gebhart/patrepeval huggingface dataset:
Bifunctional Chloroplastic DJ-1B from Arabidopsis thaliana is an Oxidation-Robust Holdase and a Glyoxalase Sensitive to H2O2 (2019)

Members of the DJ-1 protein family are multifunctional enzymes whose loss increases the susceptibility of the cell to oxidative stress. However, little is known about the function of the plant DJ-1 homologs. Therefore, we analyzed the effect of oxidation on the structure and function of chloroplastic AtDJ-1B and studied the phenotype of T-DNA lines lacking the protein. In vitro oxidation of AtDJ-1B with H₂O₂ lowers its glyoxalase activity, but has no effect on its holdase chaperone function. Remarkably, upon oxidation, the thermostability of AtDJ-1B increases with no significant alteration of the overall secondary structure. Moreover, we found that <i>AtDJ-1B</i> transcript levels are invariable, and loss of AtDJ-1B does not affect plant viability, growth and stress response. All in all, two discrete functions of AtDJ-1B respond differently to H₂O₂, and AtDJ-1B is not essential for plant development under stress.
Injected Magnetic Compression Experiment (1961)

Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter Facebook Reddit LinkedIn Tools Icon Tools Reprints and Permissions Cite Icon Cite Search Site Citation E. M. Little, J. Marshall, W. E. Quinn, T. F. Stratton; Injected Magnetic Compression Experiment. Phys. Fluids 1 December 1961; 4 (12): 1570–1571. https://doi.org/10.1063/1.1706319 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAIP Publishing PortfolioPhysics of Fluids (PFL) Search Advanced Search |Citation Search
Fluorous Silyl Protecting Group for 5′‐Hydroxyl Protection of Oligonucleosides. (2005)

Abstract For Abstract see ChemInform Abstract in Full Text.
Milk and Dairy Products in the 21st Century Prepared for the 50th Anniversary of the Journal of Agricultural and Food Chemistry (2002)

Dairying into the 21st century will largely continue with the trends seen in the past few decades, although there is always the possibility of an unlikely but disruptive event. The politics of globalization will potentially be important in freeing up global trade in dairy products. Production on the farm will become increasingly efficient, resulting in continuing price benefits to the consumer. At the same time, increasing attention will be paid by the consumer, producer, and manufacturer to safety and quality issues. Environmental concerns will increase in importance, and the issue of methane production may be important for the industry over the next two decades. It is unlikely that genetically modified milk will be introduced soon, even if public acceptance ceases to be an issue; however, the use of genetic markers for accelerated genetic improvement of cows will have rapidly increasing importance. Despite increasing pressure from nonmilk alternatives, milk and dairy will still be the best sources of nutrition for the young and for traditional dairy products. Consumer concerns will be of overriding importance for the industry, and the safety of dairy foods must become absolute. Recent advances in the chemical, physical, and information sciences and technologies will be utilized to gain greater understanding of the increasingly complex food systems and to support the consumer objectives.
Metallographic Characterization of Thermal Spray Microstructures (2006)

Extended abstract of a paper presented at Microscopy and Microanalysis 2006 in Chicago, Illinois, USA, July 30 – August 3, 2006
Potential Energy Surface for the Krypton-Acetylene Complex (1995)

1. The Potential Energy Surface of $Ne-C_{2}H_{2}$ from Infrared Spectroscopy and Theory'', R.J. Bemish and R.E. Miller, 49th International Symposium on Molecular Spectrocopy. 2. R.J. Bemish, P.A. Block, L.G. Pedersen, Weitao Yand and R.E. Miller, J. Chem. Phys, 99 (1993), 8585-8598.
Brody Disease: Insights Into Biochemical Features of SERCA1 and Identification of a Novel Mutation (2010)

Brody disease is an inherited disorder of skeletal muscle function characterized by increasing impairment of relaxation during exercise. The autosomal recessive form can be caused by mutations in the ATP2A1 gene, which encodes for the sarcoplasmic/endoplasmic reticulum Ca-ATPase 1 (SERCA1) protein. We studied 2 siblings affected by Brody disease. The patients complained of exercise-induced delay of muscle relaxation and stiffness since childhood and had gene analysis of ATP2A1. Morphologic and biochemical studies were performed on a muscle biopsy from 1 patient. The biopsy showed fiber size variation and increased numbers of fibers with internal nuclei. Ultrastructural examination revealed dilatation of lateral cisternae and proliferation of tubular elements of the sarcoplasmic reticulum. By immunohistochemistry, SERCA1 was expressed in a normal pattern, but sarcoplasmic reticulum Ca-ATPase activity was significantly reduced. Immunoblotting after high-resolution 2-dimensional gel electrophoresis showed a significant difference in the amount of SERCA1 protein between the patient and controls. Both patients were found to have 2 previously unreported in-frame deletions in ATP2A1. Because SERCA1 protein has specific biochemical characteristics in our patient, these results underline the importance of a pathologic and biochemical analyses for the diagnosis. In addition, we describe 2 novel mutations in the ATP2A1 gene.
Catalytic Activity of Aspartate Aminotransferase in the Crystal (1979)

Natural substrates and analogs rapidly diffuse through crystals of pig heart mitochondrial aspartate aminotransferase and react at the active sites causing spectral changes that can be measured by single-crystal microspectrophotometry. Dissociation constants for natural substrates and rate constants of transamination for slowly reacting substrates have been determined. A comparison between the data obtained in the crystal and in solution shows that the crystalline enzyme is catalytically competent and that events occurring in the crystal essentially parallel those occurring in solution, even though minor differences have been detected.
The analysis of batch sojourn-times in polling systems (2017)

textabstractWe consider a cyclic polling system with general service times, general switch-over times, and simultaneous batch arrivals. This means that at an arrival epoch, a batch of customers may arrive simultaneously at the different queues of the system. For the exhaustive service discipline, we study the batch sojourn-time, which is defined as the time from an arrival epoch until service completion of the last customer in the batch. We obtain exact expressions for the Laplace–Stieltjes transform of the steady-state batch sojourn-time distribution, which can be used to determine the moments of the batch sojourn-time and, in particular, its mean. However, we also provide an alternative, more efficient way to determine the mean batch sojourn-time, using mean value analysis. We briefly show how our framework can be applied to other service disciplines: locally gated and globally gated. Finally, we compare the batch sojourn-times for different service disciplines in several numerical examples. Our results show that the best performing service discipline, in terms of minimizing the batch sojourn-time, depends on system characteristics.
Chromosomal instability, tolerance of mitotic errors and multidrug resistance are promoted by tetraploidization in human cells (2015)

Up to 80% of human cancers, in particular solid tumors, contain cells with abnormal chromosomal numbers, or aneuploidy, which is often linked with marked chromosomal instability. Whereas in some tumors the aneuploidy occurs by missegregation of one or a few chromosomes, aneuploidy can also arise during proliferation of inherently unstable tetraploid cells generated by whole genome doubling from diploid cells. Recent findings from cancer genome sequencing projects suggest that nearly 40% of tumors underwent whole genome doubling at some point of tumorigenesis, yet its contribution to cancer phenotypes and benefits for malignant growth remain unclear. Here, we investigated the consequences of a whole genome doubling in both cancerous and non-transformed p53 positive human cells. SNP array analysis and multicolor karyotyping revealed that induced whole-genome doubling led to variable aneuploidy. We found that chromosomal instability (CIN) is a frequent, but not a default outcome of whole genome doubling. The CIN phenotypes were accompanied by increased tolerance to mitotic errors that was mediated by suppression of the p53 signaling. Additionally, the expression of pro-apoptotic factors, such as iASPP and cIAP2, was downregulated. Furthermore, we found that whole genome doubling promotes resistance to a broad spectrum of chemotherapeutic drugs and stimulates anchorage-independent growth even in non-transformed p53-positive human cells. Taken together, whole genome doubling provides multifaceted benefits for malignant growth. Our findings provide new insight why genome-doubling promotes tumorigenesis and correlates with poor survival in cancer.
Copy number polymorphisms near SLC2A9 are associated with serum uric acid concentrations (2014)

This is the first study to characterize CNPs in ARIC and the first genome-wide analysis of CNPs and uric acid. Our findings suggests a novel, non-coding regulatory mechanism for SLC2A9-mediated modulation of serum uric acid, and detail a bioinformatic approach for assessing the contribution of CNPs to heritable traits in large population-based studies where technical sources of variation are substantial.
Phosphorylation of Amyloid-β Peptide at Serine 8 Attenuates Its Clearance via Insulin-degrading and Angiotensin-converting Enzymes (2012)

Accumulation of amyloid-β peptides (Aβ) in the brain is a common pathological feature of Alzheimer disease (AD). Aggregates of Aβ are neurotoxic and appear to be critically involved in the neurodegeneration during AD pathogenesis. Accumulation of Aβ could be caused by increased production, as indicated by several mutations in the amyloid precursor protein or the γ-secretase components presenilin-1 and presenilin-2 that cause familial early-onset AD. However, recent data also indicate a decreased clearance rate of Aβ in AD brains. We recently demonstrated that Aβ undergoes phosphorylation by extracellular or cell surface-localized protein kinase A, leading to increased aggregation. Here, we provide evidence that phosphorylation of monomeric Aβ at Ser-8 also decreases its clearance by microglial cells. By using mass spectrometry, we demonstrate that phosphorylation at Ser-8 inhibited the proteolytic degradation of monomeric Aβ by the insulin-degrading enzyme, a major Aβ-degrading enzyme released from microglial cells. Phosphorylation also decreased the degradation of Aβ by the angiotensin-converting enzyme. In contrast, Aβ degradation by plasmin was largely unaffected by phosphorylation. Thus, phosphorylation of Aβ could play a dual role in Aβ metabolism. It decreases its proteolytic clearance and also promotes its aggregation. The inhibition of extracellular Aβ phosphorylation, stimulation of protease expression and/or their proteolytic activity could be explored to promote Aβ degradation in AD therapy or prevention.
Mitochondria-targeted heme oxygenase-1 decreases oxidative stress in renal epithelial cells (2013)

Mitochondria are both a source and target of the actions of reactive oxygen species and possess a complex system of inter-related antioxidants that control redox signaling and protect against oxidative stress. Interestingly, the antioxidant enzyme heme oxygenase-1 (HO-1) is not present in the mitochondria despite the fact that the organelle is the site of heme synthesis and contains multiple heme proteins. Detoxification of heme is an important protective mechanism since the reaction of heme with hydrogen peroxide generates pro-oxidant ferryl species capable of propagating oxidative stress and ultimately cell death. We therefore hypothesized that a mitochondrially localized HO-1 would be cytoprotective. To test this, we generated a mitochondria-targeted HO-1 cell line by transfecting HEK293 cells with a plasmid construct containing the manganese superoxide dismutase mitochondria leader sequence fused to HO-1 cDNA (Mito-HO-1). Nontargeted HO-1-overexpressing cells were generated by transfecting HO-1 cDNA (HO-1) or empty vector (Vector). Mitochondrial localization of HO-1 with increased HO activity in the mitochondrial fraction of Mito-HO-1 cells was observed, but a significant decrease in the expression of heme-containing proteins occurred in these cells. Both cytosolic HO-1- and Mito-HO-1-expressing cells were protected against hypoxia-dependent cell death and loss of mitochondrial membrane potential, but these effects were more pronounced with Mito-HO-1. Furthermore, decrement in production of tricarboxylic acid cycle intermediates following hypoxia was significantly mitigated in Mito-HO-1 cells. These data suggest that specific mitochondrially targeted HO-1 under acute pathological conditions may have beneficial effects, but the selective advantage of long-term expression is constrained by a negative impact on the synthesis of heme-containing mitochondrial proteins.
Supplementary Table S1 from Impact of RNA Signatures on pCR and Survival after 12-Week Neoadjuvant Pertuzumab plus Trastuzumab with or without Paclitaxel in the WSG-ADAPT HER2<sup>+</sup>/HR<sup>−</sup> Trial (2023)

&lt;p&gt;Supplementary Table 1 lists genes comprising the RNA expression signatures measured with the BC360 panel&lt;/p&gt;
Metastatic renal cell carcinoma to the temporal bone: case report. (2005)

We report an extremely rare case of metastasic renal cell carcinoma to the temporal bone which presented initially as a jugulotympanic paraganglioma. The clinical and radiological appearances were misleading.Investigations of concomitant high blood pressure revealed a tumour of the right kidney. Biopsy of the mastoid mass was histologically compatible with a metastasis from a clear cell renal carcinoma. The patient underwent a radical nephrectomy and local external radiotherapy to the head. He also received adjuvant treatment with interferon-_ and interleukin 2. The clinical presentation, the radiological and histological features, the patterns of spread, the treatment options and the prognosis of these tumours are discussed. A review of the literature confirms the extremely unusual occurrence of this localisation.
Waveguide dye laser amplifier (1973)

A single-stage flash-lamp-pumped waveguide dye laser amplifier is presented. A Pyrex cylindrical dye cell filled with a rhodamine 6G solution in ethanol acts as an active hollow dielectric waveguide for the light to be amplified. Over-all efficiency and absolute energy gain are about one order of magnitude larger than for a conventional single-pass dye laser amplifier. Such a device can be conveniently used when inserted, with suitable couplers, in an optical waveguide system.
p16INK4a reporter mice reveal age-promoting effects of environmental toxicants (2013)

While murine-based systems to identify cancer-promoting agents (carcinogens) are established, models to identify compounds that promote aging (gerontogens) have not been described. For this purpose, we exploited the transcription of p16INK4a, which rises dynamically with aging and correlates with age-associated disease. Activation of p16INK4a was visualized in vivo using a murine strain that harbors a knockin of the luciferase gene into the Cdkn2a locus (p16LUC mice). We exposed p16LUC mice to candidate gerontogens, including arsenic, high-fat diet, UV light, and cigarette smoke and serially imaged animals to monitor senescence induction. We show that exposure to a high-fat diet did not accelerate p16INK4a expression, whereas arsenic modestly augmented, and cigarette smoke and UV light potently augmented, activation of p16INK4a-mediated senescence. This work provides a toxicological platform to study mammalian aging and suggests agents that directly damage DNA promote molecular aging.
Study on initiation of human lung carcinogenesis. (1994)

Cigarette smoking condensate and diethylnitrosamine can initiate human lung carcinogenesis as they are able to induce precancerous lesions of bronchioles and the transforming ability of human fetal lung (HFL) DNA. The induction of precancerous lesions in HFL and the acquirement of the transforming ability of HFL DNA by short-term exposure to carcinogens can be combined to yield an ideal model for the initiation of human lung carcinogenesis.
Enhanced optical properties of InP nanowires by conformal polymer coating (2019)

We report enhanced photonic effects on InP nanowires (NWs) upon conformal coating with parylene-C polymer. The InP NWs were grown and measured on transparent glass substrates, which allows the study of light transmission, reflectance and absorption. The conformal coating strongly affected the interaction between the nanowires and light. The photoluminescence (PL) intensity was increased by a factor of ~7 with 50-200 nm thick parylene-C coating on nominally 40 nm thick NWs. Similar carrier lifetimes were obtained for coated and uncoated NWs in time-resolved PL measurements, which points towards absent surface passivation. Therefore, the PL intensity enhancement is likely due to photonic effects. Investigation on reflectance, transmission and absorption revealed that the conformal polymer coating greatly increased diffuse reflection and decreased transmission. The presented results expand the knowledge and available tools for light management in NW ensembles, and thus pave way for advances in NW-based photonic and optoelectronic components.
Laser potencial of calcium aluminate glasses (2018)

Rare-earth activated calcium aluminate glasses were analyzed as potential laser materials for mid-infrared lasers. Spectroscopic properties of Tm and Ho in deeply dehydrated glasses were found attractive for fiber lasers emitting in 2-2.5 microns spectral range. Optical fiber with calcium aluminate core in silicate cladding was fabricated.
Mixed Rickettsia-virus infection in Dermacentor reticulatus imago. (1991)

Electron microscopic examination revealed replication and accumulation of Rickettsia sibirica in the fat body of experimentally infected Dermacentor reticulatus ticks. Rickettsia are released from the fat body cells by budding being surrounded with cytoplasm and plasmalemma of the host cell. Eukaryotic cell structures have been detected consisting of lamella layers whirled around the intact rickettsiae. In addition to rickettsia, microorganisms morphologically resembling Francisella tularensis and an orbivirus were found in tick tissues at morphological examination. The morphology of the virus and stages of its morphogenesis are described. Mixed viral and rickettsial infection has been shown to develop in the same ticks and even in the same fat body cells in a very close association.
Capacity Analysis of Adaptive IRS-Aided Transmission with Direct Link in Nakagami-m Fading Channels (2023)

&lt;p&gt; This paper introduces a new analytical framework to evaluate the capacity of intelligent reconfigurable surface (IRS)-aided wireless networks in the presence of a direct link (DL). The obtained analysis is used to characterize the signal-to-noise ratio (SNR) at the user equipment (UE) while using adaptive power and rate transmission. In particular, we consider the channel inversion with a fixed rate, optimum power and rate adaptation, and the truncated channel inversion with a fixed rate. The obtained expressions are derived in a unified closed-form. All the single-hop channel gains are modeled as independent and identically distributed Nakagami-m fading channels. Consequently, the channels’ gains at the receiver become independent and non-identically distributed. The moment generating function (MGF) is used to derive an accurate approximation of the probability density and cumulative distribution functions of the instantaneous SNR, which are used to evaluate the channel capacity at low and high SNRs to quantify the achievable multiplexing gain. The obtained analytical and simulation results indicated that a strong DL may significantly enhance the channel capacity gain obtained using the IRS. In particular scenarios, the capacity improved by about 30% for a large number of IRS elements when the DL Nakagami fading parameter m is increased from 2 to 6. &lt;/p&gt;
On Two Problems Reducible to Topological Sorting (1984)

Generating permutations satisfying a U-D sequence, or having a given number of runs are shown to be restricted permutation problems which can be reduced to topological sorting. Algorithms for generating the solution sets of such problems are outlined.
An Integrated Network Management System for Multi-Vendor Power Line Communication Networks (2008)

Power line communication (PLC) is an evolving communication network technology using pre-installed power lines, which provides the electricity to the household or the building, in order to provide services such as Internet access, Automatic Meter Reading (AMR) and home networking. As PLC networks and their applications grow with the advances in PLC technologies, we need to efficiently manage the resources of PLC networks. Currently, major PLC chipset and modem vendors are trying to provide network management capabilities in their devices by defining their own private management information base (MIB). However, it is insufficient to manage PLC networks comprised of multi-vendor PLC devices using a proprietary MIB. In this paper, we present our work on integrated network management of multi-vendor PLC networks. Particularly, we have focused on two aspects: 1) defining a common PLC MIB, the common management information for all types of PLC devices and 2) providing Integrated PLC Management System (IPMS). Our work can be used as a guideline for an international standardization for PLC network management.
Non-Union of the Scaphoid. Treatment with Cannulated Screws Compared with Treatment with Herbert Screws* (1996)

We retrospectively reviewed the results for thirty-four patients in whom a non-union of the scaphoid had been treated with bone-grafting and internal fixation with use of one of two types of screws as well as the temporary placement of Kirschner wires parallel to the screw to prevent rotation. The patients were divided into two groups: Group 1 contained sixteen patients who had been managed with a Herbert screw from 1986 through 1989 and Group 2, eighteen patients who had been managed with a 3.5-millimeter cannulated AO/ASIF screw from 1990 through 1992. There were no clinical or radiographic differences between the two groups. The time to union, confirmed with tomography, was 7.6 +/- 3.6 months for Group 1 and 3.6 +/- 1.2 months for Group 2. This difference was significant (p < 0.01). Both screws significantly improved the alignment of the scaphoid and decreased carpal collapse (p < 0.05). Regardless of the type of screw used, the time to union was significantly shorter when the screw had been placed in the central one-third of the scaphoid (p < 0.05). Seventeen of the eighteen cannulated screws had been placed centrally, compared with seven of the sixteen Herbert screws (p < 0.01).