gebhart/patrepeval huggingface dataset:
Maturation Pathways of Dendritic Cells Determine TAP1 and TAP2 Levels and Cross-presenting Function (2009)

Ability to cross-present exogenous antigens in the human leukocyte antigen class I pathway is key to the antigen presenting function of mature tumor cell-loaded dendritic cells (DC). Conditions of DC maturation have been shown to be important for DCs ability to produce proinflammatory cytokines and induce T cell effector functions. However, it remains unknown if the different pathways of maturation are associated with modulation of the ability of mature DCs to cross-present tumor antigens (TA). Here, we compare DC matured with 3 clinically relevant cytokine combinations including interleukin (IL)-1 beta, tumor necrosis factor-alpha, IL-6 (termed DC-0), DC-0 cells incubated with prostaglandin-2 (termed DC-0+prostaglandin-2), or DC treated with interferon-gamma, interferon-alpha, tumor necrosis factor-alpha, Poly I:C, and IL1-beta (termed DC-1). We found that these DC vary in their ability to cross-present TA to cytotoxic T lymphocytes (CTL), with the DC-1 cytokine combination being significantly more effective than the other 2. TA cross presentation and CTL priming were strongly correlated with level of expression of the antigen processing machinery components, TAP1 and TAP2, indicating that these components could be used as biomarkers to standardize DC preparations for optimal function. However, the up-regulation of TAP1/TAP2 was not sufficient to explain the enhanced cross-presentation ability of DC-1 cells, as the use of IFN-gamma alone to up-regulate TAP1/TAP2 did not generate DC as effective at cross-presentation as the full DC-1 maturation cytokine combination. These data indicate for the first time that the pathways of DC maturation modulate antigen processing machinery component expression to different extents and that differently matured DC vary in the ability to cross-present TA to human leukocyte antigen class I-restricted CTL.
Examination of Solvent- Room Temperature Ionic Liquid Interactions using 2D NMR and Computational Chemistry (2020)

Rare earth metals (REMs) are the key functioning material found in microelectronics, advanced batteries, and high-efficiency electrical motors. Current methods for producing REMs require high temperatures (i.e. energy intensive) and produce an abundance of hazardous fluoride waste. Room temperature ionic liquids (RTILs) are an ideal alternative electrolyte because they allow for a low-temperature, energy-efficient electrochemical process. RTIL properties such as viscosity and conductivity determine how effective they can be in this process. Since viscosity is directly related to both intra and intermolecular forces, this study sets out to investigate two RTILs-Trihexyltetradecylphosphonium dicyanamide (Cyphos 105) and Trihexyltetradecylphosphonium bistrifimide (Cyphos 109) and their interactions. Results from 2-dimensional nuclear magnetic resonance (2D NMR) spectroscopy show that there is an interaction between the tetradecyl tail and the phosphorus atom of the Cyphos RTIL. In order to establish whether this is an intra or an inter-molecular interaction, DFT-based computational calculations were performed to determine the optimized geometry. Calculations were done both in the gas phase and with propylene carbonate as an augmenting solvent. Preliminary results show that there is minimal intramolecular interaction between the tetradecyl tail and the phosphorus atom of the RTILs, and that the interaction seen in the 2D NMR experiment is likely of an intermolecular nature instead.
Question-Mark Appearance of the Colon (2019)

A full-term infant had bilious emesis and failure to pass meconium in the first 24 hours of life. Findings on water-soluble contrast enema were consistent with total colonic aganglionosis.
Spatial frequency domain imaging using a snap-shot filter mosaic camera with multi-wavelength sensitive pixels (2018)

Spatial frequency domain imaging (SFDI) utilizes a digital light processing (DLP) projector for illuminating turbid media with sinusoidal patterns. The tissue absorption (&mu;<sub>a</sub>) and reduced scattering coefficient (&mu;<sup>,</sup><sub>s</sub>) are calculated by analyzing the modulation transfer function for at least two spatial frequencies. We evaluated different illumination strategies with a red, green and blue light emitting diodes (LED) in the DLP, while imaging with a filter mosaic camera, XiSpec, with 16 different multi-wavelength sensitive pixels in the 470-630 nm wavelength range. Data were compared to SFDI by a multispectral camera setup (MSI) consisting of four cameras with bandpass filters centered at 475, 560, 580 and 650 nm. A pointwise system for comprehensive microcirculation analysis was used (EPOS) for comparison. A 5-min arterial occlusion and release protocol on the forearm of a Caucasian male with fair skin was analyzed by fitting the absorption spectra of the chromophores HbO<sub>2</sub>, Hb and melanin to the estimated&mu;<sub>a</sub>. The tissue fractions of red blood cells (<i>f</i>RBC), melanin (/mel) and the Hb oxygenation (<sup>S</sup>0<sub>2</sub> ) were calculated at baseline, end of occlusion, early after release and late after release. EPOS results showed a decrease in <sup>S</sup>0<sub>2</sub> during the occlusion and hyperemia during release (<sup>S</sup>0<sub>2</sub> = 40%, 5%, 80% and 51%). The <i>f</i>RBC showed an increase during occlusion and release phases. The best MSI resemblance to the EPOS was for green LED illumination (<sup>S</sup>0<sub>2</sub> = 53%, 9%, 82%, 65%). Several illumination and analysis strategies using the XiSpec gave un-physiological results (e.g. negative <sup>S</sup>0<sub>2</sub> ). XiSpec with green LED illumination gave the expected change in /RBC , while the dynamics in <sup>S</sup>0<sub>2</sub> were less than those for EPOS. These results may be explained by the calculation of modulation using an illumination and detector setup with a broad spectral transmission bandwidth, with considerable variation in &mu;<sub>a</sub> of included chromophores. Approaches for either reducing the effective bandwidth of the XiSpec filters or by including their characteristic in a light transport model for SFDI modulation, are proposed.
Hybrid Dynamical Systems (2012)

Hybrid dynamical systems exhibit continuous and instantaneous changes, having features of continuous-time and discrete-time dynamical systems. Filled with a wealth of examples to illustrate concepts, this book presents a complete theory of robust asymptotic stability for hybrid dynamical systems that is applicable to the design of hybrid control algorithms—algorithms that feature logic, timers, or combinations of digital and analog components. With the tools of modern mathematical analysis, this book unifies and generalizes earlier developments in continuous-time and discrete-time nonlinear systems. It presents hybrid system versions of the necessary and sufficient Lyapunov conditions for asymptotic stability, invariance principles, and approximation techniques, and examines the robustness of asymptotic stability, motivated by the goal of designing robust hybrid control algorithms. This self-contained and classroom-tested book requires standard background in mathematical analysis and differential equations or nonlinear systems. It will interest graduate students in engineering as well as students and researchers in control, computer science, and mathematics.
POSTER: BACM: Barrier-Aware Cache Management for Irregular Memory-Intensive GPGPU Workloads (2017)

General-purpose workloads running on modern graphics processing units (GPGPUs) rely on hardware-based barriers to synchronize warps within a thread block (TB). However, imbalance may exist before reaching a barrier if a GPGPU workload contains irregular memory accesses, i.e., some warps may be critical while others may not. Ideally, cache space should be reserved for the critical warps. Unfortunately, current cache management policies are unaware of the existence of barriers and critical warps, which significantly limits the performance of irregular memory-intensive GPGPU workloads.In this work, we propose Barrier-Aware Cache Management (BACM), which is built on top of two underlying policies: a greedy policy and a friendly policy. The greedy policy does not allow non-critical warps to allocate cache lines in the L1 data cache; only critical warps can. The friendly policy allows non-critical warps to allocate cache lines but only over invalid or lower-priority cache lines. Based on the L1 data cache hit rate of non-critical warps, BACM dynamically chooses between the greedy and friendly policies. By doing so, BACM reserves more cache space to accelerate critical warps, thereby improving overall performance. Experimental results show that BACM achieves an average performance improvement of 24% and 20% compared to the GTO and BAWS policies, respectively. BACM's hardware cost is limited to 96 bytes per streaming multiprocessor.
Lanthanoid complexes supported by retro-Claisen condensation products of β-triketonates (2018)

β-Triketonates have been recently used as chelating ligands for lanthanoid ions, presenting unique structures varying from polynuclear assemblies to polymers. In an effort to overcome low solubility of the complexes of tribenzoylmethane, four β-triketones with higher lipophilicity were synthesised. Complexation reactions were performed for each of these molecules using different alkaline bases in alcoholic media. X-ray diffraction studies suggested that the ligands were undergoing decomposition under the reaction conditions. This is proposed to be caused by in situ retro-Claisen condensation reactions, consistent with two examples that have been reported previously. The lability of the lanthanoid cations in the presence of a varying set of potential ligands gave rise to structures where one, two, or three of the molecules involved in the retro-Claisen condensation reaction were linked to the lanthanoid centres. These results, along with measurements of ligand decomposition in the presence of base alone, suggest the solvent used will modulate the impact of the retro-Claisen condensation in these complexes.
Theoretical and practical considerations on detection performance of time domain, Fourier domain, and swept source optical coherence tomography (2007)

Optical coherence tomography (OCT) based on spectral interferometry has recently been examined, with authors often suggesting superior performance compared with time domain approaches. The technologies have similar resolutions and the spectral techniques may currently claim faster acquisition rates. Contrary to many current opinions, their detection parameters may be inferior. The dynamic range and signal-to-noise ratio (SNR) correlate with image penetration, the contrast as a function of depth. This work examines the theoretical sensitivity, dynamic range, and SNR of the techniques, within the practical limits of optoelectronics, taking into account often ignored or misunderstood classical factors that affect performance, such as low frequency noise, analog to digital (AD) conversion losses, and methods for potentially improving sensitivity, including fast laser sweeping. The technologies are compared relative to these parameters. While Fourier domain OCT has some advantages such as signal integration, it appears unlikely that its disadvantages can ultimately be overcome for nontransparent tissue. Ultimately, time-domain (TD)-OCT appears to have the superior performance with respect to SNR and dynamic range. This may not be the case for transparent tissue of the eye. Certain positive aspects of swept source OCT leave the possibility open that its performance may approach that of (TD)-OCT in nontransparent tissue.
Dissemination and presentation of high resolution air pollution data from mobile sensor nodes (2010)

This paper presents the framework of a mobile air quality monitoring network, with an in-depth discussion of several new innovative techniques for web-based visualization. These techniques allow typical web users to access high-resolution pollution data gathered from a large number of vehicle-mounted mobile sensing devices coupled with highly-accurate static sensor data in an easy-to-use, intuitive interface. Additionally, this interface offers users a set of novel applications to promote health and pollution awareness, including a green trip planner, whereby users can plot routes between two locations based on a path of least exposure to specified pollutants, and an exposure estimator, which allows users to calculate previous levels of exposure to harmful pollutants based only on a single timed GPS track.
LOP09 (2014)

Sandberg, L. J.1; Clemens, M. W.2; Koshy, J. C.3; Symmans, W. F.4; Caudle, A. S.5; Wei, C.6; Kuerer, H. M.5; Valero, V.7; Buchholz, T. A.8; Kronowitz, S. J.2 Author Information
Format for Interchange and Display of 3D Terrain Data (2004)

Visible Scalable Terrain (ViSTa) is a software format for production, interchange, and display of three-dimensional (3D) terrain data acquired by stereoscopic cameras of robotic vision systems. ViSTa is designed to support scalability of data, accuracy of displayed terrain images, and optimal utilization of computational resources. In a ViSTa file, an area of terrain is represented, at one or more levels of detail, by coordinates of isolated points and/or vertices of triangles derived from a texture map that, in turn, is derived from original terrain images. Unlike prior terrain-image software formats, ViSTa includes provisions to ensure accuracy of texture coordinates. Whereas many such formats are based on 2.5-dimensional terrain models and impose additional regularity constraints on data, ViSTa is based on a 3D model without regularity constraints. Whereas many prior formats require external data for specifying image-data coordinate systems, ViSTa provides for the inclusion of coordinate-system data within data files. ViSTa admits highspeed loading and display within a Java program. ViSTa is designed to minimize file sizes and maximize compressibility and to support straightforward reduction of resolution to reduce file size for Internet-based distribution.
Supplementary Excel File 7 from Functional Synergies yet Distinct Modulators Affected by Genetic Alterations in Common Human Cancers (2023)

Supplementary Excel File 7 from Functional Synergies yet Distinct Modulators Affected by Genetic Alterations in Common Human Cancers
A 60 GHz Antenna-Referenced Frequency-Locked Loop in 0.13 $\mu$m CMOS for Wireless Sensor Networks (2011)

This paper presents a 60 GHz frequency-locked loop (FLL) for wireless sensor network applications. The FLL incorporates an on-chip patch antenna as both a radiator and a frequency reference, realizing a compact and low-cost solution for non-coherent energy detection radios. To further reduce the size of a wireless sensor node, the area beneath the patch antenna ground plane is utilized for analog and digital baseband circuitry integration. A sensor array was implemented beneath the antenna ground plane to measure the spatial coupling from the antenna to the circuitry beneath it. The FLL is fabricated in a 0.13 μm CMOS technology. The operating frequency is locked to the maximum-efficiency point of the antenna with a mean of 59.34 GHz and standard deviation of 195 MHz over process variation. The circuit and antenna occupies 2.85 mm and consumes 29.6 mW.
A frequency stabilized semiconductor laser microsource based on MOEMS technology (2004)

A MOEMS solution is presented for the fabrication of an innovating laser microsource based on a surface-emitting DBR laser diode associated with a tunable micromirror. Theoretical study, fabrication process and characterization are described. It is shown that the MOEMS device leads to a clear stabilizing effect of the laser diode single mode properties.
Vascular senescence and ageing: a role for the MEOX proteins in promoting endothelial dysfunction (2017)

In the vascular system, ageing is accompanied by the accrual of senescent cells and is associated with an increased risk of vascular disease. Endothelial cell (EC) dysfunction is a hallmark of vascular disease and is characterized by decreased angiogenic potential, reduced nitric oxide bioavailability, impaired vasodilation, increased production of ROS, and enhanced inflammation. In ECs, the major producer of nitric oxide is the endothelial nitric oxide synthase (eNOS) enzyme that is encoded by the NOS3 gene. NOS3/eNOS function is tightly regulated at both the transcriptional and post-transcriptional levels to maintain normal vascular function. A key transcriptional regulator of eNOS expression is p53, which has been shown to play a central role in mediating cellular senescence and thereby vascular dysfunction. Herein, we show that, in ECs, the MEOX homeodomain transcription factors decrease the expression of genes involved in angiogenesis, repress eNOS expression at the mRNA and protein levels, and increase the expression of p53. These findings support a role for the MEOX proteins in promoting endothelial dysfunction.
Scalable Optical Phased Array with Sparse 2D Aperture (2018)

A scalable OPA with sparse 2D aperture is presented, achieving the highest reported grating-lobe-free FOV-to-beamwidth ratio (16°/0.8°). A PWM generator chip is designed to drive compact phase shifters with row-column layout to reduce power consumption.
A Study on Processing Parameters Affecting Solid Polymer Electrolytes Performances (2020)

In the modern world, the rapid advancement of new technologies is accompanied by an increasing energetic demand. Following today`s trend, energy consumption will undoubtedly increase in the following years. Over the last 50 years, lithium-metal batteries have been considered as potential candidates for long-term high-performance electrochemical storage. (1) Although their operation is effective, they still present limitations mainly due to lithium dendrite growth associated with electrodeposited Li + from the electrolyte on the anode material. This phenomenon causes internal short-circuits resulting in premature battery failure. (2) Various solid-state battery systems are being developed in hope to resolve the said issue. Amongst others, solid polymer electrolytes (SPE) have been investigated since Armand`s work in the 80`. (3) Even though these systems have non-flammable properties and successfully suppress dendrite growth, most SPEs do not reach ionic conductivities values higher than 10 -3 S/cm at room temperature and offer lower energy densities and cycle number compared to the standard liquid electrolyte counterpart. (4) As a result of that, an increasing number of published literature shows off new engaging SPE systems. However, oftentimes, the presented performances are hardly reproducible due to the lack of precise and detailed experimental conditions. It is believed that some overlooked factors during processing may affect the aforementioned performances. (5-7) Certain parameters that affect ionic conductivities of SPEs have been investigated by techniques including but not limited to electrochemical impedance spectroscopy (EIS) and solid-state 7 Li-NMR. It will be demonstrated that these parameters must be precisely controlled to ensure the reproducibility and the validity of measurements. Finally, it will be shown that this study can be applied to several types of polymers. 1: Hall P. J., Bain E. J., Energy Policy, 36 , 4352 (2008). 2: Lisbona D., Snee T., Process. Saf . Environ. , 89 , 434 (2011) . 3: Armand M. B., Ann. Rev. Mater. Sci . 16 , 245 (1986). 4: Penghui Y., Haobin Y., Zhiyu D., Yanchen L., Juan L., Marino L., Junwei W., Xingjun L., Front. Chem. , 7 , 522 (2019). 5: Fullerton-Shirey S. K., Maranas J.K, Macromolecules , 42 , 2142 (2009). 6: Devaux D., Bouchet R., Glé D., Denoyel R., Solid State Ion. , 227 , 119 (2012). 7: Wang X., Zhang L., Li G., Zhang G., Shao Z.G., Yi B., Electrochim. Acta , 158 , 253 (2015)
Painless thyroiditis incidentally diagnosed following SARS-CoV-2 infection (2022)

A euthyroid woman in her 50s with papillary thyroid cancer and primary hyperparathyroidism was referred to our hospital for surgery. Her surgery was scheduled for 4 months later but was postponed because she was diagnosed with COVID-19. Five months after the first visit, she was admitted to our hospital to undergo the planned thyroid lobectomy and parathyroidectomy. Her blood tests on admission showed thyrotoxicosis, with negative thyroid-stimulating hormone receptor and thyroid-stimulating antibody. Notably, her anti-thyroglobulin antibody and anti-thyroid peroxidase antibody, which were originally negative, became positive after SARS-CoV-2 infection. She was diagnosed with painless thyroiditis. Her general condition and vital signs were stable, and the surgery was cautiously performed. Histopathological examination of the resected thyroid revealed papillary thyroid carcinoma, and the findings were consistent with painless thyroiditis. Her postoperative course was uneventful, and her thyroid function improved 2 weeks after the operation.
Relationship between Immunological Parameters and the Severity of Neutropenia and Effect of Enteral Nutrition on Immune Status during Neoadjuvant Chemotherapy on Patients with Advanced Esophageal Cancer (2012)

Baseline Th1/Th2 balance predicted the severity of neutropenia, and EN significantly reduced the decline of monocyte HLA-DR expression in patients with esophageal cancer receiving NACT.
Speech intelligibility improvement in rooms using microphone arrays. (2009)

Microphones arrays reduce the effects of reverberation and background noise as compared to a single microphone. The resulting improvement in speech intelligibility in rooms is investigated here, following the approach discussed by Houtgast et al. [Acustica 46, 60–72 (1980)]. Room characteristics (volume, reverberation time), the background noise spectrum, and the source-receiver separation are used to compute a modulation transfer function. This function is input into the procedure described in IEC standard 60268-16(2003) to arrive at an objective measure of speech intelligibility, the speech transmission index (STI). Doing this for both omnidirectional and microphone array receivers, the improvement in intelligibility is determined. The signal source has the spectral shape of a human talker, as given in the IEC standard; the background noise spectrum is based on measurements made in a restaurant. The benefit of using microphone arrays is discussed for various conditions.