gebhart/patrepeval huggingface dataset:
Cathepsin S activation contributes to elevated CX3CL1 (fractalkine) levels in tears of a Sjögren’s syndrome murine model (2020)

Autoimmune dacryoadenitis and altered lacrimal gland (LG) secretion are features of Sjogren’s syndrome (SS). Activity of cathepsin S (CTSS), a cysteine protease, is significantly and specifically increased in SS patient tears. The soluble chemokine, CX3CL1 (fractalkine), is cleaved from membrane-bound CX3CL1 by proteases including CTSS. We show that CX3CL1 is significantly elevated by 2.5-fold in tears (p = 0.0116) and 1.4-fold in LG acinar cells (LGAC)(p = 0.0026) from male NOD mice, a model of autoimmune dacryoadenitis in SS, relative to BALB/c controls. Primary mouse LGAC and human corneal epithelial cells (HCE-T cells) exposed to interferon-gamma, a cytokine elevated in SS, showed up to 9.6-fold (p ≤ 0.0001) and 25-fold (p ≤ 0.0001) increases in CX3CL1 gene expression, and 1.9-fold (p = 0.0005) and 196-fold (p ≤ 0.0001) increases in CX3CL1 protein expression, respectively. Moreover, exposure of HCE-T cells to recombinant human CTSS at activity equivalent to that in SS patient tears increased cellular CX3CL1 gene and protein expression by 2.8-fold (p = 0.0021) and 5.1-fold (p ≤ 0.0001), while increasing CX3CL1 in culture medium by 5.8-fold (p ≤ 0.0001). Flow cytometry demonstrated a 4.5-fold increase in CX3CR1-expressing immune cells (p ≤ 0.0001), including increased T-cells and macrophages, in LG from NOD mice relative to BALB/c. CTSS-mediated induction/cleavage of CX3CL1 may contribute to ocular surface and LG inflammation in SS.
Allylation of 2-alkanoyl 1,4-quinones with allylsilanes and allylstannanes. Efficient synthesis of pyranonaphthoquinone antibiotics (1986)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTAllylation of 2-alkanoyl 1,4-quinones with allylsilanes and allylstannanes. Efficient synthesis of pyranonaphthoquinone antibioticsHidemitsu UnoCite this: J. Org. Chem. 1986, 51, 3, 350–358Publication Date (Print):February 1, 1986Publication History Published online1 May 2002Published inissue 1 February 1986https://pubs.acs.org/doi/10.1021/jo00353a015https://doi.org/10.1021/jo00353a015research-articleACS PublicationsRequest reuse permissionsArticle Views1314Altmetric-Citations89LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
Characterisation of the Ability of Globulins from Legume Seeds to Produce Cocoa Specific Aroma (2007)

This study was carried out to extract and compare the characteristic ability of globulins from cottonseed, alfalfa seed, pea seed, mung bean and French bean with cocoa seeds to produce cocoa-specific aroma precursors. The extracted globulins were compared through SDS PAGE, amino acid and oligopeptide profiles. A very low recovery was obtained during globulin extraction from different seeds ranging from 0.5% to 2.7%. Cottonseed produced the highest total protein (13.90 mg/g), followed by cocoa seed (11.91 mg/g), whereas alfalfa seed, mung bean, pea seed and French bean produced 7.86, 4.77, 4.59 and 3.89 mg/g respectively. Two distinctive bands of 51.1 and 33.0 kDa were observed for cocoa vicilin-class globulin (VCG) from SDS PAGE. More than three bands were shown for other seed globulins. Comparative HPLC analyses of the obtained peptide mixtures revealed different and complex patterns of predominantly hydrophobic peptides. A similar high content of amides (glutamic acids-glutamine, aspartic acid- asparagine and arginine) and low concentrations of lysine were observed in all seeds globulin.
Supplementary Table S1.1 from Metabolic and Functional Genomic Studies Identify Deoxythymidylate Kinase as a Target in <i>LKB1</i>-Mutant Lung Cancer (2023)

&lt;p&gt;Top 100 shRNAs.&lt;/p&gt;
Oxidation of Si(001) with a hyperthermal O-atom beam at room temperature: Suboxide distribution and residual order structure (2006)

Synchrotron radiation photoelectron spectroscopy (SR-PES) and crystal truncation rod (CTR) scattering profiles were used to investigate an ultrathin SiO2 overlayer on a Si(001) surface formed by a 5eV O-atom beam at room temperature. The SR-PES spectra indicated that the suboxides in the O-atom-beam oxidized film were concentrated on the SiO2 surface rather than at the Si∕SiO2 interface. The CTR scattering data of the O-atom-beam oxidation film had a lower intensity near (11L) (0.3&amp;lt;L&amp;lt;0.8), suggesting a lower content of the SiO2 ordered structure in the oxide film. An inverse diffusion of the interstitial Si atoms in the oxidation kinetics can explain the data.
Formation of Copper Nickel Bimetallic Nanoalloy Film Using Precursor Inks (2019)

Precursor (Metal-organic decomposition (MOD)) inks are used to fabricate 2D and 3D printed conductive structures directly onto a substrate. By formulating a nanoalloy structure containing multiple metals, the opportunity to modify chemical and physical properties exists. In this paper, a copper-nickel bimetallic nanoalloy film was fabricated by mixing copper and nickel precursor inks and sintering them in vacuum. The individual elemental inks were formulated and characterized using SEM, EDS, and XRD. During thermal processing, elemental copper forms first and is followed by the formation of bimetallic copper-nickel alloy. The encapsulation of the underlying copper by the nickel-rich alloy provides excellent oxidation resistance. No change in film resistance was observed after the film was exposed to an oxygen plasma. Nanoalloy films printed using reactive metallic inks have a variety of important applications involving local control of alloy composition. Examples include facile formation of layered nanostructures, and electrical conductivity with oxidative stability.
1060 nm VCSEL for up to 40 Gbit/s data transmission (2016)

A GaAs-based 1060 nm VCSEL with strained InGaAs/GaAsP QWs, doped DBRs, a short optical cavity, and multiple oxide apertures is presented. Modulation up to 40 Gbit/s at 25°C and 30 Gbit/s at 85°C is demonstrated.
Hypoxia-Selective Antitumor Agents. 10. Bis(nitroimidazoles) and Related Bis(nitroheterocycles): Development of Derivatives with Higher Rates of Metabolic Activation under Hypoxia and Improved Aqueous Solubility (1995)

A series of analogues of the previously described compound N-[2-(2-methyl-5-nitroimidazol-1H-yl)ethyl]-4-(2-nitroimidazol- 1H-yl)butanamide (4), a novel hypoxic cell cytotoxin and radiosensitizer, have been prepared and evaluated for hypoxia-selective cytotoxicity and hypoxic cell radiosensitization in vitro. The new derivatives were designed to overcome the low aqueous solubility of 4 and its slow kinetics of killing under hypoxia. The nitroheterocycle unit had a significant effect on solubility, with 3-nitrotriazoles being about 6-fold more soluble than the corresponding 2-nitroimidazoles. Analogues with a range of neutral linker chains (polyhydroxy, alkanesulfonamide, and bisamide) showed only slightly improved solubility and were unable to be fully evaluated. However, a series of analogues with cationic amine linkers had adequate aqueous solubility (up to 280 mM). The amine analogues could not be prepared by direct reduction of precursor amides such as 4 and were most conveniently synthesized by aza-Wittig condensation of the appropriate azide and aldehyde components. The amine-linked compounds were more cytotoxic than 4, with the symmetrical bis(2-nitroimidazole) derivatives (13 and 14) up to 9-fold more potent. They showed hypoxic selectivities comparable to that of 4 (ca. 200-fold) but had much more rapid kinetics of killing under hypoxia, resulting in high hypoxic selectivity at early times in culture. The nature of the mechanism of cytotoxicity of these compounds remains unclear but appears not to be DNA cross-linking, with the compounds showing a lack of hypersensitivity toward repair-deficient UV4 cells. The enhanced solubility and hypoxia-selective cytotoxicity (at early times) of 13 compared with 4 represent significant potential advantages.
An efficient software transactional memory using commit-time invalidation (2010)

To improve the performance of transactional memory (TM), researchers have found many eager and lazy optimizations for conflict detection, the process of determining if transactions can commit. Despite these optimizations, nearly all TMs perform one aspect of lazy conflict detection in the same manner to preserve serializability. That is, they perform commit-time validation, where a transaction is checked for conflicts with previously committed transactions during its commit phase. While commit-time validation is efficient for workloads that exhibit limited contention, it can limit transaction throughput for contending workloads.
Growing Evidence against Global Infection-Driven by Person-to-Person Transfer of COVID-19 (2020)

Examining a sample of still unfolding epidemiological data relating to the world-wide epidemic of Covid-19, we conclude that a connection with an atmospheric in fall appears increasingly probable.
“Super-active surveillance”: MRI ultrasound fusion biopsy and ablation for less invasive management of prostate cancer (2018)

Multiparametric magnetic resonance imaging (mpMRI) of the prostate has allowed clinicians to better visualize and target suspicious lesions during biopsy. Targeted prostate biopsies give a more accurate representation of the true cancer volume and stage so that appropriate treatment or active surveillance can be selected. Advances in technology have led to the development of MRI and ultrasound fusion platforms used for targeted biopsies, monitoring cancer progression, and more recently for the application of focal therapy. Lesions visualized on mpMRI can be targeted for ablation with a variety of energy sources employed under both local and general anesthesia. Focal ablation may offer an alternative option for treating prostate cancer as compared to the well-established interventions of whole-gland radiation or prostatectomy. Focal ablation may also be an option for patients on active surveillance who wish to be even more "active" in their surveillance. In this review, we describe the advancements and development of fusion biopsies, the rationale behind focal therapy, and introduce focal ablative techniques for indolent prostate cancers ("super-active surveillance"), including cryoablation and focal laser ablation (FLA) and the subsequent MRI/biopsy surveillance.
Type I interferon responses to ischemic injury begin in the bone marrow of mice and humans and depend on Tet2, Nrf2, and Irf3 (2019)

Abstract Sterile tissue injury locally activates innate immune responses via interactions with damage associated molecular patterns (DAMPs). Here, by analyzing ∼120K single cell transcriptomes after myocardial infarction (MI) in mice and humans, we show neutrophil and monocyte subsets induce type I interferon (IFN) stimulated genes (ISGs) in myeloid progenitors of the bone marrow, far from the site of injury. In patients with acute MI, peripheral blood neutrophils and monocytes express ISGs at levels far beyond healthy individuals and comparable to patients with lupus. In the bone marrow of Tet2 -/- mice, ISGs are spontaneously induced in myeloid progenitors and their progeny. In the heart, IFN responses are negatively regulated by Ccr2- resident macrophages in a Nrf2-dependent fashion. Our results show post-MI IFN signaling begins in the bone marrow, implicate multiple transcription factors in its regulation (Tet2, Irf3, Nrf2), and provide a clinical biomarker (ISG score) for studying post-MI IFN signaling in patients.
Fog Resource Provisioning in Reliability-Aware IoT Networks (2019)

To provide a better quality of service (QoS), cloud computing paradigm in Internet of Things (IoT) networks has shifted toward the edge. Fog-aided IoT networks deploy fog nodes, which are equipped with computing and storage resources, at the network edge to take over the deadline-driven computing tasks from IoT devices. In the fog node, where multiple virtual machines (VMs) can be rented to process the tasks, fog provisioning is to determine which VM should be rented and how to distribute different tasks to VMs in order to minimize the system cost (i.e., VM rentals). On the other hand, VMs may fail and lead to QoS degradation. Hence, reliability of VMs should also be considered when addressing the fog resource provisioning problem. To improve reliability, more VMs should be rented to satisfy the QoS requirement; this leads to higher system cost. Therefore, there is a tradeoff between reliability and the system cost. In this paper, we investigate the tradeoff of maximizing the reliability and minimizing the system cost for fog resource provisioning in IoT networks. An integer linear programming (ILP) problem is formulated but suffers from a high computational complexity. We then design an alternative algorithm to achieve suboptimal solutions with better time efficiency. The simulation results demonstrate the performances of our proposed algorithm.
Chromosome 9p21 Single Nucleotide Polymorphisms Are Not Associated With Recurrent Myocardial Infarction in Patients With Established Coronary Artery Disease (2012)

9p21 SNPs were not associated with recurrent MI, revascularization, or mortality after ACS or CABG. Individuals with the rs1333049 C allele, however, may present with earlier and more extensive disease.
Recipe Recording by Duplicating and Editing Standard Recipe (2022)

The best way to ascertain the exact nutritional value of a user's food intake is to have the user record the recipe for that food himself/herself. However, writing a recipe from scratch is tedious and impractical. Therefore, we proposed a method that allows users to write their own recipe in a short time by duplicating and editing a standard recipe. We developed a smartphone application and conducted an experiment in which 19 participants were asked to write their own recipes for about 10 food items each. The results showed that the duplication method took 74% of the time compared to writing a recipe from scratch. The number of editing operations was also reduced to 45%. Future work is to construct a dataset of standard recipes that can be rewritten with little editing cost for any person's recipe.
MOSFET modeling for RF-circuit simulation (2005)

Under radio-frequency operation of MOSFETs, not only conventional 1-V characteristics and their derivatives but also higher-order phenomena have to be modeled accurately for reliable circuit performance prediction. To reproduce such critical device characteristics model development tends to follow device physics as much as possible. The surface-potential distribution, which is the origin of all device features, is the key modeling quantity and leads to straightforward description accurate even for higher-order phenomena. This is demonstrated with the circuit simulation model HiSIM for the cases of noise modeling, small-signal analysis as well as large-signal analysis.
An Improved Non-chromatographic Scale-up Synthesis of a New 1,6,7,8-Substituted-4-oxo-1,4-dihydroquinoline-3-carboxylic Acid as a Potent Bacterial Topoisomerase Inhibitor (2010)

7-[4-(2-Amino-1-chloroethylidene)piperidin-1-yl]-1-cyclopropyl-6-fluoro-8-methoxy-4- oxo-1,4-dihydroquinoline-3-carboxylic acid (10) is a potent bacterial topoisomerase inhibitor. In vitro, compoun...
Auranofin exerts broad-spectrum bactericidal activities by targeting thiol-redox homeostasis (2015)

Infections caused by antibiotic-resistant bacteria are a rising public health threat and make the identification of new antibiotics a priority. From a cell-based screen for bactericidal compounds against Mycobacterium tuberculosis under nutrient-deprivation conditions we identified auranofin, an orally bioavailable FDA-approved antirheumatic drug, as having potent bactericidal activities against both replicating and nonreplicating M. tuberculosis. We also found that auranofin is active against other Gram-positive bacteria, including Bacillus subtilis and Enterococcus faecalis, and drug-sensitive and drug-resistant strains of Enterococcus faecium and Staphylococcus aureus. Our biochemical studies showed that auranofin inhibits the bacterial thioredoxin reductase, a protein essential in many Gram-positive bacteria for maintaining the thiol-redox balance and protecting against reactive oxidative species. Auranofin decreases the reducing capacity of target bacteria, thereby sensitizing them to oxidative stress. Finally, auranofin was efficacious in a murine model of methicillin-resistant S. aureus infection. These results suggest that the thioredoxin-mediated redox cascade of Gram-positive pathogens is a valid target for the development of antibacterial drugs, and that the existing clinical agent auranofin may be repurposed to aid in the treatment of several important antibiotic-resistant pathogens.
Structural fluctuation of metal clusters under the electron beam irradiation. (1987)

The gold clusters, less than 50 A in diameter, became structurally unstable under the electron beam irradiation (105 electrons/A2. sec) and continually changed their shapes; single, twinned and multiply-twinned crystals. Two possibilities for causing the instability can be thought; specimen temperature rise or surface charging due to secondary electron emission. Electron microscope observation utilizing a fine-focused electron beam favors to the surface charging effect. Reorganization of atoms in the clusters, often undergoing in the twin deformation, was caused by a shear stress due to a coulomb force arising from the positive surface charges.
Apt-clean: Aptamer-mediated cleavage of extracellular antigen, a new strategy for the inhibition of membrane protein functions (2022)

Recently, targeted protein degradation (TPD) has attracted much attention as a powerful strategy for effective inhibition of disease-related proteins. However, development of ligands with high affinity and specificity for a target protein is still a demanding task and poses a particular challenge for designing TPD therapeutics. In this work, we report a novel TPD strategy called aptamer-mediated cleavage of extracellular antigen (Apt-clean), where oligonucleotide-based affinity agents are used for selective recruitment of proteases to target membrane proteins. Our data demonstrate that Apt-clean induces selective degradation of the target protein both in vitro and in cellulo. In addition, potential of Apt-clean was demonstrated through the inhibition of a tumor-related growth factor signaling. This novel TPD modality may serve as an efficient and flexible strategy for targeting membrane proteins.
Effects of WER on ASR Correction Interfaces for Mobile Text Entry (2019)

Speech is increasingly being used as a method for text entry, especially on commercial mobile devices such as smartphones. While automatic speech recognition has seen great advances, factors like acoustic noise, differences in language or accents can affect the accuracy of speech dictation for mobile text entry. There has been some research on interfaces that enable users to intervene in the process, by correcting speech recognition errors. However, there is currently little research that investigates the effect of Automatic Speech Recognition (ASR) metrics, such as word error rate, on human performance and usability of speech recognition correction interfaces for mobile devices. This research explores how word error rates affect the usability and usefulness of touch-based speech recognition correction interfaces in the context of mobile device text entry.
Swelling Pressure Observations on Degrading Dex-HEMA Hydrogels (2002)

The variation of the swelling pressure of dextran hydroxyethyl methacrylate (dex-HEMA) hydrogels is determined as a function of the degradation time. In the first stage of the degradation process a moderate increase in the swelling pressure is observed due to the decrease of the elastic pressure. In this period the cross-link density of the polymer network gradually decreases, but only a small amount of free polymer (dextran) is released. Toward the end of the degradation process, however, a sudden increase in the swelling pressure occurs which is accompanied by the release of a major amount of dextran chains. It is demonstrated that the chemical composition of the network (dex-HEMA content and the number of HEMA groups on the dextran chains) strongly affects the degradation rate of dex-HEMA hydrogels. These observations are important to design degrading hydrogel systems with tailored swelling pressure profile for pulsed drug delivery.
A component of the transcriptional mediator complex inhibits RAS-dependent vulval fate specification inC. elegans (2002)

Negative regulation of receptor tyrosine kinase (RTK)/RAS signaling pathways is important for normal development and the prevention of disease in humans. We have used a genetic screen in C. elegans to identify genes that antagonize the activity of activated LET-23, a member of the EGFR family of RTKs. We identified two loss-of-function mutations in dpy-22, previously cloned as sop-1, that promote the ability of activated LET-23 to induce ectopic vulval fates. DPY-22 is a glutamine-rich protein that is most similar to human TRAP230, a component of a transcriptional mediator complex. DPY-22 has previously been shown to regulate WNT responses through inhibition of the beta-catenin-like protein BAR-1. We provide evidence that DPY-22 also inhibits RAS-dependent vulval fate specification independently of BAR-1, and probably regulates the activities of multiple transcription factors during development. Furthermore, we demonstrate that although inhibition of BAR-1-dependent gene expression has been shown to require the C-terminal glutamine-rich region, this region is dispensable for inhibition of RAS-dependent cell differentiation. Thus, the glutamine-rich region contributes to specificity of this class of mediator protein.
Analysis of MRI antenna loaded by an elliptical subject (1995)

Abstract Previously, the authors developed a computer code for obtaining the current distribution on the MRI antenna loaded by a man model with an arbitrary geometry and material properties by incorporating the impedance method into Richmond's method. By this method, the relation between the position of the feeding point and the sensitivity of the 1.5 T‐MRI antenna loaded by an elliptic cylindrical subject is discussed theoretically. It is found that the sensitivity of the antenna fed at the angle of 45 degrees measured from the minor axis of the ellipsoid of the subject is different from that of the antenna fed at the angle of ‐ 45 degrees because the elliptic polarization is produced inside the antenna.