gebhart/patrepeval huggingface dataset:
Protein Transnitrosylation Signaling Networks Contribute to Inflammaging and Neurodegenerative Disorders (2021)

<b><i>Significance:</i></b> Physiological concentrations of nitric oxide (NO<sup>•</sup>) and related reactive nitrogen species (RNS) mediate multiple signaling pathways in the nervous system. During inflammaging (chronic low-grade inflammation associated with aging) and in neurodegenerative diseases, excessive RNS contribute to synaptic and neuronal loss. "NO signaling" in both health and disease is largely mediated through protein S-nitrosylation (SNO), a redox-based posttranslational modification with "NO" (possibly in the form of nitrosonium cation [NO<sup>+</sup>]) reacting with cysteine thiol (or, more properly, thiolate anion [R-S<sup>-</sup>]). <b><i>Recent Advances:</i></b> Emerging evidence suggests that S-nitrosylation occurs predominantly <i>via</i> transnitros(yl)ation. Mechanistically, the reaction involves thiolate anion, as a nucleophile, performing a reversible nucleophilic attack on a nitroso nitrogen to form an SNO-protein adduct. Prior studies identified transnitrosylation reactions between glyceraldehyde-3-phosphate dehydrogenase (GAPDH)-nuclear proteins, thioredoxin-caspase-3, and X-linked inhibitor of apoptosis (XIAP)-caspase-3. Recently, we discovered that enzymes previously thought to act in completely disparate biochemical pathways can transnitrosylate one another during inflammaging in an unexpected manner to mediate neurodegeneration. Accordingly, we reported a concerted tricomponent transnitrosylation network from Uch-L1-to-Cdk5-to-Drp1 that mediates synaptic damage in Alzheimer's disease. <b><i>Critical Issues:</i></b> Transnitrosylation represents a critical chemical mechanism for transduction of redox-mediated events to distinct subsets of proteins. Although thousands of thiol-containing proteins undergo S-nitrosylation, how transnitrosylation regulates a myriad of neuronal attributes is just now being uncovered. In this review, we highlight recent progress in the study of the chemical biology of transnitrosylation between proteins as a mechanism of disease. <b><i>Future Directions:</i></b> We discuss future areas of study of protein transnitrosylation that link our understanding of aging, inflammation, and neurodegenerative diseases. <i>Antioxid. Redox Signal.</i> 35, 531-550.
New Miniaturized System for Ultrafiltration: Rationale and Design of a Single-Center, Crossover, Randomized, Open-Label, Pilot Study Protocol (2023)

AD1 is a novel miniaturized device for extracorporeal ultrafiltration. This study will be the first-in-human use of AD1 in patients with fluid overload.
The epidermal growth factor receptor conundrum (2010)

Soluble epidermal growth factor receptor (sEGFR), a cell surface and serum protein derived from an alternately spliced human EGFR transcript, is recognized by 2 therapeutic antibodies approved by the US Food and Drug Administration: cetuximab and panitumumab. Therefore, circulating sEGFR is an unanticipated first target for both of these therapeutic antibodies, adding a new level of complexity to the understanding of EGF receptor biology that should be considered in the design of future clinical studies.
Multi-Channel Vibrotactile Display for Teleoperated Assembly (2015)

Abstract: This paper presents the design and testing of a multi-channel vibrotactile display. It is composed of a cylindrical handle with four embedded vibrating elements driven by piezoelectric beams. Vibrations are transmitted to the hands through arrays of pins. The device was tested in sensory substitution for conveying force information during a teleoperated peg insertion. Results show that the device is effective in reducing peak forces during the insertion task.
<title>Microactuated mirrors for beam steering</title> (1997)

The design, fabrication, and potential performance of micro- actuated mirrors for beam steering are considered. Micro- actuators are by definition small devices that implement small displacements; they typically function using either electrostatic attraction or thermal expansion and are much smaller and less expensive than voice coil, piezoelectric stack, and related macro-actuators. Mirrors for use with micro-actuators may consist of rigid optically flat plates, continuous deformable membranes of facesheets, or arrays of elements with many possible element shapes, spacings, and displacement patterns. In general, the number of potentially practical micro-actuated mirror designs for beam steering increases as angular range, aperture size, steering speed, optical quality, and optical power requirements decrease.
Liquid Behavior in Containers with a Liquid-Packing Bag for Liquid Products Subjected to Drop Impact (2006)

The behavior of liquid in containers subjected to impact loads due to free fall was investigated using a visualization technique. Two types of containers were used. One consisted of a case made of transparent plastic plates and a liquid-packing bag made of transparent plastic films. The bag contained about 1,000 ml of liquid. The other was a case made only of transparent plastic plates. The case contained about 1,000 ml of water. The liquid consisted of water and ethanol. Polyethylene particles of about 3 mm in diameter were included in the liquid to visualize the movement of liquid in the containers. The containers were subjected to impact due to free fall, and photographs of the containers were taken using a high-speed camera. Results indicated that the behavior of liquid in the container with a liquid-packing bag is different from that of the container without a liquid-packing bag.
Papain-catalyzed fragment synthesis of protected cholecystokinin derivatives (1990)

Sodium salts of methyl esters of N-tert-butyloxycarbonyl-β-tert-butylaspartyl-O 4 -sulfotyrosine ( II ) or N-tert-butyloxycarbonyl-O 4 -sulfotyrosine ( III ) were condensed with amino components derived from peptide amides IVb-IVe and IVg (simulating the carboxy-terminal part of cholecystokinin) under catalysis with papain. Rates and yields of conversion of these peptides to the corresponding derivatives Ib-If were compared with the results reported previously for analogous papain-catalyzed fragment synthesis of the protected carboxy-terminal octapeptide of cholecystokinin Ia . In the condensation reactions with the individual amino components quantitative changes were observed in the ability of papain to catalyze the peptide bond synthesis which appeared as differences in the maximum yield (and the time required for achieving it) of the condensation reaction, monitored by HPLC. The observed differences are related not only with the distance of the amino acid substitution from the P' 1 subsite in the given amino component but also with the side-chain structure of the substituting amino acid.
Real time tomographic reflection: phantoms for calibration and biopsy (2002)

We aim to validate Real Time Tomographic Reflection (RTTR) as an image guidance technique for needle biopsy. RTTR is a new method of in situ visualization, which merges the visual outer surface of a patient with a simultaneous ultrasound scan of the patient's interior using a half-silvered mirror. The ultrasound image is visually merged with the patient, along with the operator's hands and the invasive tool in the operator's natural field of view. Geometric relationships are preserved in a single environment, without the tool being restricted to lie in the plane of the ultrasound slice. The present experiment illustrates the effectiveness of needle biopsy using RTTR on a phantom consisting of an olive embedded in a turkey breast and discusses several prototypes of calibration phantoms.
The Application of Rapid Small-Scale Column Tests in Iron-Based Packed Bed ArseniC Treatment Systems (2005)

The rapid small-scale column test (RSSCT) is applicable to simulate pilot-scale performance for arsenate adsorption onto porous iron-based adsorbents. Commercially available granular ferric hydroxide (GFH) and Bayoxide Sorb33 (E33) have been evaluated for arsenate removal in this study. The BET surface area of GFH is 236 m2/g and for E33 is 129 m2/g. Both GFH and E33 possess identical pore size distribution. Proportional diffusivity (PD) and constant diffusivity (CD) based RSSCTs have been conducted with GFH and E33 and compared against corresponding pilot column performance. PD-RSSCTs simulated pilot column breakthrough curves reasonably well, but CD-RSSCTs failed to correspond pilot scale performance. The column arsenate adsorption density (qcolumn) varies from 0.3 - 0.4 μg arsenate/mg dry GFH and 0.3-1.53 μg arsenate/mg dry E33 for GFH and E33 respectively depending upon water quality.
Improved Enzyme Dosing Protocol to Incease Islet Yield in Chronic Pancreatitis Pancreas Intended for Clinical Islet Auto-Transplantation (2012)

Introduction: Chronic pancreatitis (CP) is characterized by irreversible changes to the pancreas. When associated with intractable abdominal pain refractory to medical or endoscopic treatment, total pancreatectomy (TP) may be required for pain relief, as well as an islet auto-transplantation (IAT) to minimize or prevent the resulting labile diabetes mellitus. At our institution, over 450 IATs have been performed and the islet isolation process has been continuously optimized to achieve the desired results. However, obtaining comparative results from each pancreas is complicated by the fact that the long standing injury and inflammation damages the normal architecture of the pancreas through fibrosis, duct obstruction, intra-ductal calcifications, and cysts. As enzymatic digestion is a multi-component, stoichiometric process, these changes make it difficult to produce consistent results each time and require revision of enzyme strategies to avoid incomplete or over digestion. In this study, we retrospectively analyzed the significant changes in enzyme dosing of CP pancreases in 231 cases (2007-2012). Methods: Three different enzyme dosing protocols in the cohort were identified and compared using (ANOVA, SPSS 19). Protocol-A (A) was the use of one full vial of collagenase and neutral protease (NP) on every pancreas. Protocol-B (B) was the use of fixed dose of collagenase and NP while protocol-C (C) is our current standard and is based on dosing enzymatic activity Units per gm of estimated pancreas weight (for both Collagenase and NP). A range is allowed based on severity of fibrosis of pancreas as determined on gross morphological evaluation. Factors affecting the yields (islet equivalents, IEQ) were compared with respect to digest IEQ/g pancreas, post-purification IEQ/g and transplant IEQ/kg to highlight significant improvements of each successive protocol. In our current protocol (C), we have started using intact C1 collagenase when compared to protocols A&B in which truncated collagenase was used. Results: There were no significant differences in age (p=0.987) and BMI (p=0.684) among the patient profiles for the three different approaches. Significant differences were noted with our current approach (Protocol-C) with respect to digested pancreas weight (gm), collagenase unit/gm pancreas, NP U/gm pancreas and superior isolation results obtained with significantly greater digest IEQ, (p=0.003), post purification IEQ, (p=0.002) and total transplanted IEQ/kg (p=0.015) compared to protocol B and A (table). All data are presented as Mean ± SD Conclusion: With our current standard procedure of careful dosing of each individual pancreas with intact C1 collagenase we have been able to improve the islet yield. It is thus important to select the dose of the digestive enzymes according to the weight of the pancreas and adjust their ratios for achieving maximal yields from fibrotic cases of chronic pancreatitis.Table: [Isolation result with different enzyme protocols]
Garbling in Reverse Order (2014)

Modern computing has increasingly been moved into network-based solutions such as clouds. The security in these solutions is not always at satisfactory level. Ideas to improve the security of networked computing include the technique called garbled circuits or garbling, a technique first introduced by Yao and then formalized by Bellare, Hoang and Rogaway. The security of garbling has been considered from different perspectives, including adaptivity and reusability. In this paper, we improve the practicality of garbling by presenting a new type of adaptivity with support to reusability. We also show how this new type of adaptivity is related to the known security concepts.
The influence of the semiconductor and dielectric properties on surface flashover in silicon-dielectric systems (1994)

New experimental results on surface flashover are reported for high field silicon-dielectric systems. Different conditions of the lateral surface, contacts and ambient dielectrics have been studied. The strong influence of the semiconductor quality, and that of the dielectric properties, on the prebreakdown and breakdown response of the system, is demonstrated. All experimental results strongly support the conclusion that surface flashover in silicon systems is a physical process totally different from semiconductor surface breakdown. This conclusion has important practical application in the improvement of the performance of photoconductive power switches, severely limited by premature breakdown effects.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Synthesis of Urea Picket Porphyrins and Their Use in the Elucidation of the Role Buried Solvent Plays in the Selectivity and Stoichiometry of Anion Binding Receptors (2007)

The synthesis of alpha,alpha-5,10-diurea and alpha,alpha,alpha-5,10,15-triurea picket porphyrins are detailed in this report. In previous reports, these porphyrins, along with alpha,alpha,alpha,alpha-5,10,15,20-tetraurea picket porphyrin, were used to demonstrate the important role one buried solvent molecule plays in the selectivity and stoichiometry of binding inorganic anions. Building on prior work, this report discusses the results of acetate anion binding studies between tetra- and diurea picket porphyrins (the latter does not contain a buried solvent molecule in the anion-receptor complex), compares differences in thermodynamic data obtained from van't Hoff plots of a porphyrin anion receptor able to utilize buried solvent in its binding motif with one that does not, and compares the crystal structure of a tetraurea porphyrin 1-chloride anion complex that contains buried solvent with new X-ray crystal structures of tetraurea porphyrin 1-dichloride or bisdihydrogenphosphate anion complexes that contain no buried solvent. Data from our previous work, and the work described herein, demonstrates that one buried solvent molecule provides stability to the receptor-anion complex that is similar in energy to a moderately strong hydrogen bond.
MRT-follow up von plexiformen Neurofibromen bei Neurofibromatose Typ 1 (2008)

Zielsetzung: Plexiforme Neurofibrome treten bei mehr als 50% der Patienten mit Neurofibromatose Typ 1 auf. Diese primär gutartigen Tumore sind entstellend und können diverse Komplikationen verursachen. Beispielsweise in Form von Knochenarosionen, Obstruktion und Kompression benachbarter Organe. Plexiforme Neurofibrome können sich zu malignen peripheren Nervenscheidentumoren entwickeln. Dies ist der entscheidende Mortalitätsfaktor für NF1 Betroffene. Die Kenntnisse über ihre Biologie sind limitiert und das Wachstumsverhalten plexiformer Neurofibrome ist bisher unzureichend charakterisiert. Daher wurden longitudinale MRT-Untersuchungen bei NF1-Patienten mit diesen Tumoren durchgeführt.
Distal lung elastic network alterations in pulmonary fibrosis, a prospective controlled study using in-vivo confocal endomicroscopy. (2010)

International audience
A Two DOF Controller for a Multi-Finger Tactual Display Using a Loop-Shaping Technique (2004)

The design and evaluation of a new controller for a multi-finger tactual (kinesthetic and cutaneous) display, the TACTUATOR, is discussed. A crucial performance requirement is that the relative amplitude of spectral components be preserved in terms of perceived intensity as judged by human users. In this article, we present a two degree-of-freedom controller consisting of a feedback controller and a pre-filter, and its digital implementation. The overall system was evaluated with frequency-response function measurements and with human psychophysical experiments. The measurement results confirm that the steady-state frequency response closely follows the design specifications. The psychophysical results indicate a deviation in the model of the human detection threshold curve at frequencies below 30 Hz. Future work will compensate for this deviation by reshaping the pre-filter. Our work demonstrates the validity of designing controllers that take into account not only the electromechanical properties of the hardware, but the sensory characteristics of the human user.
Analysis of electrotonic coupling in patterned neuronal networks (2004)

Microcontact printing of laminin is known as an efficient approach for guiding neuronal cell migration and neurite outgrowth on artificial surfaces. In the present study, ultrathin (approximately 250 microm) brain stem slices of Sprague-Dawley rats (E15-E18) were cultured on laminin-patterned substrates, such that neuronal cells migrating out of the slices formed grid-shaped neuronal networks along the geometry defined by the pattern. The interconnections between neighbouring pairs of neurons within these artificial networks were assessed electrophysiologically by double patch-clamp recordings and optically by microinjection of fluorescent dyes. Both functional and electrotonic synapses were detected. Based on the recorded data and simulations in PSpice, an electrical model for electrotonically coupled cells was derived. In this model the neuritic pathway is described as a cylindric cable, and gap junctions are represented by an ohmic resistor. Applying this model in the data analysis, the average inner radius of neurites could be determined to be approximately 0.1 microm. In addition, evidence was found for a correlation between the path-width of the applied pattern and the diameter of neurites growing along these paths.
Transcatheter occlusion of a left ventricular outflow tract pseudoaneurysm using a “plug and coil” strategy (2022)

Left ventricular outflow tract pseudoaneurysm is a rare and potentially fatal complication of aortic valve replacement. Surgical repair is the most common treatment and is particularly suitable for large pseudoaneurysms. Recently, there has been significant breakthroughs in the management of postoperative pseudoaneurysms via endovascular techniques. We report a case of a large postoperative pseudoaneurysm of the left ventricular outflow tract that occurred 1 year following a redo mechanical aortic valve replacement in a patient with previous valve sparing procedure performed 5 years earlier. The pseudoaneurysm was anatomically located antero-laterally between the right atrium and the ascending aorta. Successful occlusion was achieved with an Amplatzer Vascular Plug 2 (Abbott) and several coils (Terumo) via a transapical approach.
1087: Prostate Stem Cell Antigen as a Marker for Bladder Cancer (2007)

You have accessJournal of UrologyModerated Poster 31, Monday, May 21, 2007, 3:30 - 5:30 pm1 Apr 20071087: Prostate Stem Cell Antigen as a Marker for Bladder Cancer Benjamin T. Shurtleff, Jessica Chan, Jian Yu Rao, and Robert Reiter Benjamin T. ShurtleffBenjamin T. Shurtleff More articles by this author , Jessica ChanJessica Chan More articles by this author , Jian Yu RaoJian Yu Rao More articles by this author , and Robert ReiterRobert Reiter More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(18)31301-6AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "1087: Prostate Stem Cell Antigen as a Marker for Bladder Cancer." The Journal of Urology, 177(4S), p. 359 © 2016 by American Urological AssociationFiguresReferencesRelatedDetails Volume 177Issue 4SApril 2007Page: 359 Advertisement Copyright & Permissions© 2016 by American Urological AssociationMetricsAuthor Information Benjamin T. Shurtleff More articles by this author Jessica Chan More articles by this author Jian Yu Rao More articles by this author Robert Reiter More articles by this author Expand All Advertisement PDF downloadLoading ...
Interactive global illumination in dynamic environments using commodity graphics hardware (2004)

We present a system based on commodity graphics hardware for computing global illumination in dynamic scenes at interactive rates. We designed a progressive global illumination algorithm specifically to take advantage of current graphics hardware features. Our algorithm simulates the transport of light in synthetic environments by following the light emitted from the light source(s) through its multiple bounces on the surfaces of the scene. The entire algorithm runs on ATI's Radeon 9700 using vertex and fragment shaders, allowing us to compute and display a global illumination solution for reasonably complex scenes with moving objects and moving lights in approximately 250 milliseconds (4 frames per second).
Advanced techniques on multirate signal processing for digital information processing (2011)

Multirate signal processing has become a key topic enabling efficient techniques for digital information processing in a variety of applications such as digital transceivers s for wireless as well as satellite communication systems, digital broadcasting, high performance audio and video, multimedia services, and signal compression. In the wireless communications arena, multirate signal processing techniques provide effective means to implement flexible receiver channelisation filtering and sampling rate conversion for software and cognitive radio digital frontends. As far as multimedia signal processing is concerned, recent techniques relying on multirate filter banks have resulted in improved subband coding techniques reflected in the JPEG-2000 multimedia standard, as well as on some modern audio compression formats such as MP3, AAC3 and ATRAC3plus, to cite but a few.
A novel etching technique for crystallographic study of SiC materials (2009)

In this research, a novel etching technique using a eutectic solution consisting of potassium hydroxide (KOH), sodium hydroxide (NaOH), and magnesium oxide (MgO) was developed for the investigation of crystallographic defects in SiC materials. Compared to traditional molten KOH etching, this new eutectic etching technique provides a much better control of the etching rate that can be used to efficiently expose defects by etch pits but less destructive to sample surface, which maintains the surface roughness and integrity of SiC samples after etching.
A Platinum Nanowire Sensor for Ethylene in Air (2023)

A single platinum nanowire (PtNW) chemiresistive sensor for ethylene gas is reported. In this application, the PtNW performs three functions: (1) Joule self-heating to a specified temperature, (2) <i>in situ</i> resistance-based temperature measurement, and (3) detection of ethylene in air as a resistance change. Ethylene gas in air is detected as a reduction in nanowire resistance by up to 4.5% for concentrations ranging from 1 to 30 ppm in an optimum NW temperature range from 630 to 660 K. This response is rapid (30-100 s), reversible, and reproducible for repetitive ethylene pulses. A threefold increase in signal amplitude is observed as the NW thickness is reduced from 60 to 20 nm, commensurate with a signal transduction mechanism involving surface electron scattering.