gebhart/patrepeval huggingface dataset:
Immunophenotyping Versus Morphological Evaluation Of Fresh and Stabilized Cerebrospinal Fluid As Diagnostic Tool For CNS Involvement In Childhood Acute Lymphoblastic Leukemia (2013)

Abstract Introduction Presence of malignant cells in cerebrospinal fluid (CSF) is a risk factor in pediatric acute lymphoblastic leukemia (ALL). Consequently, these patients receive extra intrathecal treatment. We evaluated the concordance between morphological and flow-cytometric (FCM) results, both on freshly analyzed and on stabilized, overnight transported samples. Methods Diagnostic CSF samples of 61 newly diagnosed pediatric ALL patients were divided in two aliquots. One was sent to the local laboratory and processed within a few hours after sampling (lab1). A second aliquot was 1:1 diluted with sterile medium and sent to the reference laboratory (lab2). For all samples, a MGG (May-Grünwald-Giemsa) stained cytocentrifuged slide was morphologically evaluated and two 6-color FCM stainings were performed. Samples were considered positive (CNS2) by MGG if at least one blast was seen and by immunophenotyping if a cluster (≥ 10 events) of ALL cells was detected. Results Comparison of morphological data between both laboratories showed concordance in 33 samples (53%). In 20 of the 28 discordant samples only 1 or 2 blasts were reported by a single laboratory. Comparison of FCM data between laboratories was concordant in 58 samples (95%). Three samples (tumor load 15%-18%) were reported positive by one laboratory only; in two of these &lt;100 cells could be acquired per tube. Comparison between FCM and morphology showed discordant results in 25 samples (41%) for lab1 and 19 (31%) in lab2. One discordant case was positive by FCM but negative by morphology, in all others only morphology was reported positive. The latter cases mostly had 1 or 2 blasts reported by morphology, generally not confirmed by the other laboratory. Conclusions This study shows that morphological analysis of CSF samples is non-reproducible if only 1 or 2 blasts are suspected. In contrast, FCM analysis of CSF is highly reproducible between fresh and stabilized samples. Although immunophenotyping still seems less sensitive than morphology, discordant samples generally have only 1 or 2 blasts reported by MGG, which is highly irreproducible. Nevertheless, by using a single 8-color tube higher cell numbers may be acquired and the FCM sensitivity may be increased. Disclosures: No relevant conflicts of interest to declare.
EBNA2 Is Required for Protection of Latently Epstein-Barr Virus-Infected B Cells against Specific Apoptotic Stimuli (2004)

In addition to functioning as a transcriptional transactivator, Epstein-Barr virus EBNA2 interacts with Nur77 to protect against Nur77-mediated apoptosis. Estrogen-regulated EBNA2 in EREB2-5 cells was replaced by either EBNA2 or EBNA2 with a deletion of conserved region 4 (EBNA2DeltaCR4). Both EBNA2-converted and EBNA2DeltaCR4-converted EREB2-5 cells grew in the absence of estrogen and expressed LMP1. Treatment with tumor necrosis factor alpha did not induce apoptosis of EBNA2- or EBNA2DeltaCR4-expressing cells, but EBNA2DeltaCR4 cells were susceptible to etoposide and 5-fluorouracil, Nur77-mediated inducers of apoptosis. Thus, EBNA2 protects B cells against specific apoptotic agents against which LMP1 is not effective.
NK Cell Responsiveness Is Tuned Commensurate with the Number of Inhibitory Receptors for Self-MHC Class I: The Rheostat Model (2009)

Inhibitory receptors that engage self-MHC class I molecules enable NK cells to detect disease-associated loss of MHC class I on surrounding cells. Previous studies showed that some NK cells lack all receptors for self-MHC class I, yet fail to exhibit autoimmunity because they are generally hyporesponsive to stimulation. We asked whether NK cells exist in only two states, responsive and hyporesponsive, corresponding to cells that express or fail to express inhibitory receptors for self-MHC class I. The alternative model is that NK cells vary continuously in their responsiveness, based on variations in the number of different inhibitory and stimulatory receptors they express, which is known to vary. In this study, we show in the murine system that NK cell responsiveness increases quantitatively with each added self-MHC-specific inhibitory receptor. Genetic analysis demonstrated that interactions of each of the receptors with self-MHC class I were necessary to observe augmented responsiveness. These findings suggest that NK cell responsiveness is comparable to a rheostat: it is tuned to an optimal set point depending on the inhibitory and stimulatory interactions encountered in the normal environment, so as to ensure self-tolerance and yet optimize sensitivity to changes in normal cells.
Multivalent Cyclic RGD Conjugates for Targeted Delivery of Small Interfering RNA (2020)

We have designed, synthesized and tested conjugates of chemically modified luciferase siRNA (Luc-siRNA) with bi-, tri- and tetravalent cyclic(arginine-glycine-aspartic) peptides (cRGD) that selectively bind to the αvβ3 integrin. The cellular uptake, subcellular distribution and pharmacological effects of the cRGD conjugated Luc-siRNAs as compared to un-conjugated controls were examined using a luciferase reporter cassette stably transfected into αvβ3 positive M21+ human melanoma cells. The M21+ cells exhibited receptor-mediated uptake of cRGD-siRNA conjugates but not of unconjugated control siRNA. The fluorophore-tagged cRGD-siRNA conjugates were taken up by a caveolar endocytotic route and primarily accumulated in cytosolic vesicles. The bi-, tri- and tetravalent cRGD conjugates were taken up by M21+ cells to approximately the same degree. However, there were notable differences in their pharmacological effectiveness. The tri- and tetravalent versions produced progressive, dose-dependent reductions in luciferase expression, while the bivalent version had little effect. The basis for this divergence of uptake and effect is currently unclear. Nonetheless the high selectivity and substantial ‘knock down’ effects of the multivalent cRGD-siRNA conjugates suggest that this targeting and delivery strategy deserves further exploration.
High density and ligand affinity confer ultrasensitive signal detection by a guanylyl cyclase chemoreceptor (2014)

Guanylyl cyclases (GCs), which synthesize the messenger cyclic guanosine 3',5'-monophosphate, control several sensory functions, such as phototransduction, chemosensation, and thermosensation, in many species from worms to mammals. The GC chemoreceptor in sea urchin sperm can decode chemoattractant concentrations with single-molecule sensitivity. The molecular and cellular underpinnings of such ultrasensitivity are not known for any eukaryotic chemoreceptor. In this paper, we show that an exquisitely high density of 3 × 10(5) GC chemoreceptors and subnanomolar ligand affinity provide a high ligand-capture efficacy and render sperm perfect absorbers. The GC activity is terminated within 150 ms by dephosphorylation steps of the receptor, which provides a means for precise control of the GC lifetime and which reduces "molecule noise." Compared with other ultrasensitive sensory systems, the 10-fold signal amplification by the GC receptor is surprisingly low. The hallmarks of this signaling mechanism provide a blueprint for chemical sensing in small compartments, such as olfactory cilia, insect antennae, or even synaptic boutons.
Lipids and polymers in pharmaceutical technology: Lifelong companions (2019)

In pharmaceutical technology, lipids and polymers are considered pillar excipients for the fabrication of most dosage forms, irrespective of the administration route. They play various roles ranging from support vehicles to release rate modifiers, stabilizers, solubilizers, permeation enhancers and transfection agents. Focusing on selected applications, which were discussed at the Annual Scientific Meeting of the Gattefossé Foundation 2018, this manuscript recapitulates the fundamental roles of these two important classes of excipients, either employed alone or in combination, and provides insight on their functional properties in various types of drug formulations. Emphasis is placed on oral formulations for the administration of active pharmaceutical ingredients with low aqueous solubilities or poor permeation properties. Additionally, this review article covers the use of lipids and polymers in the design of colloidal injectable delivery systems, and as substrates in additive manufacturing technologies for the production of tailor-made dosage forms.
An Overview of A Perturbation Analysis for Uni-directionally Coupled Vibratory Gyroscopes (2011)

The complex behaviours of gyroscope systems have been scientifically researched and thoroughly studied for decades. Most of scientific research involving gyroscopes specifically concentrates on studying the designs and fabrications at the circuitry level. Although gaining a recent popularity with the low cost of MEMS device that offers an attractive approach for gyroscope fabrications, its performance is far from meeting the requirements for an inertial grade guidance system. To improve the performance, our current research is theoretically focusing upon investigating the dynamics of vibratory gyroscopes coupled in a ring configuration. Particularly, a certain topology of arrangements among coupled gyroscopes can be designed and studied to enhance robustness. The main operation depends mostly on an external source for a stable oscillation in the drive axis, while an oscillatory motion in the sense axis, which is used to detect an angular rate of rotation, is enabled through the transfers of energy from the drive via the Coriolis force. With the mathematical model depicted as Duffing oscillators, however, by adding a certain coupling among gyroscopes, a similar behavior to a Duffing oscillator is expected, only with more complicated dynamics at a higher dimension. A number of Perturbation methods have popularly been carried out, to seek for a general asymptotic solution of typical Duffing oscillators. In this work as an overview, the two‐time scale Perturbation expansion is asymptotically applied on the uni‐directionally coupled vibratory gyroscopes to find an analytical solution which is then compared to the numerical one.
Anomalous J-Modulation Effects on Amino Acids in Clinical 3T MR Spectroscopy (2008)

The signal-intensity loss from anomalous J-modulation effects due to chemical-shift displacement was investigated on amino acid groups (alanine, valine, leucine, and isoleucine) at 3T by using point-resolved (1)H spectroscopy in patients with brain abscess and phantom experiments. With a larger chemical shift between methyl and methine resonances, alanine shows a greater effect of signal-intensity cancellation compared with other amino acids around 0.9 ppm, resulting in noninverted doublets at a TE of 144 ms.
Computing the Optimal Amount of Constellation Distortion in OFDM Systems (2007)

The primary disadvantage of orthogonal frequency-division multiplexing (OFDM) is the high time-domain peak-to-average power ratio (PAR) that severely limits the transmitter power efficiency. The PAR can be globally minimized by distorting the OFDM constellation subject to a constraint on the error vector magnitude (EVM). In this paper, we demonstrate that an optimal amount of EVM exists for minimizing the transmitter power consumption while maintaining a constant bit error rate (BER) at the receiver. Alternatively, the EVM value may be chosen to maximize the channel capacity while maintaining a constant power consumption at the transmitter. Both EVM levels are only a function of the required signal-to-noise ratio at the OFDM receiver.
Semi-supervised multi-layered clustering model for intrusion detection (2017)

A Machine Learning (ML) -based Intrusion Detection and Prevention System (IDPS) requires a large amount of labeled up-to-date training data, to effectively detect intrusions and generalize well to novel attacks. However, labeling of data is costly and becomes infeasible when dealing with big data, such as those generated by IoT (Internet of Things) -based applications. To this effect, building a ML model that learns from non- or partially-labeled data is of critical importance. This paper proposes a novel Semi-supervised Multi-Layered Clustering Model (SMLC) for network intrusion detection and prevention tasks. The SMLC has the capability to learn from partially labeled data while achieving a comparable detection performance to supervised ML-based IDPS. The performance of the SMLC is compared with well-known supervised ensemble ML models, namely, RandomForest, Bagging, and AdaboostM1 and a semi-supervised model (i.e., tri-training) on a benchmark network intrusion dataset, the Kyoto 2006+. Experimental results show that the SMLC outperforms all other models and can achieve better detection accuracy using only 20% labeled instances of the training data.
Seasonal changes in partial discharge activity on hydraulic generators (2002)

Six hydraulic generators in two separate power stations were equipped with partial discharge cable type couplers for long term PD monitoring. The stator windings used four different insulation systems from three different manufacturers. Partial discharge activity was monitored monthly on each generator for periods of time ranging from 2 to 9 years. PD data was acquired in the frequency range of 40 to 350 MHz. External noise pulses were filtered out using the differential method with two cable couplers per phase. The present paper is a case study showing how PD activity varies dramatically depending on the time of the year the online testing was performed. A ratio higher than 100 was recorded between winter and summer readings. Winter readings, (January-March) were always higher than summer readings (July-September). A strong correlation was found between temperature, atmospheric absolute humidity levels (water partial pressure in mm Hg) and the well-known PD basic quantities such as Q/sub max/ and NQN values. An interpretation of the monthly-acquired data is offered based on both external and internal PD activity.
Intravitreal pharmacotherapy: applications in retinal disease. (2008)

Intravitreal pharmacotherapies have been used with increasing frequency in the treatment of retinal disease. Indications for their use include choroidal neovascular membranes, diabetic macular edema, ischemic neovascularization, inflammatory and infectious processes, and neoplasia. Complications of intravitreal therapies include cataract formation, glaucoma, and endophthalmitis. Recent developments of pharmacologic agents administered intravitreally and the new applications of systemic medications in retinal disease present the practitioner with expanded treatment options. Current and emerging data will help guide therapy in order to maximize the benefits and limit the systemic and ocular complications of these new treatment options.
A 29 Gops/Watt 3D-Ready 16-Core Computing Fabric with Scalable Cache Coherent Architecture Using Distributed L2 and Adaptive L3 Caches (2018)

3D TSV integration enables scalable manycore architectures, however they require advanced cache coherence features to enable simple programming models. We propose TSARLET, a general purpose 16-core computing fabric targeting 3D TSV integration with a fully scalable cache coherent memory architecture, using distributed L2-caches, and adaptive fault tolerant L3-caches. Implemented in 28nm UTBB FDSOI technology, the circuit operates up to 1.15 GHz using adaptive clocking and provides 29 Gops/W in the 0.5-1.3V supply range. The chip's performance is demonstrated using an image filter application and an OpenMP based Convolutional Neural Network (CNN) on Linux.
The Origins of Scintillator Non-Proportionality (2012)

Recent years have seen significant advances in both theoretically understanding and mathematically modeling the underlying causes of scintillator non-proportionality. The core cause is that the interaction of radiation with matter invariably leads to a non-uniform ionization density in the scintillator, coupled with the fact that the light yield depends on the ionization density. The mechanisms that lead to the luminescence dependence on ionization density are incompletely understood, but several important features have been identified, notably Auger-like processes (where two carriers of excitation interact with each other, causing one to de-excite non-radiatively), the inability of excitation carriers to recombine (caused either by trapping or physical separation), and the carrier mobility. This paper reviews the present understanding of the fundamental origins of scintillator non-proportionality, specifically the various theories that have been used to explain non-proportionality.
Surface Polarization and Domain Structures in Thin Nematic Layers (1990)

A new electrooptical effect occouring in nematic which proves existence of surface polarization in liquid crystal, is discovered experimentally.
1143: Positive Surgical Margins Increase the Risk of Biochemical Recurrence Independently from Pathological Stage or Grade (2007)

disease specific survival at 5 and 10 yrs, acute and chronic complication rates and quality of life.
Induction of Boosted Immune Response in Mice by Leptospiral Surface Proteins Expressed in Fusion with DnaK (2014)

Leptospirosis is an important global disease of human and veterinary concern. Caused by pathogenic Leptospira, the illness was recently classified as an emerging infectious disease. Currently available veterinarian vaccines do not induce long-term protection against infection and do not provide cross-protective immunity. Several studies have suggested the use of DnaK as an antigen in vaccine formulation, due to an exceptional degree of immunogenicity. We focused on four surface proteins: rLIC10368 (Lsa21), rLIC10494, rLIC12690 (Lp95), and rLIC12730, previously shown to be involved in host-pathogen interactions. Our goal was to evaluate the immunogenicity of the proteins genetically fused with DnaK in animal model. The chosen genes were amplified by PCR methodology and cloned into pAE, an E. coli vector. The recombinant proteins were expressed alone or in fusion with DnaK at the N-terminus. Our results demonstrate that leptospiral proteins fused with DnaK have elicited an enhanced immune response in mice when compared to the effect promoted by the individual proteins. The boosted immune effect was demonstrated by the production of total IgG, lymphocyte proliferation, and significant amounts of IL-10 in supernatant of splenocyte cell cultures. We believe that this approach could be employed in vaccines to enhance presentation of antigens of Leptospira to professional immune cells.
Supplementary Methods and Reference from Assessing Immune-Related Adverse Events of Efficacious Combination Immunotherapies in Preclinical Models of Cancer (2023)

&lt;p&gt;Description of additional methods and procedures used in the study. Also includes Supplementary Reference.&lt;/p&gt;
Antisense Inhibition of Survivin Expression as a Cancer Therapeutic (2011)

Survivin, a family member of the inhibitor of apoptosis proteins that is expressed during mitosis in a cell cycle-dependent manner and localized to different components of the mitotic apparatus, plays an important role in both cell division and inhibition of apoptosis. Survivin is expressed in a vast majority of human cancers, but not in normal adult tissues. Survivin expression is often correlated with poor prognosis in a wide variety of cancer patients. These features make survivin an attractive target against which cancer therapeutics could be developed. We have identified a survivin antisense oligonucleotide (ASO) that potently downregulated survivin expression in human cancer cells derived from lung, colon, pancreas, liver, breast, prostate, ovary, cervix, skin, and brain as measured by quantitative RT-PCR and immunoblotting analysis. Specific inhibition of survivin expression in multiple cancer cell lines by this ASO (LY2181308) induced caspase-3-dependent apoptosis, cell cycle arrest in the G(2)-M phase, and multinucleated cells. We also showed that inhibition of survivin expression by LY2181308 sensitized tumor cells to chemotherapeutic-induced apoptosis. Most importantly, in an in vivo human xenograft tumor model, LY2181308 produced significant antitumor activity as compared with saline or its sequence-specific control oligonucleotide and sensitized to gemcitabine, paclitaxel, and docetaxel. Furthermore, we showed that this antitumor activity was associated with significant inhibition of survivin expression in these xenograft tumors. On the basis of these, LY2181308 is being evaluated in a clinical setting (Phase II) in combination with docetaxel for the treatment of prostate cancer.
Routing in multithread environment (2003)

Given the enormous amount of detailed geometry information, the large number of local nets, and the ability to properly partition a design routing has been studied thoroughly to utilize parallelism intensively. In this paper we first discuss how to divide the routing space into regions that reduce run time and memory usage without scarifying the quality of the results. Then we cover scheduling among the routing regions; because scheduling determines the effectiveness of parallel routing. We consider the locking, quality of results, and scaling for scheduling in a multithread environment. Experiments show good routing quality with significant speed up in detailed routing.
Single-cell profiling of myasthenia gravis identifies a pathogenic T cell signature (2021)

Myasthenia gravis (MG) is an autoimmune disease characterized by impaired neuromuscular signaling due to autoantibodies targeting the acetylcholine receptor. Although its auto-antigens and effector mechanisms are well defined, the cellular and molecular drivers underpinning MG remain elusive. Here, we employed high-dimensional single-cell mass and spectral cytometry of blood and thymus samples from MG patients in combination with supervised and unsupervised machine-learning tools to gain insight into the immune dysregulation underlying MG. By creating a comprehensive immune map, we identified two dysregulated subsets of inflammatory circulating memory T helper (Th) cells. These signature Th<sub>CD103</sub> and Th<sub>GM</sub> cells populated the diseased thymus, were reduced in the blood of MG patients, and were inversely correlated with disease severity. Both signature Th subsets rebounded in the blood of MG patients after surgical thymus removal, indicative of their role as cellular markers of disease activity. Together, this in-depth analysis of the immune landscape of MG provides valuable insight into disease pathogenesis, suggests novel biomarkers and identifies new potential therapeutic targets for treatment.
Flat gain Erbium-doped fiber amplifier in 1570nm - 1600nm region for dense WDM transmission systems (1997)

WDM technologies became very attractive subject for high speed and high capacity optical transmission systems.
Unit Cell Volume as a Measure of the Framework Composition of ZSM-5 Type Zeolites (2023)

A simple X-ray powder diffraction procedure is proposed to determine the framework composition of ZSM-5 type zeolites. The procedure is based on a linear relation between the unit cell volume and the framework aluminum content found by analyzing two families of ZSM-5 zeolites with different SiO2/Al2O3 ratios. One family consisted of products synthesized in the presence of TPA+ cations while hydrogen forms were included in the second series of samples. Linear relationships between cell constants, cell volume (Vu.c.), and the framework aluminum content (NAl) were established. For the samples synthesized in the presence of an organic template and sodium cations, the relation between NAl and Vu.c. is given by NAl = (Vu.c. – 5332 Å3)/15.13. A similar equation was computed for H-ZSM-5 zeolites: NAl = (Vu.c. – 5330 Å3)/15.40. Equations derived can be used to evaluate the number of framework aluminum in the unit cell. In this way, the ratio of the framework and nonframework aluminum atoms in the samples of ZSM-5 type zeolites subjected to heat treatment can be estimated.