gebhart/patrepeval huggingface dataset:
Fundamental low frequency limitations in networked control (2019)

Fundamental low frequency limitations in networked control BackgroundNetworked control has to a large extent been focused on the effects of control signal quantization.The data rate theorem e.g.states the minimum data rate that is needed to stabilize a system over a network interface.With the emergence of machine type communication functionality in the new 5G wireless systems that are under standardization, the need for networked control can be expected to increase dramatically.In that standardization there is a particular focus on low latency, thereby enabling new networked control applications in vehicles, for industrial robots, as well as haptic feedback control for gaming and perhaps even remote surgery.
Plant growth‐stimulating rhizobacteria capable of producing L ‐amino acids (2020)

Pseudomonas putida BIRD-1 is a microorganism that inhabits the rhizosphere and solubilizes phosphate and iron and produces indolacetic acid [Roca, A., Pizarro-Tobías, P., Udaondo, Z., Fernández, M., Matilla, M.A., Molina-Henares, M.A., et al. (2013) Analysis of plant growth-promoting properties encoded by the genome of the rhizobacterium Pseudomonas putida BIRD-1. Environ Microbiol 15: 780-794]. In this study, we generated mutant strains that are capable of producing the plant growth stimulating compounds L-tryptophan and L-phenylalanine. We prepared clones that overproduce L-tryptophan by first mutagenizing P. putida BIRD-1, then by selecting for clones in the presence of inhibitory concentrations of 5-fluoro-D,L-tryptophan. The production of this aromatic amino acid was confirmed by chemical analysis and cross-feeding experiments with auxotrophs. One of the mutants, named P. putida BIRD-1-12, was mutagenized again to isolate clones that are also able to grow in the presence of inhibitory concentrations of p-fluoro-D,L-phenylalanine. One of these resulting clones was then isolated and named BIRD-1-12F. Our analysis revealed that the strains that either overproduce L-tryptophan, or L-tryptophan and L-phenylalanine, excel at promoting the growth of a number of plant crops of agricultural interest.
Contemporary Aspects of Discrete Peak-Detection Algorithms. II. The Paradigm of the Luteinizing Hormone Pulse Signal in Women* (1992)

ALONG-STANDING axiom in endocrine physiology is that normal reproductive function requires a highly coordinated interplay of events both within and among the components of the gonadal axis. Central to this axis are the gonadotropes, pituitary cells that synthesize and release the gonadotropins, LH and FSH. Of pivotal importance is the recognition that these trophic hormones, which are responsible for stimulating both the production of gonadal hormones and gametogenesis, are themselves secreted in a pulsatile fashion. Such pulsatile gonadotropin release reflects the integration of signals of both neural and gonadal origin that impinge upon the gonadotropes (Fig. 1). Indeed, the frequency with which the gonadotropins are released is believed in general to reflect the frequency with which quanta of GnRH are discharged by the hypothalamus, transported through the hypothalamic-hypophyseal portal circulation, and interact with appropriate receptors on responsive gonadotropes (1–6). The synthesis and secretion of GnRH itself are, in turn, modulated by catecholaminergic, serotoninergic, and opioid peptidergic as well as other neuromodulator systems within the hypothalamus and also by ambient concentrations of the gonadal hormones. Moreover, both in vitro and in vivo studies using the rat as a model have suggested that GnRH may feedback on itself via an ultrashort-loop system to inhibit its own secretion (7–9). Gonadotropin pulse amplitude may reflect both the amount of GnRH stimulating the gonadotrope and also the prevailing state of responsivity of the gonadotrope. Gonadotrope response characteristics appear to be a function not only of the neural signal, but also of the gonadal hormone milieu (10–23).
Association of endogenous viral genes with quantitative traits in chickens selected for high egg production and susceptibility or resistance to Marek's disease (1998)

1. The association of endogenous viral (ev) genes with quantitative traits in 2 genetically distinct sets of White Leghorn strains were investigated. Strain S had been selected for susceptibility to Marek's disease (MD) whereas strain K had been selected for resistance to MD and high egg production and egg weight. 2. In all, 8 ev genes were typed. Ev10, ev19 and 'newB' occurred exclusively in strain S, 'newA' occurred only in strain K, and ev1, ev3, ev6 and ev8 occurred in both strains. 3. Whereas ev6 and ev8 were associated with reduction in egg production rate in strain S, in strain K, the presence of ev3 was associated with increased group specific antigen. 4. The genetic background of the chicken strain may play a role in the way certain ev genes affect traits. 5. It was thought that the position of ev genes on the chromosome may be important and their association with traits of economic importance make them potential genetic markers for uncovering quantitative trait loci.
Monte Carlo study of correlated continuum percolation: Universality and percolation thresholds (1990)

Critical exponents of the continuum-percolation system of two-dimensional distributions of disks in the penetrable concentric shell model are determined by Monte Carlo simulations and by real-space Monte Carlo renormalization-group techniques. In this model, each disk of diameter \ensuremath{\sigma} is composed of a mutually impenetrable core of diameter \ensuremath{\lambda}\ensuremath{\sigma} (0\ensuremath{\le}\ensuremath{\lambda}\ensuremath{\le}1) encompassed by a perfectly penetrable shell of thickness (1-\ensuremath{\lambda})\ensuremath{\sigma}/2. Pairs of particles are connected when the interparticle distance is less than \ensuremath{\sigma}. We find that the susceptibility exponent \ensuremath{\gamma} is given by 2.50\ifmmode\pm\else\textpm\fi{}0.03 for an impenetrability parameter \ensuremath{\lambda}=0.8 and the correlation-length exponent \ensuremath{\nu} to be between 1.30 and 1.35 for various values of \ensuremath{\lambda}. Both results consistently suggest that continuum percolation in the penetrable concentric shell model for nonzero hard-core radii belongs to the same universality class as that of ordinary lattice percolation and of randomly centered disks, as far as the geometrical critical exponents are concerned. We also present the critical reduced number densities and critical area fractions for selected values of \ensuremath{\lambda}.
Design and validation of microfluidic parameters of a microfluidic chip using fluid dynamics (2021)

The internal fluidic parameters of microfluidic channels must be analyzed to solve fundamental microfluidic problems, including microscale transport problems involving thermal analysis, chemical reactivity, velocity, pressure drop, etc., for developing good-quality chemical and biological products. Therefore, the characterization and optimization of the interaction of chemical and biological solutions through microfluidic channels are vital for fluid flow design and engineering for quality assurance in microfluidic platforms. As the internal structures and kinetics of microfluidic channels are becoming increasingly complex, experiments involving optimal fluidic and transport designs are challenging to perform with high accuracy. However, highly integrated simulation tools can guide researchers without specialized computational fluid backgrounds to design numerical prototypes of highly integrated devices. In this study, a microfluidic chip with two inlet wells and one outlet well was fabricated from polydimethylsiloxane following which simulations were performed using an ANSYS Fluent tool influenced by computational fluid dynamics at a nearly identical scale. The pressure drop and velocity profiles of the interaction of two pH buffer solutions (pH 4 and 10) through the designed microfluidic chip were qualitatively estimated from experimental data analysis and validated with the simulation results obtained from the CFD-influenced ANSYS Fluent tool.
MicroRNA miR-210 modulates cellular response to hypoxia through the MYC antagonist MNT (2009)

The hypoxia-inducible factor (HIF) pathway is essential for cell survival under low oxygen and plays an important role in tumor cell homeostasis. We investigated the function of miR-210, the most prominent microRNA upregulated by hypoxia and a direct transcriptional target of HIFs. miR-210 expression was elevated in multiple cancer types and correlated with metastasis of breast and melanoma tumors. miR-210 overexpression in cancer cell lines bypassed hypoxia-induced cell cycle arrest and partially reversed the hypoxic gene expression signature. We identified MNT, a known MYC antagonist, as a miR-210 target. MNT mRNA contains multiple miR-210 binding sites in the 3' UTR and its knockdown phenocopied miR-210 overexpression. Furthermore, loss of MYC abolished miR-210-mediated override of hypoxia-induced cell cycle arrest. Comparison of miR-210 and MYC overexpression with MNT knockdown signatures also indicated that miR-210 triggered a "MYC-like" transcriptional response. Thus, miR-210 influences the hypoxia response in tumor cells through targeting a key transcriptional repressor of the MYC-MAX network.
Structural Characterization of Daptomycin Analogues A21978C1-3(d-Asn11) Produced by a Recombinant Streptomyces roseosporus Strain (2007)

Three daptomycin-related lipopeptides, A21978C1-3(d-Asn11) (2-4), were purified from the fermentation broth of a recombinant Streptomyces roseosporus strain. Their chemical structures were determined by analyses of the biosynthetic pathway, chemical transformations, d,l-amino acid quantitation by enantiomer labeling, tandem LC-MS/MS, and 2D-NMR techniques. Compounds 2-4 exhibited potent antibacterial activity against Staphylococcus aureus with MIC values of 0.6, 0.3, and 0.15 microM, respectively, well correlated to the acyl tail chain length.
Atezolizumab (atezo) vs. chemotherapy (chemo) in platinum-treated locally advanced or metastatic urothelial carcinoma (mUC): Immune biomarkers, tumor mutational burden (TMB), and clinical outcomes from the phase III IMvigor211 study. (2018)

409 Background: IMvigor211 is a global study of atezo vs chemo in platinum-treated mUC. The study did not meet its primary endpoint of overall survival (OS) in programmed death-ligand 1 (PD-L1)–selected patients (pts), 1 but exploratory analyses showed improved OS for atezo in the intent-to-treat (ITT) population. Here we compare clinical outcomes in ITT and prespecified PD-L1 subgroups with those in subgroups defined by immune transcriptional gene expression (tGE) signatures and TMB. Methods: Pts with ≤ 2 prior lines of therapy for mUC who progressed during or following platinum treatment were randomized 1:1 to atezo or chemo (vinflunine, paclitaxel or docetaxel, per physician). The primary endpoint was OS, hierarchically compared between treatment arms in PD-L1–selected and ITT pts. Planned exploratory biomarker analyses included tGE (RNA-seq) and TMB (FoundationOne). Results: The ITT population included 931 pts (atezo arm, 467; chemo arm, 464), and biomarker-evaluable subgroups were representative of the ITT population. PD-L1 expression positively correlated with tGE (R = 0.61) but not TMB (R = 0.13). OS and hazard ratios (HRs) are listed in the Table. Conclusions: In this randomized Phase III study, we show that high PD-L1 and high tGE are associated with improved outcomes with both chemo and atezo. In contrast, higher TMB predicted OS in favor of atezo; however, clinical benefit with atezo was also seen in the ITT population. Clinical trial information: NCT02302807. [Table: see text]
Should We Do EUS/FNA on Patients With Pancreatic Cysts? The Incremental Diagnostic Yield of EUS Over CT/MRI for Prediction of Cystic Neoplasms (2013)

The incremental increase in diagnostic yield of EUS and fluid analysis over CT and MRI for prediction of a neoplastic cyst is 36% and 54%, respectively. The addition of EUS-FNA to abdominal imaging significantly increases overall accuracy for diagnosis of neoplastic pancreatic cysts.
Study of the Cabibbo-suppressed decay modes D0→π−π+ and D0→K−K+ (2003)

Using data from the FOCUS (E831) experiment at Fermilab, we present a new measurement for the branching ratios of the Cabibbo-suppressed decay modes D0→π−π+ and D0→K−K+. We measured: Γ(D0→K−K+)/Γ(D0→π−π+)=2.81±0.10(stat)±0.06(syst), Γ(D0→K−K+)/Γ(D0→K−π+)=0.0993±0.0014(stat)±0.0014(syst), and Γ(D0→π−π+)/Γ(D0→K−π+)=0.0353±0.0012(stat)±0.0006(syst). These values have been combined with other experimental data to extract the ratios of isospin amplitudes and the phase shifts for the D→KK and D→ππ decay channels.
Poster abstract: information-maximizing data collection in social sensing using named-data (2014)

This poster describes the information funnel, a data collection protocol for social sensing that maximizes a measure of delivered information utility. We argue that information-centric networking (ICN), where data objects are named instead of hosts, is especially suited for utility-maximizing transport in resource-constrained environments, because data names can expose similarities between named objects that can be leveraged for minimizing redundancy, hence maximizing utility. We implement the funnel on the recently proposed named-data networking (NDN) stack, an instance of ICN. With proper name space design, a protocol prioritizes transmission of data items over bottlenecks to maximize information utility, with very weak assumptions on the utility function. This prioritization is achieved merely by comparing data names, without knowing application-level name semantics, which makes it generalizable across a wide range of applications. Evaluation results show the information funnel improves the utility of the collected data objects compared with state-of-the-art solutions.
Propagation of constraints applied to circuit synthesis (1980)

Abstract A major component in the process of design is synthesis, the determination of the parameters of the parts of a network given desiderata for the behaviour of the network as a whole. Traditional automated synthesis techniques are either restricted to small, precisely defined classes of circuit functions for which exact mathematical methods exist or they depend upon numerical optimization methods in which it is difficult to determine the basis for any of the answers generated and their relations to the design desiderata and constraints. We are developing a symbolic computer‐aided design tool, SYN, which can be of assistance to an engineer in the synthesis of a large class of circuits. The symbolic methods produce solutions which are clear and insightful. The dependence of each parameter on the individual design desiderata and circuit constraints can be easily traced.
RNA with chemotherapeutic base analogues as a dual-functional anti-cancer drug (2022)

Nanoparticles of different sizes formulated with unmodified RNA and Protamine differentially engage Toll-like Receptors (TLRs) and activate innate immune responses <i>in vitro</i>. Here, we report that similar differential immunostimulation that depends on the nanoparticle sizes is induced <i>in vivo</i> in wild type as well as in humanized mice. In addition, we found that the schedule of injections strongly affects the magnitude of the immune response. Immunostimulating 130 nm nanoparticles composed of RNA and Protamine can promote lung metastasis clearance but provides no control of subcutaneous tumors in a CT26 tumor model. We further enhanced the therapeutic capacity of Protamine-RNA nanoparticles by incorporating chemotherapeutic base analogues in the RNA; we coined these <i>immunochemotherapeutic RNAs</i> (icRNAs). Protamine-icRNA nanoparticles were successful at controlling established subcutaneous CT26 and B16 tumors as well as orthotopic glioblastoma. These data indicate that icRNAs are promising cancer therapies, which warrants their further validation for use in the clinic.
15-µm-band wavelength conversion based on difference-frequency generation in LiNbO_3 waveguides with integrated coupling structures (1998)

We report wavelength conversion within the 1.5-mum telecommunications band based on difference-frequency generation in periodically poled lithium niobate waveguides with integrated coupling structures. A conversion efficiency of -7 dB and a normalized efficiency of 260%/W are demonstrated. Static tests show that the conversion bandwidth is 72 nm and the conversion efficiency is constant over the 20-dB range of input powers tested.
Self-calibration of depth sensing systems based on structured-light 3D (2013)

A structured-light system for depth estimation is a type of 3D active sensor that consists of a structured-light projector, that projects a light pattern on the scene (e.g. mask with vertical stripes), and a camera which captures the illuminated scene. Based on the received patterns, depths of different regions in the scene can be inferred. For this setup to work optimally, the camera and projector must be aligned such that the projection image plane and the image capture plane are parallel, i.e. free of any relative rotations (yaw, pitch and roll). In reality, due to mechanical placement inaccuracy, the projector-camera pair will not be aligned. In this paper we present a calibration process which measures the misalignment. We also estimate a scale factor to account for differences in the focal lengths of the projector and the camera. The three angles of rotation can be found by introducing a plane in the field of view of the camera and illuminating it with the projected light patterns. An image of this plane is captured and processed to obtain the relative pitch, yaw and roll angles, as well as the scale through an iterative process. This algorithm leverages the effects of the misalignment/ rotation angles on the depth map of the plane image.
Phosphoinositide 3-kinase knockout mice: role of p85α in B cell development and proliferation (1999)

Conference Article| August 01 1999 Phosphoinositide 3-kinase knockout mice: role of p85α in B cell development and proliferation D. A. Fruman; D. A. Fruman 1 *Division of Signal Transduction, Beth Israel Deaconess Medical Center and Department of Cell Biology, Harvard Medical School, Boston, MA 02215, U.S.A. 1To whom correspondence should be addressed: Division of Signal Transduction, HIM 1007, 330 Brookline Ave., Boston, MA 02215, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar S. B. Snapper; S. B. Snapper †Center for Blood Research and Children's Hospital, Boston, MA, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar C. M. Yballe; C. M. Yballe *Division of Signal Transduction, Beth Israel Deaconess Medical Center and Department of Cell Biology, Harvard Medical School, Boston, MA 02215, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar F. W. Alt; F. W. Alt †Center for Blood Research and Children's Hospital, Boston, MA, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar L. C. Cantley L. C. Cantley *Division of Signal Transduction, Beth Israel Deaconess Medical Center and Department of Cell Biology, Harvard Medical School, Boston, MA 02215, U.S.A. Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1999) 27 (4): 624–629. https://doi.org/10.1042/bst0270624 Article history Received: March 05 1999 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn Email Cite Icon Cite Get Permissions Citation D. A. Fruman, S. B. Snapper, C. M. Yballe, F. W. Alt, L. C. Cantley; Phosphoinositide 3-kinase knockout mice: role of p85α in B cell development and proliferation. Biochem Soc Trans 1 August 1999; 27 (4): 624–629. doi: https://doi.org/10.1042/bst0270624 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 ContentAll JournalsBiochemical Society Transactions Search Advanced Search Keywords: PI3K, phosphoinositide 3-kinase: Btk, Bruton's tyrosine kinase, LPS, lipopolysaccharide, PH, pleckstrin homology, SH2, Src homology 2, ES cells, embryonic stem cells, FACS, fluorescence-activated cell sorting, IL-4, interleukin-4, IL-2, inter-leukin-2 This content is only available as a PDF. © 1999 Biochemical Society1999 Article PDF first page preview Close Modal You do not currently have access to this content.
Partitioning of transuranic metal ions to ionic liqudds containing the ionizable complexant cyanex-272 (2006)

Extraction of americium(III) ions with ionizable dialkylphosphoric or dialkylphosphinic acids from aqueous solutions to the ionic liquid, l-decyl-3-methylimidazolium bis(trifluoromethanesulfonyl)imide have been investigated. The results are compared with the analogous traditional molecular solvent systems and show similar patterns for the distribution ratios in each system. Studies indicate that the metal ion coordination environments, elucidated from EXAFS and UV-visible spectroscopy measurements on Nd <sup>3+</sup> and Eu<sup>3+</sup> respectively, as stand-ins for Am <sup>3+</sup>, are equivalent in the two systems with coordination of the metal ion with three extractant dimers forming a neutral complex. Extraction equilibria and metal coordination studies demonstrate that with these complexants, the extraction mode and metal coordination environment are conserved in the IL and molecular organic solvent systems.
Constructing abelian surfaces for cryptography via Rosenhain invariants (2014)

Abstract This paper presents an algorithm to construct cryptographically strong genus $\def \xmlpi #1{}\def \mathsfbi #1{\boldsymbol {\mathsf {#1}}}\let \le =\leqslant \let \leq =\leqslant \let \ge =\geqslant \let \geq =\geqslant \def \Pr {\mathit {Pr}}\def \Fr {\mathit {Fr}}\def \Rey {\mathit {Re}}2$ curves and their Kummer surfaces via Rosenhain invariants and related Kummer parameters. The most common version of the complex multiplication (CM) algorithm for constructing cryptographic curves in genus 2 relies on the well-studied Igusa invariants and Mestre’s algorithm for reconstructing the curve. On the other hand, the Rosenhain invariants typically have much smaller height, so computing them requires less precision, and in addition, the Rosenhain model for the curve can be written down directly given the Rosenhain invariants. Similarly, the parameters for a Kummer surface can be expressed directly in terms of rational functions of theta constants. CM-values of these functions are algebraic numbers, and when computed to high enough precision, LLL can recognize their minimal polynomials. Motivated by fast cryptography on Kummer surfaces, we investigate a variant of the CM method for computing cryptographically strong Rosenhain models of curves (as well as their associated Kummer surfaces) and use it to generate several example curves at different security levels that are suitable for use in cryptography.