gebhart/patrepeval huggingface dataset:
Experimental evaluation of a deformable registration algorithm for motion correction in PET-CT guided biopsy (2013)

Positron emission tomography computed tomography (PET-CT) images are increasingly being used for guidance during percutaneous biopsy. However, due to the physics of image acquisition, PET-CT images are susceptible to problems due to respiratory and cardiac motion, leading to inaccurate tumor localization, shape distortion, and attenuation correction. To address these problems, we present a method for motion correction that relies on respiratory gated CT images aligned using a deformable registration algorithm. In this work, we use two deformable registration algorithms and two optimization approaches for registering the CT images obtained over the respiratory cycle. The two algorithms are the BSpline and the symmetric forces Demons registration. In the first optmization approach, CT images at each time point are registered to a single reference time point. In the second approach, deformation maps are obtained to align each CT time point with its adjacent time point. These deformations are then composed to find the deformation with respect to a reference time point. We evaluate these two algorithms and optimization approaches using respiratory gated CT images obtained from 7 patients. Our results show that overall the BSpline registration algorithm with the reference optimization approach gives the best results.
All-Optical Wavelength Conversion of a 100-Gb/s Polarization-Multiplexed Signal (2009)

We present the results of an in-depth experimental investigation about all-optical wavelength conversion of a 100-Gb/s polarization-multiplexed (POLMUX) signal. Each polarization channel is modulated at 25 Gbaud by differential quadrature phase-shift keying (DQPSK). The conversion is realized exploiting the high nonlinear chi((2)) coefficient of a periodically poled lithium niobate waveguide, in a polarization-independent configuration. We find that slight non-idealities in the polarization independent setup of the wavelength converter can significantly impair the performance of POLMUX systems. We show that high-quality wavelength conversion can be nevertheless achieved for both the polarization channels, provided that an accurate optimization of the setup is performed. This is the first demonstration, to the best of our knowledge, of the possibility to obtain penalty-free all-optical wavelength conversion in a 100-Gb/s POLMUX transmission system using direct-detection.
A Phase I, Single Ascending Dose Study of Cimaglermin Alfa (Neuregulin 1β3) in Patients With Systolic Dysfunction and Heart Failure (2016)

A first-in-human, phase 1, double blind, placebo-controlled, single ascending dose study examined the safety, tolerability, and exploratory efficacy of intravenous infusion of a recombinant growth factor, cimaglermin alfa, in patients with heart failure and left ventricular systolic dysfunction (LVSD). In these patients on optimal guideline-directed medical therapy, cimaglermin treatment was generally tolerated except for transient nausea and headache and a dose-limiting toxicity was noted at the highest planned dose. There was a dose-dependent improvement in left ventricular ejection fraction lasting 90 days following infusion. Thus, cimaglermin is a potential therapy to enhance cardiac function in LVSD and warrants further investigation.
Applied intelligent control - control of automotive paint process (2003)

We present an intelligent control algorithm that is targeted to process control of the steady state of a class of industrial MIMO nonlinear systems. The algorithm, called the RBIC intelligent control algorithm, combines the conventional indirect adaptive control approach with a rule base of initial conditions (RBIC) - an intelligent tool improving the conventional indirect adaptive algorithm in the presence of large disturbances and multiple operating modes. The RBIC operates as an associative memory that periodically reinitializes the indirect adaptive control algorithm by using a fuzzy reasoning inference mechanism. We discuss the main features and application aspects of the RBIC intelligent control algorithm. We also demonstrate one large scale process control application of the RBIC intelligent control algorithm as the main component of Ford Motor Company's integrated paint quality control system.
AutoMap: Automated Mapping of Security Properties Between Different Levels of Abstraction in Design Flow (2021)

The security of system-on-chip (SoC) designs is threatened by many vulnerabilities introduced by untrusted third-party IPs, and designers and CAD tools' lack of awareness of security requirements. Ensuring the security of an SoC has become highly challenging due to the diverse threat models, high design complexity, and lack of effective security-aware verification solutions. Moreover, new security vulnerabilities are introduced during the design transformation from higher to lower abstraction levels. As a result, security verification becomes a major bottleneck that should be performed at every level of design abstraction. Reducing the verification effort by mapping the security properties at different design stages could be an efficient solution to lower the total verification time if the new vulnerabilities introduced at different abstraction levels are addressed properly. To address this challenge, we introduce AutoMap that, in addition to the mapping, extends and expands the security properties to identify new vulnerabilities introduced when the design moves from higher-to lower-level abstraction. Starting at the higher abstraction level with a defined set of security properties for the target threat models, AutoMap automatically maps the properties to the lower levels of abstraction to reduce the verification effort. Furthermore, it extends and expands the properties to cover new vulnerabilities introduced by design transformations and updates to the lower abstraction level. We demonstrate AutoMap's efficacy by applying it to AES, RSA, and SHA256 at C++, RTL, and gate-level. We show that AutoMap effectively facilitates the detection of security vulnerabilities from different sources during the design transformation.
Further Convergence Studies of the Enhanced Doublet-Lattice Method (1999)

The doublet-lattice method (DLM) has become a standard source for the aerodynamic loads in  utter and dynamic response analyses of aircraft at subsonic speeds. A recent re nement to the method is based on an improvement to the integration of the oscillatory kernel function by replacing the parabolic approximation in the kernel numeratorwith amore accurate quartic approximation.This re nement extends the frequency limits of the DLM for applications to higher-frequency  utter and dynamic response. The effects of Mach number and lattice geometry on convergence by numerical experimentationwith some previously studied con gurations are reviewed as well as a realistic aircraft model, present guidelines are reviewed, and updated guidelines for box aspect ratio and number of boxes per wavelength are presented.
ChemInform Abstract: SUBSTITUENT EFFECTS ON THE SPIN EQUILIBRIUM OBSERVED WITH HEXADENTATE LIGANDS ON IRON(II) (1975)

Abstract Es werden neue pseudooctaedrische Fe(II)‐Komplexe mit den Aminen (III) als 6‐zähnigen Liganden [aus dem Amin (I) und den Pyridinen (IIa) und (IIb)] dargestellt.
In Situ Sensory Adaptation of Tumor-Infiltrating T Lymphocytes to Peptide-MHC Levels Elicits Strong Antitumor Reactivity (2005)

We have isolated from tumor-infiltrating lymphocytes (TIL) and PBL of a lung carcinoma patient several tumor-specific T cell clones displaying similar peptide-MHC tetramer staining and expressing a unique TCR. Although these clones elicited identical functional avidity and similar cytolytic potential, only T cell clones derived from TIL efficiently lysed autologous tumor cells. Interestingly, all of these clones expressed the same T cell surface markers except for the TCR inhibitory molecule CD5, which was expressed at much lower levels in TIL than in PBL. Video-imaging recordings demonstrated that, although both T cell clones could form stable conjugates with tumor cells, the Ca(2+) response occurred in TIL clones only. Significantly, analysis of a panel of circulating clones indicated that antitumor cytolytic activity was inversely proportional to CD5 expression levels. Importantly, CD5 levels in TIL appeared to parallel the signaling intensity of the TCR/peptide-MHC interaction. Thus, in situ regulation of CD5 expression may be a strategy used by CTL to adapt their sensitivity to intratumoral peptide-MHC levels.
A comprehensive CHO SWATH-MS spectral library for robust quantitative profiling of 10,000 proteins (2020)

Sequential window acquisition of all theoretical fragment-ion spectra (SWATH) is a data-independent acquisition (DIA) strategy that requires a specific spectral library to generate unbiased and consistent quantitative data matrices of all peptides. SWATH-MS is a promising approach for in-depth proteomic profiling of Chinese hamster Ovary (CHO) cell lines, improving mechanistic understanding of process optimization, and real-time monitoring of process parameters in biologics R&D and manufacturing. However, no spectral library for CHO cells is publicly available. Here we present a comprehensive CHO global spectral library to measure the abundance of more than 10,000 proteins consisting of 199,102 identified peptides from a CHO-K1 cell proteome. The robustness, accuracy and consistency of the spectral library were validated for high confidence in protein identification and reproducible quantification in different CHO-derived cell lines, instrumental setups and downstream processing samples. The availability of a comprehensive SWATH CHO global spectral library will facilitate detailed characterization of upstream and downstream processes, as well as quality by design (QbD) in biomanufacturing. The data have been deposited to ProteomeXchange (PXD016047).
Autophagy Mediates HBx‐Induced Nuclear Factor‐κB Activation and Release of IL‐6, IL‐8, and CXCL2 in Hepatocytes (2015)

Hepatitis B virus (HBV) and one of its encoded proteins, HBV X protein (HBx), have been shown to induce autophagy in hepatoma cells. Substantial evidence indicates that autophagy is a potent suppressor of inflammation. However, sporadic reports suggest that autophagy could promote pro-inflammatory cytokine expression and inflammation in some biological contexts. Here, we show that overexpression of HBx induces LC3B-positive autophagosome formation, increases autophagic flux and enhances the expression of ATG5, ATG7, and LC3B-II in normal hepatocytes. Abrogation of autophagy by small interfering RNA against ATG5 and ATG7 prevents HBx-induced formation of autophagosomes. Autophagy inhibition also abrogates HBx-induced activation of nuclear factor-κB (NF-κB) and production of interleukin-6 (IL-6), IL-8, and CXCL2. These findings suggest that autophagy is required for HBx-induced NF-κB activation and pro-inflammatory cytokine production and could shed new light on the complex role of autophagy in the modulation of inflammation.
Nitrogen-Doped Holey Graphene for High-Performance Rechargeable Li–O2 Batteries (2016)

Li–air batteries represent cutting edge electrochemical energy storage devices, but their practical applications have been precluded by the high cathode cost, the low discharge/charge efficiency, and/or the short battery lifetime. Here, we developed a low-cost, but very efficient, air electrode from porous nitrogen-doped holey graphene for rechargeable nonaqueous Li–O2 cells. The resultant Li–O2 cell can deliver a high round-trip efficiency (85%) and a long cycling life (>100 cycles) under controlled discharge/charge depths or a high capacity of 17 000 mAh/g under the full discharge/charge condition, superior to most other carbonaceous air cathodes. The observed superb performance for the air electrode based on the nitrogen-doped holey graphene can be attributed to its efficient metal-free catalytic activity and three-dimensional mass transport pathway. Therefore, this work represents a new approach to low-cost, efficient, metal-free, binder-free, and hierarchically porous air electrodes useful for energy conversion and storage from N-doped holey graphene.
Ultra-compact multichannel optical components based on PLC technologies (2004)

We propose multichannel based on PLC and MEMS technologies. 12 channel optical switch arrays and VOA arrays have been successfully developed by integrating 2/spl times/2 cross type and MEMS micro-mirrors connected together by flip chip bonding.
Low-frequency shear wave beam forming in time-resolved 2D pulsed elastography (2002)

We have shown in the past that time-resolved 2D pulsed elastography is a promising technique for characterizing the elasticity of soft tissues. It involves the measurement of the displacements induced by the propagation of a low-frequency (50-200 Hz) pulsed shear wave. An ultrafast ultrasonic imaging system (up to 10,000 frames/s) is used to follow the propagation of the slowly propagating shear wave (celerity /spl sim/4 m/s). A new vibrating device has been developed in which the linear array of transducers is placed between two rods fixed to electromagnetic vibrators. Using this device we observe a linear shear wave front in the imaging area. Furthermore the new system allows for low-frequency shear wave beam forming. The results of inversion algorithms indicate that it is possible to recover the elasticity distribution in tissue mimicking materials.
Multipath Natural Product Supplement Suppresses Dementia Symptoms in Amyloid-Î² and Tau Transgenic Drosophila (2018)

Background: Numerous reports on Alzheimer’s Disease (AD) indicate that AD has many biochemical pathways. However, most AD treatments have targeted a single pathway such as beta amyloid or phosphorylated tau and have not been very successful in stopping AD progression. To address the multipath nature of AD, we have used multiple natural products that target critical aging and independent AD pathways to test whether a multipath approach might be more effective than the single pathway approaches typically used.
Methods and findings: We have constructed Drosophila melanogaster models of AD with inducible transgenic human Amyloid-β and tau mutations. Induction of either AD mutant gene in the transgenic flies after emergence from pupal stage leads to the early onset of slowed mobility that was tracked by assaying crawl times as a function of age. The transgenic Amyloid-β and tau Drosophila assays were utilized to test various natural products that target separate biological pathways involved in brain aging and dementia. Screening a library of natural products, we identified a group of 7 natural substances (MX100A) that synergistically prevented nearly all early mobility difficulties and reverses the lifeshortening effects of Amyloid-β and tau. The favorable results on AD symptoms in Drosophila with MX100A were observed in animals treated from youth and from later adult ages. MX100A had no observed negative side effects.
Conclusion: Treatment of transgenic AD Drosophila with the multipath MX100A dietary supplement prevents nearly all early mobility difficulties and reverses the lifeshortening effects of Amyloid-β and tau. In patients with AD, progressively more severe mobility difficulties and heightened risks of mortality are common symptoms of the later stages of AD. While successful animal results have not typically translated into effective treatments for AD, the multipath MX100A treatment results are promising enough to warrant further testing.
Interaction and user experiences with multimedia technologies (2008)

In this paper, we investigate future topics and challenges of interaction and user experience in multimedia We bring together different perspectives from overlapping fields of research such as multimedia, human-computer interaction, information retrieval, networked multimedia, and creative arts. Based on potential intersections, we define three application domains to be investigated further, as they create high demand and good prospect for long-lasting developments in the future. These application domains are: media working environments, media enter-/edutainment, and social media engagement. Each application domain is analyzed along five dimensions, namely: information quality, presentation quality, ambience, interactivity, and user expectations. Based on this analysis, we identify the most pressing research questions and key challenges for each area. Finally, we advocate a user-centered approach to tackle these challenges and questions in order to develop relevant multimedia applications that best meet the users' expectations.
Acetylation of Chitin Nanofibers and their Transparent Nanocomposite Films (2010)

Chitin nanofibers were acetylated to modify the fiber surface and were characterized in detail. The acetyl DS could be controlled from 0.99 to 2.96 by changing the reaction time. FT-IR spectra indicate that chitin nanofibers were acetylated completely after 50 min reaction time. X-ray diffraction profiles and TGA curves show that the chitin nanofibers were acetylated heterogeneously from the surface to the core. SEM images show that fiber shape was maintained even in the high-DS sample and that the thickness of the nanofibers increased with the introduction of bulky acetyl groups. Acetylated chitin nanofiber composites were fabricated with acrylic resin with the fiber content of approximately 25 wt %. Due to the size effect, all nanocomposites had high transparency, despite the variety of acetyl DS, and the transparency of the chitin nanofiber composite was less sensitive to acetylation. By only 1 min acetylation, the moisture absorption of the nanocomposite drastically decreased from 4.0 to 2.2%. Although the coefficient of thermal expansion (CTE) of the tricyclodecane dimethanol dimethacrylate (TCDDMA) resin was 6.4 x 10(-5) degrees C(-1), the CTE of the chitin nanofiber/TCDDMA composite decreased to 2.3 x 10(-5) degrees C(-1) by the reinforcement effect of the chitin nanofibers with low thermal expansion.
Abstract 2819: Targeting inflammation and pancreatitis blocks tumor-initiating stem cells and pancreatic cancer progression (2015)

Abstract Pancreatic cancer (PC) is a deadly disease with the lowest survival of all cancers. Recent development of genetically engineered mouse models (GEMs) for PC that recapitulate human disease progression has enabled development of new strategies to delay or inhibit pancreatic cancer and testing of experimental interventions in preclinical trials. Pancreatic tumor-initiating or cancer stem cell (CSC) populations contribute to tumor growth, metastasis, and resistance to therapy. We first found that expression of the CSC marker DclK1 occurs at an early stage of PC in both early and late pancreatic intraepithelial neoplasia (PanINs) and increases as the disease progresses. Genome-wide next generation sequencing of pancreatic ductal adenocarcinoma (PDAC) from GEMs revealed significantly increased DclK1 along with inflammatory genes. Genetic ablation of cyclo-oxygenase (COX)-2 decreased the DclK1 in GEMs. Induction of inflammation with cerulein induced pancreatitis in GEMs increased DclK1, and Dclk1 was reduced by the novel anti-inflammatory dual COX/5-lipoxygenase (5-LOX) inhibitor licofelone. We investigated the long term pharmacologic inhibitory efficacy of licofelone on PDAC in vivo using a GEM model. GEM (n = 86) and wild type mice (n = 24) were fed a diet containing different doses of licofelone for 300 days and evaluated for formation of PanINs and for their progression to PDAC. Dietary licofelone at tested doses significantly inhibited the incidence of PDAC (60-90%; p&amp;lt;0.0001) with a profound suppression of carcinoma in situ (35-60%; p&amp;lt;0.001) in male and female GEMs. Licofelone caused a dose-dependent suppression of pancreatic tumor COX-2 and 5-LOX activities and modulated miRNAs for inflammation markers and CSCs, including DclK1, CD133, CD44, and Lgr5 (p&amp;lt;0.001) in correlation with the PDAC inhibition. Licofelone also inhibited inflammation-induced CSCs in vitro. These studies provide the first evidence that modulation of inflammation with a dual COX-LOX inhibitor effectively blocks CSCs and inhibits pancreatic tumorigenesis. In summary, our preclinical data indicate that licofelone has potential for chemoprevention of PC and should be evaluated in other PDAC models in anticipation of future clinical trials. {Supported by NCI-CN-53300} Citation Format: Altaf Mohammed, Naveena B. Janakiram, Venkateshwar Madka, Misty Brewer, Rebekah L. Ritchie, Stan Lightfoot, Gaurav Kumar, Michael Sadeghi, Jagan Mohan R Patlolla, Hiroshi Yamada, Zobeida Cruz-Monserrate, Courtney W. Houchen, Vernon E. Steele, Chinthalapally V. Rao. Targeting inflammation and pancreatitis blocks tumor-initiating stem cells and pancreatic cancer progression. [abstract]. In: Proceedings of the 106th Annual Meeting of the American Association for Cancer Research; 2015 Apr 18-22; Philadelphia, PA. Philadelphia (PA): AACR; Cancer Res 2015;75(15 Suppl):Abstract nr 2819. doi:10.1158/1538-7445.AM2015-2819
A study of the Osterberg–Sarkar–Kruck method for evaluating free metal and free ligand concentrations in solutions of complex equilibria (1977)

The method developed by Osterberg, Sarkar, and Kruck for obtaining the concentrations of free ions in solutions of complex equilibria from pH titration data has been studied to establish the conditions under which the method gives accurate values for free ligand and free metal concentrations in systems containing a variety of complexes, including protonated, hydroxy, mixed ligand, and polynuclear complexes. Simulated titration data have been used so that the true values of free ligand and free metal concentrations would be known. Calculation procedures are described for each step in the data evaluation, including procedures for extracting information about the stoichiometry of the complexes from the unique information provided by this method. The effect of various systematic and random errors is also considered.
Reactions of Coordinated Ligands. IX. Utilization of the Template Hypothesis to Synthesize Macrocyclic Ligands in Situ (1964)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTReactions of Coordinated Ligands. IX. Utilization of the Template Hypothesis to Synthesize Macrocyclic Ligands in SituMajor C. Thompson and Daryle H. BuschCite this: J. Am. Chem. Soc. 1964, 86, 18, 3651–3656Publication Date (Print):September 1, 1964Publication History Published online1 May 2002Published inissue 1 September 1964https://pubs.acs.org/doi/10.1021/ja01072a012https://doi.org/10.1021/ja01072a012research-articleACS PublicationsRequest reuse permissionsArticle Views825Altmetric-Citations132LEARN 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