gebhart/patrepeval huggingface dataset:
Three-dimensional Imaging of the Lower Esophageal Sphincter in Gastroesophageal Reflux Disease (1991)

The resistance of the lower esophageal sphincter to reflux of gastric juice is determined by the integrated effects of radial pressures exerted over the entire length of the sphincter. This can be quantitated by three-dimensional computerized imaging of sphincter pressures obtained by a pullback of radially oriented pressure transducers and by calculating the volume of this image, in other words, the sphincter pressure vector volume. Validation studies showed that sphincter imaging based on a stepwise pullback of a catheter with four or eight radial side holes is superior to a rapid motorized pullback. Compared with 50 healthy volunteers, the total and abdominal sphincter pressure vector volume was lower in 150 patients with increased esophageal acid exposure (p less than 0.001) and decreased with increasing esophageal mucosal damage (p less than 0.01). Calculation of the sphincter pressure vector volume was superior to standard techniques in identifying a mechanically defective sphincter as the cause of increased esophageal acid exposure, particularly in patients without mucosal damage. The Nissen and Belsey fundoplication increased the total and intra-abdominal sphincter pressure vector volume (p less than 0.001) and normalized the three-dimensional sphincter image. Failure to do so was associated with recurrent or persistent reflux. These data indicate that three-dimensional imaging of the lower esophageal sphincter improves the identification of patients who would benefit from an antireflux procedure. Analysis of the three-dimensional sphincter pressure profile should become the standard for evaluation of the lower esophageal sphincter.
Self-Selecting Vapor Growth of Monocrystals:  An Alternative in the Area of Wide-Gap II−VI Solid Solutions (2001)

Self-selecting vapor growth (SSVG) allows the achievement of uniform composition with structural perfection of solid solution crystals. Proven usefulness of this process for IV−VI semiconducting compounds and their solid solutions is presently extended to the II−VI wide-gap semiconductors.
Unknown RSSD-Based Localization CRLB Analysis With Semidefinite Programming (2019)

Passive source localization is an important research area with numerous applications in mobile communications and signal processing. This paper presents an analysis of energy-based localization performance with unknown transmit power using received signal strength (RSS) and RSS difference (RSSD) models. These models are widely used because of their low cost and simple implementation. Previous studies were based on the assumption that the source node transmit power is known, which is not practical in many situations. The Cramér-Rao lower bound for the RSS and RSSD models with correlated noise is derived as a performance benchmark for the mean squared error (MSE) of the location and transmit power estimation. It is shown that the MSE can be factored into two independent terms corresponding to the geometric distribution of the sensors and the channel parameters including the noise variance. The effect of the sensor and source node positions on the location accuracy and the MSE is derived via the geometric dilution of precision (GDOP). The GDOP is then used to evaluate the effect of the joint estimation of unknown power and source location on the performance. Lower bounds on the GDOP are derived to obtain the minimum MSE. The RSSD solution is obtained by formulating the nonlinear and nonconvex objective functions into a convex optimization problem through relaxation and semidefinite programming. Simulation results are presented with the source inside or outside the sensor network.
Angiopoietin-2 promotes ER+ breast cancer cell survival in bone marrow niche (2016)

In estrogen receptor-positive (ER+) breast cancer, it is recognized that metastases may develop after a long period of dormancy. Bone marrow (BM) vascular niche is where the dormant tumor cells are most likely to reside. So far, it is not fully understood why the dormant tumor cells become proliferative and eventually generate tumor. We hypothesized that therapeutic or menopause-related estrogen depletion may be the switch behind dormant ER+ tumor cell awakening in BM. We utilized an existing experimental model of BM endothelial niche that can simulate ER+ tumor cell dormancy to test our hypothesis. In results, estrogen depletion paradoxically promoted ER+ tumor cell proliferation in the BM endothelial niche, and their molecular phenotype shifted from dormant to awaken. Following estrogen depletion, the BM niche cells produced angiopoietin-2 (ANGPT2), which destabilized niche endothelium by interfering ANGPT1/Tie2 signaling, and promoted ER+ tumor cell survival under estrogen deficiency via cell surface integrin &1. Knockdown of ANGPT2 completely negated ER+ tumor cell awakening in the niche. Furthermore, ANGPT2 expression in ER+ tumor human samples was associated with increased risk of distant metastasis only in those who underwent adjuvant estrogen depletion therapy, not in those who did not undergo adjuvant therapy. In conclusion, we demonstrate that ANGPT2 signaling activated after estrogen depletion paradoxically triggers ER+ tumor cell awakening from dormancy in their BM niche, partly indirectly via endothelial Tie2 receptor and partly directly via tumor cell surface integrin &1.
Nonlinear optical potentiometric dyes optimized for imaging with 1064-nm light (2007)

Nonlinear optical phenomena, such as two-photon fluorescence (2PF) and second harmonic generation (SHG), in combination with voltage sensitive dyes, can be used to acquire high-resolution spatio temporal maps of electrical activity in excitable cells and tissue. Developments in 1064-nm fiber laser technology have simplified the generation of high-intensity, long-wavelength, femtosecond light pulses, capable of penetrating deep into tissue. To merge these two advances requires the design and synthesis of new dyes that are optimized for longer wavelengths and that produce fast and sensitive responses to membrane potential changes. In this work, we have systematically screened a series of new dyes with varying chromophores and sidechains that anchor them in cell membranes. We discovered several dyes that could potentially be used for in vivo measurements of cellular electrical activity because of their rapid and sensitive responses to membrane potential. Some of these dyes show optimal activity for SHG; others for 2PF. This regulated approach to dye screening also allows significant insight into the molecular mechanisms behind both SHG and 2PF. In particular, the differing patterns of sensitivity and kinetics for these two nonlinear optical modalities indicate that their voltage sensitivity originates from differing mechanisms.
Diagnosis of swine influenza with an immunofluorescence technique using monoclonal antibodies (1990)

Direct diagnosis of swine influenza infection by an indirect immunofluorescence technique using anti-nucleoproteine monoclonal antibody was compared with virus isolation. Five 8-week-old pigs were inoculated with 2 x 10(7) EID50 of strain A H1N1Sw/4115/85. Clinical signs developed in only three pigs. Antigen was detected in nasal epithelial cells obtained from all animals the first day after inoculation; the antigen was detected in one pig 6 days after the infection. Fluorescence was present in the nucleus, nucleolus and cytoplasm of infected cells. The indirect immunofluorescence test was specific and as sensitive as virus isolation in embryonated eggs, allowing a rapid diagnosis that could be achieved within hours.
Rett Syndrome: A Genetic Update and Clinical Review Focusing on Comorbidities (2017)

Rett syndrome (RTT) is a unique neurodevelopmental disorder that primarily affects females resulting in severe cognitive and physical disabilities. Despite the commendable collective efforts of the research community to better understand the genetics and underlying biology of RTT, there is still no cure. However, in the past 50 years, since the first report of RTT, steady progress has been made in the accumulation of clinical and molecular information resulting in the identification of a number of genes associated with RTT and associated phenotypes, improved diagnostic criteria, natural history studies, curation of a number of databases capturing genotypic and phenotypic data, a number of promising clinical trials and exciting novel therapeutic options which are currently being tested in laboratory and clinical settings. This Review focuses on the current knowledge of the clinical aspects of RTT, with particular attention being paid to clinical trials and the comorbidities of the disorder as well as the genetic etiology and the recognition of new diseases genes.
Description of a Modeling, Simulation, Animation, and Real-Time Control (MoSART) Environment for a Broad Class of Dynamical Systems (2006)

This paper describes an interactive modeling, simulation, animation, and real-time control (MoSART) environment that is useful for controls education and research. The described MoSART environment is shown to be useful for analyzing, designing, visualizing, and evaluating control systems for a broad class of dynamical systems which include: a collection of pendulum/robotic systems, aircraft, helicopters, and other six degree-of-freedom systems. The environment - referred to as Control3D-Lab - is based on Microsoft Windows, Visual C++, Direct-3D, and MATLAB/Simulink. The environment can be used as a stand-alone application or together with MATLAB, Simulink, and toolboxes. When used as a standalone application, a friendly graphical user interface permits easy interaction. Users may select (via pull-down menus): systems, dynamical models, control laws, exogenous signals (including joystick inputs) and associated parameters, initial conditions, integration routines and associated parameters. When used with MATLAB, Simulink, and toolboxes, the above nominal features are significantly enhanced. In either case, the interface permits users to access the following (via pulldown menus): animation models, mesh properties, texture and lighting models, system-specific visual indicators, graphics to be displayed, animation/data display/storage rates, simulation control buttons, and extensive documentation. When Simulink is present, users can exploit extensive visualization and 3D animation features through provided and/or user-generated Simulink diagrams. This capability makes the developed environment very extensible with respect to mathematical models and control laws. Additionally, users may readily export simulation data to MATLAB/toolboxes for post-processing and further analysis. The environment also contains a suite of well documented (easy-to-modify) models and control laws that are implemented within the provided Simulink block diagrams. Provided (special) blocks enable animation, joystick inputs, and (near) real-time simulation and animation (when possible). Associated with each block diagram are system-specific, menu-accessed m-files that permit detailed analysis and design. A hardware module permits real-time control of actual hardware experiments. The developed environment is shown to be a valuable tool for enhancing both controls education in a variety of classes as well as research. Examples are presented to illustrate the utility of the environment
Promoting an obesity education program among minority patients in a single urban pediatric Emergency Department (ED) (2015)

This study suggests the ED may have a role in primary health promotion and obesity prevention. An ED-based intervention may be used to provide education about obesity prevention and has the potential to impact life style modifications, including diet and exercise.
Conductance enhancement due to interface magnons in electron-beam evaporated MgO magnetic tunnel junctions with CoFeB free layer deposited at different pressure (2014)

Electron-beam evaporated MgO-based magnetic tunnel junctions have been fabricated with the CoFeB free layer deposited at Ar pressure from 1 to 4 mTorr, and their tunneling process has been studied as a function of temperature and bias voltage. By changing the growth pressure, the junction dynamic conductance dI/dV, inelastic electron tunneling spectrum d2I/dV2, and tunneling magnetoresistance vary with temperature. Moreover, the low-energy magnon cutoff energy EC derived from the conductance versus temperature curve agrees with interface magnon energy obtained directly from the inelastic electron tunneling spectrum, which demonstrates that interface magnons are involved in the electron tunneling process, opening an additional conductance channel and thus enhancing the total conductance.
An Anti-MUC1 Antibody−Calicheamicin Conjugate for Treatment of Solid Tumors. Choice of Linker and Overcoming Drug Resistance (2005)

The anti-MUC1 antibody, CTM01, has been chosen to target the potently cytotoxic calicheamicin antitumor antibiotics to solid tumors of epithelial origin that express this antigen. Earlier calicheamicin conjugates relied on the attachment of a hydrazide derivative to the oxidized carbohydrates that occur naturally on antibodies. This produced a “carbohydrate conjugate” capable of releasing active drug by hydrolysis in the lysosomes where the pH is low. Conjugates have now been made that are formed by reacting a calicheamicin derivative containing an activated ester with the lysines of antibodies. This gives an “amide conjugate” that is stable to hydrolysis, leaving the disulfide that is present in all calicheamicin conjugates as the only likely site of drug release from the conjugate. As previously shown for the carbohydrate conjugate, this amide conjugate of CTM01 produces complete regressions of xenograft tumors at doses of 300 μg/kg (calicheamicin equivalents) given three times. This indicates that hydrolytic drug release is not necessary for potent, selective cytotoxicity for calicheamicin conjugates of CTM01. Although the unconjugated calicheamicins are in general less active in cells expressing the multidrug resistance phenotype, both in vitro and in vivo results of studies reported here suggest that the efficacy of the calicheamicins toward such tumors is unexpectedly enhanced by antibody conjugation, especially for the “amide conjugate”. These hydrolytically stable conjugates are also active toward cisplatin-resistant ovarian carcinoma cells as well. Such studies indicate that the calicheamicin amide conjugate of CTM01 may have potential for the treatment of MUC1-positive solid tumors, including some types of resistant tumors.
Dimerization and activation of the common transducing chain (gp130) of the cytokines of the IL-6 family by mAb. (1998)

The objective of our research was to study the mechanisms of activation of mAb against the gp130 transducer chain common to the IL-6 cytokine family. It has been found that among the 56 anti-gp130 available worldwide, none was able to activate the growth of IL-6-dependent myeloma cell lines. When certain of them were associated in pairs they allowed the cells to grow; alone, they were inhibitory. The same activation was also obtained by cross-linking certain anti-gp130 mAb on the cell membrane with a goat anti-mouse Ig antiserum. A bispecific mAb was prepared by the somatic fusion of two hybridomas secreting two mAb whose association was able to activate gp130 signaling; the bispecific mAb was inactive. The activating mAb were able to support long-term proliferation of the IL-6-dependent myeloma cell lines, which indicates that they are potential valuable growth factors of tumor cells and hematopoietic stem cells. When they were injected into SCID mice, they allowed human IL-6-dependent myeloma cell lines to grow, develop tumors and metastasize. By studying the functional epitopes of the cell membrane gp130 receptors, it was shown that the activating mAb induced gp130 dimerization and STAT3 activation, as did IL-6.
3185 A Randomized Controlled Trial Comparing the Nonabsorbable Antibiotic Rifaximin vs. Dietary Intervention Low in Fermentable Sugars (FODMAP) in Irritable Bowel Syndrome (2019)

OBJECTIVES/SPECIFIC AIMS: Objectives and goals of this study are to (i) determine whether IBS-D patients randomized to either rifaximin or low FODMAP diet show improvement in IBS-related symptoms; and (2) identify using longitudinal analyses how SIBO status and fecal microbiota features associate with response to either rifaximin or low FODMAP dietary intervention. METHODS/STUDY POPULATION: 42 patients ≥ 18 years of age who meet Rome IV criteria for IBS-D will be randomized to receive either rifaximin or low FODMAP diet intervention. The primary outcome will be the proportion of responders to intervention which is defined as ≥ 30% reduction in mean daily abdominal pain or bloating by visual analog scale compared with baseline. Exclusion criteria will include: (a) history of microscopic colitis, inflammatory bowel disease, celiac disease, or other organic disease that could explain symptoms, (b) prior gastrointestinal surgery, other than appendectomy or cholecystectomy &gt; 6 months prior to study initiation, (c) prior use of rifaximin or formal dietary interventions for IBS-D, (d) use of antibiotics within the past 3 months, or (e) use of probiotics within 1 month of study entry. Glucose hydrogen breath tests will be performed at the beginning and end of the trial to evaluate for SIBO. Fecal samples will be collected at 0, 2, and 6 weeks to determine changes in fecal microbial composition and structure. RESULTS/ANTICIPATED RESULTS: This study seeks to examine whether longitudinal analyses of small intestinal and colonic microbiota can subtype IBS-D subjects into clinically relevant phenotypes. A total of 18 subjects have been enrolled into the study. Clinical variables, hydrogen breath test results, and fecal microbiota data are being collected for ongoing analysis. DISCUSSION/SIGNIFICANCE OF IMPACT: Results from this study may help move treatment of IBS from a purely symptom based approach to a more individualized approach by stratifying IBS-D patients into distinct clinical phenotypes which are amenable to targeted therapeutic approaches.
Killing and regrowth of bacteria in vitro: a review. (1990)

Minimum inhibitory and bactericidal concentrations do not describe the time course of a drug's antimicrobial activity against bacteria. Some antimicrobials exhibit concentration dependent killing over a wide range of concentrations (e.g. aminoglycosides and quinolones), while others show maximal killing at concentrations near the MIC (e.g. beta-lactams and glycopeptides). The aminoglycosides and quinolones can require high drug concentrations (about 10-fold higher than the MIC) to prevent the selection of resistant subpopulations of bacteria. Persistent suppression of bacterial growth after antimicrobial exposure is called the 'postantibiotic effect' (PAE) and varies in duration depending on the drug-organism combination, as well as the concentration and duration of drug exposure. Antimicrobials which are inhibitors of protein and nucleic acid synthesis exhibit prolonged PAEs with a large variety of bacteria. While beta-lactam antibiotics demonstrate PAEs with Gram-positive cocci, very short or no PAEs are observed with these drugs with Gram-negative bacilli. The only exception is that penem antibiotics can induce PAEs with some strains of Gram-negative bacilli, primarily Pseudomonas aeruginosa. Thus, the pharmacodynamic activity of an antimicrobial can vary markedly depending on the microorganism and the class of drug and its concentration.
Management of MEN1 Related Nonfunctioning Pancreatic NETs: A Shifting Paradigm: Results From the DutchMEN1 Study Group. (2018)

MEN1 patients with NF-pNETs <2 cm can be managed by watchful waiting, hereby avoiding major surgery without loss of oncological safety. The beneficial effect of a surgery in NF-pNETs 2 to 3 cm requires further research. In patients with NF-pNETs >3 cm, watchful waiting seems not advisable.
Emerging Field – Synthesis of Complex Carbohydrates. Case Study onHMOs (2019)

Human milk oligosaccharides (HMOs) are a complex group of oligosaccharides exclusively found in human breast milk with a plentitude of proven beneficial health functions. Industrial production of complex mixtures of oligosaccharides is a huge challenge. The production of a few HMO core structures was established using microbial fermentation in vivo. However, for the diversification into the plentitude of specific oligosaccharides, an in vitro approach was developed using engineered transglycosidases. Several different HMO profiles could be generated simply by interconverting sets of more simple HMOs to mixtures of more complex HMOs. All carbohydrates in this process are naturally occurring in human breast milk, which makes the downstream processing very cost-effective and outcompetes chemical synthesis of complex mixtures of HMOs by far.
Virtual CPU validation (2015)

Testing the hypervisor is important for ensuring the correct operation and security of systems, but it is a hard and challenging task. We observe, however, that the challenge is similar in many respects to that of testing real CPUs. We thus propose to apply the testing environment of CPU vendors to hypervisors. We demonstrate the advantages of our proposal by adapting Intel's testing facility to the Linux KVM hypervisor. We uncover and fix 117 bugs, six of which are security vulnerabilities. We further find four flaws in Intel virtualization technology, causing a disparity between the observable behavior of code running on virtual and bare-metal servers.
Therapeutic Modality of 11 Patients with TTP in a Single Institution in Miyazaki from 2000 to 2011 (2013)

We present herein the detailed clinical courses of 11 patients with TTP and address our experiences with the efficacy of various therapeutic regimens. This case-oriented study should be helpful to the physicians who directly care for TTP patients, and may provide a future direction for developing a more efficient treatment modality.
Design of a 5-Phase IPM Machine for Electric Vehicles (2018)

This paper presents the design of a 5-phase interior permanent magnet (IPM) machine for electric vehicle (EV) applications. The Nissan Leaf IPM machine is chosen as the benchmark system against which two designs are developed, 3- and 5-phase machines. The developed machines utilize the same rotor topology as the benchmark machine and adopt a 60-slot stator configuration to facilitate a short-pitch fractional-slot winding scheme. However, the machine total mass, volume, and copper utilization is maintained the same in all designs. Compared to the 3-phase IPM, the 5-phase design results in increased average torque due to improved winding factor hence improved machine power density while maintaining the same total machine ampere-turns and copper losses to ensure the same thermal performance. The study will discuss the improvement in torque and speed capability and present the comparison in loss and efficiency at the machine base speed.