gebhart/patrepeval huggingface dataset:
Optimizing Autoencoders for Learning Deep Representations From Health Data (2018)

Analyzing patients' health data using machine learning techniques can improve both patient outcomes and hospital operations. However, heterogeneous patient data (e.g., vital signs) and inefficient feature learning methods affect the implementation of machine learning-based patient data analysis. In this paper, we present a novel unsupervised deep learning-based feature learning (DFL) framework to automatically learn compact representations from patient health data for efficient clinical decision making. Real-world pneumonia patient data from the National University Hospital in Singapore are collected and analyzed to evaluate the performance of DFL. Furthermore, publicly available electroencephalogram data are extracted from the UCI Machine Learning Repository to test and support our findings. Using both data sets, we compare the performance of DFL to that of several popular feature learning methods and demonstrate its advantages.
Disseminating the bed-and-furrow irrigation method for cotton cultivation in the Hakra-4-R Distributary in collaboration with the Water Users Federation (1999)

Furrow irrigation / Water users' associations / Cotton / Crop production / Irrigated farming / Data collection / Irrigation programs / Irrigation practices / Water use efficiency / Weed control / Watercourses / Social aspects / Economic aspects / Fertilizers / Waterlogging / Salinity
Nonmyeloablative Bone Marrow Transplantation of BXSB Lupus Mice Using Fully Matched Allogeneic Donor Cells from Green Fluorescent Protein Transgenic Mice (2004)

Male BXSB mice, a mouse model of systemic lupus erythematosus, were given bone marrow transplants (BMT) at 20 wk of age using MHC-matched donor cells and nonmyeloablative conditioning (550 cGy irradiation). Transplanted mice and irradiation controls were followed for a period of 20 wk. Mice transgenic for green fluorescent protein were used as donors to allow tracking of donor cells and a determination of chimerism. Radiation controls had reduced renal pathology at 10 wk posttransplant, but not at 20 wk compared with untreated mice, while nonmyeloablative BMT mice had significantly reduced pathology at both time intervals. The monocytosis characteristic of older BXSB mice was also reduced by BMT, but the treatment did not prevent production of Ab to dsDNA. A stable chimerism of 24-40% donor CD45-positive cells was achieved in spleen and bone marrow, and there was no evidence of clinical graft vs host disease. Donor cells were detected in most recipient organs, notably the thymus and renal glomeruli. The results suggest that complete depletion of mature lymphocytes or of progenitor stem cells is not required to control lupus nephritis in BXSB mice.
Rotating Pip Detection and Stall Warning in High-Speed Compressors Using Structure Function (1999)

A statistic for both rotating pip and incipient stall detection, called Structure Function is introduced for use in high speed research compressor environments. Experimental studies on stall inception processes have long observed two types of pre-stall compressor activity. Presently there exist methods for indicating modal stall precursive events in the compressor. This is a first application of a new method to detect rotating pip activity prior to stall in research compressors. The algorithm requires a very short sample of data to distinguish pip activity prior to stall, and thus may be used in a real time application. Additionally, this Structure Function algorithm is also used as a single sensor stall warning method under a variety of operating conditions, including clean inlet conditions, radially and circumferentially distorted inlet conditions, and in examples of steady air injection along the casing, and controlled air injection conditions. Structure Function provides a potential advantage over linear spectral techniques and wavelet algorithms for stall detection due to the simplicity of the algorithm and because it does not rely on a priori knowledge of frequency content. 2.
Heating Near Implanted Medical Devices by the MRI RF-magnetic Field (1999)

Magnetic Resonance Imaging (MRI) is a common technique for imaging of soft tissues in the human body, In MW (Fig. l), the patient is exposed to the static magnetic field Bo, the pulsed gradient magnetic fields and the radio frequency (RF) magnetic field.
Implementing an efficient vector instruction set in a chip multi-processor using micro-threaded pipelines (2001)

This paper looks at a combination of two techniques, one of which, using a vector instruction set, has a long history dating back to pipelined vector supercomputers, such as the Cray 1 and its successors. The other technique, multi-threading, is also well understood. The novel approach proposed in this paper combines both vertical and horizontal micro-threading with vector instruction descriptors. It will be shown that a family of threads can represent a vector instruction with dependencies between the instances of that family, the iterations. This technique gives a very low overhead in implementing an n-way loop and is able to tolerate high memory latency. The use of micro-threading to handle dependencies between threads provides the ability to trade-off between instruction level parallelism and loop parallelism. The paper describes the means by which instruction classes may be instanced as independent parallel micro-threads and illustrates the speed-up that may be obtained compared to using a conventional loop.
Supplemental Figure S9 from Reprogramming Cancer into Antigen-Presenting Cells as a Novel Immunotherapy (2023)

&lt;p&gt;Primary B-ALL TR-APCs can be generated via exogenous cytokine stimulation&lt;/p&gt;
A novel class of local antiinflammatory steroids. 1st communication: analogues of methyl 11 beta,17 alpha,21-trihydroxy-3,20-dioxo-pregna-1,4-diene-16 alpha-carboxylate. (1989)

A novel class of steroidal 16-esters and amides, 1-8 has been synthesized and evaluated as safer local antiinflammatory agents. These compounds retain the intact ketol side-chain of prednisolone and have an alkanoate ester or carboxamide function at the C-16 of the steroid nucleus. In the cotton pellet granuloma assay a correlation was observed between the size of the C-16 substituent group and the local antiinflammatory activity. The incorporation of a methyl carboxylate group at the C-16 position of prednisolone as in methyl 11 beta,17 alpha,21-trihydroxy-3,20-dioxo-pregna-1,4-diene-16 alpha-carboxylate, 5, resulted in an increase in antiinflammatory activity. The 17-deoxy analogue of 5, 1, retained one-half the activity of prednisolone. These two compounds were further evaluated for their effects on plasma corticosterone, adrenal and thymic weights at their ID50 doses for granuloma formation. Neither 5 nor 1 depressed plasma corticosterone levels or significantly altered adrenal weights. Compound 1 was also devoid of thymolytic activity, whereas 5 produced a 33% thymic involution at its ID50 compared to 47% for prednisolone at its equiactive dose.
Overexpression of Hemopexin in the Diabetic Eye (2013)

Hemopexin is overexpressed in the RPE of diabetic patients with DME and induces the breakdown of RPE cells in vitro. Dexamethasone was able to prevent hemopexin-induced hyperpermeability. Our results suggest that hemopexin can be considered a new pathogenic candidate for DME.
A Deep Learning Approach for LoS/NLoS Identification via PRACH in UAV-assisted Public Safety Networks (2020)

The high mobility of Unmanned Aerial Vehicles (UAVs) and their capability to rapidly deploy Aerial Base Stations (ABS) in areas where the terrestrial network becomes unavailable is a key enabler for Public Safety Networks. In our work we introduce a model in order to identify Line of Sight (LoS) and Non-Line of Sight (NLoS) conditions for User Equipments (UEs) that attempt a connection to an ABS through the Physical Random Access Channel (PRACH) based on Convolutional Neural Networks (CNNs). Our method limits the number of antennas employed with respect to other methods that were developed for traditional approaches, while achieving higher than 80% accuracy for SNR of -20 dB. Finally, we study the impact of UAV’s height on the accuracy of our method and we compare it with typical computationally efficient methods based on the delay spread with and without the aid of beamforming.
Novel Synthesis of Condensed Pyridin-2(1H)-one and Pyrimidine Derivatives (2003)

The reaction of N-chloroacetyl derivatives 6-10 with morpholine yielded N-morpholin-1-yl acetyl derivatives 11-15 , which were subjected to Thorpe-Zieler cyclization with sodium tert -butoxide to produce the corresponding condensed pyridin-2(1H)-one derivatives 16-20 . Treatment of compounds 1 , 6-10 with either malononitrile or p -chlorobenzylidinemalononitrile in presence of triethylamine, afforded the corresponding pyrimidines 21-25 , 27 and pyridine derivative 26 respectively. Moreover compound 1 a was treated with ethyl isothiocyanoacetate to give the corresponding piprazine derivative 28 .
Design and Synthesis of HIV-1 Protease Inhibitors Incorporating Oxazolidinones as P2/P2‘ Ligands in Pseudosymmetric Dipeptide Isosteres (2007)

A series of novel HIV-1 protease inhibitors based on two pseudosymmetric dipeptide isosteres have been synthesized and evaluated. The inhibitors were designed by incorporating N-phenyloxazolidinone-5-carboxamides into the hydroxyethylene and (hydroxyethyl)hydrazine dipeptide isosteres as P2 and P2' ligands. Compounds with (S)-phenyloxazolidinones attached at a position proximal to the central hydroxyl group showed low nM inhibitory activities against wild-type HIV-1 protease. Selected compounds were further evaluated for their inhibitory activities against a panel of multidrug-resistant protease variants and for their antiviral potencies in MT-4 cells. The crystal structures of lopinavir (LPV) and two new inhibitors containing phenyloxazolidinone-based ligands in complex with wild-type HIV-1 protease have been determined. A comparison of the inhibitor-protease structures with the LPV-protease structure provides valuable insight into the binding mode of the new inhibitors to the protease enzyme. Based on the crystal structures and knowledge of structure-activity relationships, new inhibitors can be designed with enhanced enzyme inhibitory and antiviral potencies.
Supplementary Table S3 from Mitochondrial-Encoded Complex I Impairment Induces a Targetable Dependency on Aerobic Fermentation in Hürthle Cell Carcinoma of the Thyroid (2023)

&lt;p&gt;Supplementary Table S3 shows the results of our genome-wide and targeted CRISPR-Cas9 screens.&lt;/p&gt;
Comparison of a new inorganic membrane filter (Anopore) with a track-etched polycarbonate membrane filter (Nuclepore) for direct counting of bacteria (1989)

Bacterial counts obtained by using a new Anopore inorganic membrane filter were 21 to 33% higher than those obtained by using a Nuclepore polycarbonate membrane filter. In addition, the inorganic filter had higher flow rates, permitting lower vacuum pressures to be used, while the intrinsically flat, rigid surface resulted in easier focusing and sharp definition of bacteria across the whole field of view.
Soil Amendments for Mitigation of Compacted Soils (2010)

Traffic during construction has been shown to compact soils, resulting in reduced porosity and infiltration rates and increased runoff. In agricultural settings soil amendments have been found to counter-act compaction effects. This study is evaluating two soil amendments (compost and fly ash) to mitigate compacted soils. Results from a column study and the compaction phase of this study are presented. Forty-two lysimeters were filled with two soils (Orangeburg Sandy Loam and Arredondo Fine Sand) overlaying a drainage layer of quartz stone. Runoff was directed into collection tanks and volumes were recorded from eight rainfall events. The soils were compacted to levels representative of observed levels found in North Central Florida based on bulk densities, and infiltration rates. As a predecessor, a column study was performed to identify where the two amendments were incorporated into the two soils with increasing amendment fractions (0, 0.05, 0.10, 0.30, and 1.0). Results were analyzed to determine which analytes to include in runoff and leachate water quantify analysis and potential water quality results for amendments.
Radiobiology (2021)

Targeted radionuclide therapy (RNT) consists of biologically selective irradiation of malignant cells by means of radionuclide labelled tumour-seeking molecules or devices. A variety of radionuclides, emitting nuclear particles with a range of path lengths from nanometres to millimetres, and novel clinical strategies are currently used. Basic aspect of radiobiology adapted for RNT are illustrated. The ‘Rs’ of radiobiology, the Linear Quadratic model and the EQDX Formalism are presented. The proposed dose-effect relationships in terms of Tumour control probability (TCP) and Normal Tissue Control Probability (NTCP) are reported illustrating the radiobiological parameters and their uncertainties. Finally, the basic definition of the abscopal effect is reported
Partial Ankyrin and Spectrin Deficiency in Severe, Atypical Hereditary Spherocytosis (1988)

HEREDITARY spherocytosis is a common form of hemolytic anemia that is heterogeneous in terms of its clinical presentation, molecular basis, and inheritance.1 The primary defect is thought to reside in the red-cell membrane skeleton, a submembranous network composed mainly of spectrin, actin, and proteins that migrate on gel electrophoresis as bands 4.1 and 4.9 (proteins 4.1 and 4.9).2 Visualization of the skeleton by electron microscopy has revealed a primarily hexagonal lattice of fibers of spectrin tetramers linked to junctional complexes containing actin and proteins 4.1 and 4.9.3 4 5 The skeleton is attached to the membrane by ankyrin (protein 2.1), which connects . . .
Pipelines 2005: Optimizing Pipeline Design, Operations, and Maintenance in Today’s Economy (2005)

Proceedings of the ASCE Pipeline Division Specialty Conference, held in Houston, Texas, August 21-24, 2005. Sponsored by the Pipeline Division of ASCE. This collection of 91 papers covers a wide range of topics related to the advancement of water, wastewater, oil, and gas pipelines. Public agencies and private companies are challenged by the task of replacing, rehabilitating, and expanding their pipeline infrastructure to maintain services and supply lines without interruption. Continued advances in pipeline materials, controls, and nondestructive testing support the growth of pipeline networks in these communities. This collection is an effective means of sharing the advances in pipeline design, construction, and maintenance among practitioners, researchers, and designers.
Crystallization and preliminary X-ray diffraction analysis of kanamycin-binding β-lactamase in complex with its ligand (2011)

TEM-1 β-lactamase is a highly efficient enzyme that is involved in bacterial resistance against β-lactam antibiotics such as penicillin. It is also a robust scaffold protein which can be engineered by molecular-evolution techniques to bind a variety of targets. One such β-lactamase variant (BlaKr) has been constructed to bind kanamycin (kan) and other aminoglycoside antibiotics, which are neither substrates nor ligands of native β-lactamases. In addition to recognizing kan, BlaKr activity is up-regulated by its binding via an activation mechanism which is not yet understood at the molecular level. In order to fill this gap, determination of the structure of the BlaKr-kan complex was embarked upon. A crystallization condition for BlaKr-kan was identified using high-throughput screening, and crystal growth was further optimized using streak-seeding and hanging-drop methods. The crystals belonged to the orthorhombic space group P2(1)2(1)2(1), with unit-cell parameters a = 47.01, b = 72.33, c = 74.62 Å, and diffracted to 1.67 Å resolution using synchrotron radiation. The X-ray structure of BlaKr with its ligand kanamycin should provide the molecular-level details necessary for understanding the activation mechanism of the engineered enzyme.
Catching and attaching cells using an array of microholes (2002)

The authors succeeded in moving and catching cells using an arrayed microholes structure combined with an immobilized antibodies layer. One microhole caught one cell. The success rate of catching cells was almost 100%. Cells are moved toward microholes with liquid flow into these microholes. Around the microholes, patterned gold was deposited and antibodies were chemically attached to it. When the cells met the antibodies placed around the microholes on the patterned gold, they attached to them. The cells were first vacuumed by the liquid flowing through the microholes then fixed by the antibody. This is the key technology to improve the efficiency of DNA insertion into cells in gene therapy. The active part of the microsystem is able to inject genes into cells using a microcapillary array injector. The microholes ensure two functions: firstly to attract and isolate cells towards the active part by means of aspiration, and secondly to inject genes into cells. The antibodies ensure the immobilization part.
Mice with Low Metabolic Rates Are Not Susceptible to Weight Gain When Fed a High‐Fat Diet (2005)

We found no support for the hypothesis that mice with low RMRs were more susceptible to weight gain when fed the HFD.
Inhibitory effects of novel synthetic methimazole derivatives on mushroom tyrosinase and melanogenesis (2014)

In this study, we synthesized 4 methimazole (2-mercapto-1-methylimidazole, MMI) derivatives. The kinetics of inhibition on mushroom tyrosinase by methimazole and its derivatives were investigated. The results indicated that tert-butyl 3-methyl-2-sulfanylidene-2,3-dihydro-1H-imidazole-1-carboxylate (compound 3; 3), 2-mercaptoimidazole (MI; compound 1; 1) and MMI (compound 2; 2) significantly inhibited tyrosinase activity in a dose-dependent manner, exhibiting an IC50 value of 1.50mM, 4.11 mM, and 1.43 mM. However, compound 4 (4), compound 5 (5), and compound 6 (6) exerted no inhibitory effect on mushroom tyrosinase activity. Kinetic analysis indicated that 3 was a noncompetitive tyrosinase inhibitor, whereas both 1 and 2 were exhibited as mixed-type tyrosinase inhibitors. Furthermore, 3 exerted a potent inhibitory effect on intracellular melanin formation in the B16/F10 murine melanoma cells and did not cause cytotoxicity, as 1 and 2 did.
Non-Gaussian distribution in random advection dynamics (1993)

A discrete model of random transport is analyzed both numerically and theoretically. Non-Gaussian fluctuations are always realized when a finite portion is transported at a time. Gaussian and power-law fluctuations appear in extreme limits.
Polarization-entangled photon pair sources based on spontaneous four wave mixing assisted by polarization mode dispersion (2017)

Photonic-based qubits and integrated photonic circuits have enabled demonstrations of quantum information processing (QIP) that promises to transform the way in which we compute and communicate. To that end, sources of polarization-entangled photon pair states are an important enabling technology. However, such states are difficult to prepare in an integrated photonic circuit. Scalable semiconductor sources typically rely on nonlinear optical effects where polarization mode dispersion (PMD) degrades entanglement. Here, we directly generate polarization-entangled states in an AlGaAs waveguide, aided by the PMD and without any compensation steps. We perform quantum state tomography and report a raw concurrence as high as 0.91 ± 0.01 observed in a 1,100-nm-wide waveguide. The scheme allows direct Bell state generation with an observed maximum fidelity of 0.90 ± 0.01 from another (800-nm-wide) waveguide. Our demonstration paves the way for sources that allow for the implementation of polarization-encoded protocols in large-scale quantum photonic circuits.
The Influence of Shrouded Stator Cavity Flows on Multistage Compressor Performance (1998)

Experiments were performed on a low-speed multistage axial-flow compressor to assess the effects shrouded stator cavity flows on aerodynamic performance. Five configurations, which involved systematic changes in seal-tooth leakage rates and/or elimination of the shrouded stator cavities, were tested. Rig data indicate increasing seal-tooth leakage substantially degraded compressor performance. For every 1% increase in seal-tooth clearance-to-span ratio the decrease in pressure rise was 3% and the reduction in efficiency was 1 point. These observed performance penalties are comparable to those commonly reported for rotor and cantilevered stator tip clearance variations. The performance degradation observed with increased leakage was brought about in two distinct ways. First, increasing seal-tooth leakage directly spoiled the near hub performance of the stator row in which leakage occurred. Second, the altered stator exit flow conditions, caused by increased leakage, impaired the performance of the next downstream stage by decreasing the work input of the rotor and increasing total pressure loss of the stator. These trends caused the performance of downstream stages to progressively deteriorate. Numerical simulations of the test rig stator flow field were also conducted to help resolve important fluid mechanic details associated with the interaction between the primary and cavity flows. Simulation results show that fluid originating in the upstream cavity collected on the stator suction surface when the cavity tangential momentum was low and on the pressure side when it was high. The convection of cavity fluid to the suction surface was a mechanism which reduced stator performance when leakage increased.
Dual-Function Probe for PET and Near-Infrared Fluorescence Imaging of Tumor Vasculature (2007)

We quantitatively evaluated the tumor-targeting efficacy of a dual-function QD-based probe with PET and NIRF imaging. This dual-function probe has significantly reduced potential toxicity and overcomes the tissue penetration limitation of optical imaging, allowing for quantitative targeted imaging in deep tissue.
Crystal structure of an RNA/DNA strand exchange junction (2022)

Abstract Short segments of RNA displace one strand of a DNA duplex during diverse processes including transcription and CRISPR-mediated immunity and genome editing. These strand exchange events involve the intersection of two geometrically distinct helix types—an RNA:DNA hybrid (A-form) and a DNA:DNA homoduplex (B-form). Although previous evidence suggests that these two helices can stack on each other, it is unknown what local geometric adjustments could enable A-on-B stacking. Here we report the X-ray crystal structure of an RNA-5’/DNA-3’ strand exchange junction at an anisotropic resolution of 1.6 to 2.2 Å. The structure reveals that the A-to-B helical transition involves a combination of helical axis misalignment, helical axis tilting and compression of the DNA strand within the RNA:DNA helix, where nucleotides exhibit a mixture of A- and B-form geometry. These structural principles explain previous observations of conformational stability in RNA/DNA exchange junctions, enabling a nucleic acid architecture that is repeatedly populated during biological strand exchange events.
Changes of duplex parameters and splenic size in liver transplant recipients during a long period of observation (2005)

The arterial and portal velocities show adaptation processes continuing over the course of many years after OLT and are reported for the first time. The vascular complications detected by ultrasound occur mostly up to 100 d after OLT.