gebhart/patrepeval huggingface dataset:
An Explicit Reference Governor for Time-Varying Linear Constraints (2020)

The explicit reference governor (ERG) is an add-on unit that provides constraint handling capabilities to prestabilized systems. The basic idea behind this approach is to translate state and input constraints into an upper-bound on the value of the Lyapunov function, which is then enforced by suitably manipulating the derivative of the auxiliary reference. This paper extends the ERG approach to deal with time-varying linear constraints. In particular, it is shown that under a certain condition on the rate of change of the constraints and the strength of stability of the prestabilized system (i.e., the speed of the dynamics of the prestabilized system), it is possible to deploy the ERG approach to handle time-varying constraints. To do so, components of the ERG approach are redefined, and constraints satisfaction and convergence properties are proven analytically. The effectiveness of the proposed scheme is demonstrated through a simulation study on filming a movie scene with a drone.
Reduced order delayed systems by means of Laguerre functions and Krylov subspaces (2014)

In this paper, we propose an algorithm for model order reduction of large scale systems that can be described by delayed differential equations. The algorithm is based on the combination of a Laguerre expansion technique for the delays and higher order Krylov subspaces. Pertinent numerical results validate the accuracy and efficiency of the proposed model order reduction approach.
Identification of Small Molecule Inhibitors that Suppress Cytokine-Induced Apoptosis in Human Pancreatic Islet Cells (2011)

Type 1 diabetes is caused by autoimmune destruction of insulin-producing beta cells in the pancreas. In this process, beta-cell apoptosis involves multiple signaling cascades stimulated by interleukin-1β (IL-1β), interferon-γ (IFN-γ), and tumor necrosis factor-α (TNF-α). These pathways result in decreased pancreatic beta-cell numbers that lead to the disease phenotype. Most of the compounds described in the literature protect cells from a single facet of cytokine treatment but do not provide wide-ranging protection from apoptosis nor do they restore insulin secretion. The goal of this project was to identify and to optimize small molecules that can prevent cytokine-induced pancreatic beta-cell apoptosis. To achieve this goal, we completed a screen of 339,000 compounds in rat INS-1E insulinoma cells treated with IL-1β, IFN-γ, and TNF-α. As a result, we identified MLS003179189, a member of a novel diversity-oriented synthesis (DOS) library with stereochemical diversity and complexity akin to naturally occurring small molecules. MLS003179189 contains 3 stereocenters and was the only stereoisomer (out of eight possible stereoisomers) to show activity in the primary assay for cell viability. About 50 analogs of the active stereoisomer were synthesized and tested, leading to a superior probe candidate (ML187). In studies with dissociated human primary pancreatic islets, (ML187) improved cell viability, decreased caspase activation, and improved insulin production. These data suggest that a consistent mechanism of action exists in both rat and human cells and that the probe (ML187) is a first-in-class probe for Type I diabetes that both protects against destruction of beta cells and restores function.
Training fuzzy number neural networks using constrained backpropagation (2002)

Few training techniques are available for neural networks with fuzzy number weights, inputs, and outputs. Typically, fuzzy number neural networks are difficult to train because of the many /spl alpha/-cut constraints implied by the fuzzy weights. In this paper, we introduce a weight representation that simplifies the constraint equations. A constrained form of backpropagation is then developed for fuzzy number neural networks. Standard backpropagation may be viewed as a constrained optimization of the linearization of the weight function. Our weight representation allows use of the additional /spl alpha/-cut constraints during a weight update.
Low-Power Frequency-Locked Loop Circuit with Static Frequency Offset Cancellation (2023)

A phase-locked loop (PLL) is an important and commonly used electronic circuit in various electronic systems. Its main drawback is the use of an RC low-pass filter which takes up the majority of the PLL area on the chip. The RC low-pass filter is necessary to ensure the PLL stability. To mitigate this issue, a frequency-locked loop (FLL) is used because the stability of an FLL system depends on the Miller capacitance inside of the operational amplifier, which drastically reduces the capacitor size and thus the chip area. This paper presents an improved design of a fully integrated FLL. It is based on a single frequency-to-voltage converter (FVC) which uses a single capacitor and a single charging current for the frequency-to-voltage conversion of both the input and output frequencies. The use of one FVC reduces the static frequency offset caused by the mismatch between the FVCs. The circuit is implemented in a 180-nm CMOS process. The measurements show that the new FLL design has increased precision and accuracy and similar chip area compared to the previous design. It has higher power consumption, increased delay time, overshoot and settling time, but they are comparable to those of the previous design.
Field-deployable Photonic Microwave Synthesizer (2018)

We present the progress towards a transportable photonic microwave synthesizer, porting ultra-high optical stability to a 12 GHz signal. The system is composed of two main sub-units: a 194 THz transportable ultra-stable laser with sub-Hz linewidth and an ultra-low noise optical frequency comb used for dividing such optical frequency to the microwave domain. Characterizing the signal by means of a self-made cross-correlator, a phase noise power spectral density of -170 dBc/Hz at 10 kHz Fourier frequency is measured. This result surpasses the performance demonstrated with transportable Cryogenic Sapphire Oscillator.
Wafer-Scale Functional Metasurfaces on Free-Standing Membranes (2022)

We demonstrate free-standing metasurfaces made by a new wafer-scale and CMOS compatible nanofabrication method and produce nanostructures over large-area transparent oxide membranes. Applications include narrow-band spectral filtering, efficient light focusing, polarization control and optofluidic biosensors.
Human AlkB Homolog 1 Is a Mitochondrial Protein That Demethylates 3-Methylcytosine in DNA and RNA (2008)

The Escherichia coli AlkB protein and human homologs hABH2 and hABH3 are 2-oxoglutarate (2OG)/Fe(II)-dependent DNA/RNA demethylases that repair 1-methyladenine and 3-methylcytosine residues. Surprisingly, hABH1, which displays the strongest homology to AlkB, failed to show repair activity in two independent studies. Here, we show that hABH1 is a mitochondrial protein, as demonstrated using fluorescent fusion protein expression, immunocytochemistry, and Western blot analysis. A fraction is apparently nuclear and this fraction increases strongly if the fluorescent tag is placed at the N-terminal end of the protein, thus interfering with mitochondrial targeting. Molecular modeling of hABH1 based upon the sequence and known structures of AlkB and hABH3 suggested an active site almost identical to these enzymes. hABH1 decarboxylates 2OG in the absence of a prime substrate, and the activity is stimulated by methylated nucleotides. Employing three different methods we demonstrate that hABH1 demethylates 3-methylcytosine in single-stranded DNA and RNA in vitro. Site-specific mutagenesis confirmed that the putative Fe(II) and 2OG binding residues are essential for activity. In conclusion, hABH1 is a functional mitochondrial AlkB homolog that repairs 3-methylcytosine in single-stranded DNA and RNA.
Human reach-to-grasp compensation with object pose uncertainty (2013)

This paper examined how humans alter reach-to-grasp behavior to compensate for environmentally-induced object orientation uncertainty. We used a novel motion tracking framework to capture hand-object interactions, as well as a custom cylindrical object to detect contacts. Subjects were instructed to reach, grasp, and lift the object with or without vision. The orientation of the object was randomly changed on each trial. We hypothesized subjects would use a reach-to-grasp strategy that minimizes post-contact adjustments. However, our results indicate that (1) subjects are more likely to use the hand as a sensing apparatus prior to contact, and (2) the reach-to-grasp kinematics may be optimized for efficient sensing of object orientation. Our findings could provide potential solution to efficient tactile sensing for robotic hand in unstructured environment.
Immunity to disease caused by Hemophilus influenzae type b. II. Specificity and some biologic characteristics of "natural," infection-acquired, and immunization-induced antibodies to the capsular polysaccharide of Hemophilus influenzae type b. (1971)

Purified type b capsular polysaccharide of Hemophilus influenzae induced a serum antibody response in 20 adults with pre-existing antibodies. Using absorption experiments in mouse protection and passive hemagglutination and complement-dependent bactericidal assays, the anti-type b antibodies induced by immunization had identical characteristics to “natural” and infection-induced antibodies. Further evidence for the protective quality of anti-type b antibodies was derived from the finding of an inverse relationship between the age incidence of influenzal meningitis and the percentage of individuals of different ages with serum anti-capsular antibodies. Most infants and children with disease did not have anti-capsular antibodies during the acute phase of their disease. Patients with antibody deficiency syndromes, highly susceptible to disease with H. influenzae type b, did not have detectable serum anti-type b antibodies.
Coupled electric drives data set and reference models (2017)

The following report provides a description of the CE8 coupled electric drives laboratory process. A first set of continuous time model structures that are suitable to describe the nonlinear dynamics are presented. The data sets, which are available in .mat and .csv file formats, are then described in detail. The available data sets are short, which constitute a challenge when performing identification. In support of future work, Wiener models are identified with a recursive algorithm that is parameterized in continuous time. This approach reduces the number of parameters to four for identification of third order dynamics.
Data from Determinants of Successful CD8<sup>+</sup> T-Cell Adoptive Immunotherapy for Large Established Tumors in Mice (2023)

&lt;div&gt;Abstract&lt;p&gt;&lt;b&gt;Purpose:&lt;/b&gt; Adoptive cell transfer (ACT) of tumor infiltrating or genetically engineered T cells can cause durable responses in patients with metastatic cancer. Multiple clinically modifiable parameters can comprise this therapy, including cell dose and phenotype, &lt;i&gt;in vivo&lt;/i&gt; antigen restimulation, and common gamma-chain (γ&lt;sub&gt;c&lt;/sub&gt;) cytokine support. However, the relative contributions of each these individual components to the magnitude of the antitumor response have yet to be quantified.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Experimental Design:&lt;/b&gt; To systematically and quantitatively appraise each of these variables, we employed the Pmel-1 mouse model treating large, established B16 melanoma tumors. In addition to cell dose and magnitude of &lt;i&gt;in vivo&lt;/i&gt; antigen restimulation, we also evaluated the relative efficacy of central memory (T&lt;sub&gt;CM&lt;/sub&gt;), effector memory (T&lt;sub&gt;EM&lt;/sub&gt;), and stem cell memory (T&lt;sub&gt;SCM&lt;/sub&gt;) subsets on the strength of tumor regression as well as the dose and type of clinically available γ&lt;sub&gt;c&lt;/sub&gt; cytokines, including IL-2, IL-7, IL-15, and IL-21.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Results:&lt;/b&gt; We found that cell dose, T-cell differentiation status, and viral vaccine titer each were correlated strongly and significantly with the magnitude of tumor regression. Surprisingly, although the total number of IL-2 doses was correlated with tumor regression, no significant benefit to prolonged (≥6 doses) administration was observed. Moreover, the specific type and dose of γ&lt;sub&gt;c&lt;/sub&gt; cytokine only moderately correlated with response.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Conclusion:&lt;/b&gt; Collectively, these findings elucidate some of the key determinants of successful ACT immunotherapy for the treatment of cancer in mice and further show that γ&lt;sub&gt;c&lt;/sub&gt; cytokines offer a similar ability to effectively drive antitumor T-cell function &lt;i&gt;in vivo&lt;/i&gt;. &lt;i&gt;Clin Cancer Res; 17(16); 5343–52. ©2011 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
Urinary TMPRSS2: Use of ERG and PCA3 to predict tumor volume and Gleason grade in an active surveillance cohort—Results from the Canary/EDRN Prostate Active Surveillance Study. (2012)

2 Background: Active surveillance is an increasing alternative for the management of low risk prostate cancer; however, there is a crucial need for better biomarkers to distinguish men with indolent versus aggressive disease. Both PCA3 and TMRPSS2-ERG (T2-ERG) are biomarkers that show promise in that they may be associated with more aggressive disease. This study examines the correlation of these biomarkers with higher volume or grade cancer in an active surveillance cohort. Methods: Post-DRE urine was collected prospectively as part of the multi-institutional Canary/EDRN Prostate Active Surveillance Study (PASS). PCA3 and T2-ERG levels were analyzed in urine collected from 401 men at study entry. Many of the men had undergone previous biopsies after initial prostate cancer diagnosis, and 20% of the urine specimens were associated with a negative serial biopsy. Biomarker scores were correlated to clinical and pathologic variables, including tumor volume - measured by percent of biopsy core involvement - and Gleason score, using non-parametric and univariate analyses. Results: Both PCA3 and T2-ERG scores were significantly associated with higher volume disease. For negative repeat biopsy, 1-10%, 11-34%, &gt;34% positive cores, median (95% CI) PCA3 scores were 27 (24-31), 26 (22-33), 40 (29-51), 47 (26-90), p = 0.003 [Kruskal Wallis test (KW)], and median T2-ERG scores were 5 (2-8), 9 (4-14), 21 (14-40), 23 (4-115), p &lt; 0.0001 (KW). Both PCA3 and T2-ERG scores were also significantly associated with presence of higher grade disease. For negative biopsy, Gleason 5 - 6, and Gleason &gt;7, the median PCA3 scores were 27 (24-31), 31 (27-35), 48 (31-92), p = 0.02 (KW), and median T2-ERG scores were 5 (2-8), 14 (9-18), 29 (13-78), p = 0.001 (KW). The odds ratio for a positive biopsy versus a negative biopsy (ref) on modeling was 1.37 (1.04-1.81), p = 0.02 for PCA3 and 1.30 (1.12-1.51), p = 0.0006 for T2-ERG. Conclusions: Both PCA3 and T2-ERG appear to stratify risk, for men on active surveillance, of having aggressive cancer as defined by tumor volume or Gleason score and may have clinical applicability in selecting men with low volume/low grade disease for active surveillance.
Barotropic Mesophase (2016)

In the past, aggregation and self-assembly have been associated principally with micellar and colloidal systems of molecules; however, with the advent of supramolecular chemistry, molecular self-assembly has been opened to a much wider understanding that has facilitated access to a variety of different shapes and sizes, along with the construction of new and fascinating molecular topologies. This document aims at defining more than 150 terms related to aggregation and self-assembly in the particular case of macromolecules. The list is restricted to the most commonly encountered terms.
Demo (2011)

Smartphones are becoming the convergent platform for personal sensing, computing, and communication. Our work attempts to exploit this convergence towards the problem of automatic image tagging. We envision TagSense, a smartphone based collaborative system that senses the people/activity/context in a picture, and merges them carefully to create tags on-the-fly. The main challenge pertains to discriminating phone users that are in the picture, from those that are not. Our demonstration system consists of 8 Android phones and a laptop. Phones -- with the TagSense application running -- will be randomly distributed to participants. Once a picture is taken by a participant with the phone, tags generated by TagSense will be shown on the phone screen.
RE: QUANTITATIVE POLYMERASE CHAIN REACTION DOES NOT IMPROVE PREOPERATIVE PROSTATE CANCER STAGING: A CLINICOPATHOLOGICAL MOLECULAR ANALYSIS OF 121 PATIENTS (1998)

Given the high incidence of false positive signals in patients with pathologically determined localized disease, in our experience polymerase chain reaction based assays offer no immediate benefit for preoperative prostate cancer staging. The prognostic significance of detecting circulating prostate specific signals awaits longer followup in this cohort of patients, which is currently under study.
Defect detection in Through Silicon Vias by GHz Scanning Acoustic Microscopy: Key ultrasonic characteristics (2014)

Among the technological developments pushed by the emergence of 3D-ICs, Through Silicon Via (TSV) technology has become a standard element in device processing over the past years. As volume increases, defect detection in the overall TSV formation sequence is becoming a major element of focus nowadays. Robust methods for in-line void detection during TSV processing are therefore needed especially for scaled down dimensions. Within this framework, the current contribution describes the application field of GHz Scanning Acoustic Microscopy (SAM) to TSV void detection.
Engineering cis-telomerase RNAs that add telomeric repeats to themselves (2010)

Telomerase is a ribonucleoprotein complex consisting of a protein reverse transcriptase (TERT) and an RNA subunit (TR). Telomerase normally adds telomeric DNA repeats to chromosome ends. Here, we engineer human and Tetrahymena cis-telomerase RNAs, each having a DNA primer covalently linked to its 3' end. We find that cis-telomerase synthesizes DNA with increased repeat addition processivity (RAP) but does not completely rescue the RAP defect of the L14A mutant of Tetrahymena TERT. This supports the conclusion that L14 has a function beyond binding the DNA primer and preventing dissociation during multiple rounds of repeat addition. By comparing cis-telomerases with various linker lengths, we find that a 5 nt linker gives near-optimal activity, indicating that the distance between the 3' end of the telomerase RNA pseudoknot region and the 5' end of the DNA primer is approximately 33 A. Even a 2 nt linker (approximately 14 A) gives some activity, indicating a high degree of conformational flexibility in this ribonucleoprotein complex. More generally, the cis system will allow structure-function relationships of each RNA molecule to be read directly through the reaction that it performs on itself.
Saliency-based navigation in omnidirectional image (2017)

Omnidirectional images describe the color information at a given position from all directions. Affordable 360° cameras have recently been developed leading to an explosion of the 360° data shared on social networks. However, an omnidirectional image does not contain interesting content everywhere. Some part of the images are indeed more likely to be looked at by some users than others. Knowing these regions of interest might be useful for 360° image compression, streaming, retargeting or even editing. In this paper, we aim at modelling the user navigation within a 360° image, and detecting which parts of an omnidirectional content might draw users' attention. In particular, the paper proposes to aggregate and analyze 2D saliency detectors in different map projections, and also proposes a smooth navigation through the image to maximize saliency.
Correction for Kibler et al., “Replication-Competent NYVAC-KC Yields Improved Immunogenicity to HIV-1 Antigens in Rhesus Macaques Compared to Nonreplicating NYVAC” (2019)

Author(s): Kibler, Karen V; Asbach, Benedikt; Perdiguero, Beatriz; Garcia-Arriaza, Juan; Yates, Nicole L; Parks, Robert; Stanfield-Oakley, Sherry; Ferrari, Guido; Montefiori, David C; Tomaras, Georgia D; Roederer, Mario; Foulds, Kathryn E; Forthal, Donald N; Seaman, Michael S; Self, Steve; Gottardo, Raphael; Phogat, Sanjay; Tartaglia, James; Barnett, Susan; Cristillo, Anthony D; Weiss, Deborah; Galmin, Lindsey; Ding, Song; Heeney, Jonathan L; Esteban, Mariano; Wagner, Ralf; Pantaleo, Giuseppe; Jacobs, Bertram L | Abstract: Volume 93, no. 3, e01513-18, 2019, https://doi.org/10.1128/JVI.01513-18. The article was originally published on 17 January 2019 with a standard copyright line (“© 2019 American Society for Microbiology. All Rights Reserved.”). We elected to pay for open access for the article after publication, necessitating replacement of the original copyright line with “© 2019 Kibler et al. This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license.” This change was made to the online version of the article on 21 August 2019.
[Mechanism of lymphocyte activation by periodic acids. Blastogenesis and induction of immunomodulator populations]. (1979)

Mild periodate treatment is mitogenic for T lymphocytes. With murine spleen cells periodate oxidation is effective between C8 and C9 on sialyl acid residues. With human blood lymphocytes this oxidation occurs between C7 and C8 of these residues. In vitro immune response is inhibited by periodate treatment. Activation of an immunosuppressive T lymphocyte population is obtained. Similar results are performed with human blood lymphocytes.
Reactions of ketenes with sulfilimines. Synthetic routes to oxazolinones and indolinones (1985)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTReactions of ketenes with sulfilimines. Synthetic routes to oxazolinones and indolinonesMagid Abou-Gharbia, Daniel M. Ketcha, David E. Zacharias, and Daniel SwernCite this: J. Org. Chem. 1985, 50, 13, 2224–2228Publication Date (Print):June 1, 1985Publication History Published online1 May 2002Published inissue 1 June 1985https://pubs.acs.org/doi/10.1021/jo00213a005https://doi.org/10.1021/jo00213a005research-articleACS PublicationsRequest reuse permissionsArticle Views544Altmetric-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-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts