gebhart/patrepeval huggingface dataset:
Ion Dynamics of Water‐in‐Salt Electrolyte with Organic Solvents in Nanoporous Supercapacitor Electrodes (2020)

Abstract Water‐in‐salt electrolytes blended with organics solvents, that is, organic solvent/water mixed electrolytes, are promising for applications in next‐generation energy storage devices vitally needed for industrial electrification and decarbonization. However, the electrolyte ion diffusion behaviors within nanoporous supercapacitor electrodes are poorly understood. Here a systematic investigation into supercapacitor resistances and ion kinetics is carried out experimentally and with numerical simulations. The electrochemical results on the nanoporous electrodes reveal a nonmonotonic (decreasing, increasing, and then decreasing) trend of supercapacitor resistances with increasing solvent mobility, challenging the long‐held views that supercapacitor resistances decrease with elevated mobility of organic solvent. The abnormal trend is examined by numerical molecular dynamics simulations of electrolyte ion diffusion within 0.95 nm nanochannels. The electrolyte conductivity is related to cation–anion interactions within nanochannels. We further confirm the crucial interplay of the van der Waals sizes of solvent molecules and channel width in determining electrolyte conductivity in nanoporous electrodes.
Use of the swim bladder and lateral line in near-field sound source localization by fishes (2014)

We investigated the roles of the swim bladder and the lateral line system in sound localization behavior by the plainfin midshipman fish (Porichthys notatus). Reproductive female midshipman underwent either surgical deflation of the swim bladder or cryoablation of the lateral line and were then tested in a monopolar sound source localization task. Fish with nominally 'deflated' swim bladders performed similar to sham-deflated controls; however, post-experiment evaluation of swim bladder deflation revealed that a majority of 'deflated' fish (88%, seven of the eight fish) that exhibited positive phonotaxis had partially inflated swim bladders. In total, 95% (21/22) of fish that localized the source had at least partially inflated swim bladders, indicating that pressure reception is likely required for sound source localization. In lateral line experiments, no difference was observed in the proportion of females exhibiting positive phonotaxis with ablated (37%) versus sham-ablated (47%) lateral line systems. These data suggest that the lateral line system is likely not required for sound source localization, although this system may be important for fine-tuning the approach to the sound source. We found that midshipman can solve the 180 deg ambiguity of source direction in the shallow water of our test tank, which is similar to their nesting environment. We also found that the potential directional cues (phase relationship between pressure and particle motion) in shallow water differs from a theoretical free-field. Therefore, the general question of how fish use acoustic pressure cues to solve the 180 deg ambiguity of source direction from the particle motion vector remains unresolved.
Spherical Horn Array for Wideband Propagation Measurements (2011)

A spherical array of horn antennas designed to obtain directional channel information and characteristics is introduced. A dual-polarized quad-ridged horn antenna with open flared boundaries and coaxial feeding for the frequency band 600 MHz–6 GHz is used as the element of the array. Matching properties and coupling between the elements are investigated via measurements and numerical simulations. Radiation patterns and sum beams of the array on selected frequencies throughout the band are also presented. Based on the obtained results it is concluded that the array is a good candidate for a wideband multipath propagation studies.
Characterization of small hepatitis B surface antigen epitopes involved in binding to human annexin V (1999)

Previously, we have shown that small hepatitis B surface antigen (SHBsAg) binds specifically to human annexin V (hAV) and that hAV plays a key role in the initial steps of hepatitis B virus (HBV) infection. We have also demonstrated the spontaneous development of anti-idiotypic antibodies (antibodies to HBsAg Ab2) in rabbits immunized with hAV. As Ab2 is able to inhibit the binding of hAV to SHBsAg, Ab2 might contain epitope(s) mimicking a region of hAV for binding to SHBsAg. Identification of this epitope will therefore reveal a SHBsAg sequence involved in hAV binding. Using a panel of synthetic peptides covering the region of SHBsAg located on the outer surface of the virus, binding studies showed that the region incorporating amino acids (aa) 125-131 of SHBsAg is important for binding to Ab2 and consequently also for binding to hAV. Further experiments revealed that not only this region, but also the region incorporating aa 158-169, is involved in the binding of SHBsAg to hAV. As these regions are located in the structural vicinity according to the topological model of HBsAg proposed by Chen et al., our findings suggest that these regions are parts of a conformational epitope of SHBsAg for binding to hAV. Because of the crucial role of hAV in HBV infection, further studies on the HBsAg epitopes for hAV binding may lead to the development of a new generation of vaccines or molecules for prevention and for treatment of patients with chronic hepatitis B.
Hardware-constrained signal processing for mm-Wave LoS MIMO (2015)

At high carrier frequencies, spatial multiplexing gains can be obtained even in line of sight (LoS) environments with reasonable node form factors. We investigate design of a LoS MIMO link operating at millimeter (mm) wave frequencies beyond 100 GHz, with 4-fold spatial multiplexing, and bandwidth of 10-20 GHz, with data rates even with relatively small constellations (QPSK) reaching 80-160 Gbps. Even small misalignments lead to frequency selectivity at these bandwidths, and we show that this leads to performance floors for conventional linear space-time equalizers. An alternative approach, which closely couples hardware and signal processing design in utilizing analog delays with subsymbol precision, is shown to eliminate such error floors. By using analog techniques to address frequency selectivity and to perform spatial demultiplexing, this proposed architecture also alleviates the difficulty of analog-to-digital conversion at high sampling rates.
MyD88 and TRIF synergistic interaction is required for TH1‐cell polarization with a synthetic TLR4 agonist adjuvant (2013)

Glucopyranosyl lipid adjuvant-stable emulsion (GLA-SE) is a synthetic adjuvant TLR4 agonist that promotes potent poly-functional T(H)1 responses. Different TLR4 agonists may preferentially signal via MyD88 or TIR-domain-containing adapter inducing IFN-beta (TRIF) to exert adjuvant effects; however, the contribution of MyD88 and TRIF signaling to the induction of polyclonal T(H)1 responses by TLR4 agonist adjuvants has not been studied in vivo. To determine whether GLA-SE preferentially signals through MyD88 or TRIF, we evaluated the immune response against a candidate tuberculosis (TB) vaccine Ag following immunization of mice lacking either signaling adapter compared with that of wild-type mice. We find that both MyD88 and TRIF are necessary for GLA-SE to induce a poly-functional T(H)1 immune response characterized by CD4(+) T cells producing IFN-γ, TNF, and IL-2, as well as IgG2c class switching, when paired with the TB vaccine Ag ID93. Accordingly, the protective efficacy of ID93/GLA-SE immunization against aerosolized Mycobacterium tuberculosis was lost when either signaling molecule was ablated. We demonstrate that MyD88 and TRIF must be expressed in the same cell for the in vivo T(H)1-skewing adjuvant activity, indicating that these two signaling pathways cooperate on an intracellular level. Thus engagement of both the MyD88 and TRIF signaling pathways are essential for the effective adjuvant activity of this TLR4 agonist.
Impact of Azaproline on Peptide Conformation (2004)

The amino acid analog azaproline (azPro) contains a nitrogen atom in place of the C(alpha) of proline. Peptides containing azPro were shown to stabilize the cis-amide conformer for the acyl-azPro bond and prefer type VI beta-turns both in crystals and in organic solvents by NMR. The increased stability for cis-amide conformers was relatively minor with respect to the trans-conformers. Further, their conformational preferences were depended on solvent. To elucidate the impact of azPro substitution on amide cis-trans isomerism and peptide conformation, this paper reports ab initio studies on azPro derivatives and a comparison with their cognate Pro derivatives: 1-acetyl-2-methyl pyrrolidine (1), 1-acetyl-2-methyl pyrazolidine (2), Ac-Pro-NHMe (3), Ac-azPro-NHMe (4), Ac-azPro-NMe(2) (5), Ac-azAzc-NHMe (6), and Ac-azPip-NHMe (7). Conformational preferences were explored at the MP2/6-31+G** level of theory in vacuo. Solvation effects for 1 and 2 were studied implicitly using the polarizable continuum model and explicitly represented by interactions with a single water molecule. An increase in the conformational preference for the cis-amide conformer of azPro was clearly seen. An intramolecular hydrogen bond occurred solely in the trans-amide conformer that reduced the preference for the cis-conformer by 2.2 kcal/mol. The larger ring homolog aza-pipecolic acid (azPip), in which this internal hydrogen bond was diminished, significantly augmented stabilization of the cis-amide conformer. In aqueous solution, the preference for the cis-amide conformers was greatly reduced, mainly as a result of interaction between water and the lone pair of the alpha-nitrogen in the trans-amide conformer that was 3.8 kcal/mol greater than that in the cis-conformer. In the azPro analog, the energy barrier for cis-trans amide isomerization was 6 kcal/mol less than that in the cognate Pro derivative. Because the azPro derivatives can stabilize the cis-amide bond and mimic a type VI beta-turn without incorporation of additional steric bulk, such a simple chemical modification of the peptide backbone provides a useful conformational constraint when incorporated into the structure of selected bioactive peptides. Such modifications can scan receptors for biological recognition of reverse turns containing cis-amide bonds by the incorporation of type VI beta-turn scaffolds with oriented appended side chains.
OCTScenes: A Versatile Real-World Dataset of Tabletop Scenes for Object-Centric Learning (2023)

Humans possess the cognitive ability to comprehend scenes in a compositional manner. To empower AI systems with similar capabilities, object-centric learning aims to acquire representations of individual objects from visual scenes without any supervision. Although recent advances in object-centric learning have made remarkable progress on complex synthesis datasets, there is a huge challenge for application to complex real-world scenes. One of the essential reasons is the scarcity of real-world datasets specifically tailored to object-centric learning. To address this problem, we propose a versatile real-world dataset of tabletop scenes for object-centric learning called OCTScenes, which is meticulously designed to serve as a benchmark for comparing, evaluating, and analyzing object-centric learning methods. OCTScenes contains 5000 tabletop scenes with a total of 15 objects. Each scene is captured in 60 frames covering a 360-degree perspective. Consequently, OCTScenes is a versatile benchmark dataset that can simultaneously satisfy the evaluation of object-centric learning methods based on single-image, video, and multi-view. Extensive experiments of representative object-centric learning methods are conducted on OCTScenes. The results demonstrate the shortcomings of state-of-the-art methods for learning meaningful representations from real-world data, despite their impressive performance on complex synthesis datasets. Furthermore, OCTScenes can serve as a catalyst for the advancement of existing methods, inspiring them to adapt to real-world scenes. Dataset and code are available at https://huggingface.co/datasets/Yinxuan/OCTScenes.
Digital Type CMOS-MEMS Cointegrated Pressure Sensor Fabricated Using Cost-Effective Minimal-Fab Process (2020)

The digital type CMOS-MEMS cointegrated pressure sensor with a CMOS ring oscillator on a thin diaphragm was fabricated using cost-effective minimal-fab process and the successful operation of the fabricated pressure sensor was demonstrated, for the first time. It was confirmed that about 40 kHz difference in the oscillation frequency is observed in the fabricated CMOS-MEMS cointegrated pressure sensor chip by changing pressures from -40 to +40 kPa. This result is originated from the drain current variations of the longitudinal <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">$&lt; \mathbf{110} &gt;$</tex> channel PMOSFETs of the CMOS ring oscillator owing to the piezoresistive effect. The developed CMOS-MEMS cointegrated pressure sensor is suitable for the application to the potable IoT sensor systems because it has a low-power consumption due to its all CMOS integration.
Malware Detection (2010)

This book captures the state of the art research in the area of malicious code detection, prevention and mitigation. It contains cutting-edge behavior-based techniques to analyze and detect obfuscated malware. The book analyzes current trends in malware activity online, including botnets and malicious code for profit, and it proposes effective models for detection and prevention of attacks using. Furthermore, the book introduces novel techniques for creating services that protect their own integrity and safety, plus the data they manage.
Porous Films: Size Control of Porous Silicon Nanoparticles by Electrochemical Perforation Etching (Part. Part. Syst. Charact. 2/2014) (2014)

Size-controlled porous silicon nanoparticles are prepared by pulsed electrochemical etching, followed by ultrasonic fracture of the freestanding porous layer. As described by Michael J. Sailor and co-workers on page 252, ultrasonic fracture selectively cleaves the porous film along the high-porosity perforations, providing selective improved size control and yields of the porous silicon nanoparticles without any complicated post- or preprocessing steps.
Detection, Isolation, and 1H NMR Quantitation of the Nitrile Glycoside Sarmentosin from a Bryophyllum pinnatum Hydro-Ethanolic Extract (2021)

<i>Bryophyllum pinnatum</i> (Lam) Pers. (Crassulaceae) is widely used in folk medicine as leaf juice, aqueous, or hydro-ethanolic extracts. It is also listed as a medicinal plant in several countries such as France and Brazil. The main reported constituents are flavone glycosides, especially those with the rare 3-O-α-l-arabinopyranosyl-(1 → 2)-α-l-rhamnopyranoside moiety. Despite several phytochemical screenings indicating the presence of cyanide derivatives or alkaloids, there are no reports of nitrogenous metabolite characterization from this plant species. Nevertheless, the occurrence and the type of such compounds are of particular interest, as they may account for some of the numerous biological activities and ethnomedicinal uses described for <i>B. pinnatum</i> and could be regarded as chemical/taxonomic markers. Consequently, a hydro-ethanolic extract of <i>B. pinnatum</i> was investigated by using UHPLC-HRMS/MS and the nitrile glucoside sarmentosin was detected for the first time within the genus <i>Bryophyllum/Kalanchoe</i>. Considering the wide use of <i>B. pinnatum</i> and its closely related species for health purposes, the target metabolite was isolated by a combination of centrifugal partition chromatography in elution/extrusion mode and MPLC in order to confirm its structure. A linear, selective, precise, fast, and reliable <sup>1</sup>H NMR quantitation method was then developed and validated and may become a tool for easy quality assessment of the plant species. The amount of sarmentosin was determined as 2.07% of the examined sample. Sarmentosin was also detected in <i>Kalanchoe laciniata,</i> confirming the occurrence of this compound within the genus.
Necessary Conditions on Realizable Two-Point Correlation Functions of\n Random Media (2006)

A fascinating inverse problem that has been receiving considerable attention\nis the construction of realizations of random two-phase heterogeneous media\nwith a target two-point correlation function. However, not every hypothetical\ntwo-point correlation function corresponds to a realizable two-phase medium.\nHere we collect all of the known necessary conditions on the two-point\ncorrelation functions scattered throughout a diverse literature and derive a\nnew but simple positivity condition. We apply the necessary conditions to test\nthe realizability of certain classes of proposed correlation functions.\n
Abstract 4989: Selective inhibitors of the inositol-requiring enzyme 1 kinase domain (2012)

Abstract Inositol-requiring enzyme 1 (IRE1) is a key player in endoplasmic reticulum (ER) stress conditions. IRE1 is a highly conserved ER-membrane protein activated by the unfolded protein response (UPR) or other ER-stressors, such as hypoxia and glucose deprivation. Stress causes IRE1 to undergo oligomerization and autophosphorylation, which triggers nonconventional splicing of XBP-1 mRNA by its cytosolic endonuclease domain. The resulting spliced XBP-1 protein (XBP-1s) is a transcription factor that serves to increase the protein folding capacity and ultimately restore homeostasis of the ER. Thus, sustained IRE1 activity promotes cell survival and inhibition of IRE1 may be a potential therapeutic target for diseases associated with chronic ER-stress, such as neurodegenerative disorders, diabetes, and cancer. Proper RNase function of IRE1 is dependent upon autophosphorylation of the kinase domain. We therefore screened a library of 380 known kinase inhibitors, consisting of tool compounds and compounds already in clinical use, for those with activity against the human IRE1 kinase domain. As a result, a number of compounds were found that potently inhibit phosphorylation of a biotin-STK peptide substrate in the presence of human IRE1 (IC50 &amp;lt; 1 μM), as determined by HTRF (homogeneous time-resolved fluorescence). The lead compounds were then screened in cell-based assays. Several ATP-mimetic compounds with diverse chemotypes were found to inhibit expression of XBP-1s in human cancer cells under pharmacologically-induced acute ER-stress. Furthermore, transcriptional targets of XBP-1s and phosphorylation of IRE1 were also negatively affected by these compounds. Interestingly one compound in particular, a known ROCK1 (Rho-associated coiled-coil containing protein kinase 1) inhibitor (OICR000287A), was significantly more toxic to cells under acute ER-stress than to unstressed cells. This study suggests that development of ATP-competitive inhibitors of human IRE1 is a promising therapeutic strategy for ER-stress related diseases including myeloma, pancreatic and other secretory cancers. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 103rd Annual Meeting of the American Association for Cancer Research; 2012 Mar 31-Apr 4; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2012;72(8 Suppl):Abstract nr 4989. doi:1538-7445.AM2012-4989
New Insights on Chemical Diversion in Carbonate Acidizing: Experimental and Simulation-Based Study (2016)

Abstract Carbonate acidizing restores and enhances production by dissolving a fraction of the rock to create highly conductive channels or wormholes. Most experimental acidizing studies are focused on acid injection at Constant Volumetric Rate (CVR) rather than at Constant Injection Pressure (CIP). A recent study highlighted the benefits of each injection technique for 15% wt. HCl acid. Formations with high injectivity should be treated at CVR as efficient wormholes can be propagated with less acid volume. Aditionally, the increasing injection rate characteristic of CIP can be beneficial in formations with initial low injectivity where wormhole dissolution can change from face and conical to dominant pattern. The injection rate and injection pressure for acid and chemical diverters are important variables because they affect wormholing, treatment distribution, and therefore the overall skin reduction. The primary objective of the present work is to investigate the effect of chemical diversion when acid treatments are injected at CVR and CIP. This study focused on the behavior of a Viscoelastic Surfactant (VES) based acid diverter inside the porous media and its effect on the treatment and wormhole distribution for low and high injectivity formations. A core-flood study was conducted using Pink Desert Limestone cores with similar permeability to assess the pressure response of the diverter at CIP. Additionally, a 2-D wormhole model was used to describe the acidizing phenomena. This model captures the acid reaction and chemical diversion coupled with Darcy flow. Synthetic scenarios were created to evaluate the effect of each acid injection technique (CVR and CIP) and diversion staging on the post-treatment skin and wormhole length. The results of these simulations showed that proper staging of a the chemical diverter aided to improve the treatment placement injected at CVR in a long, highly permeable and homogenous zone as shown by smoother wormhole and skin profiles. CIP delivered nearly uniform treatment placement without chemical diverter when applied at the highest rate below fracture pressure in a long, homogenous and low permeable zone. For a synthetic case of a long and heterogeneous treatment zone, this study confirmed that CIP generated branched wormholing in the high-permeability zones in the early stages of a treatment sequence and did not significantly reduce the skin in the low injectivity layers. Fluid placement turned less efficient as the injection rate increased over the course of the treatment. Based on these results, the simulation outputs suggest that CIP is not an effective diversion technique in long treatment intervals with significant injectivity contrast. Additionally, it was observed that the inclusion of diverter stages can improve the treatment distribution.
A Pumpless Acoustofluidic Platform for Size-Selective Concentration and Separation of Microparticles (2017)

We have designed a pumpless acoustofluidic device for the concentration and separation of different sized particles inside a single-layered straight polydimethylsiloxane (PDMS) microfluidic channel. The proposed device comprises two parallel interdigitated transducers (IDTs) positioned underneath the PDMS microchannel. The IDTs produce high-frequency surface acoustic waves that generate semipermeable virtual acoustic radiation force field walls that selectively trap and concentrate larger particles at different locations inside the microchannel and allow the smaller particles to pass through the acoustic filter. The performance of the acoustofluidic device was first characterized by injecting into the microchannel a uniform flow of suspended 9.9 μm diameter particles with various initial concentrations (as low as 10 particles/mL) using a syringe pump. The particles were trapped with ∼100% efficiency by a single IDT actuated at 73 MHz. The acoustofluidic platform was used to demonstrate the pumpless separation of 12.0, 4.8, and 2.1 μm microparticles by trapping the 12 and 4.8 μm particles using the two IDTs actuated at 73 and 140 MHz, respectively. However, most of the 2.1 μm particles flowed over the IDTs unaffected. The acoustofluidic device was capable of rapidly processing a large volume of sample fluid pumped through the microchannel using an external syringe pump. A small volume of the sample fluid was processed through the device using a capillary flow and a hydrodynamic pressure difference that did not require an external pumping device.