPL has developed several mobile-vehicular antenna systems for satellite service throughout the last decade. The frequency bands cover UHF through Ka-band, and the antennas vary from high-gain with automatic satellite-tracking to omni-directional.
Granulomatous Hepatitis in Association with Fever and a Palmar Rash (1987)

Secondary syphilis may present without the classical features of the
disease and should be considered in patients acutely ill with abnormal liver function
tests and a nonspecific pattern on liver biopsy. Secondary syphilis may present in
association with granulomatous hepatitis and serological testing should be performed
if the etiology of the hepatic granulomas is unclear. While the finding of a disproportionate
elevation of alkaline phosphatase relative to serum bilirubin may be a useful
pointer towards the diagnosis this pattern is not specific and not consistently observed.
The definitive answer to the question of whether syphilitic hepatitis exists awaits the
development of comprehensive rests to exclude viral pathogens.
Motor Vehicle Crash Case Definitions and How They Impact Injury Surveillance (2018)

<b>BACKGROUND</b> Motor vehicle crashes are a leading cause of injury in North Carolina. Motor vehicle crash injury surveillance that relies on hospital diagnostic codes alone may underestimate injury. Our objective was to describe how motor vehicle crash injury case definitions can impact results when using hospital data.<b>METHODS</b> We received motor vehicle crash-related emergency department visits from 1 large metropolitan county in North Carolina for the year 2013. Emergency department visits were categorized based on 3 mutually exclusive case definitions: motor vehicle crash injuries identified using external cause-of-injury codes, text searches for motor vehicle crash-related key words in triage notes or chief complaint fields, and motor vehicle crash injuries identified using both text searches and external cause-of-injury codes. Descriptive statistics were used to examine differences in patient characteristics according to case definition.<b>RESULTS</b> Most emergency department visits contained both motor vehicle crash text and motor vehicle crash external cause-of-injury codes (N = 13,422, 76%). Patients identified using external cause-of-injury codes only were more likely to be male, arrive by ambulance, and be admitted to the hospital compared to patients identified by text searches or both text and external cause-of-injury codes. Twenty-eight percent of the patients (N = 5,021) received non-injury related diagnoses in the emergency department. Among these patients, the most frequently used first diagnoses were for vague or chronic pain conditions.<b>LIMITATIONS</b> We relied on secondary data and were unable to perform medical chart reviews; hospital data have limited information surrounding the crash event.<b>CONCLUSION</b> The choice of case definition used for motor vehicle crash surveillance impacts the picture of motor vehicle crash injury severity. It is important for researchers to be aware of the impact case definition has on their results.
IL-36γ drives skin toxicity induced by EGFR/MEK inhibition and commensal Cutibacterium acnes (2019)

Epidermal growth factor receptor (EGFR) and MEK inhibitors (EGFRi/MEKi) are beneficial for the treatment of solid cancers but are frequently associated with severe therapy-limiting acneiform skin toxicities. The underlying molecular mechanisms are poorly understood. Using gene expression profiling we identified IL-36γ and IL-8 as candidate drivers of EGFRi/MEKi skin toxicity. We provide molecular and translational evidence that EGFRi/MEKi in concert with the skin commensal bacterium Cutibacterium acnes act synergistically to induce IL-36γ in keratinocytes and subsequently IL-8, leading to cutaneous neutrophilia. IL-36γ expression was the combined result of C. acnes-induced NF-κB activation and EGFRi/MEKi-mediated expression of the transcription factor Krüppel-like factor 4 (KLF4), due to the presence of both NF-κB and KLF4 binding sites in the human IL-36γ gene promoter. EGFRi/MEKi increased KLF4 expression by blockade of the EGFR/MEK/ERK pathway. These results provide an insight into understanding the pathological mechanism of the acneiform skin toxicities induced by EGFRi/MEKi and identify IL-36γ and the transcription factor KLF4 as potential therapeutic targets.
Zero-resource audio-only spoken term detection based on a combination of template matching techniques (2011)

Spoken term detection is a well-known information retrieval task that seeks to extract contentful information from audio by locating occurrences of known query words of interest.This paper describes a zero-resource approach to such task based on pattern matching of spoken term queries at the acoustic level.The template matching module comprises the cascade of a segmental variant of dynamic time warping and a self-similarity matrix comparison to further improve robustness to speech variability.This solution notably differs from more traditional train and test methods that, while shown to be very accurate, rely upon the availability of large amounts of linguistic resources.We evaluate our framework on different parameterizations of the speech templates: raw MFCC features and Gaussian posteriorgrams, French and English phonetic posteriorgrams output by two different state of the art phoneme recognizers.
Zero Phase Filtering for Active Compensation of Periodic Physiological Motion (2006)

Periodic physiological motions have been a source of disturbance to many medical interventions and diagnostics that require high precision. This paper presents a new method that performs zero phase filtering to extract a periodic signal within a predetermined frequency band. The basic concept of the proposed adaptive zero phase bandpass filter is to design a pair of cascaded lowpass and highpass IIR filters, such that the phase lag caused by the lowpass filter is balanced by the phase lead introduced by the highpass filter. Since phase angle of a IIR filter is frequency dependent, we adopt the weighted-frequency Fourier linear combiner (WFLC) algorithm as an adaptive frequency estimator to provide the instantaneous dominant frequency of the signal of interest to the system to adjust the filter coefficients to yield the required performance. The proposed filter is implemented in an experiment to perform active stabilization of video images captured by a camcorder subjected to an oscillatory disturbance with varying frequency
A VLSI peripheral system for monitoring and stimulating action potentials of cultured neurons (2002)

The authors describe a VLSI peripheral system designed for the analog recording of electric signals from a network of living neurons growing on a glass plate containing 64 microelectrodes. The chip also provides for stimulating the neurons with up to four externally generated signals that can be routed to any of the microelectrodes.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>