gebhart/patrepeval huggingface dataset:
Levels of 5,6-dihydrouridine in relaxed and chloramphenicol transfer ribonucleic acid (1970)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTLevels of 5,6-dihydrouridine in relaxed and chloramphenicol transfer ribonucleic acidMyron Jacobson and Charles HedgcothCite this: Biochemistry 1970, 9, 12, 2513–2519Publication Date (Print):June 9, 1970Publication History Published online1 May 2002Published inissue 9 June 1970https://pubs.acs.org/doi/10.1021/bi00814a018https://doi.org/10.1021/bi00814a018research-articleACS PublicationsRequest reuse permissionsArticle Views26Altmetric-Citations16LEARN 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-Alertsclose Get e-Alerts
Convergent routes to substituted naphthylamides (2014)

Practical, convergent routes to variously substituted 1- and 2-naphthylamides have been developed. They exploit the ability of xanthates to undergo both intermolecular radical additions to vinyl pivalate and intramolecular radical cyclisations to aromatic rings. In the case of 1-naphthylamides, the existence of an intramolecular hydrogen bond was used to facilitate the cyclisation step.
ICOPE-15-1027 Residual Stress Improvement of Nickel Base Superalloy Alloy 706 by Laser Peening (2015)

Some cracks were found at the first stage discs of gas turbine rotors made of Ni-base superalloy. There were inter-granular cracking and observed to be highly stressed and damage sensitive locations with less potential for oxidation, which is thought to occur due to hold-time cracking. In this study, laser peening technology for gas turbine components was developed to improve material properties of Ni-base superalloy Alloy 706, and the effects on the material properties were examined. Laser peening is a novel process to induce compressive residual stress on material surface by irradiating focused high-power laser pulses. Several durability tests, such as thermal aging treatment test and stress aging test, were performed under thermal power plant operation conditions. The value of residual stress was over -500 MPa after exposed 3000 hours at 500℃. In addition, surface residual stress was almost the same value in case of applied stress was less than 800 MPa at 500 ℃. Therefore, the effectiveness of laser peening treatment under the running temperature was confirmed.
Supp. Figures and Legends from Genetic Mechanisms of Immune Evasion in Colorectal Cancer (2023)

&lt;p&gt;Supplementary Figures S1-S12 (with legends)&lt;/p&gt;
Constitutional Repeating Unit (CRU) (2017)

IUPAC recommendations on source-based nomenclature for single-strand polymers have so far addressed its application mainly to copolymers, non-linear polymers and polymer assemblies, and within generic source-based nomenclature of polymers. In this document, rules are formulated for devising a satisfactory source-based name for a polymer, whether homopolymer or copolymer, which are as clear and rigorous as possible. Thus, the source-based system for naming polymers is presented in a totality that serves as a user-friendly alternative to the structure-based system of polymer nomenclature. In addition, because of their widespread and established use, recommendations for the use of traditional names of polymers are also elaborated.
Chromatic dispersion variation and its effect on high-speed data signals due to structural parameter changes in a high-contrast-grating waveguide (2010)

High-contrast gratings hollow-core waveguides exhibit a low chromatic dispersion (8.6 ps/(nm·km)). High-speed (>100 Gb/s), long-distance (30 m) and low-penalty (&#60;0.2 dB) on-chip data transmission can be achieved.
Topology optimization: a tool for the tailoring of structures and materials (2000)

Is there a systematic way to minimize the weight of car and aeroplane parts? Is there a way to design materials that expand transversely when pulled? To design materials that shrink when heated? To design robots that are so small that they can be mounted on the head of a pin? The answer to all four questions is affirmative; the method that solves the problems is called ‘topology optimization’. This method is based on complex computer calculations. This paper describes the background of the method and shows a number of applications, ranging from the design of materials with ‘exotic’ properties over microscopic robots to the design of large–scale satellite structures.
Motion Integration and Postdiction in Visual Awareness (2000)

In the flash-lag illusion, a flash and a moving object in the same location appear to be offset. A series of psychophysical experiments yields data inconsistent with two previously proposed explanations: motion extrapolation (a predictive model) and latency difference (an online model). We propose an alternative in which visual awareness is neither predictive nor online but is postdictive, so that the percept attributed to the time of the flash is a function of events that happen in the approximately 80 milliseconds after the flash. The results here show how interpolation of the past is the only framework of the three models that provides a unified explanation for the flash-lag phenomenon.
Exploring hydrogen peroxide responsive thiazolidinone-based prodrugs (2015)

A novel approach for developing prodrugs based on masked carboxylic acids is described. Rather than using conventional esterase-based activation, thiazolidinone protecting groups have been identified that can reveal carboxylic acid groups upon activation by hydrogen peroxide. This may prove valuable in the continuing development of prodrug strategies that rely on reactive oxygen species (ROS) as a trigger.
Crystallization of a Supramolecular Coassembly of an Atomically Precise Nanoparticle with a Crown Ether (2019)

We report the crystal structure of a supramolecular coassembly of a red luminescent silver cluster, [Ag29(BDT)12(TPP)4]3– (referred to as Ag29) (BDT, 1,3-benzene dithiol; TPP, triphenyl phosphine), with dibenzo-18-crown-6 (DB18C6). The structure may be viewed as crystallization-induced self-organization of DB18C6 molecules into cage-like hexamers in the interstitial spaces of the lattice of trigonal Ag29 (Ag29T) clusters, which resulted in an anisotropic expansion of the Ag29T lattice along its z-axis. This structure corresponds to a new family of "lattice inclusion" compounds in nanoclusters. Supramolecular forces guide the assembly of the clusters and the crown ethers, which pack into complex hierarchical patterns in their crystal lattice. We identified the effect of such a coassembly on the solid-state luminescence of the cluster. The crystals containing the coassembly were ∼3.5-fold more luminescent than the parent Ag29T crystals. We also used high-resolution electrospray ionization mass spectrometry to get further insights into the nature of the complexation between Ag29 cluster and DB18C6. This study provides a new strategy for designing cluster-assembled functional materials with enhanced properties.
Alternative Splicing of RNA Triplets Is Often Regulated and Accelerates Proteome Evolution (2012)

Thousands of human genes contain introns ending in NAGNAG (N any nucleotide), where both NAGs can function as 39 splice sites, yielding isoforms that differ by inclusion/exclusion of three bases. However, few models exist for how such splicing might be regulated, and some studies have concluded that NAGNAG splicing is purely stochastic and nonfunctional. Here, we used deep RNA-Seq data from 16 human and eight mouse tissues to analyze the regulation and evolution of NAGNAG splicing. Using both biological and technical replicates to estimate false discovery rates, we estimate that at least 25 % of alternatively spliced NAGNAGs undergo tissue-specific regulation in mammals, and alternative splicing of strongly tissue-specific NAGNAGs was 10 times as likely to be conserved between species as was splicing of non-tissuespecific events, implying selective maintenance. Preferential use of the distal NAG was associated with distinct sequence features, including a more distal location of the branch point and presence of a pyrimidine immediately before the first NAG, and alteration of these features in a splicing reporter shifted splicing away from the distal site. Strikingly, alignments of orthologous exons revealed a,15-fold increase in the frequency of three base pair gaps at 39 splice sites relative to nearby exon positions in both mammals and in Drosophila. Alternative splicing of NAGNAGs in human was associated with dramatically increased frequency of exon length changes at orthologous exon boundaries in rodents, and a model involving point mutations that create, destroy, or alter NAGNAGs can explain both the increased frequency and biased codon
Computer Simulation for Molecular Orientation of Vanadyl Phthalocyanine in Epitaxial Form (1995)

Molecular orientation of vanadyl phthalocyanine (VOPc) adsorbed on KBr and KCl was studied by molecular mechanics simulation. A VOPc molecule with an oxygen atom oriented upward with respect to the substrate surface was found to be more stable than that oriented downward. The central vanadium atom preferred to stay on potassium cations rather than on halogen anions, which is contrary to our expectation. The lattices optimized in this study agree well with the experimental results. In the epitaxial form on KBr and KCl, the angle between the [100] axis of the substrates and the molecular axis passing through two bridge-nitrogen atoms was 39° and 45°, respectively. The dovetail molecular packing was observed on KCl, while some voids existed between molecules in the optimized packing on KBr.
Methodology development for three-dimensional MR-guided near infrared spectroscopy of breast tumors (2008)

Combined Magnetic Resonance (MR) and Near Infrared Spectroscopy (NIRS) has been proposed as a unique method to quantify hemodynamics, water content, and cellular size and packing density of breast tumors, as these tissue constituents can be quantified with increased resolution and overlaid on the structural features identified by the MR. However, the choices in how to reconstruct and visualize this information can have a dramatic impact on the feasibility of implementing this modality in the clinic. This is especially true in 3 dimensions, as there is often limited optical sampling of the breast tissue, and methods need to accurately reflect the tissue composition. In this paper, the implementation and display of fully 3D MR image-guided NIRS is outlined and demonstrated using in vivo data from three healthy women and a volunteer undergoing neoadjuvant chemotherapy. Additionally, a display feature presented here scales the transparency of the optical images to the sensitivity of the measurements, providing a logical way to incorporate partial volume sets of optical images onto the MR volume. These concepts are demonstrated with 3D data sets using Volview software online.
Physical, cognitive and mental health outcomes in 1-year survivors of COVID-19-associated ARDS (2021)

We report on the outcome of 114 COVID-19-associated acute respiratory distress syndrome (ARDS) survivors evaluated at 3, 6 and 12 months after intensive care unit discharge with assessment of physical, mental and cognitive impairments. Critical illness polyneuromyopathy was diagnosed in 23 patients (39%). Handgrip dynamometry was 70% predicted at 3 months and significantly improved over time, whereas the 6 min walk test (80% predicted) and severe fatigue (27% of patients) did not. Independence in activities of daily living (ADL) was achieved by 98% at 3 months. Cognitive impairment (28% at 3 months) improved over time, whereas depression, anxiety and post-traumatic stress disorder symptoms, present in 9%, 10% and 4% at 3 months, did not. Normalised health-related quality of life was good. COVID-19-associated ARDS leads to persisting impairment in performance-based measures of physical function, while ADL, cognitive and mental health status, and health-related quality of life may be less impaired. Trial registration number NCT04608994.
Identification of Novel Trophoblast Invasion-Related Genes: Heme Oxygenase-1 Controls Motility via Peroxisome Proliferator-Activated Receptor γ (2008)

Invasion of cytotrophoblasts (CTBs) into uterine tissues is essential for placental development. To identify molecules regulating trophoblast invasion, mRNA signatures of purified villous (CTB, poor invasiveness) and extravillous trophoblasts (EVTs) (high invasiveness) isolated from first trimester human placentae and villous explant cultures, respectively, were compared using GeneChip analyses yielding 991 invasion/migration-related transcripts. Several genes involved in physiological and pathological cell invasion, including A disintegrin and metalloprotease-12, -19, -28, as well as Spondin-2, were up-regulated in EVTs. Pathway prediction analyses identified several functional modules associated with either the invasive or noninvasive trophoblast phenotype. One of the genes that was down-regulated in the invasive mRNA pool, heme oxygenase-1 (HO-1), was selected for functional analyses. Real-time PCR analyses, Western blotting, and immunofluorescence of first trimester placentae and differentiating villous explant cultures demonstrated down-regulation of HO-1 in invasive EVTs as compared with CTBs. Modulation of HO-1 expression in loss-of as well as gain-of function cell models (BeWo and HTR8/SVneo, respectively) demonstrated an inverse relationship of HO-1 expression with trophoblast migration in transwell and wound healing assays. Importantly, HO-1 expression led to an increase in protein levels and activity of the nuclear hormone receptor peroxisome proliferator activated receptor (PPAR) gamma. Pharmacological inhibition of PPARgamma abrogated the inhibitory effects of HO-1 on trophoblast migration. Collectively, our results demonstrate that gene expression profiling of EVTs and CTBs can be used to unravel novel regulators of cell invasion. Accordingly, we identify HO-1 as a negative regulator of trophoblast motility acting via up-regulation of PPARgamma.
Spatiotemporal evolution and inter-patient heterogeneity in primary and recurrent/metastatic head and neck squamous cell carcinoma (2023)

Abstract Head and neck cancer squamous cell carcinomas (HNSCCs) are heterogeneous in terms of origin and aetiology. In addition, there is uncertainty about the spatiotemporal genetic evolution from initial diagnosis to recurrence/metastasis (R/M) after primary treatments and further disease progression following systemic treatment. Changes in the genetic profile have implications on the selection of appropriate treatments for patients, especially in the era of targeted therapies and immunotherapies. Here, we analysed a cohort of 11 HNSCC patients with metachronous R/M, among whom nine had paired primary and R/M samples suitable for next-generation sequencing (multiple R/M samples collected at different time points were available for some of the patients). At the genomic level, the R/M samples shared a fraction of the somatic single nucleotide variants (SNVs) with the index primary tumours, but they also acquired many additional mutations, while losing only a few others. A similar behaviour was also observed when examining the changes of mutational signatures between primary and R/M samples. Overall, R/M appeared thus more genetically diverse than the respective primary tumours. The transcriptomic analysis showed that R/M samples had lower immune cell infiltration and several genes related to immune response were significantly downregulated compared to the primary samples. Our results underline the importance of analysing multiple samples per patient to obtain a more complete picture of the patient’s tumour and advocates a re-biopsy in the event of R/M and treatment failure, in order to select the most appropriate therapeutic strategy.
Microwave based wound healing detection (2002)

The paper describes two different approaches for the detection of wound healing. The state of curing of the wound shall be determined without taking off bandages or stickers. Furthermore the curing state in burried layers of tissue shall be supervised. All curing states have to be detected without direct contact to the injured person in order to avoid pain. One approach is to use a coaxial sensor for the low frequency range from 1 GHz to 20 GHz with its fringing fields to measure a complex reflection coefficient in the skin plane. The other approach measures also a complex reflexion signal but at millimetre wave frequencies (77 and 94 GHz), where the material losses have decreased compared to low frequencies. Based on these parameters, the curing status can be derived.
Staphylococcus aureus Agr and Sar Global Regulators Influence Internalization and Induction of Apoptosis (1998)

Staphylococcus aureus was recently shown to be internalized by and to induce apoptosis in a bovine mammary epithelial cell line, suggesting that these processes could be involved in staphylococcal pathogenesis or persistence. To examine the role of virulence factor regulators during internalization, mutant agr and sar strains of S. aureus were analyzed for their abilities to enter and induce apoptosis in epithelial cells. Like a previously characterized bovine mastitis isolate, the standard laboratory strain, RN6390 (wild type), entered the epithelial cells and subsequently induced apoptosis. In contrast, the mutant strains RN6911 (agr), ALC136 (sar), and ALC135 (agr sar) were internalized by the cultured cells at levels reproducibly greater than that for RN6390 but failed to induce apoptosis. The internalization of S. aureus was affected by growth phase, suggesting a role for agr-regulated surface proteins in this process. Furthermore, the ability to induce apoptosis required metabolically active intracellular bacteria. These data indicate that the ability of S. aureus to enter mammalian cells and induce apoptosis is dependent on factors regulated by Agr and Sar. Since transcriptional control by these global regulators is mediated by quorum-sensing and environmental factors, staphylococci may have the potential to induce several alternative effects on cells from an intracellular environment. A model for the function of the agr locus in the context of internalization, intracellular persistence, and dissemination is proposed.
Autologous Hematopoietic Stem Cell Transplantation for Liver Transplant Recipients With Recurrent Primary Sclerosing Cholangitis: A Pilot Study (2021)

Although operational tolerance occurred following aHSCT, the high morbidity and mortality observed render this specific protocol unsuitable for clinical adoption.
Behavioural and neurophysiological responses of Spodoptera littoralis to azadirachtin and a range of synthetic analogues (1995)

Abstract The antifeedant activity of azadirachtin and 56 azadirachtin analogues, including 22, 23‐dihydroazadirachtin, against larvae of Spodoptera littoralis was investigated using behavioural and electrophysiological bioassays. None of the analogues was as active as azadirachtin, although many showed significant antifeedant activity at high concentrations. The majority of the analogues stimulated a dose‐dependent response from a neurone in the medial styloconic maxillary sensilla which correlated with the behavioural activity. Methylation of the hydroxy substitutions on the azadirachtin molecule usually resulted in a decrease in antifeedant activity, as did the addition of bulky groups to the dihydrofuran ring.
Free‐breathing 2D radial cine MRI with respiratory auto‐calibrated motion correction (RAMCO) (2022)

2D radial cine imaging with RAMCO allows evaluation of left ventricular functional parameters in FB with 100% respiratory efficiency. It eliminates the need for breath-holds, which is especially valuable for patients with no or impaired breath-holding capacity. Validation of the proposed method on patients is warranted.
<title>Algebraic derivations of relative affine structure and applications to 3D reconstruction from 2D views</title> (1994)

We present an algebraic description of relative affine structure -- an invariant structure affinely related to the structure seen from one of the cameras. This algebraic description yields a simple canonical framework that unifies results in projective, affine, and Euclidean structure from motion. We then introduce a method for capturing the redundancy in recovering relative affine structure from a stream of perspective views. We propose a certain decomposition that on one hand involves an optimal projection of the contribution of each point at each frame onto a single bilinear equation; and on the other hand reveals a connection (bilinear) between the homography of an arbitrary plane and the translational component of motion. Given an estimation of the epipoles, which can be computed in a least squares manner for each frame separately, the decomposition equations yield a linear least squares method for solving for scene structure. The main results were applied to a real image sequence for the purpose of 3D reconstruction from 2D views, visual recognition by alignment, and image coding.
Identifying opportunities for automatic remote field cloning (2004)

Optimizing compilers can automatically re-arrange data objects to produce memory reference patterns with better reference locality while retaining correct application semantics. This paper describes a new technique, Remote Field Cloning (RFC), that consists of replicating the value from a field of a remote data object. This replication prevents long jumps in the data references of an application. RFC was motivated by work on cache-conscious re-engineering of algorithms. When hand-crafted into suitable algorithms, RFC produces speedups of up to 40% for a well-know refinement-based pathfinding problem. This paper presents a motivating example and a general problem statement of remote field cloning as an optimization problem. A new algorithm that discovers opportunities for RFC is applied to the SPEC2000 benchmark suite and discovers many such opportunities. However a correlation of the percentage of execution time spent in procedures that contain these opportunities reveals that the expected impact of RFC in the SPEC2000 suite is limited.
Advanced processing steps for high efficiency solar cells based on EFG material (2008)

In the past few years the quality of Edge-defined Film-fed Growth (EFG) material has strongly improved and can now compete with most standard multicrystalline materials. The maximum conversion efficiency of solar cells based on high quality EFG material is at the moment mostly limited by the applied solar cell processing steps. The state-of-the-art high efficiency process at the University of Konstanz (UKN) in combination with some additional processing steps is presented. The latter include hydrogen passivation of bulk defects, texturisation of the front surface by remote SF <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">6</inf> plasma (most samples shown here were textured at IMEC), surface passivation using a silicon oxide / silicon nitride stack and the application of Laser Fired Contacts (LFC). Single additional processing steps are investigated as well as various combinations of additional processing steps.