gebhart/patrepeval huggingface dataset:
An Unconventional NLS is Critical for the Nuclear Import of the Influenza A Virus Nucleoprotein and Ribonucleoprotein (2005)

Replication of the RNAs of influenza virus occurs in the nucleus of infected cells. The nucleoprotein (NP) has been shown to be important for the import of the viral RNA into the nucleus and has been proposed to contain at least three different nuclear localization signals (NLSs). Here, an import assay in digitonin-permeabilized cells was used to further define the contribution of these NLSs. Mutation of the unconventional NLS impaired the nuclear import of the NP. A peptide bearing the unconventional NLS could inhibit the nuclear import of the NP in this import assay and prevent the NP-karyopherin alpha interaction in a binding assay confirming the crucial role of this signal. Interestingly, a peptide containing the SV40 T antigen NLS was unable to inhibit the nuclear import of NP or the NP-karyopherin alpha interaction, suggesting that the NP and the SV40 T antigen do not share a common binding site on karyopherin alpha. We also investigated the question of which NLS(s) is/are necessary for the viral ribonucleoprotein complex to enter the nucleus. We found that the peptide containing the unconventional NLS efficiently inhibited the nuclear import of the ribonucleoprotein complexes. This finding suggests that the unconventional NLS is the major signal necessary not only for the nuclear transport of free NP but also for the import of the ribonucleoprotein complexes. Finally, viral replication could be specifically inhibited by a membrane-permeable peptide containing the unconventional NLS, confirming the crucial role of this signal during the replicative cycle of the virus.
Classification of audio signals using spectrogram surfaces and extrinsic distortion measures (2022)

The online version contains supplementary material available at 10.1186/s13634-022-00933-9.
Ag44(SeR)30: A Hollow Cage Silver Cluster with Selenolate Protection (2013)

Selenolate protected, stable and atomically precise, hollow silver cluster was synthesized using solid state as well as solution state routes. The optical absorption spectrum shows multiple and sharp features similar to the thiolated Ag44 cluster, Ag44(SR)30 whose experimental structure was reported recently. High-resolution electrospray ionization mass spectrometry (HRESI MS) shows well-defined molecular ion features with two, three, and four ions with isotopic resolution, due to Ag44(SePh)30. Additional characterization with diverse tools confirmed the composition. The closed-shell 18 electron superatom electronic structure, analogous to Ag44(SR)30 stabilizes the dodecahedral cage with a large HOMO-LUMO gap of 0.71 eV. The time-dependent density functional theory (TDDFT) prediction of the optical absorption spectrum, assuming the Ag44(SR)30 structure, matches the experimental data, confirming the structure.
ChemInform Abstract: COMPLEXES OF NITROGEN‐CONTAINING CROWN ETHER TENSIDES WITH STABLE SILVER ATOMS (1979)

Abstract Der Komplex (Ia) bildet sich spontan, wenn eine wäßrige Lösung des Kronenethers mit äquimolaren Mengen AgNO 3 versetzt wird.
Data from Identification of Epigenetically Silenced Genes in Tumor Endothelial Cells (2023)

&lt;div&gt;Abstract&lt;p&gt;Tumor angiogenesis requires intricate regulation of gene expression in endothelial cells. We recently showed that DNA methyltransferase (DNMT) and histone deacetylase (HDAC) inhibitors directly repress endothelial cell growth and tumor angiogenesis, suggesting that epigenetic modifications mediated by DNMTs and HDAC are involved in regulation of endothelial cell gene expression during tumor angiogenesis. To understand the mechanisms behind the epigenetic regulation of tumor angiogenesis, we used microarray analysis to perform a comprehensive screen to identify genes down-regulated in tumor-conditioned versus quiescent endothelial cells, and reexpressed by 5-aza-2′-deoxycytidine (DAC) and trichostatin A (TSA). Among the 81 genes identified, 77% harbored a promoter CpG island. Validation of mRNA levels of a subset of genes confirmed significant down-regulation in tumor-conditioned endothelial cells and reactivation by treatment with a combination of DAC and TSA, as well as by both compounds separately. Silencing of these genes in tumor-conditioned endothelial cells correlated with promoter histone H3 deacetylation and loss of H3 lysine 4 methylation, but did not involve DNA methylation of promoter CpG islands. For six genes, down-regulation in microdissected human tumor endothelium was confirmed. Functional validation by RNA interference revealed that clusterin, fibrillin 1, and quiescin Q6 are negative regulators of endothelial cell growth and angiogenesis. In summary, our data identify novel angiogenesis-suppressing genes that become silenced in tumor-conditioned endothelial cells in association with promoter histone modifications and reactivated by DNMT and HDAC inhibitors through reversal of these epigenetic modifications, providing a mechanism for epigenetic regulation of tumor angiogenesis. [Cancer Res 2007;67(9):4138–48]&lt;/p&gt;&lt;/div&gt;
Plasmonic Color Filter Array with High Color Purity for CMOS Image Sensors (2019)

We demonstrate the multiband color filtering of a standard RGB color and a complementary CMY color by a plasmonic color filter, composed of concentric corrugated metallic thin film rings. The surface plasmon resonance is excited by the periodic corrugation, and the coupled light is transmitted through the central subwavelength aperture. Color selectivity is achieved not only in the visible but also in the near-infrared (NIR) region. Therefore, simultaneous imaging with visible and NIR can be realized by the integration of plasmonic color filters with sensors. We investigate the angle of incidence dependence of the transmission color selectivity and the color purity of the fabricated plasmonic color filter array.
Supplementary Table 5 from Cancer-Associated Fibroblasts Promote Aggressive Gastric Cancer Phenotypes via Heat Shock Factor 1–Mediated Secretion of Extracellular Vesicles (2023)

&lt;p&gt;Summary of Kaplan-Meier curves from the TCGA cohort&lt;/p&gt;
Introduction to Biocatalysis Using Enzymes and Micro-Organisms (1995)

This is an introductory text intended to give the non-specialist a comprehensive insight into the science of biotransformations. The book traces the history of biotransformations, clearly spells out the pros and cons of conducting enzyme-mediated versus whole-cell bioconversions, and gives a variety of examples wherein the bio-reaction is a key element in a reaction sequence leading from cheap starting materials to valuable end-products (such as pharmaceuticals and agrochemicals, fragrances and flavours). Biotransformations involving the hydrolysis of esters, amides and nitriles, the synthesis of esters and amides, reduction and oxidation reactions and carbon–carbon bond-forming systems are discussed. The book finishes with a discussion of some industrially important large-scale bioconversions
Object detection refinement using Markov random field based pruning and learning based rescoring (2017)

Contextual information such as the co-occurrence of objects and the location of objects has played an important role in object detection. We present candidate pruning and object rescoring methods that leverage contextual information and that can improve the state-of-the-art CNN-based object detection methods such as Fast R-CNN and Faster R-CNN. In our pruning method, we formulate candidate reduction as a Markov random field optimization problem. In our rescoring method, we employ a machine learning technique to reconsider the detection scores of candidate windows. We experimentally demonstrate improvements in R-CNN-based object detection methods using two datasets. Moreover, we apply our model to the structured retrieval task to show the potential applications of our model.
Almost Tune-Free Variance Reduction (2019)

The variance reduction class of algorithms including the representative ones, SVRG and SARAH, have well documented merits for empirical risk minimization problems. However, they require grid search to tune parameters (step size and the number of iterations per inner loop) for optimal performance. This work introduces `almost tune-free' SVRG and SARAH schemes equipped with i) Barzilai-Borwein (BB) step sizes; ii) averaging; and, iii) the inner loop length adjusted to the BB step sizes. In particular, SVRG, SARAH, and their BB variants are first reexamined through an `estimate sequence' lens to enable new averaging methods that tighten their convergence rates theoretically, and improve their performance empirically when the step size or the inner loop length is chosen large. Then a simple yet effective means to adjust the number of iterations per inner loop is developed to enhance the merits of the proposed averaging schemes and BB step sizes. Numerical tests corroborate the proposed methods.
Identification of a 35-Kilodalton Mycobacterium tuberculosis Protein Containing B- and T-Cell Epitopes (2006)

Screening of a Mycobacterium tuberculosis genomic DNA library in the lambda gt11 expression vector was carried out by using, as probes, sera from tuberculous patients and murine monoclonal antibody H61.3 recognizing a mycobacterial 35-kilodalton protein present only on the M. tuberculosis complex. The recombinant beta-galactosidase-fused protein present in the crude lysate induced the proliferation of T lymphocytes from patients with tuberculous pleuritis. As the recombinant insert contains an internal EcoRI restriction site, it was possible to identify two fragments, one proximal to the lacZ gene and 1.7 kilobases (kb) in size and the other distal to the lacZ gene and 2.2 kb in size. Southern blot analysis showed that both of them hybridized with the genomic DNA from M. tuberculosis and M. bovis but not with the DNA from other mycobacterial species. To perform extensive immunological studies, the amount of beta-galactosidase-fused protein being very low, we fused the 1.7-kb fragment to the N-terminal part of the gene coding for the DNA polymerase of bacteriophage MS2 in the expression vector pEx34. The fusion protein was partially purified, and subsequent Western blotting (immunoblotting) and T-cell proliferation experiments confirmed the presence of B- and T-cell mycobacterial epitopes. Furthermore, to isolate the chromosomal region containing the 35-kilodalton gene, we constructed another mycobacterial genomic library in the lambda 2001 vector by cloning 15 to 20 kb of foreign DNA. Screening of this library was carried out by using 1.7- and 2.2-kb recombinant fragments as probes. Restriction maps of some clones isolated were determined.
Direct activation of protein phosphatase-2A0 by HIV-1 encoded protein complex NCp7:vpr (1997)

International audience
Fabrication techniques for very fast diffractive lenses (1993)

Aspheric lenses with arbitrary phase functions can be fabricated on thin light weight substrates via the binary optics fabrication technique. However, it is difficult and costly to fabricate a fast lens (f/number less than 1) for use as the shorter wavelengths. The pitch of the masks and the alignment accuracy must be very fine. For a large lens, the space-bandwidth product of the element can also become impractically large. In this paper, two alternate approaches for the fabrication of fast aspheric diffractive lenses are described. The first approach fabricates the diffractive lens interferometrically, utilizing a spherical wavefront to provide the optical power of the lens and a computer generated hologram to create the aspheric components. The second approach fabricates the aspheric diffractive lens in the form if a higher order kinoform which trades groove profile fidelity for coarser feature size. The design and implementation issues for these two fabrication techniques are discussed.
MAP Transmission Strategies in IEEE 802.16m (2009)

This letter deals with coding and multiplexing strategies for DL/UL MAP transmission in IEEE 802.16m. Separate coding gives a better choice against the joint coding due to the individual users' link adaptation gain. As a multiplexing option, frequency-domain multiplexing outperforms time-domain one in the system-level performance thanks to its flexible power sharing capability between overhead channels and user traffic channels. Overall system-wide performance results are presented with the system level simulation for the various options.
Full Flip, Half Flip and No Flip:Evaluation of Flipping an Introductory Programming Course (2016)

While some research has suggested that video lectures are just as effective as in-person lectures to convey basic information to students, not everyone agrees that the flipped classroom model is an effective way of educating students. This research explores traditional, semi-flipped and fully-flipped classroom models by comparing three sections of an Introduction to Programming (Java) course that were taught at the same institution in Spring 2015 by three different instructors using three different paradigms. The data and observations collected suggests that incorporating in-class activities improves student satisfaction but a semi-flipped classroom, including in-class activities, some outsideclass lecture videos, and some in-class lectures, may generally provide the best overall experience for the students. However, while students may be more satisfied and get more programming practice in a flipped paradigm, overall student performance did not appear to be greatly impacted.
PROMPT: a prospective study to assess efficacy and safety of metyrapone in endogenous Cushing's syndrome (2018)

Searchable abstracts of presentations at key conferences in endocrinology ISSN 1470-3947 (print) | ISSN 1479-6848 (online)
Investigation of Mode Filtering as a Preprocessing Method for Shallow-Water Acoustic Communications (2010)

Acoustical array data from the 2006 Shallow Water Experiment (SW06) was analyzed to show the feasibility of broadband mode decomposition as a preprocessing method to reduce the effective channel delay spread and concentrate received signal energy in a small number of independent channels. The data were collected by a vertical array, which spans the water column from 12-m depth to the bottom in shallow water 80 m in depth. Binary-sequence data were used to phase-shift-keyed (PSK) modulate signals with different carrier frequencies. No error correction coding was used. The received signals were processed by a system that does not use training or pilot signals. Signals received both during periods of ordinary internal wave activity and during a period with unusually strong internal wave solitons were processed and analyzed. Different broadband mode-filtering methods were analyzed and tested. Broadband mode filtering decomposed the received signal into a number of independent signals with a reduced delay spread. The analysis of signals from the output of mode filters shows that even a simple demodulator can achieve a low bit error rate (BER) at a distance 19.2 km.
Dormant conduction in the right ventricular outflow tract unmasked by adenosine in a patient with Brugada syndrome (2021)

Recent data of electrophysiological mapping in patients with Brugada syndrome (BrS) suggest that the presence of an abnormal arrhythmogenic substrate in the epicardial right ventricular outflow tract is responsible for ST-segment elevation and ventricular fibrillation (VF). Complete elimination of the epicardial abnormal potentials normalizes Brugada-pattern electrocardiogram and suppresses VF recurrence. We herein report the first case of BrS in which an injection of adenosine unmasked dormant conduction in the epicardial RVOT after the disappearance of the epicardial potentials.
Neuroprotective Efficacy of a Sigma 2 Receptor/TMEM97 Modulator (DKR-1677) after Traumatic Brain Injury (2018)

Compounds targeting the sigma 2 receptor, which we recently cloned and showed to be identical with transmembrane protein 97 (σ2R/TMEM97), are broadly applicable therapeutic agents currently in clinical trials for imaging in breast cancer and for treatment of Alzheimer's disease and schizophrenia. These promising applications coupled with our previous observation that the σ2R/TMEM97 modulator SAS-0132 has neuroprotective attributes and improves cognition in wild-type mice suggests that modulating σ2R/TMEM97 may also have therapeutic benefits in other neurodegenerative conditions such as traumatic brain injury (TBI). Herein, we report that DKR-1677, a novel derivative of SAS-0132 with increased affinity and selectivity for σ2R/Tmem97 ( K<sub>i</sub> = 5.1 nM), is neuroprotective after blast-induced and controlled cortical impact (CCI) TBI in mice. Specifically, we discovered that treatment with DKR-1677 decreases axonal degeneration after blast-induced TBI and enhances survival of cortical neurons and oligodendrocytes after CCI injury. Furthermore, treatment with DKR-1677 preserves cognition in the Morris water maze after blast TBI. Our results support an increasingly broad role for σ2R/Tmem97 modulation in neuroprotection and suggest a new approach for treating patients suffering from TBI.
Low-frequency and rare exome chip variants associate with fasting glucose and type 2 diabetes susceptibility (2015)

Fasting glucose and insulin are intermediate traits for type 2 diabetes. Here we explore the role of coding variation on these traits by analysis of variants on the HumanExome BeadChip in 60,564 non-diabetic individuals and in 16,491 T2D cases and 81,877 controls. We identify a novel association of a low-frequency nonsynonymous SNV in GLP1R (A316T; rs10305492; MAF=1.4%) with lower FG (β=-0.09±0.01 mmol l(-1), P=3.4 × 10(-12)), T2D risk (OR[95%CI]=0.86[0.76-0.96], P=0.010), early insulin secretion (β=-0.07±0.035 pmolinsulin mmolglucose(-1), P=0.048), but higher 2-h glucose (β=0.16±0.05 mmol l(-1), P=4.3 × 10(-4)). We identify a gene-based association with FG at G6PC2 (pSKAT=6.8 × 10(-6)) driven by four rare protein-coding SNVs (H177Y, Y207S, R283X and S324P). We identify rs651007 (MAF=20%) in the first intron of ABO at the putative promoter of an antisense lncRNA, associating with higher FG (β=0.02±0.004 mmol l(-1), P=1.3 × 10(-8)). Our approach identifies novel coding variant associations and extends the allelic spectrum of variation underlying diabetes-related quantitative traits and T2D susceptibility.
Tungsten nitrene complexes Tp'W(CO)2(NR)+ (R = Ph, tert-Bu) generated from amido complexes Tp'W(CO)2(NHR) (1990)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTTungsten nitrene complexes Tp'W(CO)2(NR)+ (R = Ph, tert-Bu) generated from amido complexes Tp'W(CO)2(NHR)Luan Li, Peter S. White, M. Brookhart, and J. L. TempletonCite this: J. Am. Chem. Soc. 1990, 112, 22, 8190–8192Publication Date (Print):October 1, 1990Publication History Published online1 May 2002Published inissue 1 October 1990https://pubs.acs.org/doi/10.1021/ja00178a067https://doi.org/10.1021/ja00178a067research-articleACS PublicationsRequest reuse permissionsArticle Views228Altmetric-Citations17LEARN 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
Atkamine: A New Pyrroloiminoquinone Scaffold from the Cold Water Aleutian Islands Latrunculia Sponge (2013)

A new pyrroloiminoquinone alkaloid, named atkamine, with an unusual scaffold was discovered from a cold, deep water Alaskan sponge Latrunculia sp. collected from the Aleutian Islands. Olefin metathesis was utilized to determine the location of the double bond in the hydrocarbon chain. The absolute configuration was determined by using computational approaches combing with the ECD (electronic circular dichroism) spectroscopy.
<title>Application of a maximum likelihood algorithm to the detection of targets in synthetic aperture radar (SAR) images</title> (1994)

A detection algorithm was developed using the Maximum Likelihood Adaptive Neural System a neural network that adaptively estimates the probability density functions (pdf) of all classes of objects in the data set. This algorithms was used to detect downed aircraft in a heavy clutter environment in SAR images. In this study the portion of the image under study contains hundreds of thousands of pixels, the pixel statistics are estimated and the pixel having the lowest likelihood is labeled as the target pixel. This is an unsupervised learning approach to the target detection problem because no learning data on the background or the target is used to detect the target. The approach relies on an accurate estimate of the image likelihood function in order to provide a good characterization of the scene. This approach was applied to several images collected in a variety of heavily wooded areas under different environmental conditions with excellent results. This approach was also used to provide insight into the scene phenomenology by associating specific basis functions in each likelihood characterization with particular attributes of the image.
Arthroscopic Latarjet—learning curve, results, and complications (2017)

The Latarjet procedure was developed by the French surgeon Michel Latarjet in 1954 to treat recurrent glenohumeral instability and provides enhanced stability through a triple-blocking mechanism: reconstruction of glenoid bone loss through the coracoid bone block, a “sling-effect” of a lowered subscapularis, and a bumper mechanism through a labral repair. It is typically indicated in cases of significant glenoid bone loss and can also be used effectively in other high-risk patients (young, hyper-lax, contact or competitive sports) or in the revision setting. It has classically been performed through an open approach but since 2007 has also been performed arthroscopically. Multiple grafts can be used (autograft coracoid, autograft iliac crest, allograft) with many modes of fixation (one or two bicortical screws, cortical button, suture anchor, or implant-less). While the arthroscopic procedure is technically demanding and a learning curve has been demonstrated, it can be completed successfully with good union rates and minimal complications in these complex patients. Benefits of the arthroscopic technique generally include decreased bleeding, less post-operative pain, ability to treat concomitant pathology, and better cosmesis. However, the most important benefit to the arthroscopic Latarjet may be the improved intra- and extra-articular visualization, which allows excellent bone graft positioning and protection of neurovascular structures. In this review article, we discuss findings associated with the learning curve, results, and complications of the arthroscopic Latarjet procedure.