gebhart/patrepeval huggingface dataset:
The olive DGAT2 gene is developmentally regulated and shares overlapping but distinct expression patterns with DGAT1 (2010)

Diacylglycerol acyltransferases (DGATs) catalyse the final step of the triacylglycerol (TAG) biosynthesis of the Kennedy pathway. Two major gene families have been shown to encode DGATs, DGAT1 (type-1) and DGAT2 (type-2). Both genes encode membrane-bound proteins, with no sequence homology to each other. In this study, the molecular cloning and characterization of a type-2 DGAT cDNA from olive is presented. Southern blot analysis showed that OeDGAT2 is represented by a single copy in the olive genome. Comparative transcriptional analysis revealed that DGAT1 and DGAT2 are developmentally regulated and share an overall overlapping but distinct transcription pattern in various tissues during vegetative growth. DGAT2 is highly expressed in mature or senescing olive tissues. In flowers, the expression of DGAT1 was almost undetectable, while DGAT2 transcripts accumulated at the later stages of both anther and ovary development. Differential gene regulation was also detected in the seed and mesocarp, two drupe compartments that largely differ in their functional roles and mode of lipid accumulation. DGAT1 appears to contribute for most of the TAG deposition in seeds, whereas, in the mesocarp, both DGAT1 and DGAT2 share an overlapping expression pattern. During the last stages of mesocarp growth, when TAGs are still accumulating, strong up-regulation of DGAT2 but a marked decline of DGAT1 transcript levels were detected. The present results show overlapping gene expression for olive DGATs during mesocarp growth, with a more prominent implication of DGAT2 in floral bud development and fruit ripening.
561. Novel Tissue-Specific Regulatory Cassettes Direct High-Level Transgene Expression in Skeletal and Cardiac Muscle (2006)

Top of pageAbstract
Systemic delivery of rAAV6 vectors can achieve efficient transduction of the entire striated musculature, making this an attractive strategy for gene therapy of Duchenne Muscular Dystrophy. However, this delivery method also transduces cells in many non-muscle tissues, which may cause therapeutic problems including toxicity and a transgene-directed immune response. These problems could be avoided by limiting transgene expression through the use of muscle-specific promoters. Unfortunately, the expression levels of such promoters following systemic delivery of rAAV vectors are lower than viral promoters in most skeletal muscles and negligible in cardiac muscle. The goal of this project is to design regulatory cassettes that drive high levels of skeletal and cardiac muscle-specific transgene expression while also being sufficiently short (<800bp) to fit into rAAV vectors containing microdystrophin cDNA (3.8-kb). Our lab has developed a series of muscle-specific regulatory cassettes based on the enhancer and promoter of the murine muscle creatine kinase (MCK) gene. The CK6 cassette, previously thought to be the strongest modification, has higher activity than the wild type cassette in skeletal muscle, but very low activity in cardiac and diaphragm muscle. We have designed new cassettes to increase expression, and their activities have been evaluated in various muscles and non-muscle tissues following systemic delivery of rAAV6 vectors expressing a human placental alkaline phosphatase reporter gene. First, we designed a 570-bp MCK-based cassette, CK7, which exhibited activity levels similar to CK6 in quadriceps, a predominantly fast-twitch muscle, but had significantly higher activity in cardiac muscle, diaphragm, and soleus, a predominantly slow-twitch muscle. To further improve expression, especially in cardiac muscle, we added a 190-bp enhancer from the murine alpha-myosin heavy chain gene (|[alpha]|MHC) to the CK7 cassette to produce MHCK7, a 770-bp cassette that has the highest overall activity. When compared to CK6, the activity of MHCK7 was about 400-fold higher in cardiac muscle and 10-fold higher in soleus, which was equivalent to the activity of the CMV promoter. Staining for AP activity in cross-sections of both muscles revealed strong expression in virtually all fibers. The activity in diaphragm was about 40-fold higher, but was still considerably lower than the CMV promoter, with only about 20% of the fibers staining positive. Finally, the activity in quadriceps muscle was equivalent to CK6. The activity of MHCK7 in kidney, aorta, brain, testes, and intestine was at background levels, while a very slight increase in activity, about 50|[ndash]|200-fold lower than in muscle, was detected in liver, spleen, and lung. Based on these results, the MHCK7 cassette is currently being tested with respect to its capacity for driving microdystrophin expression in mdx mice following intramuscular and systemic injections of rAAV6 vectors.
Elimination of solvents and waste by supercritical carbon dioxide in precision cleaning (1994)

Physiochemical properties of supercritical carbon dioxide make it ideally suited for removing commonly encountered contaminants found in the precision cleaning of optical components, computer parts, and electronic assemblies. Data will be presented on a survey demonstrating the successful removal of cutting and machine oils, silicon oils, body oils and hydraulic fluids from a variety of surfaces with supercritical carbon dioxide to, at, or below precision cleaning standards (less than 10 micrograms of contaminant per square centimeter of surface). Replicate studies were performed in both a small bench-scale unit (10 milliliter cleaning vessel) and in a large-scale unit (60 liter, 14 inch diameter cleaning vessel) showing the ability to scale small experiments to commercial sizes. Applicability of this supercritical fluid cleaning technique to commercial operations was evaluated in the areas of contaminant removal efficiencies, surface interactions, operational costs, and environmental waste reduction/elimination.
2D Zeolite Coatings: Langmuir–Schaefer Deposition of 3 nm Thick MFI Zeolite Nanosheets (2015)

Stable suspensions of zeolite nanosheets (3 nm thick MFI layers) were prepared in ethanol following acid treatment, which partially removed the associated organic structure-directing agent. Nanosheets from these suspensions could then be dispersed at the air-water interface and transferred to silicon wafers using Langmuir-Schaefer deposition. Using layer-by-layer deposition, control on coating thickness was demonstrated. In-plane X-ray diffraction (XRD) revealed that the deposited nanosheets contract upon calcination similar to bulk MFI crystals. Different methods for secondary growth resulted in preferentially oriented thin films of MFI, which had sub-12-nm thickness in certain cases. Upon calcination, there was no contraction detectable by in-plane XRD, indicating well-intergrown MFI films that are strongly attached to the substrate.
Involvement of Jun and Fos proteins in regulating transcriptional activation of the human pi class glutathione S-transferase gene in multidrug-resistant MCF7 breast cancer cells. (1994)

Elevated levels of the human pi class glutathione S-transferase (GSTP1-1) have been implicated in the development of antineoplastic drug resistance. Using GSTP1 promoter deletion constructs we have shown that enhanced GSTP1 transcription (up to 18-fold) is the predominant mechanism responsible for increased GSTP1-1 levels in a multidrug resistant derivative (VCREMS) of the human mammary carcinoma cell line MCF7. Furthermore, disruption of a putative AP-1 response element within the GSTP1 promoter (nucleotides -69 to -63) abrogated GSTP1 transcription in both cell lines. In addition, band shift assays demonstrated binding of a VCREMS nuclear complex to the promoter region C1 (-73 to -54) which could be competed for by a DNA fragment containing a known AP-1 binding site from the human collagenase promoter. However, no such competition was observed for the major MCF7 C1 complex. The role of a Fos-Jun-like complex in regulating GSTP1 transcription in VCREMS cells was further emphasized by the introduction of point mutations within the C1 region which were known to inhibit AP-1 binding and the interaction of antisera raised against human c-Jun and c-Fos with the major C1 complex in VCREMS cells. These studies therefore highlight cell-specific differences in the binding pattern of Jun and Fos proteins to the GSTP1 promoter which are likely to play an important role in regulating transcriptional activation of the GSTP1 gene in drug-resistant breast cancer cells.
The discrete 2-center problem (1997)

Article Free Access Share on The discrete 2-center problem Authors: Pankaj K. Agarwal Center for Geometric Computing, Department of Computer Science, Box 90129, Duke University, Durham, NC Center for Geometric Computing, Department of Computer Science, Box 90129, Duke University, Durham, NCView Profile , Micha Sharir School of Mathematical Sciences, Tel Aviv University, Tel Aviv 69978, Israel and Courant Institute of Mathematical Sciences, New York University, New York, NY School of Mathematical Sciences, Tel Aviv University, Tel Aviv 69978, Israel and Courant Institute of Mathematical Sciences, New York University, New York, NYView Profile , Emo Welzl Institut für Theoretische Informatik, ETH Zürich, CH-8092, Zürich, Switzerland Institut für Theoretische Informatik, ETH Zürich, CH-8092, Zürich, SwitzerlandView Profile Authors Info & Claims SCG '97: Proceedings of the thirteenth annual symposium on Computational geometryAugust 1997 Pages 147–155https://doi.org/10.1145/262839.262921Published:01 August 1997Publication History 17citation328DownloadsMetricsTotal Citations17Total Downloads328Last 12 Months29Last 6 weeks1 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF
Online real‐time locomotive motion transformation based on biomechanical observations (2016)

Abstract In the paper, we present an online real‐time method for automatically transforming a basic locomotive motion to a desired motion of the same type, based on biomechanical results. Given an online request for a motion of a certain type with desired moving speed and turning angle, our method first extracts a basic motion of the same type from a motion graph, and then transforms it to achieve the desired moving speed and turning angle by exploiting the following biomechanical observations: contact‐driven center‐of‐mass control, anticipatory reorientation of upper body segments, moving speed adjustment, and whole‐body leaning. Exploiting these observations, we propose a simple but effective method to add physical and behavioral naturalness to the resulting locomotive motions without preprocessing. Through experiments, we show that our method enables a character to respond agilely to online user commands while efficiently generating walking, jogging, and running motions with a compact motion library. Our method can also deal with certain dynamical motions such as forward roll. Copyright © 2016 John Wiley & Sons, Ltd.
MPLS management using policies (2002)

Multi-protocol label switching (MPLS) is in the process of standardization by the Internet Engineering Task Force (IETF). It is regarded as a technology for traffic engineering and QoS in IP-networks. In this paper, we address the management of MPLS networks, which is crucial for large networks. We decided to follow the IETF Policy Framework approach and extended the common information model (CIM) for policies with MPLS specific classes. MPLS introduces the notion of a label switched path (LSP), possibly covering an entire network, which calls for an extension of the IETF Policy Framework into the direction of network and service management issues. We address this by preparing a three-level policy architecture including managing on device, network, and service level using policies. However, the main focus of the paper is the management of MPLS with network-level policies. We describe a prototypical implementation of a policy-based management system for MPLS, operating on network elements represented in a network simulator.
Rock Blasting Terms and Symbols (1998)

This dictionary represents today the most extensive rock blasting dictionary available and it is therefore a valuable tool and essential for research and writing reports, papers to international journals. Terminology is important in the process of development of a science because it is the language for communication between students, teachers, tech
Progress in geothermal waste treatment biotechnology (1991)

Studies directed at the development of an environmentally acceptable technology for the treatment and disposal of geothermal sludges have shown that a biotechnology based on microbial biochemical processes is technically and economically feasible. Process designs for the emerging biotechnology have to take several variables into consideration. In the present paper some of these variables will be discussed in terms of their effect on the cost and efficiency of potential processes. 7 refs., 4 figs., 4 tabs.
Increased serum soluble IL-15Rα levels in T-cell large granular lymphocyte leukemia (2011)

Large granular lymphocyte (LGL) leukemia is a clonal lymphoproliferative disease of mature T and natural killer cells. The etiology of LGL leukemia is unknown. IL-15 is an inflammatory cytokine that stimulates T and natural killer cells and is critical for their survival and proliferation. IL-15 signals through a heterotrimeric receptor that is composed of a private receptor, IL-15Rα and IL-2/IL-15Rβ and γ(c) shared with IL-2. Using a newly developed assay, we demonstrated increased levels of soluble IL-15Rα in the serum of patients with T-LGL leukemia. Furthermore, IL-15Rα mRNA levels were also up-regulated in the PBMCs of these patients. FACS analysis indicated that IL-15Rα was expressed both on monocytes as well as on some CD8+ leukemic cells of the patients. Interestingly, the mRNA levels of IFN-γ, a known inducer of IL-15Rα, were also up-regulated in patients' PBMCs. Moreover, PBMCs of some T-LGL patients proliferated at higher levels in response to exogenously added IL-15 compared with those of normal donors. In summary, our study demonstrated increased expression of IL-15Rα in T-LGL leukemia. It is conceivable that higher IL-15Rα expression may lower IL-15 response threshold in vivo and, therefore, may contribute to the pathogenesis of the disease.
The 16 T Dipole Development Program for FCC and HE-LHC (2019)

A future circular collider (FCC) with a center-of-mass energy of 100 TeV and a circumference of around 100 km, or an energy upgrade of the LHC (HE-LHC) to 27 TeV require bending magnets providing 16 T in a 50-mm aperture. Several development programs for these magnets, based on Nb <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> Sn technology, are being pursued in Europe and in the U.S. In these programs, cos-theta, block-type, common-coil, and canted-cos-theta magnets are explored; first model magnets are under manufacture; limits on conductor stress levels are studied; and a conductor with enhanced characteristics is developed. This paper summarizes and discusses the status, plans, and preliminary results of these programs.
Integrated Quantum Dot Barcode Smartphone Optical Device for Wireless Multiplexed Diagnosis of Infected Patients (2015)

Inorganic nanoparticles are ideal precursors for engineering barcodes for rapidly detecting diseases. Despite advances in the chemical design of these barcodes, they have not advanced to clinical use because they lack sensitivity and are not cost-effective due to requirement of a large read-out system. Here we combined recent advances in quantum dot barcode technology with smartphones and isothermal amplification to engineer a simple and low-cost chip-based wireless multiplex diagnostic device. We characterized the analytical performance of this device and demonstrated that the device is capable of detecting down to 1000 viral genetic copies per milliliter, and this enabled the diagnosis of patients infected with HIV or hepatitis B. More importantly, the barcoding enabled us to detect multiple infectious pathogens simultaneously, in a single test, in less than 1 h. This multiplexing capability of the device enables the diagnosis of infections that are difficult to differentiate clinically due to common symptoms such as a fever or rash. The integration of quantum dot barcoding technology with a smartphone reader provides a capacity for global surveillance of infectious diseases and the potential to accelerate knowledge exchange transfer of emerging or exigent disease threats with healthcare and military organizations in real time.
ISOLATION AND CHARACTERIZATION OF AMBER SUPPRESSORS IN YEAST (1976)

Nonsense suppressors were obtained in a haploid yeast strain containing eight nutritional mutations, that are assumed to be amber or ochre, and the cyc1-179 amber mutation that has a UAG codon corresponding to position 9 in iso-1-cytochrome c. Previous studies established that the biosynthesis and function of iso-1-cytochrome c is compatible with replacements at position 9 of amino acids having widely different structures (Stewart and Sherman 1972). UV-induced revertants, selected on media requiring the reversion of one or two of the amber nutritional markers, were presumed to contain a suppressor if there was the unselected reversion of at least one other marker. The 1088 suppressors that were isolated could be divided into 78 phenotypic classes. Only 43 suppressors of three classes caused the production of more than 50% of the normal amount of iso-1-cytochrome c in the cyc1-179 strain. Genetic analyses indicated that all of these highly efficient amber suppressors are allelic to one or another of the eight suppressors which cause the insertion of tyrosine at ochre (UAA) codons (Gilmore, Stewart and Sherman 1971). Furthermore, only tyrosine has been identified at position 9 in iso-1-cytochrome c in cyc1-179 strains suppressed with these efficient amber suppressors.
Post colonial: return to sender (1998)

There he is again, waving to us on the flyer for the latest exhibition at the Museum of Sydney. Bungaree's bare footed rehearsals have gone centre stage. The court jester has become king. But let us not confuse art with life or present desires with past intentions: this is a painting by Augustus Earle, an itinerant artist of Empire whose intent, surely, was to parody Bungaree's antics in order to affirm colonialism's moral legitimacy. But the larrikin presence of Bungaree in the poster belies this historical reading. Who then do we side with: Earle or Bungaree? Do we make an historical reading which gives precedence to Earle's intent, or follow our postcolonial intuition which sees, in Earle's parody, Bungaree's parody of colonial ritual?
PAC it up: Towards Pointer Integrity using ARM Pointer Authentication (2019)

Run-time attacks against programs written in memory-unsafe programming languages (e.g., C and C++) remain a prominent threat against computer systems. The prevalence of techniques like return-oriented programming (ROP) in attacking real-world systems has prompted major processor manufacturers to design hardware-based countermeasures against specific classes of run-time attacks. An example is the recently added support for pointer authentication (PA) in the ARMv8-A processor architecture, commonly used in devices like smartphones. PA is a low-cost technique to authenticate pointers so as to resist memory vulnerabilities. It has been shown to enable practical protection against memory vulnerabilities that corrupt return addresses or function pointers. However, so far, PA has received very little attention as a general purpose protection mechanism to harden software against various classes of memory attacks. In this paper, we use PA to build novel defenses against various classes of run-time attacks, including the first PA-based mechanism for data pointer integrity. We present PARTS, an instrumentation framework that integrates our PA-based defenses into the LLVM compiler and the GNU/Linux operating system and show, via systematic evaluation, that PARTS provides better protection than current solutions at a reasonable performance overhead
Limits on lithospheric stress imposed by laboratory experiments (1980)

Laboratory measurements of rock strength provide limiting values of lithospheric stress, provided that one effective principal stress is known. Fracture strengths are too variable to be useful; however, rocks at shallow depth are probably fractured so that frictional strength may apply. A single linear friction law, termed Byerlee's law, holds for all materials except clays, to pressures of more than 1 GPa, to temperatures of 500°C, and over a wide range of strain rates. Byerlee's law, converted to maximum or minimum stress, is a good upper or lower bound to observed in situ stresses to 5 km, for pore pressure hydrostatic or subhydrostatic. Byerlee's law combined with the quartz or olivine flow law provides a maximum stress profile to about 25 or 50 km, respectively. For a temperature gradient of 15°K/km, stress will be close to zero at the surface and at 25 km (quartz) or 50 km (olivine) and reaches a maximum of 600 MPa (quartz) or 1100 MPa (olivine) for hydrostatic pore pressure. Some new permeability studies of crystalline rocks suggest that pore pressure will be low in the absence of a thick argillaceous cover.
Estimation of coronary blood flow by contrast propagation using simulated X-ray angiography (2003)

The estimation of coronary blood flow from simulated X-ray angiograms is presented. It is based on contrast propagation and involves artery segmentation and motion removal. The propagation of contrast material bolus is represented in a parametric image of contrast material concentration as a function of time and distance along the vessel segment, that allows estimation of pulsatile blood flow. The artery sequence is segmented and thinned into their corresponding artery skeletons using morphological operators. Vessels are registered using two successive frames by minimization of deformation measures. The search strategy of optimal matching is realized using dynamic programming. The evaluation on simulated data has been realized on vessels (diameter from 1 to 2 millimeters) with and without stenosis, constant flow and pulsatile flow (around 250 ml/s). The obtained error in the worst case, was less than 2 percent.
Shock Wave Lithotripsy Failures Treated with Endoscopic Laser Lithotripsy (1992)

Although shock wave lithotripsy (SWL) has provided a major treatment modality for urinary calculi, failures may necessitate repeat sessions or other therapeutic modalities. Endoscopy with laser fragmentation has been particularly useful for treating SWL failures with fragments lodged in the ureter. Proximal calculi can be approached with a flexible ureteroscope. In patients with a percutaneous tube in place, a combination of percutaneous and ureteroscopic approaches can be used in dislodge the upper ureteral fragment and further remove it percutaneously. Midureteral Steinstrasse is particularly difficult to treat by other techniques. With flexible ureteroscopy and laser lithotripsy, the fragments can be reduced to allow endoscopic removal. Distal ureteral fragments are broken and removed with small rigid endoscopes and the pulsed-dye laser. The pulsed-dye laser (Pulsolith) used with both rigid and flexible ureteroscopes has been uniformly successful in removing ureteral fragments after SWL failure.