gebhart/patrepeval huggingface dataset:
Uniting Data for Memory: Building Informatics against Alzheimer's (2011)

In the absence of revolutionary therapeutics, the number of people afflicted with Alzheimer's disease is expected to grow dramatically from an estimated 26 million today to more than 100 million world-wide in the next 40 years. This huge unmet need has spurred a large investment from the medical community, including both naturalistic, public studies and clinical trials within industry. Since it is widely accepted that the underlying disease pathology can start more than 10 years before a patient's clinical determination of Alzheimer's, these trials can include a large variety of biomarkers, including genetic, proteomic, and imaging outputs, in additional to a spectrum of clinical and functional scales. Leveraging the potential of all these studies requires a significant informatics effort to ingest, curate, store, and manipulate the data, such that they can be used effectively for data mining. One aspect of our own efforts in this area has centered on loading to a common database schema, from which tool sets and analyses routines can be standardized. This has allowed us to greatly accelerate hypothesis generation, making the selection of potential covariates a data driven, rather than theoretical, exercise. A second part of the effort has focused on the mapping of terms found in individual studies to public ontologies, which provides a framework for translating results across trials.
A Lightweight Device for Energy Harvesting from Power Lines with a Fixed-Wing UAV (2022)

Modern UAVs (Unmanned Aerial Vehicles) suffer from restrictions in flight range and time due to battery capacity limitations. One way to overcome these limitations is to harvest energy from overhead power lines. A growing body of scientific literature has documented the development of energy harvesters on multirotor UAVs. However, to date, there have been no implementations on a fixed-wing UAV. In this paper we build upon a previously developed passive perching mechanism for fixed-wing UAVs by incorporating into it a split-core transformer for energy harvesting. We validate the perching mechanism as well as battery recharging in a realistic outdoor environment. We find that a minimum speed of 1.25m/s is required to successfully perch on the power line. This is below the stall speed of the UAV used in this project. Furthermore, experiments verified that no damage was done to the power line during perching, as the induced forces were equivalent to 1m/s wind gusts. Characterization of the energy harvesting shows that with a maximum of 3.3W of power from the harvester, we can fully charge a 2200mAh battery in 2.2 hours. Weighing only 420g, our device is the lightest energy harvester developed to date.
Optimum concentration of dissolved oxygen for the survival of virulent Treponema pallidum under conditions of low oxidation-reduction potential. (1979)

A maintenance medium with a low oxidation-reduction (redox) potential, when gently bubbled with 5% oxygen in nitrogen or with air for various periods of time, gave a range of dissolved oxygen concentrations between 1.6 and 5.8 micrograms/l. Virulent Treponema pallidum (Nichols strain) inoculated into these media were assayed 24 and 48 hours later for motility and virulence and were compared with samples taken at zero time. Virulent T. pallidum survived best in the presence of 2.4 micrograms/l dissolved oxygen over a 48-hour period, which corresponded to a gaseous mixture of 3% oxygen in nitrogen. Higher concentrations of oxygen did not give significantly different results from anaerobic conditions over this period. Thus, until it can be grown in vitro, T. pallidum would appear to be a microaerophilic bacterium.
Microfluidic PCR Combined with Pyrosequencing for Identification of Allelic Variants with Phenotypic Associations among Targeted Salmonella Genes (2012)

A novel targeted massive parallel sequencing approach identified genetic variation in eight known or predicted fimbrial adhesins for 46 Salmonella strains. The results highlight associations between specific adhesin alleles, host species, and antimicrobial resistance. The differentiation of allelic variants has potential applications for diagnostic microbiology and epidemiological investigations.
Leukotriene B4 limits the effectiveness of fish oil in an animal model of asthma (2021)

This study aimed to evaluate the levels of eicosanoids derived from arachidonic acid (ARA) in the lungs of asthmatic rats supplemented with fish oil. The present data gives insight into the action of fish oil in asthma, related to its inability to modify the contractile capacity of tracheal smooth muscle reported previously in a model of asthma in rats. Male Wistar rats were supplemented daily with 1 g of fish oil/kg of body weight for 21 days. They were exposed to ovalbumin (OVA) after previous sensitization with OVA to induce asthma. Pulmonary levels of five eicosanoids were measured using immunoassay kits: PGE<sub>2</sub>, TXB<sub>2</sub>, LTB<sub>4</sub>, LXA<sub>4</sub>, and 8-iso PGF<sub>2α</sub>. In asthmatic rats, supplementation with fish oil resulted in lower concentrations of lung eicosanoids produced by cyclooxygenase-2 and 15-lipoxygenase: PGE<sub>2</sub>, TXB<sub>2</sub>, and LXA<sub>4</sub>, respectively. Fish oil supplementation also decreased the non-enzymatically produced eicosanoid 8-iso PGF<sub>2α</sub>. Fish oil supplementation did not affect LTB<sub>4</sub>, a metabolite of 5-lipoxygenase. The limited efficacy of fish oil supplementation in asthmatic rats is associated with a lack of action in reducing the levels of LTB<sub>4</sub> in the lungs. Thus, fish oil differentially modulates the concentrations of eicosanoids derived from ARA via specific pathways in an animal model of asthma.
Star‐Shaped Polyacrylates: Highly Functionalized Architectures via CuAAC Click Conjugation (2009)

Well-defined functional star-shaped polymer structures with up to 29 arms have been successfully synthesized by the combination of atom transfer radical polymerization (ATRP) and click chemistry. First, azide end-functionalized poly(isobornyl acrylate) (PiBA) star-shaped polymers were prepared by successive ATRP and bromine substitution. Subsequently, alkyne end-functionalized molecules and polymers were introduced onto the star-shaped PiBA bearing pendant azide moieties by copper-catalyzed azide-alkyne cycloaddition (CuAAC). The possibilities and limits for the CuAAC on such highly branched polyacrylates are described.
Simultaneous analysis of antigen-specific B and T cells after SARS-CoV-2 infection and vaccination (2021)

Abstract Conventional methods for quantifying and phenotyping antigen-specific lymphocytes can rapidly deplete irreplaceable specimens. This is due to the fact that antigen-specific T and B cells have historically been analyzed in independent assays each requiring millions of cells. A technique that facilitates the simultaneous detection of antigen-specific T and B cells would allow for more thorough immune profiling with significantly reduced sample requirements. To this end, we developed the B And T cell Tandem Lymphocyte Evaluation (BATTLE) assay, which allows for the simultaneous identification of SARS-CoV-2 Spike reactive T and B cells using an optimized Activation Induced Marker (AIM) T cell assay and dual-color B cell antigen probes. Using this assay, we demonstrate that antigen-specific B and T cell subsets can be identified simultaneously using conventional flow cytometry platforms and provide insight into the differential effects of mRNA vaccination on B and T cell populations following natural SARS-CoV-2 infection.
Supplementary Figure 4 from Cotargeting Stress-Activated Hsp27 and Autophagy as a Combinatorial Strategy to Amplify Endoplasmic Reticular Stress in Prostate Cancer (2023)

&lt;p&gt;PDF file - 93K, Inhibition of OGX-427-induced autophagy using chloroquine enhances cell apoptosis in LNCaP cells&lt;/p&gt;
A Suggestion of New MPPT Algorithm in the PV system (2005)

As the maximum power operating point(MPOP) of the Photovoltaic(PV) power systems alters with changing atmospheric conditions, the efficiency of maximum power point tracking(MPPT) is important in PV power systems. Many MPPT techniques have been considered in the past, but techniques using microprocessors with appropriate MPPT algorithms are favored because of their flexibility and compatibility with different PV arrays. In this paper, the author analyzes and studies two MPPT algorithms, which is named PO 1) Comparing three MPPT algorithms in the steady-state condition, 2) Representing irradiation variation rapidly, 3) Showing MPPT efficiency. MPPT simulation and experiment perform in the boost converter.
VIP plasma levels associate with survival in severe COVID-19 patients, correlating with protective effects in SARS-CoV-2-infected cells (2022)

Infection by SARS-CoV-2 may elicit uncontrolled and damaging inflammatory responses. Thus, it is critical to identify compounds able to inhibit virus replication and thwart the inflammatory reaction. Here, we show that the plasma levels of the immunoregulatory neuropeptide VIP are elevated in patients with severe COVID-19, correlating with reduced inflammatory mediators and with survival on those patients. In vitro, vasoactive intestinal peptide (VIP) and pituitary adenylate cyclase-activating polypeptide (PACAP), highly similar neuropeptides, decreased the SARS-CoV-2 RNA content in human monocytes and viral production in lung epithelial cells, also reducing cell death. Both neuropeptides inhibited the production of proinflammatory mediators in lung epithelial cells and in monocytes. VIP and PACAP prevented in monocytes the SARS-CoV-2-induced activation of NF-kB and SREBP1 and SREBP2, transcriptions factors involved in proinflammatory reactions and lipid metabolism, respectively. They also promoted CREB activation, a transcription factor with antiapoptotic activity and negative regulator of NF-kB. Specific inhibition of NF-kB and SREBP1/2 reproduced the anti-inflammatory, antiviral, and cell death protection effects of VIP and PACAP. Our results support further clinical investigations of these neuropeptides against COVID-19.
The mechanism analysis of anti-Seismic performance of concrete-filled steel tube inclined column shear ring-RC ring beam joints (2011)

As existing theoretical and experimental study of the joints are not perfect, especially the Seismic performance, it is difficult to make a comprehensive evaluation of the performance of the joints. Besides the formula and structure which are recommended lack of credibility, a number of joints which are not tested by engineering test have been used in the construction. So the buildings' security risk has been increased. In this paper, the insufficient performance of concrete-filled steel tube inclined column shear ring-RC ring beam joints has been paid more attention. The finite element software has been used to make finite element numerical simulation to simulate inclined column shear ring-RC ring beam joints, make analysis of the joints under low cyclic loading and get stress distribution of steel, shear rings and steel. The anti-seismic performances of right cylinder and inclined column which are made up of concrete-filled steel tube have been compared, and the hysteretic curves and skeleton curve of the load of end-column also have been drawn and compared. Through comparing the analysis results and experimental results, some useful and important conclusions have been got.
White Light Interferometry for Highly Sensitive Strain and Temperature Measurements (1996)

The spectral shift of resonance bands in small cavity length, high-finesse extrinsic fiber Fabry- Perot interferometers is employed to implement strain and temperature sensors with resolutions 0.015 με and 0.001 °C, respectively.
Estimation of Human Circadian Phase via a Multi-Channel Ambulatory Monitoring System and a Multiple Regression Model (2011)

Reliable detection of circadian phase in humans using noninvasive ambulatory measurements in real-life conditions is challenging and still an unsolved problem. The masking effects of everyday behavior and environmental input such as physical activity and light on the measured variables need to be considered critically. Here, we aimed at developing techniques for estimating circadian phase with the lowest subject burden possible, that is, without the need of constant routine (CR) laboratory conditions or without measuring the standard circadian markers, (rectal) core body temperature (CBT), and melatonin levels. In this validation study, subjects (N = 16) wore multi-channel ambulatory monitoring devices and went about their daily routine for 1 week. The devices measured a large number of physiological, behavioral, and environmental variables, including CBT, skin temperatures, cardiovascular and respiratory function, movement/posture, ambient temperature, and the spectral composition and intensity of light received at eye level. Sleep diaries were logged electronically. After the ambulatory phase, subjects underwent a 32-h CR procedure in the laboratory for measuring unmasked circadian phase based on the "midpoint" of the salivary melatonin profile. To overcome the complex masking effects of confounding variables during ambulatory measurements, multiple regression techniques were applied in combination with the cross-validation approach to subject-independent prediction of circadian phase. The most accurate estimate of circadian phase was achieved using skin temperatures, irradiance for ambient light in the blue spectral band, and motion acceleration as predictors with lags of up to 24 h. Multiple regression showed statistically significant improvement of variance of prediction error over the traditional approaches to determining circadian phase based on single predictors (motion acceleration or sleep log), although CBT was intentionally not included as the predictor. Compared to CBT alone, our method resulted in a 40% smaller range of prediction errors and a nonsignificant reduction of error variance. The proposed noninvasive measurement method could find applications in sleep medicine or in other domains where knowing the exact endogenous circadian phase is important (e.g., for the timing of light therapy).
High-Conductivity Solid Electrolytes: MAg 4 I 5 (1967)

The solid electrolytes MAg(4)I(5), where M may be potassium, rubidium, or ammonium, have an ionic conductivity of 0.2 (ohm cm)(-1) at 20 degrees C. Although pure CsAg(4)I(5) does not form, partial substitution of cesium into the M position was obtained. The high-conducting phases of KAg(4)I(5) and RbAg(4)I(5) may be quenched to low temperatures, where they transform to resistive phases at -136 degrees and -155 degrees C, respectively.
p16 Positive Oropharyngeal Squamous Cell Carcinoma:An Entity With a Favorable Prognosis Regardless of Tumor HPV Status (2010)

Outcomes for p16 positive, HPV negative oropharyngeal SCC are not significantly different from p16 positive, HPV positive tumors and are significantly better than for p16 negative tumors. These results suggest that p16 immunohistochemistry alone is the best test to use for risk stratification in oropharyngeal SCC.
Research on Calculation of Radial Acceleration of Maneuvering Target within One Pulse Echo (2006)

For fixed carrier frequency transmitting pulse, the acceleration of maneuvering target will cause change of square phase of echo signal. In this paper, the shot time fractional Fourier transformation (FRFT) is used to analyze one radar pulse signal. And then the relation between peak of transformation domain and pulse width is deduced quantificationally. In succession, the relation between single-noise ratio and the shortest pulse width necessary to get acceleration is discussed. Lastly, simulations have been made to verify the theoretical results
Reaktionen mit phosphororganischen Verbindungen. XLII. Nucleophile Substitutionen an Hydroxysteroiden mit Hilfe von Triphenylphosphan/Azodicarbonsäureester (1977)

Nucleophilic Substitution Reactions of Hydroxysteroids using Triphenylphosphane/diethylazodicarboxylate Nucleophilic substitution reactions by means of the title reagent on various more or less hindered steroid alcohols with suitable nucleophils in benzene is described. It was not possible to run this substitution process in the hitherto used solvent THF. Cholestan‐3α‐ol ( 1 ) was transformed to the 3β‐substituted products 3β‐benzoyloxy‐cholestane ( 1a ) and 3β‐azido‐cholestane ( 1b ). Testosterone ( 2 ) affords with the corresponding nucleophils after short heating in benzene the inverted 17α‐substituted products 3a, 3b and 3c . Analogously the 17α‐azido‐derivative 5a arises from 17β‐hydroxy‐androst‐3‐on ( 4 ). In the presence of a ketogroup in the substrate a competitive reaction can occur as it is shown in the case of cholestan‐3‐on ( 6 ): the products are the en‐hydrazo‐dicarboxylate‐steroids 7a and 7b . The sterically very hindered 11α‐position in 11α‐hydroxy‐4‐pregnen‐3,20‐dion ( 8 ) can be transformed also to the 11β‐azide 9a . The substitution of a 6 β‐hydroxy group in androstane‐3β, 6β, 17β‐triol‐3,17‐diacetate ( 10 ) to the 6α‐azide 11a affords the elimination product 12 as main component. Trans ‐diaxial vicinal diols such as cholestane‐2β,3α‐diol ( 13 ) give a mixture of the α‐ and β‐oxiranes 14a and 14b .
IPython: A System for Interactive Scientific Computing (2007)

Python offers basic facilities for interactive work and a comprehensive library on top of which more sophisticated systems can be built. The IPython project provides on enhanced interactive environment that includes, among other features, support for data visualization and facilities for distributed and parallel computation
ChemInform Abstract: TOTAL SYNTHESIS OF 12‐METHYLPROSTAGLANDIN A2 (1975)

Abstract Die aus Norbornadien (I) durch Umsetzung mit Paraformaldehyd in Ameisensäure und anschließende Jones‐Oxidation zugängliche Cyclopropylketocarbonsäure (II) wird auf dem im Formelschema angegebenen Weg in die gesuchte Verbindung (XI) umgewandelt.
Linkage between a Xanthomonas campestris pv. phaseoli resistance SCAR marker and flower and seed color in common bean (2007)

Comunicación presentada en 2007 Joint Meeting of The American Phytopathological Society &amp; Society of Nematologists "Strength&#13;\nthrough diversity". Celebrado en San Diego, California (USA) entre los días 28 de julio y 1 de agosto de 2007.
Dynamic performances of GaN-HEMT on Si in cascode configuration (2014)

This paper describes dynamic characteristics and power loss analysis of a high-voltage GaN-HEMT in cascode. The GaN-HEMT is "normally-on" and fabricated on 6-inch Si substrate using our Si mass-production line. A figure of merit (a product of RDSon (m Ω) and Qg (nC)) of the GaN-HEMT in cascode is as low as 1400. Simple switching characteristics with resistive load and power efficiency measurements with a power factor correction (PFC) circuit driven from 100 kHz to 1MHz were performed for the evaluation. The switching times (tr/tf) are about 4 times faster than those of conventional Si-MOSFET. An analytical method of power losses including temperature dependence of component parameters is also demonstrated. Analyzed results indicate a dominant factor of power losses at high frequency and high output power operation is turn-off switching loss, and the switching loss of our GaN-HEMT in cascode configuration is lower than that of Si-MOSFET.
Electro-optic metasurfaces (2022)

We numerically study metasurfaces that incorporate electro-optic materials and show that they can achieve large amplitude and phase modulations across a distance that is a fraction of the operation wavelength. We show that the metasurfaces made of dielectric discs placed on a film of lithium niobate can exhibit three main types of resonances, associated with the Fabry-Perot modes in the structure, guided modes of the film and Mie modes of the disks. We compare metasurface performance in these different regimes for achieving largest electro-optic modulation and find that in the proposed geometry the strongest amplitude modulation can be achieved through excitation and re-emission of the guided modes in the substrate. We further show that to achieve larger 70 degrees phase modulation while maintaining high transmission, we need to utilise more complex metasurfaces that have at least two resonators per unit cell.
Are We Ready for Unmanned Surface Vehicles in Inland Waterways? The USVInland Multisensor Dataset and Benchmark (2021)

Unmanned surface vehicles (USVs) have great value with their ability to execute hazardous and time-consuming missions over water surfaces. Recently, USVs for inland waterways have attracted increasing attention for their potential application in autonomous monitoring, transportation, and cleaning. However, unlike sailing in open water, the challenges posed by scenes of inland waterways, such as the complex distribution of obstacles, the global positioning system (GPS) signal denial environment, the reflection of bank-side structures, and the fog over the water surface, all impede USV application in inland waterways. To address these problems and stimulate relevant research, we introduce USVInland, a multisensor dataset for USVs in inland waterways. The collection of USVInland spans a trajectory of more than 26 km in diverse real-world scenes of inland waterways using various modalities, including lidar, stereo cameras, millimeter-wave radar, GPS, and inertial measurement units (IMUs). Based on the requirements and challenges in the perception and navigation of USVs for inland waterways, we build benchmarks for simultaneous localization and mapping (SLAM), stereo matching, and water segmentation. We evaluate common algorithms for the above tasks to determine the influence of unique inland waterway scenes on algorithm performance. Our dataset and the development tools are available online at https://www.orca-tech.cn/datasets.html.
Mapping of transcription factor motifs in active chromatin identifies IRF5 as key regulator in classical Hodgkin lymphoma (2014)

Deregulated transcription factor (TF) activities are commonly observed in hematopoietic malignancies. Understanding tumorigenesis therefore requires determining the function and hierarchical role of individual TFs. To identify TFs central to lymphomagenesis, we identified lymphoma type-specific accessible chromatin by global mapping of DNaseI hypersensitive sites and analyzed enriched TF-binding motifs in these regions. Applying this unbiased approach to classical Hodgkin lymphoma (HL), a common B-cell-derived lymphoma with a complex pattern of deregulated TFs, we discovered interferon regulatory factor (IRF) sites among the top enriched motifs. High-level expression of the proinflammatory TF IRF5 was specific to HL cells and crucial for their survival. Furthermore, IRF5 initiated a regulatory cascade in human non-Hodgkin B-cell lines and primary murine B cells by inducing the TF AP-1 and cooperating with NF-κB to activate essential characteristic features of HL. Our strategy efficiently identified a lymphoma type-specific key regulator and uncovered a tumor promoting role of IRF5.
Deep Manifold-to-Manifold Transforming Network (2018)

In this paper, we propose an end-to-end deep manifold-to-manifold transforming network (DMT-Net), which makes SPD matrices flow from one Riemannian manifold to another more discriminative one. For discriminative feature learning, two specific layers on manifolds are developed: (i) the local SPD convolutional layer, (ii) the non-linear SPD activation layer, where positive definiteness is satisfied for both two layers. Further, to relieve computational burden of kernels on relative large-scale data, we design a batch-kernelized layer to favor batchwise kernel optimization of deep networks. Specifically, one reference set dynamically changing with the network training is introduced to break the limitation of memory size. We evaluate our proposed method on action recognition datasets, where input signals are popularly modeled as SPD matrices. The experimental results demonstrate that our DMT-Net is more competitive than state-of-the-art methods.