gebhart/patrepeval huggingface dataset:
GraphZIP: a clique-based sparse graph compression method (2018)

Massive graphs are ubiquitous and at the heart of many real-world problems and applications ranging from the World Wide Web to social networks. As a result, techniques for compressing graphs have become increasingly important and remains a challenging and unsolved problem. In this work, we propose a graph compression and encoding framework called GraphZIP based on the observation that real-world graphs often form many cliques of a large size. Using this as a foundation, the proposed technique decomposes a graph into a set of large cliques, which is then used to compress and represent the graph succinctly. In particular, disk-resident and in-memory graph encodings are proposed and shown to be effective with three important benefits. First, it reduces the space needed to store the graph on disk (or other permanent storage device) and in-memory. Second, GraphZIP reduces IO traffic involved in using the graph. Third, it reduces the amount of work involved in running an algorithm on the graph. The experiments demonstrate the scalability, flexibility, and effectiveness of the clique-based compression techniques using a collection of networks from various domains.
Isolation and characterization of aclacinomycin A-non-producing Streptomyces galilaeus (ATCC 31615) mutants (1994)

Twelve mutants of Streptomyces galilaeus (ATCC 31615) blocked in the production of aclacinomycin A, an anthracycline antibiotic with significant antitumour activity, accumulated intermediates of the biosynthesis of aclacinomycins and several anthracyclines with variant sugar moieties. Three of these aklavinone glycosides have not been described before. Mutant strains H028, H061 and H036 were blocked before the formation of aklavinone, a common intermediate for most anthracyclines. Strain H039 accumulated aklavinone and H026, H035, H038 and H054 had mutations that changed glycosylation of aklavinone. Characterization of the mutants and their products is described.
Epitope identification and vaccine design for cancer immunotherapy. (2002)

The development of processes for engineering multi-epitope vaccines based on the identification and selection of epitope packages, along with vaccine design optimization using epitope placements and spacers to optimize processing efficacy, are reviewed. The Epimmune Inc epitope identification process has been applied to numerous cancer types, but also applies to infectious diseases. Epitope-analog efforts in novel vaccine design have also been explored and their uses in prophylactic and therapeutic applications are eagerly anticipated.
Immobilization of hybridoma cells in chitosan alginate beads (1991)

Abstract A new method for immobilizing hybridoma cells using chitosan‐stabilized calcium alginate beads was developed. The ionotropic gelation of chitosan and calcium with alginate resulted in the formation of highly cross‐linked, porous beads that were mechanically and chemically stable in phosphate buffered medium. Hybridomas entrapped in these beads were cultured semi‐continuously using periodic medium exchange. Viable population densities in the order of 5 × I0 7 cells/mL were attained within the beads and up to two‐fold increases in volumetric monoclonal antibody (MAb) productivity over batch suspension cultures were observed. Oxygen mass transfer limitations within the chitosan‐alginate beads were evaluated by considering biokinetics and diffusive transport. Model equations were developed and used to evaluate the effect of bead diameter on the contained cells. The predictions were consistent with experimental observations of maximum viable population densities attained in beads of various size.
Design of a MCoTI-Based Cyclotide with Angiotensin (1-7)-Like Activity (2016)

We report for the first time the design and synthesis of a novel cyclotide able to activate the unique receptor of angiotensin (1-7) (AT1-7), the MAS1 receptor. This was accomplished by grafting an AT1-7 peptide analog onto loop 6 of cyclotide MCoTI-I using isopeptide bonds to preserve the α-amino and C-terminal carboxylate groups of AT1-7, which are required for activity. The resulting cyclotide construct was able to adopt a cyclotide-like conformation and showed similar activity to that of AT1-7. This cyclotide also showed high stability in human serum thereby providing a promising lead compound for the design of a novel type of peptide-based in the treatment of cancer and myocardial infarction.
Noncontact subnanometer measurement of transient surface displacement during action potential propagation (2005)

We have demonstrated non-contact, sub-nanometer optical measurement of neural surface displacement associated with action potential propagation without applying exogenous chemicals or reflection coatings. Signals recorded from crayfish leg nerve using a phase-sensitive optical low coherence reflectometer show that transient neural surface displacement due to action potential propagation is approximately 1 nm in amplitude and 1 ms in duration. Measured optical signals are coincident with electrical action potential arrival to the optical measurement site. Recent experiments indicate signals with similar amplitude and duration are observed in response to repetitive fast stimulation (200 stimuli/s).
Bis‐Cyclic Guanidines as a Novel Class of Compounds Potent against <i>Clostridium difficile</i> (2018)

Clostridium difficile infection (CDI) symptoms range from diarrhea to severe toxic megacolon and even death. Due to its rapid acquisition of resistance, C. difficile is listed as an urgent antibiotic-resistant threat, and has surpassed methicillin-resistant Staphylococcus aureus (MRSA) as the most common hospital-acquired infection in the USA. To combat this pathogen, a new structural class of pseudo-peptides that exhibit antimicrobial activities could play an important role. Herein we report a set of bis-cyclic guanidine compounds that show potent antibacterial activity against C. difficile with decent selectivity. Eight compounds showed high in vitro potency against C. difficile UK6 with MIC values of 1.0 μg mL<sup>-1</sup> , and cytotoxic selectivity index (SI) values up to 37. Moreover, the most selective compound is also effective in the treatment of C. difficile-induced disease in a mouse model of CDI, and appears to be a very promising new candidate for the treatment of CDI.
Optical coherence tomography holds promise to transform the diagnostic anatomic pathology gross evaluation process (2022)

OCT-based real-time histology evaluation holds promise for addressing a gap that has been present for >100 years.
Dislocation Etch Pits in GaN Epitaxial Layers Grown on Sapphire Substrates (1996)

Dislocations in GaN epitaxial layers grown on sapphire substrates have been studied by chemical etching. We have examined molten KOH as a defect etchant and characterized the etch pits on GaN layers. By use of molten KOH etching, etch pits were revealed on the surface of the GaN layer. All pits were hexagonal pyramids, which reflect the crystal symmetry of GaN. Results showed that molten KOH etching might be a useful method for the evaluation of the dislocations in GaN layers. The etch pit density (EPD) was typically .
Novel Adeno‐Associated Viral Vector Delivering the Utrophin Gene Regulator Jazz Counteracts Dystrophic Pathology in mdx Mice (2014)

Over-expression of the dystrophin-related gene utrophin represents a promising therapeutic strategy for Duchenne muscular dystrophy (DMD). The strategy is based on the ability of utrophin to functionally replace defective dystrophin. We developed the artificial zinc finger transcription factor "Jazz" that up-regulates both the human and mouse utrophin promoter. We observed a significant recovery of muscle strength in dystrophic Jazz-transgenic mdx mice. Here we demonstrate the efficacy of an experimental gene therapy based on the systemic delivery of Jazz gene in mdx mice by adeno-associated virus (AAV). AAV serotype 8 was chosen on the basis of its high affinity for skeletal muscle. Muscle-specific expression of the therapeutic Jazz gene was enhanced by adding the muscle α-actin promoter to the AAV vector (mAAV). Injection of mAAV8-Jazz viral preparations into mdx mice resulted in muscle-specific Jazz expression coupled with up-regulation of the utrophin gene. We show a significant recovery from the dystrophic phenotype in mAAV8-Jazz-treated mdx mice. Histological and physiological analysis revealed a reduction of fiber necrosis and inflammatory cell infiltration associated with functional recovery in muscle contractile force. The combination of ZF-ATF technology with the AAV delivery can open a new avenue to obtain a therapeutic strategy for treatment of DMD.
Long Circulating Self-Assembled Nanoparticles from Cholesterol-Containing Brush-Like Block Copolymers for Improved Drug Delivery to Tumors (2014)

Amphiphilic brush-like block copolymers composed of polynorbonene-cholesterol/poly(ethylene glycol) (P(NBCh9-b-NBPEG)) self-assembled to form a long circulating nanostructure capable of encapsulating the anticancer drug doxorubicin (DOX) with high drug loading (22.1% w/w). The release of DOX from the DOX-loaded P(NBCh9-b-NBPEG) nanoparticles (DOX-NPs) was steady at less than 2% per day in PBS. DOX-NPs were effectively internalized by human cervical cancer cells (HeLa) and showed dose-dependent cytotoxicity, whereas blank nanoparticles were noncytotoxic. The DOX-NPs demonstrated a superior in vivo circulation time relative to that of free DOX. Tissue distribution and in vivo imaging studies showed that DOX-NPs preferentially accumulated in tumor tissue with markedly reduced accumulation in the heart and other vital organs. The DOX-NPs greatly improved survival and significantly inhibited tumor growth in tumor-bearing SCID mice compared to that for the untreated and free DOX-treated groups. The results indicated that self-assembled P(NBCh9-b-NBPEG) may be a useful carrier for improving tumor delivery of hydrophobic anticancer drugs.
A brink of failure and breach of security detection and recovery system (2003)

In today's complex networks, a series of seemingly unrelated and minor events over an extended time period can escalate to catastrophic failure as well as alter the network's security posture. The interactions between these events are too subtle and occur over too long a time for people to recognize and respond to the impending outage or security vulnerability. This paper presents a new concept termed “brink of failure” and demonstrates its relationship to network security. The paper describes an automated Brink of Failure (BOF) and Breach of Security (BOS) Detection and Recovery System that correlates network events to recognize and diagnose BOF conditions and their impact on the network's security posture and also suggests remedial actions. All information is provided on a single display that can be integrated into network operations centers. Scenarios that demonstrate how this system can be used to proactively predict and prevent network outages are also identified. © 2003 Lucent Technologies Inc.
Phase singularities in dynamic speckle fields and their applications to optical metrology (2003)

Instead of the intensity information used in conventional speckle metrology, we explore new possibilities of making use of the phase information of speckle patterns. We propose a new technique of displacement measurement that makes use of the phase singularities in the analytic signal of the speckle pattern, which is generated by Hilbert filtering. Experimental results are presented that demonstrate the validity and the limitation of the proposed technique.
A new four-terminal hybrid silicon/organic field-effect sensor device (2005)

We present the first demonstration of a novel field-effect device which has two channels: one formed in an organic semiconductor and the second in silicon. The channels are coupled such that one gates the other, with the organic channel exposed to air such that it is able to interact with chemicals in the ambient. This device represents a major improvement over both the traditional CHEMFET (which is a silicon MOSFET with the gate uncovered to be chemically sensitive) (Janata, 1989), and an organic transistor chemical sensor (Crone et al., 2001). While the device we developed can also function as a traditional CHEMFET, one of the more powerful sensing modes occurs when the two channels are coupled and changes in the organic channel carrier density in response to analyte delivery are reflected as changes in the current through the silicon channel. Another unique sensing mode, which appears to be the most sensitive, is designated as the chemical memory mode. In this mode analyte molecules result in trapped charges in the organic semiconductor which change the threshold voltage of the silicon FET. We have observed a response in the chemical memory mode that is between 10 and 100 times more intense than the response in the traditional CHEMFET mode
Investigation of the quasi-liquid crystal structure (1985)

ADVERTISEMENT RETURN TO ISSUEPREVArticleInvestigation of the quasi-liquid crystal structureFelix P. Shvartsman, Ivan R. Cabrera, Alexander L. Weis, Ellen J. Wachtel, and Valeri A. KrongauzCite this: J. Phys. Chem. 1985, 89, 18, 3941–3946Publication Date (Print):August 1, 1985Publication History Published online1 May 2002Published inissue 1 August 1985https://pubs.acs.org/doi/10.1021/j100264a037https://doi.org/10.1021/j100264a037research-articleACS PublicationsRequest reuse permissionsArticle Views172Altmetric-Citations19LEARN 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 options Get e-Alerts
Aerosol based direct-write micro-additive fabrication method for sub-mm 3D metal-dielectric structures (2015)

The fabrication of 3D metal-dielectric structures at sub-mm length scale is highly important in order to realize low-loss passives and GHz wavelength antennas with applications in wearable and Internet-of-Things (IoT) devices. The inherent 2D nature of lithographic processes severely limits the available manufacturing routes to fabricate 3D structures. Further, the lithographic processes are subtractive and require the use of environmentally harmful chemicals. In this letter, we demonstrate an additive manufacturing method to fabricate 3D metal-dielectric structures at sub-mm length scale. A UV curable dielectric is dispensed from an Aerosol Jet system at 10–100 µm length scale and instantaneously cured to build complex 3D shapes at a length scale <1 mm. A metal nanoparticle ink is then dispensed over the 3D dielectric using a combination of jetting action and tilted dispense head, also using the Aerosol Jet technique and at a length scale 10–100 µm, followed by the nanoparticle sintering. Simulation studies are carried out to demonstrate the feasibility of using such structures as mm-wave antennas. The manufacturing method described in this letter opens up the possibility of fabricating an entirely new class of custom-shaped 3D structures at a sub-mm length scale with potential applications in 3D antennas and passives.
Supplementary Figure S1 from Enhanced Antitumor Responses of Tumor Antigen-Specific TCR T Cells Genetically Engineered to Produce IL7 and CCL19 (2023)

<p>Supplementary Figure S1 shows an indispensable role of tumor specificity of TCR in the anti-tumor efficacy of IL-7/ CCL19-producing T cells.</p>
Surface acoustic wave device having a pyramid shaped tip for recording video information on a substrate (1985)

First Page
Resequencing core accessions of a pedigree identifies derivation of genomic segments and key agronomic trait loci during cotton improvement (2018)

Upland cotton (Gossypium hirsutum) is the world's largest source of natural fibre and dominates the global textile industry. Hybrid cotton varieties exhibit strong heterosis that confers high fibre yields, yet the genome-wide effects of artificial selection that have influenced Upland cotton during its breeding history are poorly understood. Here, we resequenced Upland cotton genomes and constructed a variation map of an intact breeding pedigree comprising seven elite and 19 backbone parents. Compared to wild accessions, the 26 pedigree accessions underwent strong artificial selection during domestication that has resulted in reduced genetic diversity but stronger linkage disequilibrium and higher extents of selective sweeps. In contrast to the backbone parents, the elite parents have acquired significantly improved agronomic traits, with an especially pronounced increase in the lint percentage. Notably, identify by descent (IBD) tracking revealed that the elite parents inherited abundant beneficial trait segments and loci from the backbone parents and our combined analyses led to the identification of a core genomic segment which was inherited in the elite lines from the parents Zhong 7263 and Ejing 1 and that was strongly associated with lint percentage. Additionally, SNP correlation analysis of this core segment showed that a non-synonymous SNP (A-to-G) site in a gene encoding the cell wall-associated receptor-like kinase 3 (GhWAKL3) protein was highly correlated with increased lint percentage. Our results substantially increase the valuable genomics resources available for future genetic and functional genomics studies of cotton and reveal insights that will facilitate yield increases in the molecular breeding of cotton.
A transformerless galvanically isolated switched capacitor LED driver (2012)

The design and test of a capacitor-isolated LED driver, suitable for screw-in, residential lighting applications, is reported. The design relies on a pair of high voltage isolation capacitors, comprising part of a series resonant tank. The series resonant tank is integrated with a balanced ladder step-down switched capacitor front-end, enabling the series resonant conversion stage to function conveniently with any line voltage, while still preserving the efficient voltage regulation capability of the resonant stage. Dimming and power control are effected with a low frequency PWM control loop. The tested prototype delivers 15.5 W at 425 mA at rated power into a string of 12 LEDs at 92% efficiency. Efficiency exceeding 85% is maintained over more than a 10:1 dimming range, and also over a wide range of line voltages.
CoINT: Proactive Coordinator for Avoiding Interruptability Holder Preemption Problem in VSMP Environment (2018)

In a Virtual Symmetric Multiprocessing (VSMP) environment, the behavior of hypervisor scheduler can significantly influence a guest's I/O responsiveness. The interrupt remapping mechanism, which can leverage multiple virtual CPUs in the VSMP guest to process I/O events, is known to be an efficient and prevalent solution to improve the I/O performance. However, in this paper we identified a novel challenge called the “Interruptability Holder Preemption” (IHP) problem in interrupt remapping mechanism. The IHP issue presents that a virtual CPU (vCPU) disabling the interruptability of guest's network device is descheduled by the hypervisor scheduler, which can easily invalidate the efficiency of the interrupt remapping mechanism. To solve this problem, we propose CoINT, a gasket coordinator residing in the hypervisor, to substantially enhance the network I/O performance by empowering the hypervisor to be proactively aware of the interruptability information of the guest's network device. ColNT completely eliminates the “Interruptability Holder Preemption” problem and largely reduces I/Ointerrupt processing delay caused by hypervisor scheduler. We implement ColNT in KVM hypervisor and evaluate its efficiency and responsiveness using both macro and microlevel benchmarks. The results show that ColNT can improve the netperf throughput up to 3x compared with native KVM, and up to 1.3x compared with traditional interrupt remapping of hypervisor-Ievel solution, in sacrifice of an negligible and reasonable overhead in the hypervisor.
Multisite, multivendor validation of the accuracy and reproducibility of proton-density fat-fraction quantification at 1.5T and 3T using a fat-water phantom (2016)

CSE-based fat quantification is accurate and reproducible across sites, vendors, field strengths, and protocols. Magn Reson Med 77:1516-1524, 2017. © 2016 International Society for Magnetic Resonance in Medicine.
Pareto Optimization of Adaptive Modulation and Coding Set in Nonlinear Fiber-Optic Systems (2016)

In recent coherent optical communications, various high-order modulation formats have been used in conjunction with soft-decision forward error correction (FEC) such as capacity-approaching low-density parity-check (LDPC) codes. With a proper selection of modulation order and FEC overhead, we may be able to achieve the highest spectral efficiency (SE) for a given fiber plant configuration. However, it is often not straightforward to select the best pair of modulation format and FEC overhead due to many factors, including fiber nonlinearity, channel spacing, baud rates, communications distance, link budget, and power consumption. In this paper, we introduce a new framework to design adaptive modulation and coding (AMC) sets based on Pareto efficiency in order to optimize multiple objective functions, more specifically, to achieve higher SE, higher nonlinearity tolerance, and lower power consumption at the same time. We compare various modulation formats and variable-rate LDPC codes based on generalized mutual information (GMI) in nonlinear fiber transmissions. In order to account for the penalty of finite-iteration decoding under a constraint of power consumption, we use required GMI as a new metric for AMC design. With our AMC framework, Pareto-efficient pairs of modulation and coding can be identified to achieve both higher SE and higher nonlinearity tolerance constrained on power consumption.
Finding the direction of a sound (1986)

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 Philip G. Harper, Stuart I. Jardine, Andrew J. Quinn, David M. Treherne; Finding the direction of a sound. J. Acoust. Soc. Am. 1 November 1986; 80 (5): 1568. https://doi.org/10.1121/1.394316 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 ContentAcoustical Society of AmericaThe Journal of the Acoustical Society of America Search Advanced Search |Citation Search