gebhart/patrepeval huggingface dataset:
Data from Inhibition of Melanoma Growth by Small Molecules That Promote the Mitochondrial Localization of ATF2 (2023)

&lt;div&gt;Abstract&lt;p&gt;&lt;b&gt;Purpose:&lt;/b&gt; Effective therapy for malignant melanoma, the leading cause of death from skin cancer, remains an area of significant unmet need in oncology. The elevated expression of PKCϵ in advanced metastatic melanoma results in the increased phosphorylation of the transcription factor ATF2 on threonine 52, which causes its nuclear localization and confers its oncogenic activities. The nuclear-to-mitochondrial translocation of ATF2 following genotoxic stress promotes apoptosis, a function that is largely lost in melanoma cells, due to its confined nuclear localization. Therefore, promoting the nuclear export of ATF2, which sensitizes melanoma cells to apoptosis, represents a novel therapeutic modality.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Experimental Design:&lt;/b&gt; We conducted a pilot high-throughput screen of 3,800 compounds to identify small molecules that promote melanoma cell death by inducing the cytoplasmic localization of ATF2. The imaging-based ATF2 translocation assay was conducted using UACC903 melanoma cells that stably express doxycycline-inducible GFP-ATF2.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Results:&lt;/b&gt; We identified two compounds (SBI-0089410 and SBI-0087702) that promoted the cytoplasmic localization of ATF2, reduced cell viability, inhibited colony formation, cell motility, and anchorage-free growth, and increased mitochondrial membrane permeability. SBI-0089410 inhibited the 12-O-tetradecanoylphorbol-l3-acetate (TPA)–induced membrane translocation of protein kinase C (PKC) isoforms, whereas both compounds decreased ATF2 phosphorylation by PKCϵ and ATF2 transcriptional activity. Overexpression of either constitutively active PKCϵ or phosphomimic mutant ATF2&lt;sup&gt;T52E&lt;/sup&gt; attenuated the cellular effects of the compounds.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Conclusion:&lt;/b&gt; The imaging-based high-throughput screen provides a proof-of-concept for the identification of small molecules that block the oncogenic addiction to PKCϵ signaling by promoting ATF2 nuclear export, resulting in mitochondrial membrane leakage and melanoma cell death. &lt;i&gt;Clin Cancer Res; 19(10); 2710–22. ©2013 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
Analysis of a convex time skew calibration for light sharing-based PET detectors (2022)

<i>Objective.</i>Positron emission tomography (PET) detectors providing attractive coincidence time resolutions (CTRs) offer time-of-flight information, resulting in an improved signal-to-noise ratio of the PET image. In applications with photosensor arrays that employ timestampers for individual channels, timestamps typically are not time synchronized, introducing time skews due to different signal pathways. The scintillator topology and transportation of the scintillation light might provoke further skews. If not accounted for these effects, the achievable CTR deteriorates. We studied a convex timing calibration based on a matrix equation. In this work, we extended the calibration concept to arbitrary structures targeting different aspects of the time skews and focusing on optimizing the CTR performance for detector characterization. The radiation source distribution, the stability of the estimations, and the energy dependence of calibration data are subject to the analysis.<i>Approach.</i>A coincidence setup, equipped with a semi-monolithic detector comprising 8 LYSO slabs, each 3.9 mm × 31.9 mm × 19.0 mm, and a one-to-one coupled detector with 8 × 8 LYSO segments of 3.9 mm × 3.9 mm × 19.0 mm volume is used. Both scintillators utilize a dSiPM (DPC3200-22-44, Philips Digital Photon Counting) operated in first photon trigger. The calibration was also conducted with solely one-to-one coupled detectors and extrapolated for a slab-only setup.<i>Main results.</i>All analyzed hyperparameters show a strong influence on the calibration. Using multiple radiation positions improved the skew estimation. The statistical significance of the calibration dataset and the utilized energy window was of great importance. Compared to a one-to-one coupled detector pair achieving CTRs of 224 ps the slab detector configuration reached CTRs down to 222 ps, demonstrating that slabs can compete with a clinically used segmented detector design.<i>Significance.</i>This is the first work that systematically studies the influence of hyperparameters on skew estimation and proposes an extension to arbitrary calibration structures (e.g. scintillator volumes) of a known calibration technique.
Medical Time Series Classification with Hierarchical Attention-based Temporal Convolutional Networks: A Case Study of Myotonic Dystrophy Diagnosis (2019)

Myotonia, which refers to delayed muscle relaxation after contraction, is the main symptom of myotonic dystrophy patients. We propose a hierarchical attention-based temporal convolutional network (HA-TCN) for myotonic dystrohpy diagnosis from handgrip time series data, and introduce mechanisms that enable model explainability. We compare the performance of the HA-TCN model against that of benchmark TCN models, LSTM models with and without attention mechanisms, and SVM approaches with handcrafted features. In terms of classification accuracy and F1 score, we found all deep learning models have similar levels of performance, and they all outperform SVM. Further, the HA-TCN model outperforms its TCN counterpart with regards to computational efficiency regardless of network depth, and in terms of performance particularly when the number of hidden layers is small. Lastly, HA-TCN models can consistently identify relevant time series segments in the relaxation phase of the handgrip time series, and exhibit increased robustness to noise when compared to attention-based LSTM models.
Binding of DNA Purine Sites to Dirhodium Compounds Probed by Mass Spectrometry (2004)

The adducts formed between the antitumor active compounds [Rh(2)(O(2)CCH(3))(2)(CH(3)CN)(6)](BF(4))(2), Rh(2)(O(2)CCH(3))(4), and Rh(2)(O(2)CCF(3))(4) with DNA oligonucleotides have been assessed by matrix-assisted laser desorption ionization (MALDI) and nanoelectrospray (nanoESI) coupled to time-of-flight mass spectrometry (TOF MS). A series of MALDI studies performed on dipurine (AA, AG, GA, and GG)-containing single-stranded oligonucleotides of different lengths (tetra- to dodecamers) led to the establishment of the relative reactivity cis-[Pt(NH(3))(2)(OH(2))(2)](2+) (activated cisplatin) approximately Rh(2)(O(2)CCF(3))(4) > cis-[Pt(NH(3))(2)Cl(2)] (cisplatin) >> [Rh(2)(O(2)CCH(3))(2)(CH(3)CN)(6)](BF(4))(2) > Rh(2)(O(2)CCH(3))(4) approximately Pt(C(6)H(6)O(4))(NH(3))(2) (carboplatin). The relative reactivity of the complexes is associated with the lability of the leaving groups. The general trend is that an increase in the length of the oligonucleotide leads to enhanced reactivity for Rh(2)(O(2)CCH(3))(2)(CH(3)CN)(6)](BF(4))(2) and Rh(2)(O(2)CCH(3))(4) (except for the case of [Rh(2)(O(2)CCH(3))(2)(CH(3)CN)(6)](2+), which reacts faster with the GG octamers than with the dodecamers), whereas the reactivity of Rh(2)(O(2)CCF(3))(4) is independent of the oligonucleotide length. When monitored by ESI, the dodecamers containing GG react faster than the respectiveAA oligonucleotides in reactions with Rh(2)(O(2)CCF(3))(4) and Rh(2)(O(2)CCH(3))(2)(CH(3)CN)(6)](BF(4))(2), whereas AA oligonucleotides react faster with Rh(2)(O(2)CCH(3))(4). The mixed (AG, GA) purine sequences exhibit comparable rates of reactivity with the homopurine (AA, GG) dodecamers in reactions with Rh(2)(O(2)CCH(3))(4). The observation of initial dirhodium-DNA adducts with weak axial (ax) interactions, followed by rearrangement to more stable equatorial (eq) adducts, was achieved by electrospray ionization; the Rh-Rh bond as well as coordinated acetate or acetonitrile ligands remain intact in these dirhodium-DNA adducts. MALDI in-source decay (ISD), collision-induced dissociation (CID) MS-MS, and enzymatic digestion studies followed by MALDI and ESI MS reveal that, in the dirhodium compounds studied, the purine sites of the DNA oligonucleotides interact with the dirhodium core. Ultimately, both MALDI and ESI MS proved to be complementary, valuable tools for probing the identity and stability of dinuclear metal-DNA adducts.
Supplemental Figure 7 from ADCT-301, a Pyrrolobenzodiazepine (PBD) Dimer–Containing Antibody–Drug Conjugate (ADC) Targeting CD25-Expressing Hematological Malignancies (2023)

&lt;p&gt;In vivo PBMC DNA cross-linking. DNA cross-linking as measured in CD25-negative PBMCs from SCID mice treated with ADCT-301&lt;/p&gt;
A Dynamic Range Expansion Technique Using Dual Charge Storage in a CMOS APS and Multiple Exposures for Reduced Motion Blur (2008)

This paper presents a dynamic range expansion technique for CMOS image sensors using dual charge storage in a pixel and multiple exposures. Each pixel contains two photodiodes, PD1 and PD2 whose sensitivity can be set independently by the accumulation time. The difference of charge accumulation time in both photodiodes can be widely controlled to expand the dynamic range of the sensor. It allows flexible control of the dynamic range since the accumulation time in the PD2 signal is adjustable. The multiple exposure technique used in the sensor reduces the motion blur in the synthesized wide dynamic range image when capturing fast-moving objects. It also reduces the signal-to-noise ratio dip at the switching point of the PD1 signal to the PD2 signals in the synthesized wide dynamic range image. To reduce the read out time, a comparator-controlled selective readout of the PD1 and PD2 signals has been tested. The synthesis of the captured images to produce wide dynamic range image is also described. A wide dynamic range image sensor with 320x240 pixels has been implemented and tested. It is found that the use of 4 exposures in one frame for the short accumulation time signals is sufficient for the reduction of motion blur in the synthesized wide dynamic range image, and the signal-to-noise ratio dipping at the switching point of the PD1 to PD2 signals is reduced by 6 dB using 4 short-time exposures.
Personal assistants (1998)

Already there are simple personal agents to help with some of our shopping. There are agents to track stocks in our portfolios, advise us on how to use particular software products, and arrange meetings within corporate workgroups. However, none of these agents takes more than one aspect of our activities into account, nor do they adapt easily to our preferences. Personal assistants, on the other hand, are agents that can represent individuals on the Web. They help users in their day-to-day activities, especially those involving information retrieval, negotiation, or coordination. A personal assistant might schedule a meeting and then, based on the meeting location, find the nearest babysitting service or the ATM with the lowest transaction fee. The paper discusses the interaction framework, negotiation, profiles and standards.
Next generation cable networks with DOCSIS 3.1 technology [Guest Editorial] (2015)

Modern cable networks are continuing to evolve at a rapid pace, driven by consumer demand for new interactive services. This is driving a convergence between traditional broadcast video and Internet video, as well as the need for higher capacity broadband networks. At the same time, Radio Frequency (RF) transmission technology has continued to evolve, offering the opportunity to utilize the resources of the cable network more efficiently and cost effectively. The needs of network evolution, combined with the opportunity of new technology, recently resulted in the development of a new version of DOCSIS® technology, the DOCSIS 3.1 specifications.
Acoustic Properties of Polymers (2012)

No AccessMaterials Science of Polymers for EngineersSep 2012Acoustic Properties of PolymersTim A. Osswald, Georg MengesTim A. OsswaldSearch for more papers by this author, Georg MengesSearch for more papers by this authorhttps://doi.org/10.3139/9781569905241.014SectionsAboutPDF ToolsAdd to FavoritesDownload CitationTrack CitationsCopy LTI LinkPDF key 'share (en)' returned an object instead of string.FacebookTwitterEmailLinkedIn previous chapternext chapter FiguresReferencesRelatedDetails 2012Pages: 549-553Print ISBN: 978-1-56990-514-2eISBN: 978-1-56990-524-1 Copyright & Permissions© 2012 Carl Hanser Verlag GmbH & Co. KGPDF DownloadLoading ...
Neighbor-cell assisted error correction for MLC NAND flash memories (2014)

Continued scaling of NAND flash memory to smaller process technology nodes decreases its reliability, necessitating more sophisticated mechanisms to correctly read stored data values. To distinguish between different potential stored values, conventional techniques to read data from flash memory employ a single set of reference voltage values, which are determined based on the overall threshold voltage distribution of flash cells. Unfortunately, the phenomenon of program interference, in which a cell's threshold voltage unintentionally changes when a neighboring cell is programmed, makes this conventional approach increasingly inaccurate in determining the values of cells. This paper makes the new empirical observation that identifying the value stored in the immediate-neighbor cell makes it easier to determine the data value stored in the cell that is being read. We provide a detailed statistical and experimental characterization of threshold voltage distribution of flash memory cells conditional upon the immediate-neighbor cell values, and show that such conditional distributions can be used to determine a set of read reference voltages that lead to error rates much lower than when a single set of reference voltage values based on the overall distribution are used. Based on our analyses, we propose a new method for correcting errors in a flash memory page, neighbor-cell assisted correction (NAC). The key idea is to re-read a flash memory page that fails error correction codes (ECC) with the set of read reference voltage values corresponding to the conditional threshold voltage distribution assuming a neighbor cell value and use the re-read values to correct the cells that have neighbors with that value. Our simulations show that NAC effectively improves flash memory lifetime by 33% while having no (at nominal lifetime) or very modest (less than 5% at extended lifetime) performance overhead.
Role of Human Galectins in Inflammation and Cancers Associated with Endometriosis (2020)

Galectins are a family of β-galactoside-binding proteins that contribute to multiple cellular functions, including immune surveillance and apoptosis. Human galectins are also important regulators of inflammation, making them a research target for various inflammatory diseases and tumorigenesis associated with pro-inflammatory conditions. This review focuses on the involvement of human galectins in modulation of inflammation and in the pathophysiology of endometriosis and endometriosis-associated neoplasms. Endometriosis is a chronic inflammatory disease with unknown etiology. Galectins -1, -3 and -9 were found to be overexpressed in ectopic and eutopic endometrium of females with endometriosis compared to those without endometriosis. These findings suggest galectins' role in the progression on endometriotic lesions and their potential use as diagnostic biomarkers and/or targets for therapeutic approaches. Galectins -1, -3, and -9 have also been implicated in the development of endometriosis-associated neoplasms. Furthermore, galectin-3 has been shown to interact with KRAS protein and contribute to cellular growth, proliferation, inflammation, and the uptake of nutrients in endometriotic lesions and may be involved in the maintenance and propagation of endometriosis. These galectins have been shown to be upregulated in certain forms of cervical, ovarian, endometrial, and colon cancer associated with endometriosis and have become a potential target for anti-cancer therapies.
Simulgreen™ 18-2: a New Green Based O/W Emulsifying Structure for Concentrated Performances (2012)

Simulgreen™ 18-2 is a new, oil-in-water emulsifying structure able to concentrate performance: with environmentally-friendly structure design, versatile emulsifying power and unprecedented sensory profile, suitable for both women and men. Manufactured using renewable ingredients of plant origin and according to a process meeting green chemistry principles, Simulgreen™’s original chemical structure is behind its new application properties (INCI name: Hydroxystearyl Alcohol and Hydroxystearyl Glucoside). Usually used at between 1 and 3% Simulgreen™ 18-2 easily emulsifies all types of oil: esters, mineral oils, silicones and vegetable oils over a broad pH range, from 3 to 10. From 3%, it spontaneously produces cream textures without having to add waxy additives, supported by the formation of an elastic network of lamellar phases in the continuous aqueous phase. Another benefit of Simulgreen™ 18-2 is its improved resistance with respect to electrolyte-rich stress-inducing active ingredients that usually decreases viscosity and strongly affects emulsion stability with natural emulsifiers. Simulgreen™ 18-2 enables the keeping of cream textures where active ingredients are present, without using waxy additives, thus providing an interesting alternative to ethoxylated emulsifying structures (creams are for instance easily obtained with 3% of Simulgreen™ 18-2 and 4% of Magnesium Ascorbyl phosphate at pH=7.2 or 4% of Pyrolidone Carboxylate or 4% of Sodium Glycolate expressed as active substance at pH= 4.5 and 6.5).
Sensor fusion of physical and social data using Web SocialSense on smartphone mobile browsers (2014)

Modern smartphones offer a rich selection of onboard sensors, where sensor access is typically performed through API calls provided by the phone's operating system. In this paper we evaluate the viability of implementing sensor processing entirely in the Web browser layer with Web SocialSense, a JavaScript framework for Tizen smartphones that uses a graph topology-based paradigm. This framework enables programmers to write personalized, context-aware applications that can dynamically fuse time-series signals from physical sensors (such as the accelerometer and geolocation services) and social software sensors (such as social network services and personal information management applications). To demonstrate the framework we implemented components for physical sensing and social software sensing to drive two context-aware applications, ActVertisements and Social Map.
Structural basis for the mechanism and antagonism of receptor signaling mediated by Interleukin-9 (IL-9) (2022)

Abstract Interleukin-9 (IL-9) is the hallmark cytokine in Th9 immunity and is also central to Innate Lymphocyte 2 (ILC2) biology. Furthermore, receptor signaling mediated by IL-9 has been linked to inflammatory and autoimmune diseases, and cancer. Despite its functional pleiotropy, the structure-function landscape of IL-9 had remained enigmatic. Here, we show via a combination of X-ray crystallography and NMR that human IL-9 adopts a helical bundle fold with unprecedented structural features among helical cytokines, including five disulfide bridges. Binding of IL-9 to the interdomain junction of IL-9Rα results in marked structural changes on the opposite face of IL-9 that prime the binary complex for recruiting the common gamma chain (γc) for signaling. Surprisingly, this tripartite cytokine-receptor assembly displays a markedly lower affinity than the IL-9: IL-9Rα complex, which we trace to distinct features of IL-9Rα that might destabilize the ternary complex. Furthermore, we developed monoclonal antibodies that antagonize IL-9 activity by sterically competing for the binding footprint of IL-9Rα. Collectively, we here provide a structural and mechanistic blueprint to facilitate interrogation and modulation of pleiotropic signaling outputs of IL-9 in physiology and disease.
Comparison of near-threshold reactivity of ground-state and spin-orbit excited chlorine atoms with methane (2001)

A 4:1 mixture of CH4 and BrCl diluted in He are coexpanded into a vacuum chamber and the reaction of methane with atomic chlorine is initiated by photolysis of BrCl. Near 420 nm, the resulting mixture of ground- and excited-state chlorine atoms have spatial anisotropies of βphot=−0.7 for the Cl(2P3/2)+Br channel and βphot=+1.8 for the Cl*(2P1/2)+Br channel. The speed-dependent spatial anisotropy βrxn(ν) of the CH3(ν=0) reaction product is detected by 2+1 resonance-enhanced multiphoton ionization. Our results indicate that the Cl*+CH4 reaction is unimportant in the near-threshold collision energy range of 0.13–0.16 eV, whereas the reaction with ground-state Cl atoms with CH4 excited with one quantum in the ν2 (torsion) or ν4 (bending) mode is dominant.
Microtrapping of volatile organic compounds with carbon nanotubes (2010)

Micro-sorbent traps referred to as microtraps serve as integrated concentration-injection devices for continuousmonitoring in gas phase streams. The application of carbon nanotubes as unique sorbents for the fabrication of microtrapsfor the nano-scale adsorption/desorption of volatile organic molecules is presented in this paper. The microtrap applicationrequires high adsorption capacity as well as easy desorbability; the latter being critical for injection mode of these integrateddevices. The micro-sorbent characteristics of single and multi-walled carbon nanotubes for gas phase adsorption/desorptionof several volatile organic compounds like DCM, ethanol and benzene etc. has been studied. The nonporous nature of carbonnanotubes (CNTs) eliminates the mass transfer resistance related to diffusion into pore structures, thus allowing easydesorbability. At the same time, their high aspect ratios lead to large breakthrough volumes. As compared to a commercialsorbent carbopackTM, the breakthrough volume was as much as an order of magnitude higher in the CNTs, while the higherrate of desorption measured as the peak width at half height of the desorption band was found nearly eight times lower (i.e.,0.26 seconds with SWNT and 1.89 seconds with carbopackTM). The trapping and desorption characteristics of single andmulti walled nanotubes were found to be comparable. We also found that the presence of disordered carbon impurities,which could be removed by controlled oxidative annealing, could greatly degrade the performance of CNTs. This researchhas suggested that CNTs can be used in micro-sorbent traps and surprisingly enhance the efficiency of the integrated concentration-injection devices. Consequently, this will open the doors to the application of high-capacity, CNTs-based sorbentsas a better alternative to conventional sorbent in continuous monitoring devices.
The Rydberg-assisted Light-shift Blockade for Ensemble Quantum Computing (2014)

We show, with numerical verification, how an ensemble of Rubidium atoms can be made to behave like a single particle with only two energy levels, i.e., a quantum bit, by using Rydberg-interaction assisted light-shift blockade.