gebhart/patrepeval huggingface dataset:
Synthesis and reactions of bicyclo[3.1.0]hexatrienes (1978)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSynthesis and reactions of bicyclo[3.1.0]hexatrienesWilliam N. Washburn, Robert Zahler, and Ida ChenCite this: J. Am. Chem. Soc. 1978, 100, 18, 5863–5874Publication Date (Print):August 1, 1978Publication History Published online1 May 2002Published inissue 1 August 1978https://pubs.acs.org/doi/10.1021/ja00486a044https://doi.org/10.1021/ja00486a044research-articleACS PublicationsRequest reuse permissionsArticle Views598Altmetric-Citations20LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Performance analysis of the RAKE receiver in the presence of multipath delay estimation errors and Rician fading channels (2003)

We derive here a novel unified framework for computing the average bit-error-ratio (BER) of a direct-sequence spread spectrum receiver using maximum ratio combiner (MRC), in the presence of code synchronization errors and multipath Rayleigh or Rician fading channels. Traditionally, for single-user systems, the signal-to-noise ratio at the output of MRC is modeled as a quadratic form in complex Gaussian variables. We show that this model does not hold when delay errors are present and we propose an improved generic model incorporating the multipath delay estimation errors. We also discuss the case when the RAKE receiver is employed in the presence of multiple users. Based on our theoretical model, BER can be easily derived in a semi-analytical fashion, for any type of pulse shaping and any spacing between multipaths. Very fast results can be obtained for high spreading factors, when inter-chip (ICI) and inter-symbol interference (ISI) may be neglected. These results also give the lower bounds on BER for low spreading factors. Theoretical BER curves with QPSK modulation are validated by link level simulations for different downlink Rayleigh and Rician fading channels. Moreover, we discuss the impact of the delay error distribution on BER and we emphasize some practical applications of our generic technique. Copyright © 2003 AEI.
Multi-volume rendering for three-dimensional power doppler imaging (2006)

Multi-volume rendering (MVR) has been used for better localization of tumors by integrating structural, e.g., Computed Tomography (CT), and physiological/functional 3D information, e.g., Positron Emission Tomography (PET) in other medical imaging modalities. Similar fusion in ultrasound imaging between BW-mode and Power Doppler provides improved visualization and better understanding of the correlation between anatomical structures and blood flow, e.g., heart, kidney, liver. In this paper, we present three fusion algorithms for ultrasound imaging: Composite Fusion (CF), Post Fusion (PF) and Progressive Fusion (PGF). In the CF, BW and Power Doppler volumes are fused during volume rendering while in PF both volumes are rendered separately and then fused using alpha blending. In PGF, fusion is performed at several stages and intermixing of volumes occurs both during and after rendering. CF requires the rendering of RGB volume, but in PF and PGF rendering can be performed on luminance (grayscale) values to save computation. We have investigated these three fusion techniques using in vivo data acquired from kidney and liver using a commercial ultrasound machine (i.e., EUB-6500, Hitachi Medical Corporation, Japan). PF displays correlation between tissue and blood flow but loses depth information. The CF provides depth cue information but assigns artificial color to the rendered volume since it changes the ratio between R, G and B values during compositing. PGF retains the assigned RGB color and also provides depth information but renders volume more opaque than PF and CF. Each of these methods has complementary advantages. Thus, evaluating volumes with all three methods could be useful for clinicians to perform diagnostic evaluation. We will present these algorithms along with their relative advantages and disadvantages in detail.
From STEM to SEAD: speculative execution for automated defense (2007)

Most computer defense systems crash the process that they protect as part of their response to an attack. In contrast, self-healing software recovers from an attack by automatically repairing the underlying vulnerability. Although recent research explores the feasibility of the basic concept, self-healing faces four major obstacles before it can protect legacy applications and COTS software. Besides the practical issues involved in applying the system to such software (e.g., not modifying source code), self-healing has encountered a number of problems: knowing when to engage, knowing how to repair, and handling communication with external entities. Our previous work on a self-healing system, STEM, left these challenges as future work. STEM provides self-healing by speculatively executing "slices" of a process. This paper improves STEM's capabilities along three lines: (1) applicability of the system to COTS software (STEM does not require source code, and it imposes a roughly 73% performance penalty on Apache's normal operation), (2) semantic correctness of the repair (we introduce virtual proxies and repair policy to assist the healing process), and (3) creating a behavior profile based on aspects of data and control flow.
Intact Active Bone Transplantation Synergizes with Anti-CD40 Ligand Therapy to Induce B Cell Tolerance (2002)

Blockade of T cell costimulatory pathways can result in the prolongation of allograft survival through the suppression of Th1 responses; however, late allograft rejection is usually accompanied by an emerging allograft-specific humoral response. We have recently determined that intact active bone (IAB) fragments transplanted under the kidney capsule can synergize with transient anti-CD40 ligand (CD40L) treatment to induce robust donor-specific allograft tolerance and suppress the alloantibody response. In this study, we take advantage of the ability of galactosyltransferase-deficient knockout (GT-Ko) mice to respond to the carbohydrate epitope, galactose-alpha1,3-galactose (Gal), to investigate whether IAB plus transient anti-CD40L therapy directly tolerize B cell responses. GT-Ko mice tolerized to Gal-expressing C3H hearts and IAB plus transient anti-CD40L therapy were challenged with pig kidney membranes that express high levels of Gal. The anti-Gal IgM and IgG responses were significantly suppressed in IAB-tolerant mice compared with controls, while the non-Gal anti-pig Ab responses were comparable. The anti-pig T cell cytokine response (IFN-gamma and IL-4) was comparable in IAB-tolerant and control mice. The tolerant state for the anti-Gal IgM response could be reversed with repeated immunization, whereas the tolerant state for the IgG response was robust and resisted repeated immunization. These observations provide an important proof-of-concept that adjunct therapies can synergize with anti-CD40L Abs to tolerize B cell responses independent of their effects on T cells. This model, which does not require mixed chimerism, provides a unique opportunity for investigating the mechanism of peripheral tolerance in a clinically relevant population of carbohydrate-specific B cells.
Integrating Crop Growth Models with Whole Genome Prediction through Approximate Bayesian Computation (2015)

Genomic selection, enabled by whole genome prediction (WGP) methods, is revolutionizing plant breeding. Existing WGP methods have been shown to deliver accurate predictions in the most common settings, such as prediction of across environment performance for traits with additive gene effects. However, prediction of traits with non-additive gene effects and prediction of genotype by environment interaction (G×E), continues to be challenging. Previous attempts to increase prediction accuracy for these particularly difficult tasks employed prediction methods that are purely statistical in nature. Augmenting the statistical methods with biological knowledge has been largely overlooked thus far. Crop growth models (CGMs) attempt to represent the impact of functional relationships between plant physiology and the environment in the formation of yield and similar output traits of interest. Thus, they can explain the impact of G×E and certain types of non-additive gene effects on the expressed phenotype. Approximate Bayesian computation (ABC), a novel and powerful computational procedure, allows the incorporation of CGMs directly into the estimation of whole genome marker effects in WGP. Here we provide a proof of concept study for this novel approach and demonstrate its use with synthetic data sets. We show that this novel approach can be considerably more accurate than the benchmark WGP method GBLUP in predicting performance in environments represented in the estimation set as well as in previously unobserved environments for traits determined by non-additive gene effects. We conclude that this proof of concept demonstrates that using ABC for incorporating biological knowledge in the form of CGMs into WGP is a very promising and novel approach to improving prediction accuracy for some of the most challenging scenarios in plant breeding and applied genetics.
Phase II randomized window of opportunity trial evaluating cytotoxic and immunomodulatory effects of intratumoral INT230-6 in early stage breast cancer: The INVINCIBLE trial. (2023)

573 Background: Most breast cancers are considered immunological cold and are therefore minimally responsive to immunotherapies. Local cytotoxic therapies can induce cell death, expose tumor antigens, provide adjuvants for anti-tumor immune priming, and potentially increase responsiveness to immunotherapies. We conducted a randomized, double blind, Phase 2 presurgical Window-Of-Opportunity trial for intratumoral (IT) INT230-6 (comprising VINblastine (VIN) Cisplatin (VIN)) evaluating clinical and BioLogical Effects in patients with early-stage operable Breast Cancer (the INVINCIBLE trialNCT04781725. The trial evaluated the immune response within the tumor and microenvironment in vivo after IT INT230-6 injections. Methods: Women with newly diagnosed and awaiting surgery for early-stage intermediate or high-grade ER+ T1-T2 invasive breast cancers were recruited to the trial. Participating patients were allocated (2:1) to IT injections of INT230-6 vs saline placebo, prior to resection. RNA profiling of the pre- (baseline biopsy) and post- treatment (surgical resection) tumours using the Ion AmpliSeq Transcriptome Human Gene Expression (Thermo Fisher Scientific) and DNA sequencing using a large (500 gene) comprehensive genomic profiling panel (OCAPlus,) was performed. Results: Significant tumor necrosis was observed in the majority of subjects injected with INT230-6. In the 60 pre-treatment biopsies profiled with OCAPlus, the genes most frequently mutated included PIK3CA (38%), TP53 (23%), CDH1 (22%) and TBX3 (17%). Frequent copy number changes were identified in CCND1 (23%), FGFR1 (18%), and CDH1 (17%). Gene expression analysis showed significant differential gene expression between the baseline biopsy and surgical specimens in patients treated with the drug. Pathway analysis identified genes associated with TCR signaling, macrophage markers, IL-18 signaling and B cell receptor signaling were significantly up-regulated in the post treatment samples. Conclusions: This is the first study evaluating the potential biologic effects of intratumoral cytotoxicity with INT230-6 and its role as a potential immune priming therapy in traditional immune quiescent ER+ breast cancers.
Negative Ion Fragmentation of Cysteic Acid Containing Peptides: Cysteic Acid as a Fixed Negative Charge (2011)

We present here a study of the collision induced dissociation (CID) of deprotonated cysteic acid containing peptides produced by MALDI. The effect of cysteic acid (C(ox)) position is interrogated by considering the positional isomers, C(ox)LVINVLSQG, LVINVLSQGC(ox), and LVINVC(ox)LSQG. Although considerable variation between the CID spectra is observed, the mechanistic picture that emerges involves charge retention at the deprotonated cysteic acid side chain. Fragmentation occurs in the proximity of the cysteic acid group by charge directed mechanisms as well as remote from this group to form ions, which may be rationalized by charge remote mechanisms. Additionally, the formation of the SO(3)(-•) ion is observed in all cases. Fragmentation of C(ox)LVINVLSQC(ox) provides both N- and C-terminal, y and b ions, respectively indicating that the negative charge may be retained at either of the cysteic acids; however, there is some evidence that charge retention at the C-terminal cysteic acid may be preferred. Fragmentation of tryptic type peptides containing a C-terminal arginine or lysine residue is considered through comparison of three peptides C(ox)LVINKLSQG, C(ox)LVINVLSQK, and C(ox)LVINVLSQR. Lastly, we rationalize the formation of b(n-1)+ H(2)O and a(n-1) ions through a mechanism involving rearrangement of the C-terminal residue to form a mixed anhydride intermediate.
Combining Feature- and Correspondence-Based Methods for Visual Object Recognition (2009)

We present an object recognition system built on a combination of feature- and correspondence-based pattern recognizers. The feature-based part, called preselection network, is a single-layer feedforward network weighted with the amount of information contributed by each feature to the decision at hand. For processing arbitrary objects, we employ small, regular graphs whose nodes are attributed with Gabor amplitudes, termed parquet graphs. The preselection network can quickly rule out most irrelevant matches and leaves only the ambiguous cases, so-called model candidates, to be verified by a rudimentary version of elastic graph matching, a standard correspondence-based technique for face and object recognition. According to the model, graphs are constructed that describe the object in the input image well. We report the results of experiments on standard databases for object recognition. The method achieved high recognition rates on identity and pose. Unlike many other models, it can also cope with varying background, multiple objects, and partial occlusion.
Arbitrary-Order Iterative Learning Control Considering H∞ Synthesis (2016)

Iterative learning control (ILC) is an effective technique to improve the tracking performance of systems through adjusting the feedforward control signal based on the memory data. It is critically important to design the learning filters in the ILC algorithm that assures the robust stability of the convergence of tracking errors from one iteration to next. The design procedure usually involves lots of tuning work especially in high-order ILC. To facilitate this procedure, this paper proposes an approach to design learning filters for an arbitrary-order ILC with guaranteed convergence and ease of tuning. The filter design problem is formulated into an H∞ optimal control problem. This approach is based on an infinite impulse response (IIR) system and conducted directly in iteration-frequency domain. Important characteristics of the proposed approach are explored and demonstrated on a simulated wafer scanning system.
Automated Discovery and Optimization of 3D Topological Photonic Crystals (2023)

Topological photonic crystals have received considerable attention for their ability to manipulate and guide light in unique ways. They are typically designed by hand based on the careful analysis of their bands and mode profiles, but recent theoretical advances have revealed new and powerful insights into the connection between band symmetry, connectivity, and topology. Here we propose a combined global and local optimization framework that integrates a flexible symmetry-constrained level-set parametrization with standard gradient-free optimization algorithms to optimize topological photonic crystals, a problem setting where the objective function may be highly nonconvex and noncontinuous. Our framework can be applied to any symmetry-identifiable band topology, and we demonstrate its applicability to several prominent kinds of three-dimensional band topologies, namely, Γ-enforced nodal lines, Weyl points, and Chern insulators. Requiring no prior examples of topological photonic crystals or prior knowledge on the connection between structure and band topology, our approach indicates a path toward the automated discovery of novel topological photonic crystal designs.
Wireless LANs Planning and Optimization (2005)

The report addresses the problem of optimizing the access points placement and channel assignment for IEEE 802.11 Wireless LANs and gives a detailed description of the work that has been carried out during the author's research vizit at Zuse Institute of Berlin within the STSM Programme of the COST (European Cooperation in the Field of Scientific and Technical Research) Action TIST (inside of the Telecomunications, Information Science and Tecnology domain) 293.
Inhibitors of Catechol-O-Methyltransferase (2012)

Since the identification of Catechol-O-Methyltransferase (COMT) by Axelrod in 1957, many inhibitors of this enzyme have been reported. While COMT inhibition may be beneficial in a number of disease states, most of the effort over the years has been directed at boosting L-DOPA concentrations as adjunct treatment for Parkinson's disease. This review summarizes the major classes of COMT inhibitors, from early catechol and pyrogallol variants to bisubstrate inhibitors. The nitrocatechol substructure has proven to be a particularly productive scaffold, resulting in two marketed drugs and several improved drug candidates working their way through clinical trials.
Thermoacoustic Modeling of a Gas Turbine Combustor Equipped With Acoustic Dampers (2005)

Abstract In this work, the TA3 thermoacoustic network is presented and used to simulate acoustic pulsations occurring in a heavy-duty ALSTOM gas turbine. In our approach, the combustion system is represented as a network of acoustic elements corresponding to hood, burners, flames and combustor. The multi-burner arrangement is modeled by describing the hood and combustor as Multiple Input Multiple Output (MIMO) acoustic elements. The MIMO transfer function (linking acoustic pressures and acoustic velocities at burner locations) is obtained by a three-dimensional modal analysis performed with a Finite Element Method. Burner and flame analytical models are fitted to transfer function measurements. In particular, the flame transfer function model is based on the time-lag concept, where the phase shift between heat release and acoustic pressure depends on the time necessary for the mixture fraction (formed at the injector location) to be convected to the flame. By using a state-space approach, the time domain solution of the acoustic field is obtained. The nonlinearity limiting the pulsation amplitude growth is provided by a fuel saturation term. Furthermore, Helmholtz dampers applied to the gas turbine combustor are acoustically modeled and included in the TA3 model. Finally, the predicted noise reduction is compared to that achieved in the engine.
Device Scheduling and Update Aggregation Policies for Asynchronous Federated Learning (2021)

Federated Learning (FL) is a newly emerged decentralized machine learning (ML) framework that combines on-device local training with server-based model synchronization to train a centralized ML model over distributed nodes. In this paper, we propose an asynchronous FL framework with periodic aggregation to eliminate the straggler issue in FL systems. For the proposed model, we investigate several device scheduling and update aggregation policies and compare their performances when the devices have heterogeneous computation capabilities and training data distributions. From the simulation results, we conclude that the scheduling and aggregation design for asynchronous FL can be rather different from the synchronous case. For example, a norm-based significance-aware scheduling policy might not be efficient in an asynchronous FL setting, and an appropriate "age-aware" weighting design for the model aggregation can greatly improve the learning performance of such systems.
Seiba: An FPGA Overlay-Based Approach to Rapid Application Development (2019)

Although high-level synthesis (HLS) improves designer productivity through abstraction, FPGA high-level synthesis stills suffers from lengthy compilation that limits the number of design iterations a developer can achieve per day. One method of minimizing these compile times is compiling designs with innate programmability, aka FPGA overlays, and using their runtime configuration to implement functional changes, as opposed to recompiling the design. In this paper, we introduce Seiba, an application development approach that integrates HLS circuits with FPGA overlays to create reconfigurable platforms that are rapidly configured to reduce development time. As a dual-layer compilation approach, Seiba enables users to choose an appropriate tradeoff between productivity and overhead by implementing incremental changes quickly through overlay configuration or efficiently through FPGA recompilation. To handle this integration, our approach uses a novel overlay architecture that offers flexible overlay configuration which can “patch” and redirect execution from an application circuit to runtime configurable overlay functional units. Our results show that by leveraging the overlay's runtime configurability, our development flow can significantly reduce the number of FPGA compilations in a development cycle.
Absorption of kininogen from human plasma by Streptococcus pyogenes is followed by the release of bradykinin (1997)

H-kininogen (high-molecular-mass kininogen, HK) is the precursor of the vasoactive peptide hormone bradykinin (BK). Previous work has demonstrated that HK binds to Streptococcus pyogenes through M-proteins, fibrous surface proteins and important virulence factors of these bacteria. Here we find that M-protein-expressing bacteria absorb HK from human plasma. The HK bound to the bacteria was found to be cleaved, and analysis of the degradation pattern suggested that the cleavage of HK at the bacterial surface is associated with the release of BK. Moreover, addition of activated plasma prekallikrein to bacteria preincubated with human plasma, resulted in BK release. This mechanism, by which a potent vasoactive and proinflammatory peptide is generated at the site of infection, should influence the host-parasite relationship during S. pyogenes infections.