gebhart/patrepeval huggingface dataset:
Experimental treatment of thrombotic vascular occlusion (1991)

The role of laser energy in the treatment of thrombotic vascular occlusion was evaluated in two sets of experiments. First, 10 polytetrafluoroethylene grafts were used to replace segments of the superficial femoral arteries in dogs and were thrombosed by distal ligation. Occlusion was maintained for one hour, or for 7, 14, 21, and 28 days in each of two grafts. Patency was restored in all 10 grafts without perforation or anastomotic disruption using a 2 mm hot tip probe powered by an Argon laser. However, increased organization of thrombus related to the duration of occlusion lead to decreased laser channel diameters, and 75% of the 28 day thrombus remained in the graft after recanalization. The second experiments tested the added benefit of thrombolytic infusion following laser recanalization. Bilateral external iliac artery thrombosis was induced in dogs by operative vessel isolation, de-endothelialization, and thrombin injection. At 7 days the efficacy of laser-assisted thrombolysis (LAT) versus enzymatic thrombolysis (ET) alone was compared. Eight vessels underwent ET by urokinase (4000 I.U./min.); 14 vessels were laser recanalized prior to thrombolytic infusion. LAT was performed from a carotid artery approach in 8 vessels (antegrade) and from a femoral artery in 6 vessels (retrograde). In contrast to studies using the hot tip alone, both ET and LAT accomplished complete thrombus removal. However, LAT lead to significant iliac arterial flow in 9 +/- 8 min. (antegrade) and 25 +/- 8 min. (retrograde) while ET required 109 +/- 47 min (p less than 0.01).(ABSTRACT TRUNCATED AT 250 WORDS)
Targeting the Wnt signaling pathway through R-spondin 3 identifies an anti-fibrosis treatment strategy for multiple organs (2020)

The Wnt/β-catenin signaling pathway has been implicated in human proliferative diseases such as cancer and fibrosis. The functions of β-catenin and several other components of this pathway have been investigated in fibrosis. However, the potential role of R-spondin proteins (RSPOs), enhancers of the Wnt/β-catenin signaling, has not been described. A specific interventional strategy targeting this pathway for fibrosis remains to be defined. We developed monoclonal antibodies against members of the RSPO family (RSPO1, 2, and 3) and probed their potential function in fibrosis in vivo. We demonstrated that RSPO3 plays a critical role in the development of fibrosis in multiple organs. Specifically, an anti-RSPO3 antibody, OMP-131R10, when dosed therapeutically, attenuated fibrosis in carbon tetrachloride (CCl4)-induced liver fibrosis, bleomycin-induced pulmonary and skin fibrosis models. Mechanistically, we showed that RSPO3 induces multiple pro-fibrotic chemokines and cytokines in Kupffer cells and hepatocytes. We found that the anti-fibrotic activity of OMP-131R10 is associated with its inhibition of β-catenin activation in vivo. Finally, RSPO3 was found to be highly elevated in the active lesions of fibrotic tissues in mouse models of fibrosis and in patients with idiopathic pulmonary fibrosis (IPF) and nonalcoholic steatohepatitis (NASH). Together these data provide an anti-fibrotic strategy for targeting the Wnt/β-catenin pathway through RSPO3 blockade and support that OMP-131R10 could be an important therapeutic agent for fibrosis.
Highly-nonlinear-fiber-based discrete Raman amplifier for CWDM transmission systems (2004)

We have developed an upgradeable discrete fiber Raman amplifier (FRA) utilizing highly nonlinear fiber with a bandwidth of 140nm, which covers channel coarse WDM signals for the first time.
Efficacy and Safety of the Dipeptidyl Peptidase-4 Inhibitor Sitagliptin Added to Ongoing Metformin Therapy in Patients With Type 2 Diabetes Inadequately Controlled With Metformin Alone (2006)

Sitagliptin 100 mg once-daily added to ongoing metformin therapy was efficacious and well tolerated in patients with type 2 diabetes who had inadequate glycemic control with metformin alone.
The regiospecific C-4 lithiation of 2-(tert-butyldimethylsilyl)-3-furoic acid (1991)

2-(tert-Butyldimethylsilyl)-3-furoic acid 7 was regiospecifically lithiated at the C-4 position when treated with 2.5 equiv. of butyllithium (at –20 °C) in either tetrahydrofuran or 1,2-dimethoxyethane; trapping of the dianion with a variety of electrophiles provided 2,3,4-trisubstituted furans in good to excellent yield.
New and emerging immune‐targeted drugs for the treatment of multiple sclerosis (2013)

Multiple sclerosis (MS) is a neurodegenerative disease with a major inflammatory component that constitutes the most common progressive and disabling neurological condition in young adults. Injectable immunomodulatory medicines such as interferon drugs and glatiramer acetate have dominated the MS market for over the past two decades but this situation is set to change. This is because of: (i) patent expirations, (ii) the introduction of natalizumab, which targets the interaction between leukocytes and the blood-CNS barrier, (iii) the launch of three oral immunomodulatory drugs (fingolimod, dimethyl fumarate and teriflunomide), with another (laquinimod) under regulatory review and (iv) a number of immunomodulatory monoclonal antibodies (alemtuzumab, daclizumab and ocrelizumab) about to enter the market. Current and emerging medicines are reviewed and their impact on people with MS considered.
Aberrant methylation of p16INK4a in anatomic and gender-specific subtypes of sporadic colorectal cancer. (1999)

Colorectal cancer (CRC) occurring in the proximal colon and among women may represent a distinct subtype of the disease. In the present study of 120 sporadic CRCs, we used methylation-specific PCR to test whether methylation of the CpG island in the 5' region of the p16INK4a tumor suppressor gene was associated with anatomical location, gender, or other clinicopathological characteristics. Overall, 18.3% of the tumors had detectable p16INK4a methylation. A marked preponderance of methylated tumors occurred within the proximal colon; cancers occurring proximal to the sigmoid colon were 13.1 times more likely to contain methylated p16INK4a compared with distal tumors. In addition, female patients were 8.8 times more likely than males to have methylation-positive cancers, and p16INK4a methylation was also associated with poorly differentiated tumors. The localization of tumors with p16INK4a methylation within the proximal colon and among female patients specifically adds to a growing database of molecular alterations that define important subtypes of sporadic CRC. The potentially reversible nature of CpG methylation may provide novel therapeutic opportunities for this increasing subtype of the disease, which, due to anatomical location, presents a great challenge for early detection.
An efficient graphical shot verifier incorporating visual rhythm (2003)

Recent publications regarding video shot change detection algorithms show that abrupt shot changes are detected fairly well. However, gradual shot changes, including wipes and dissolves, are often missed or falsely detected. A robust shot change detection system, therefore, must include a shot verification step to further enhance the overall system performance. In this paper, we introduce the concept of a visual rhythm, an abstraction of the video. A visual rhythm is a single image, a sub-sampled version of a full video in which the sampling is performed in a pre-determined and in a systematic fashion. It is basically a representation of the video which includes the overall content of the video, but most importantly, the visual rhythm contains patterns or visual features that allow the viewer/operator to distinguish and classify many different types of video effects (edits and otherwise): cuts, wipes, dissolves, fades, camera motions, object motions, flashlights, zooms, etc. The different video effects manifest themselves as different patterns on the visual rhythm. Using the visual rhythm, it becomes possible, without sequentially playing the entire video, to find false positive shots as well as undetected shots. Thus, inclusion of the visual rhythm in the shot verification process will aid the operator to verify detected shots as well as to find undetected shots fast and efficiently. For this purpose, we have developed a new tool, a shot verifier that includes the visual rhythm. The usefulness of the visual rhythm during the shot verification process is presented.
Towards Safer Self-Driving Through Great PAIN (Physically Adversarial Intelligent Networks) (2020)

Automated vehicles' neural networks suffer from overfit, poor generalizability, and untrained edge cases due to limited data availability. Researchers synthesize randomized edge-case scenarios to assist in the training process, though simulation introduces potential for overfit to latent rules and features. Automating worst-case scenario generation could yield informative data for improving self driving. To this end, we introduce a "Physically Adversarial Intelligent Network" (PAIN), wherein self-driving vehicles interact aggressively in the CARLA simulation environment. We train two agents, a protagonist and an adversary, using dueling double deep Q networks (DDDQNs) with prioritized experience replay. The coupled networks alternately seek-to-collide and to avoid collisions such that the "defensive" avoidance algorithm increases the mean-time-to-failure and distance traveled under non-hostile operating conditions. The trained protagonist becomes more resilient to environmental uncertainty and less prone to corner case failures resulting in collisions than the agent trained without an adversary.
Assembly, specific binding, and crystallization of a human TCR-αβ with an antigenic Tax peptide from human T lymphotropic virus type 1 and the class I MHC molecule HLA-A2 (1996)

T lymphocytes use TCR-alphabeta to bind and to recognize complexes of antigenic peptides bound to MHC proteins located at the surface of APCs. We have assembled and crystallized this intercellular complex of TCR/peptide/MHC from soluble human TCR-alphabeta and soluble peptide/HLA-A2 complexes. The soluble TCR-alphabeta binds specifically to its in vivo ligand, the complex of HLA-A2, and a peptide from the Tax protein of human T lymphotropic virus type 1. The soluble TCR also binds in vitro to an altered peptide ligand, which appears to be a partial agonist in T cell assays as determined by its ability to elicit different cytolytic and lymphokine secretion responses. Heterodimerization and the antigenic specificity of the TCR do not require its interchain disulfide bond, transmembrane segments, or glycosylations. Crystals of the TCR/peptide/HLA-A2 complex diffract x-rays, providing the means to study in atomic detail the mechanism of Ag-specific cell-cell recognition between T cells and target cells.
Discovering Hamiltonian spectra with variational quantum imaginary time simulation (2018)

Calculating the energy spectrum of a quantum system is an important task, for example to analyse reaction rates in drug discovery and catalysis. There has been significant progress in developing algorithms to calculate the ground state energy of molecules on near-term quantum computers. However, calculating excited state energies has attracted comparatively less attention, and it is currently unclear what the optimal method is. We introduce a low depth, variational quantum algorithm to sequentially calculate the excited states of general Hamiltonians. Incorporating a recently proposed technique, we employ the low depth swap test to energetically penalise the ground state, and transform excited states into ground states of modified Hamiltonians. We use variational imaginary time evolution as a subroutine, which deterministically propagates towards the target eigenstate. We discuss how symmetry measurements can mitigate errors in the swap test step. We numerically test our algorithm on Hamiltonians which encode 3SAT optimisation problems of up to 18 qubits, and the electronic structure of the Lithium Hydride molecule. As our algorithm uses only low depth circuits and variational algorithms, it is suitable for use on near-term quantum hardware.
A Novel Designed Bioreactor for Recovering Precious Metals from Waste Printed Circuit Boards (2015)

For recovering precious metals from waste printed circuit boards (PCBs), a novel hybrid technology including physical and biological methods was developed. It consisted of crushing, corona-electrostatic separation, and bioleaching. Bioleaching process is the focus of this paper. A novel bioreactor for bioleaching was designed. Bioleaching was carried out using Pseudomonas chlororaphis. Bioleaching experiments using mixed particles of Au and Cu were performed and leachate contained 0.006 mg/L, 2823 mg/L Au(+) and Cu(2+) respectively. It showed when Cu existed, the concentrations of Au were extremely small. This provided the feasibility to separate Cu from Au. The method of orthogonal experimental design was employed in the simulation bioleaching experiments. Experimental results showed the optimized parameters for separating Cu from Au particles were pH 7.0, temperature 22.5 °C, and rotation speed 80 r/min. Based on the optimized parameters obtained, the bioreactor was operated for recovering mixed Au and Cu particles. 88.1 wt.% of Cu and 76.6 wt.% of Au were recovered. The paper contributed important information to recover precious metals from waste PCBs.
A format-compliant configurable encryption framework for access control of video (2002)

We introduce new methods of performing selective encryption and spatial/frequency shuffling of compressed digital content that maintain syntax compliance after content has been secured. The tools described have been proposed to the MPEG-4 Intellectual Property Management and Protection (IPMP) standardization group and have been adopted into the MPEG-4 IPMP Final Proposed Draft Amendment (FPDAM). We describe the application of the new methods to the protection of MPEG-4 video content in the wireless environment, and illustrate how they are used to leverage established encryption algorithms for the protection of only the information fields in the bitstream that are critical to the reconstructed video quality, while maintaining compliance to the syntax of MPEG-4 video, and thereby reduces the amount of data to be encrypted and guarantees the inheritance of many of the good properties of the unprotected bitstreams that have been carefully studied and built, such as error resiliency and network friendliness. The encrypted content bitstream works with many existing random access, network bandwidth adaptation, and error control techniques that have been developed for standard-compliant compressed video, thus making it especially suitable for wireless multimedia applications. Standard compliance also allows subsequent signal processing techniques to be applied to the encrypted bitstream.
Shroom2 regulates contractility to control endothelial morphogenesis (2011)

The intrinsic contractile, migratory, and adhesive properties of endothelial cells are central determinants in the formation of vascular networks seen in vertebrate organisms. Because Shroom2 (Shrm2) is expressed within the endothelium, is localized to cortical actin and cell-cell adhesions, and contains a conserved Rho kinase (Rock) binding domain, we hypothesized that Shrm2 may participate in the regulation of endothelial cell behavior during vascular morphogenesis. Consistent with this hypothesis, depletion of Shrm2 results in elevated branching and sprouting angiogenic behavior of endothelial cells. This is recapitulated in human umbilical vein endothelial cells and in a vasculogenesis assay in which differentiated embryonic stem cells depleted for Shrm2 form a more highly branched endothelial network. Further analyses indicate that the altered behavior observed following Shrm2 depletion is due to aberrant cell contractility, as evidenced by decreased stress fiber organization and collagen contraction with an increase in cellular migration. Because Shrm2 directly interacts with Rock, and Shrm2 knockdown results in the loss of Rock and activated myosin II from sites of cell-cell adhesion, we conclude that Shrm2 facilitates the formation of a contractile network within endothelial cells, the loss of which leads to an increase in endothelial sprouting, migration, and angiogenesis.
Photodynamic therapy for gastrointestinal tumors using three photosensitizers--ALA induced PPIX, Photofrin and MTHPC. A pilot study. (1998)

Photodynamic therapy (PDT) produces localized necrosis with light after prior administration of a photosensitizing drug. As PDT lesions in the gastrointestinal tract heal well, the technique is suitable for repeated endoscopic use. In this study we used PDT to treat benign and malignant gastrointestinal tumors in esophagus, duodenum and rectum in 22 patients, who refused or were not suitable for surgery. Patients were sensitized with 0.15 mg/kg of body weight with mesotetrahydroxyphenylchlorin i.v. m-THPc (2 patients), with 2.0 mg/kg Photofrin i.v. (4 patients) or 60 mg/kg 5-aminolevulinic acid orally ALA (which is converted in vivo to active derivate protoporphyrin IX-PRIX) in fractionated doses (16 patients). Laser treatment was performed 2 days after Photofrin, 2 and 4 days after mTHPc and 4 hours after ALA, using a metal vapour laser (628 nm, 50-150 J/cm2 for ALA and Photofrin, 650 nm and 10-15 J/cm2 for mTHPc). Using ALA, the necrosis was only superficial (up to 1.8 mm depth). Four patients treated with Photofrin showed deeper necrosis, in one case of 8 mm colon cancer complete response, in three cases 1-1.5 cm adenomatous polyps involving the ampulla Vateri 50% longer term reduction in size-seen endoscopically. Two patients with rectal villous adenomas treated with mTHPc showed 60-80% reduction in size (observed endoscopically) within few days after PDT, with better effects for treatment carried out 4 rather than 2 days after the sensitization. In all patients the healing was without any complications. Photofrin and mTHPc work better, but cause cutaneous photosensitivity lasting 12 and 5 weeks, respectively. Better results with ALA are possible when using higher drug doses or modified light dosimetry. PDT is a promising treatment for small localized tumors in patients unsuitable for surgery, but further work is required to optimize the treatment conditions.
Kinetics of inactivation of alpha-thrombin by plasminogen activator inhibitor-1. Comparison of the effects of native and urea-treated forms of vitronectin (1993)

Kinetic studies are presented which show that native human vitronectin, but not urea-treated vitronectin, accelerates the inactivation of human alpha-thrombin by human plasminogen activator inhibitor-1 (PAI-1). We demonstrate that although urea-treated vitronectin binds PAI-1 with an affinity greater than that of native vitronectin, it does not accelerate the rate of inactivation of alpha-thrombin by PAI-1. We present evidence to suggest that the inability of urea-treated vitronectin to accelerate the reaction between alpha-thrombin and PAI-1 results at least in part from the inability of urea-treated vitronectin to bind to alpha-thrombin. The accelerated reaction between PAI-1 and alpha-thrombin can be accounted for by the formation of a tight complex between native vitronectin and PAI-1 that reacts in a saturable manner (Kd = 75 nM) with alpha-thrombin. The second-order rate constant (kI/Kd) for the reaction of the native vitronectin-PAI-1 complex with alpha-thrombin (1.64 x 10(5) M(-)-1 s-1) is 270-fold greater than the second-order rate constant for the reaction in the absence of vitronectin (610 m-1 s-1). The increase in the second-order rate constant is largely due to an increase in the affinity of alpha-thrombin for the native vitronectin-PAI-1 complex, as reflected by a greater than 25-fold reduction in the dissociation constant (Kd) observed for the vitronectin-PAI-1 complex relative to that of uncomplexed PAI-1.
Ionic Liquids—An Overview (2004)

Ionic liquids have become an increasingly popular class of solvent in the last decade as the potential applications of these materials become more diverse. Rather than being viewed simply as replacement for conventional organic solvent media, research into ionic liquids has progressed to the deliberate choice and design of these materials for reasons of improved rate, specificity, and yield. Design of ionic liquids centres on the development of novel cations and anions to impart the specific physical properties required for each application. Therefore, the materials being synthesized and studied are also becoming increasingly complex and diverse. Here we provide an overview of ionic liquids generally, and some of their current applications, as well as an introduction to some of the new cations and anions that have been developed for specific properties.
Glucose Metabolism in Humans (1984)

The primed constant infusion of stable isotopes of glucose is a technique that has enabled many recent advances in the understanding of glucose metabolism in humans. In this chapter we present the theory and validation of the methodology, a description of the analytical procedures involved, and examples of application of the technique. We have tested the response to various rates of exogenous glucose infusion in normal volunteers and hospitalized patients. In normal volunteers, endogenous glucose production is suppressed an amount equivalent to the infused glucose at an infusion ratio as low as 1 mg/kg min, which is less than one-half of the endogenous production rate. In septic and injured patients, however, the suppressibility of glucose production is diminished. In all subjects, between 40 and 50% of the infused glucose was directly oxidized, the exact percent dependent upon the rate and duration of infusion. Glucose labeled with deuterium in various positions can be used to determine the rates of glycolytic/gluconeogenic substrate cycles. Using this approach, we have found that there is a measurable amount of substrate cycling in normal volunteers and that it is significantly depressed in hypothyroid patients.
A framework for segmentation using physical models of image formation (1993)

Most approaches to computer image segmentation group sets of pixels according to visible features of an image such as edges, color, brightness, and curvature. Such approaches exploit specialized object properties to obtain satisfactory groupings, which can force those techniques to be domain specific. Furthermore, they do not provide a physical explanation for the image, nor do they group regions that have a single physical structure yet differing visible features. This paper presents a new approach to segmentation using explicit hypotheses about the physics that creates images. We propose an initial segmentation that identifies image regions exhibiting constant color, but possibly varying intensity. For each region, hypotheses are proposed that specifically model the illumination, reflectance, and shape of the 3-D patch which caused that region. An image region may have many hypotheses simultaneously, and each hypothesis represents a distinct, plausible explanation for the color and intensity variation of that patch. Hypotheses for adjacent patches can be compared for similarity and merged when appropriate, resulting in more global hypotheses for grouping elementary regions. This approach to segmentation has the potential to provide a list of possible explanations for a given image; to group together regions with coherent physical properties; and to provide a framework for applying specific operators such as shape-from-shading, color constancy, and roughness evaluation as part of the overall process of low- level vision. However, many profound unsolved problems are raised in determining the most plausible explanations for a given image region. In this paper, we present the approach, working through an example by hand, and discuss the implications of this approach for physics-based vision.