gebhart/patrepeval huggingface dataset:
Medical Image Registration Using Thin-Plate Spline for Automatically Detecting and Matching of Point Sets (2011)

This paper presents a non-rigid registration method for medical images by applying thin-plate spline (TPS) transform. The thin-plate spline which has special spline properties has been widely used in non-rigid image registration. TPS transform registration scheme based on landmarks often extracts two sets of landmarks from different images. Corners often represent critical information to describe object features, and they are usually used as landmarks in image registration. The corner detecting method proposed in this paper is performed according to local properties (such as local maxima curvature) and global properties (such as the relationship between neighboring features in the contours). This method can also distinguish obtuse corners from round corners, and obtuse corners are much more valuable and useful for representing the shape of objects. The feature points are matched with coherent point drift method based on probability density estimation. This method can be used in both rigid and non-rigid point set registration. The proposed method is applied in CT and CBCT image registration, and achieves ideal results.
Binding Conformation and Kinetics of Two Pheromone-Binding Proteins from the Gypsy Moth <i>Lymantria dispar</i> with Biological and Nonbiological Ligands (2009)

Pheromone-binding proteins (PBPs) in insects can bind various substances and selectively deliver the message of a signal molecule to the downstream components of the olfactory system. This can be achieved either through a ligand-specific conformational change of the C-terminal peptide of the PBP or by selectively binding/releasing the ligand. PBP may also act as a scavenger to protect the sensory neurons from saturating at high ligand doses. We have compared two PBPs from the gypsy moth (PBP1 and PBP2) and their truncated forms (TPBPs), which lack the C-terminal peptide, in this study. Stopped-flow kinetics with N-phenyl-1-naphthylamine (NPN) have revealed a diffusion-controlled collisional step, between PBP and NPN, after which the NPN relocates into a hydrophobic environment. This work supports the hypothesis that binding between PBPs and ligands occurs stepwise. With the method of tryptophan fluorescence quenching, we have shown different local conformational changes around Trp 37, induced by different ligands, manifested in changes of both the steric and electronic environment around the residue. Importantly, we have noticed a significant difference in the changes induced by the biological ligand (the pheromone) and nonbiological ligands. Therefore, we hypothesize that PBP may serve a different function in each kinetic step, displaying a unique P.L conformation.
Aminooxyacetate is not an adequate differential inhibitor of aspartate aminotransferase isoenzymes. (1977)

Journal Article Aminooxyacetate is not an adequate differential inhibitor of aspartate aminotransferase isoenzymes. Get access R Rej R Rej Search for other works by this author on: Oxford Academic Google Scholar Clinical Chemistry, Volume 23, Issue 8, 1 August 1977, Pages 1508–1509, https://doi.org/10.1093/clinchem/23.8.1508 Published: 01 August 1977
Orthogonality breaking through few-mode optical fiber (2016)

Polarization sensing and imaging through optical fibers is a technological challenge motivated by promising applications for in vivo, in situ polarimetric endoscopy for biomedical diagnosis. Among the recent approaches proposed to solve this issue, the depolarization/dichroism sensing by polarization orthogonality breaking (DSOB) technique was shown to perform remotely through single-mode optical fibers for depolarization/diattenuation measurements. In this article, we investigate the applicability of such a technique in slightly multimode waveguides. Through theoretical modeling and numerical simulations, we evidence the conditions required for the polarization orthogonality to be preserved after propagation in a few-mode fiber, notably in terms of detection geometry of the spatial modes. Original experiments realized in few-mode fibers both in transmission and reflection configurations are also reported and validate the theoretical predictions. These results allow us to analyze the influence of the experimental parameters, such as detection geometry, sample tilt, or fiber length, on orthogonality preservation and on the measurement dynamics of the DSOB technique in slightly multimode waveguides.
CLUE: Achieving Fast Update over Compressed Table for Parallel Lookup with Reduced Dynamic Redundancy (2012)

The sizes of routing table in backbone routers continue to keep a rapid growth and some of them currently increase up to 400K entries [1]. An effective solution to deflate the large table is the routing table compression. Meanwhile, there is an increasingly urgent demand for fast routing update mainly due to the change of network topology and new emerging Internet functionalities. Furthermore, the Internet link transmission speed has scaled up to 100Gbps commercially and towards 400Gbps Ethernet for laboratory experiments, resulting in a raring need of ultra-fast routing lookup. To achieve high performance, backbone routers must gracefully handle the three issues simultaneously: routing table Compression, fast routing Lookup, and fast incremental Update (CLUE), while previous works often only concentrate on one of the three dimensions. To address these issues, we propose a complete set of solutions-CLUE, by improving previous works and adding a novel incremental update mechanism. CLUE consists of three parts: a routing table compression algorithm, an improved parallel lookup mechanism, and a new fast incremental update mechanism. The routing table compression algorithm is based on ONRTC algorithm [2], a base for fast TCAM parallel lookup and fast update of TCAM. The second part is the improvement of the logical caching scheme for dynamic load balancing parallel lookup mechanism [3]. The third one is the conjunction of the trie, TCAM and redundant prefixes update algorithm. We analyze the performance of CLUE by mathematical proof, and draw the conclusion that speedup factor is proportional to the hit rate of redundant prefixes in the worst case, which is also confirmed by experimental results. Large-scale experimental results show that, compared with the mechanism in [3], CLUE only needs about 71% TCAM entries, 4.29% update time, and 3/4 dynamic redundant prefixes for the same throughput when using four TCAMs. In addition, CLUE has another advantage over the mechanism in [3] - the frequent interactions between control plane and data plane caused by redundant prefixes update can be avoided.
The APO*E3-Leiden mouse as an animal model for basal laminar deposit (2000)

These results indicate that APO(*)E3-Leiden mice can be used as animal model for the pathogenesis of BLD, and that a HFC diet enhances the accumulation of this deposit. Furthermore, this study supports the previously suggested involvement of dysfunctional apo-E in the accumulation of extracellular deposits in ARM.
A Lightweight and Privacy-Preserving Authentication Protocol for Mobile Edge Computing (2019)

With the advent of the Internet-of-Things (IoT), vehicular networks and cyber-physical systems, the need for real-time data processing and analysis has emerged as an essential pre-requite for customers' satisfaction. In this direction, Mobile Edge Computing (MEC) provides seamless services with reduced latency, enhanced mobility, and improved location awareness. Since MEC has evolved from Cloud Computing, it inherited numerous security and privacy issues from the latter. Further, decentralized architectures and diversified deployment environments used in MEC platforms also aggravate the problem; causing great concerns for the research fraternity. Thus, in this paper, we propose an efficient and lightweight mutual authentication protocol for MEC environments; based on Elliptic Curve Cryptography (ECC), one-way hash functions and concatenation operations. The designed protocol also leverages the advantages of discrete logarithm problems, computational Diffie- Hellman, random numbers and time-stamps to resist various attacks namely-impersonation attacks, replay attacks, man-in-the-middle attacks, etc. The paper also presents a comparative assessment of the proposed scheme relative to the current state-of-the-art schemes. The obtained results demonstrate that the proposed scheme incurs relatively less communication and computational overheads, and is appropriate to be adopted in resource constraint MEC environments.
Comparing the Effects of Different Gas Mixtures and Vacuum Chamber Geometries on the Evactron® Cleaning Process (2008)

Extended abstract of a paper presented at Microscopy and Microanalysis 2008 in Albuquerque, New Mexico, USA, August 3 – August 7, 2008
2-D SRME performance in the presence of streamer feathering and structural dip (2003)

Wave-equation based, data-driven multiple prediction algorithms, such as DELPHI’s SRME, require<br>well sampled, internally consistent datasets. In this case, the predicted multiples are highly accurate,<br>regardless of the complexity of the medium. Whilst acquisition and processing methods for 3-D<br>prediction of multiples are an active area of research, the prediction of multiples from conventional<br>(narrow azimuth) 3-D marine data using enhancements to the 2-D SRME method is of considerable<br>practical importance.
Analysis of Phospho- and Sphingolipids in Dairy Products by a New HPLC Method (2005)

Dairy phospho- and sphingolipids are gaining interest due to their nutritional and technological properties. A new HPLC method, using an evaporative laser light-scattering detector, was developed, which enabled excellent separation of glucosylceramide, lactosylceramide, phosphatidic acid, phosphatidylethanolamine, phosphatidylinositol, phosphatidylserine, phosphatidylcholine, sphingomyelin, and lysophosphatidylcholine in less than 21 min, including the regeneration of the column. No loss of column performance was observed after 1500 runs because an acid buffer was used. The output signal of the evaporative laser light scattering detector was highly dependent of the flow of the carrier gas and the temperature of the nebulizer, and was maximized by means of a response surface experimental design. Finally, raw milk, cream, butter, buttermilk, Cheddar whey, quarg, and Cheddar cheese were analyzed for their polar lipid content. The absolute values varied substantially (0.018 to 0.181 g/100 g of product). Significant differences were found in the relative content of each polar lipid class among the analyzed products.
Ultraviolet B Radiation Acts through the Nitric Oxide and cGMP Signal Transduction Pathway to Stimulate Melanogenesis in Human Melanocytes (1996)

Ultraviolet B (UVB) radiation is the main physiological stimulus for human skin pigmentation; however, the molecular mechanisms underlying this process are still unclear. Recently, nitric oxide (NO) and cGMP have been involved in mediation of skin erythema induced by UVB. Therefore, we investigated the role of NO and cGMP in UVB-induced melanogenesis. In this study, we demonstrated that UVB stimulation of melanogenesis was mimicked by exogenous NO donors. Additionally, we showed that NO stimulated cGMP synthesis and that cGMP was also a potent stimulator of melanogenesis. Furthermore, the inhibition of the melanogenic effect of NO by guanylate cyclase inhibitor demonstrated that NO mediated its effect through the activation of guanylyl cyclase. Interestingly, 1 min after UVB irradiation, we observed a significant increase in cGMP content in melanocytes. The effects of UVB on cGMP production and on melanogenesis were blocked by both guanylate cyclase and NO synthase inhibitors. Additionally, inhibition of cGMP-dependent kinase also prevented the stimulation of melanogenesis by UVB and NO. Therefore, we concluded that NO and cGMP production is required for UVB-induced melanogenesis and that cGMP mediated its melanogenic effects mainly through the activation of cGMP-dependent kinase.
Magnetic resonance imaging of atherosclerosis by targeting extracellular matrix deposition with Gadofluorine M (2007)

As previously reported, Gadofluorine M-enhanced magnetic resonance imaging clearly demarcates atherosclerotic plaques from the normal vessel wall. To date, the underlying mechanism has remained unknown. Gadofluorine M is a gadolinium-containing macrocyclic contrast agent containing hydrophilic and hydrophobic moieties. To elucidate the mechanism of accumulation, fluorescently labeled and radioactively labeled derivates of Gadofluorine M were used to determine affinity and specificity of Gadofluorine M binding to blood serum and plaque components in vitro and for the distribution within the plaque of WHHL rabbits in vivo. Gadofluorine M binds to serum albumin, leading to a breakdown of micelles after intravenous injection. The affinity of Gadofluorine M to serum albumin is k(D) = 2 micromol/l. Gadofluorine then penetrates the atherosclerotic plaque while bound to albumin and then accumulates within the extracellular, fibrous parts of the plaque by binding to collagens, proteoglycans and tenascin, having the same affinity to these plaque constituents as to albumin. In contrast, weak binding was determined to LDL (k(D) = 2 mmol/l) and even no binding to hyaluronic acid. The driving force of binding and accumulation is the hydrophobic moiety of the molecules interacting with hydrophobic plaque materials. Thus, Gadofluorine M accumulates within the fibrous plaque or in the fibrous cap of a plaque containing high amounts of extracellular matrix components, but not in the lipid-rich areas. In combination with high-resolution MRI, Gadofluorine M might enable the detection of thin-cap fibroatheromas, also named the vulnerable plaque.
Interweaving of Triple-Helical and Extended Metal−O−Metal Single-Helical Chains with the Same Helix Axis in a 3D Metal−Organic Framework (2006)

A novel 3D metal-organic framework [Cd2(m-bptc)(4,4'-bpy)(0.5)(H2O)4].H2O (1; m-H4bptc = 1,1'-biphenyl-2,3',3,4'-tetracarboxylic acid, 4,4'-bpy = 4,4'-bipyridine) with interweaving of triple- and single-helical chains has been obtained based on hydro(solvo)thermal reactions.
Search for mediators of the lipogenic effects of tumor necrosis factor: potential role for interleukin 6. (1990)

The significance of potential second messengers as mediators of the metabolic effects of tumor necrosis factor (TNF) was explored by studying their role in stimulating hepatic lipogenesis. Platelet-activating factor and prostaglandins have previously been suggested to mediate some of the toxic effects of TNF. An inhibitor of platelet-activating factor (WEB 2086) and two inhibitors of the synthesis of prostaglandins (ibuprofen and aspirin) had no effect on the ability of TNF to increase hepatic lipogenesis or serum triglyceride levels in the rat. Another inhibitor of the toxic effects of TNF, pentoxifylline, also had no effect on lipid metabolism in the rat. Catecholamines are increased after TNF administration, but alpha- and beta-adrenergic blockade did not prevent the lipogenic effects of TNF. However, interleukin 6, a cytokine whose synthesis and secretion are induced by TNF, is able to acutely stimulate hepatic lipogenesis in mice. Interleukin 6 stimulates hepatic lipogenesis by increasing hepatic citrate concentrations, the same mechanism by which TNF stimulates hepatic lipogenesis. These data suggest that interleukin 6, but not platelet-activating factor, prostaglandins, or catecholamines, could potentially mediate the lipogenic effects of TNF.
Analysing associations of textual and relational data with a multiple views system (2004)

Visualization interfaces that offer multiple coordinated views on a particular set of data items are useful for navigating and exploring complex information spaces. In application areas like customer relationship management (CRM) or business intelligence (BI), for example, structured customer or company data is often associated to text-based information like telemarketing transcripts or trade press articles. Supporting the analysis of such text information and related structured data is a major challenge for current CRM and BI tools. In this paper, we present a system for visually analyzing these particular information spaces based on a multiple views paradigm. The system brings together views on text similarity, text categories, and associated relational attributes; visual overlay techniques help to keep track of navigation and selection operations in complementary views. The paper sketches an application example and summarizes results from an initial usability evaluation.
A Quadrature Clock Corrector for DRAM Interfaces, With a Duty-Cycle and Quadrature Phase Detector Based on a Relaxation Oscillator (2019)

A quadrature clock corrector uses relaxation oscillators to detect duty-cycle and quadrature phase errors by transforming them into pairs of frequencies, which are then digitized and compared. It achieves good detection accuracy and can detect a wide range of duty-cycle and quadrature phase errors. The prototype is implemented in a 55-nm CMOS process with a supply voltage of 1.2 V and occupies an area of 0.003 mm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> . The experimental results show that the operation range is from 1 to 3 GHz, the power efficiency is 0.79 mW/GHz, the maximum duty-cycle error is 0.8% at 3 GHz, and the maximum quadrature phase error is 1.1° at 3 GHz.
Identification of Cellular Membrane Proteins Interacting with Hepatitis B Surface Antigen using Yeast Split-Ubiquitin System (2005)

Hepatitis B surface antigen (HBsAg) is the major component of the envelope of hepatitis B virus (HBV). As a resident membrane protein in the endoplasmic reticulum, it plays a key role in the viral morphogenesis. Little is known about cellular proteins that interact with HBsAg and thereby contributing to HBV morphogenesis. Using the yeast split-ubiquitin system, a number of cellular membrane proteins have been isolated in this study. These include a resident protein of endoplasmic reticulum (thioredoxin-related transmembrane protein 2), an adaptor protein involved in clathrin-mediated endocytosis and HIV-mediated downregulation of CD4, and a co-receptor of coxsakie B virus. The significance of our findings is suggested by the identification of cellular membrane proteins interacting with other virus proteins. Further functional analysis of these HBsAg- interacting cellular membrane proteins should shed new insights on their role in HBV morphogenesis.
Scalable Inverted Indexing on NoSQL Table Storage (2010)

The development of data intensive problems in recent years has brought new requirements and challenges to storage and computing infrastructures. Researchers are not only doing batch loading and processing of large scale of data, but also demanding the capabilities of incremental updates and interactive analysis. Therefore, extending existing storage systems to handle these new requirements becomes an important research challenge. This paper presents our efforts on IndexedHBase, a scalable, faulttolerant, and indexed NoSQL table storage system that can satisfy these emerging requirement in an integrated way. IndexedHBase is an extension of the cloud storage system HBase. Modeled after Google&apos;s BigTable, HBase supports reliable storage and efficient access to terabytes or even petabytes of structured data. However, it does not have an inherent mechanism for searching field values,
Microwave Drying of Microorganisms. II. The Use of Microwave Oven for the Determination of Moisture Content of Pressed Yeast<sup>*</sup> (1978)

AbstractThe use of a microwave oven for the determination of the moisture content of pressed yeast was tested. Results obtained were compared with those determined by means of a conventional drying oven. A linear correlation exists between the results obtained by the methods cited above.
Novel and Known Constituents from <i>Buddleja</i> Species and Their Activity against Leukocyte Eicosanoid Generation (1999)

We have undertaken a systematic survey of the genus Buddleja used in traditional Chinese medicine for antiinflammatory and other indications by testing extracts and isolated natural products for their activity against the enzymes of the arachidonate cascade. This was done by using elicited rat peritoneal leukocytes, a physiologically relevant established whole cell system that expresses both cyclo-oxygenase (COX) and 5-lipoxygenase (5-LOX) activity. Lipophilic extracts of B. globosa roots and B. myriantha stem exhibited inhibitory activities in the 5-LOX and COX enzyme assays, whereas those of B. officinalis flowers, B. yunanesis stems, and B. asiatica stems showed inhibitory activities only against COX. The phytochemical investigation of these extracts, and consequent structure elucidation of isolated compounds using spectroscopic data, led to the isolation from B. globosa of three new terpenoid compounds named dihydrobuddledin A, buddledone A, and buddledone B and four known compounds-buddledins A, B, and C and zerumbone; 12 known compounds from B. officinalis-calceolarioside, campneoside, verbascoside, echinacoside, forsythoside B, angoroside A, crocetin monogentibiosyl ester, acacetin, acacetin-7-O-alpha-L-rhamnopyranosyl (1-6)-beta-D-glucopyranoside, acacetin-7-O-alpha-L-rhamnopyranosyl (1-6)[alpha-L-rhamnopyranosyl (1-2)]-beta-D-glucopyranoside, songarosaponin A, delta-amyrone; and eight known compounds fromB. yunanesis-11,14-dihydroxy-8,11, 13-abietatrien-7-one, beta-sitosterol, verbascoside, echinacoside, forsythoside B, angoroside A, methylcatapol, and sucrose. Tests on the isolated compounds for inhibition of eicosanoid synthesis showed that buddledin A, crocetin monogentibiosyl ester, and acacetin exhibited an inhibitory effect on COX with IC(50) values of 13.7 microM, 28.2 microM, and 77.5 microM, respectively, whereas buddledin A exhibited inhibitory effect on 5-LOX with an IC(50) value of 50.4 microM.
Chemical Modifications at a Single Site Can Induce Significant Shifts in the pH Profiles of a Serine Protease<sup>†</sup> (1998)

Developing the ability to vary the pH−activity profile of an enzyme in a controlled manner has been a long sought-after goal. Such tailoring provides important insights into mechanism and permits optimization of enzyme performance in organic synthesis applications. The most successful approaches to date toward altering pH−activity profiles of enzymes have employed either site-directed mutagenesis or chemical modification to alter enzyme surface charge. We now report that, by combining these two methodologies, dramatic pKa changes can be induced in the serine protease subtilisin B. lentus. In particular, site specific incorporation of unnatural amino acid side chains by the following strategy, WT → Asn62Cysmutant + H3C−SO2−S−R → Asn62Cys-S−R, where R may be infinitely variable, has demonstrated that pKa shifts of up to 0.72 unit are achievable and are accompanied by significant activity enhancements. The most dramatic pKa shifts are caused by chemical modification with hydrophobic aliphatic moieties. A linear correlation between the hydrophobicity indicator log P for the side chain of the modification and the observed pKa demonstrates that the hydrophobicity in the vicinity of the catalytic triad modulates the pKa of the catalytic residue His64. Molecular modeling analysis reveals that the side chain R of Asn62Cys-S−R, where R is a hydrophobic modification such as decyl or cyclohexyl, positions itself over the imidazole moiety of His64 in the minimized structure.