gebhart/patrepeval huggingface dataset:
Secretome analysis of ionizing radiation‐induced senescent cancer cells reveals that secreted <scp>RKIP</scp> plays a critical role in neighboring cell migration (2012)

Cellular senescence is a physiological program of irreversible growth arrest that is considered to play an important role in tumor suppression. Recent studies demonstrated that senescent cells secrete multiple growth regulatory proteins that could alter the behavior of neighboring cells. In this study, we investigated the effect of secretory proteins from ionizing radiation (IR) induced senescent tumor cells on normal and tumor cells. Conditioned medium (CM) from IR-induced senescent MCF7 cells significantly increased cell proliferation, invasion, migration, and wound healing activity in MCF7 cells and HUVECs. Comparative proteomics analysis revealed 24 differentially secreted protein spots including Raf kinase inhibitor protein (RKIP), α-Enolase, AKAP9, and MARK4, and the findings were confirmed by Western blot analysis of IR-induced senescent cancer cells. We found that RKIP was secreted via the classical pathway, and the transfection of small interfering RNA against RKIP suppressed CM-induced migration in MCF7 cells. Treatment with recombinant human RKIP increased the migratory activity of MCF7 cells. Taken together, our results demonstrate that the senescence-associated secretory protein RKIP could be the principal target to prevent the potential effects of the secretome from IR-induced senescent tumor cells on neighboring cell migration.
A Simple Approach for Estimating Gene Expression in<i>Candida albicans</i>Directly from a Systemic Infection Site (2005)

Gene expression analysis after the host-pathogen interaction is revolutionizing our understanding of the host response to infection. Numerous studies have utilized microarray analysis to follow host cell transcriptome alterations in response to interactions with infectious pathogens. However, similar analyses of pathogen transcriptional adaptation at the infection site have been limited. Understanding the nature of this interaction from the pathogen perspective at different sites and stages of infection is central to strategies for development of new anti-infective therapies. Toward this end, we developed a protocol to analyze changes in gene expression for a eukaryotic pathogen, Candida albicans, during systemic infection in mice. The experimental approach takes advantage of the resistance of the cell wall of many fungal pathogens to cell lysis, relative to mammalian cells. After lysis of mammalian cells, the tissue mixture containing fungal cells is depleted of mammalian RNA by centrifugation, followed by enzymatic digestion. RNA-digesting enzymes are then inhibited before eukaryotic cell lysis and RNA isolation. The protocol provides a reproducible quantity of RNA based on pathogen cell number. The quality of the RNA allowed reliable downstream transcriptional analysis using reverse-transcription polymerase chain reaction and microarrays. The in vivo gene expression data confirmed involvement of several putative pathogenesis genes. More importantly, the results provided a wealth of biologically interesting hypotheses to direct future investigation.
Supplemental Table 2 from Alternate Metabolic Programs Define Regional Variation of Relevant Biological Features in Renal Cell Carcinoma Progression (2023)

&lt;p&gt;Standard uptake values (SUV) and ccRCC subtype classifications for PET/MR samples&lt;/p&gt;
Spectroscopic properties of the f-elements in compounds and solutions. [79 references] (1982)

In this systematic examination of some of the spectroscopic properties of the f-elements we deal with both the trivalent lanthanides and actinides. We summarize the present status of our energy level calculations in single crystal matrices and in aqueous solution, and compare the predicted crystal-field structure in certain low-symmetry sites with that observed. Some interesting new structural insights are thereby gained. The state eigenvectors from these calculations are then used in part in reassessing and interpreting the intensities of transitions in aqueous solution via the Judd-Ofelt theory. The parameters of this theory derived from fitting experimental data are compared with those computed from model considerations. Finally, we discuss some recent contributions to the interpretation of excited state relaxation processes in aqueous solution. 79 references, 23 figures, 17 tables.
Inclusive J/ψ production in Xe–Xe collisions at <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" altimg="si1.gif" overflow="scroll"><mml:msqrt><mml:mrow><mml:msub><mml:mrow><mml:mi>s</mml:mi></mml:mrow><mml:mrow><mml:mi mathvariant="normal">NN</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:msqrt><mml:mo>=</mml:mo><mml:mn>5.44</mml:mn></mml:math> TeV (2018)

Inclusive J/ production is studied in Xe-Xe interactions at a centre-of-mass energy per nucleon pair of s NN = 5.44 TeV, using the ALICE detector at the CERN LHC. The J/ meson is reconstructed via its decay into a muon pair, in the centre-of-mass rapidity interval 2.5 < y < 4 and down to zero transverse momentum. In this Letter, the nuclear modification factors R AA for inclusive J/, measured in the centrality range 0-90% as well as in the centrality intervals 0-20% and 20-90% are presented. The R AA values are compared to previously published results for Pb-Pb collisions at s NN = 5.02 TeV and to the calculation of a transport model. A good agreement is found between Xe-Xe and Pb-Pb results as well as between data and the model.
Development of a low-cost 2.5-Gbps SFP optical transceiver using 0.18μm CMOS ICs (2008)

The high cost of optoelectronics components typically used for long-haul communication is prohibitive in the Fiber to the Home (FTTH) and Passive Optical Networks (PONs). One method of cost reduction is through the reducing the cost of the electronics in the transceiver and reducing the packaging cost. We report the development of low-cost 2.5-Gbps optical transceiver for Gigabit Passive Optical Network (GPON) using CMOS driver ICs and chip-on-board assembly method. We developed the Laser Diode Driver (LDD), Trans-impedance Amplifier (TIA), Limiting Amplifier (LA) and the Clock and Data Recovery (CDR) using CMOS technology for short reach application and developed the burst mode version of the ICs for PON applications. The ICs are designed in house and fabricated on a standard CMOS 8" wafer with 0.18&mu;m technology. The devices operate at 1.8V and are low power in nature, thus reducing the demand on power dissipation. The transceiver consists of an un-cooled and direct modulated laser diode driven with a LDD, a high speed PIN photo-diode with amplifier and CMOS ICs. The bare CMOS ICs are attached on a transceiver substrate that is compliant with the small form-factor pluggable (SFP) package multisource agreement (MSA) and coupled to a 1310nm FP laser TOSA and a PIN ROSA with LC connector. The integrated transceiver is characterized up to 2.5-Gbps. In this publication, we present the detail of the module development, assembly methods and performance characterization at 1310nm.
Performance Evaluation of a Bufferless OBS/OPS Network With 1 + 1 Path Protection (2015)

In optical burst/packet switched (OBS/OPS) networks, bursts/packets may be dropped because of equipment failures. A widely used mechanism to protect a connection from a single-trunk-failure event is 1 + 1 path protection. We consider a bufferless OBS/OPS network with two types of users: 1) premium (that receive 1 + 1 protection service) and 2) regular (that do not receive such a service). We propose a fast and accurate approximation to evaluate the performance of such OBS/OPS network. The accuracy and scalability of the approximation and the effect of the proportion of the premium users in the network are discussed.
Impulse Lecture: Metabolic characterization of plants using NMR-based metabolomics (2011)

Pharmacognosy, particularly using plant-originated natural product has played a central role in natural science. Even in these days, the importance of pharmacognosy is not reduced at all. However, due to innate diversity and dynamic changes of metabolites levels, natural product research had a problem with profiling all metabolites, analysis usually limited to a certain group of metabolites. One of the approaches to solve the problem might be metabolomics, a comprehensive profiling all the metabolites in organisms. It takes a part to provide holistic information of whole metabolome network [1–3]. As a part of systems biology, capturing holistic information of the complex metabolic system in unbiased manner has been a dream of natural products researchers for a long time.
Ultralong-Chain-Spaced Crystalline Poly(H-phosphonate)s and Poly(phenylphosphonate)s (2017)

Aliphatic poly(H-phosphonate)s were obtained by polyesterification of dimethyl H-phosphonate with bio-based long-chain diols. Nonadecane-1,19-diol, tricosane-1,23-diol, and octatetracontane-1,48-diol with dimethyl H-phosphonate yield the corresponding polyphosphoesters (PPE19H, PPE23H, and PPE48H) with molecular weights (Mn) up to 4.3 × 104 g mol–1. Postfunctionalization of these polymers via Hirao cross-coupling yields the selectively functionalized poly(H-phosphonate)s PPE19Ph, PPE23Ph, and PPE48Ph. DSC analysis revealed significantly enhanced crystallinities and melting points (up to Tm = 110 °C) with increasing methylene sequence lengths. Hydrolytic degradation of polymer powder of poly-(H-phosphonate) occurred up to 95% in 2 days. The degradation rates decreased with increasing methylene sequence length. After postfunctionalization, degradation occurred only to a minimal extent over 3 months in basic and in acidic media.
Improved Convergence Guarantees for Learning Gaussian Mixture Models by\n EM and Gradient EM (2021)

We consider the problem of estimating the parameters a Gaussian Mixture Model\nwith K components of known weights, all with an identity covariance matrix. We\nmake two contributions. First, at the population level, we present a sharper\nanalysis of the local convergence of EM and gradient EM, compared to previous\nworks. Assuming a separation of $\\Omega(\\sqrt{\\log K})$, we prove convergence\nof both methods to the global optima from an initialization region larger than\nthose of previous works. Specifically, the initial guess of each component can\nbe as far as (almost) half its distance to the nearest Gaussian. This is\nessentially the largest possible contraction region. Our second contribution\nare improved sample size requirements for accurate estimation by EM and\ngradient EM. In previous works, the required number of samples had a quadratic\ndependence on the maximal separation between the K components, and the\nresulting error estimate increased linearly with this maximal separation. In\nthis manuscript we show that both quantities depend only logarithmically on the\nmaximal separation.\n
Discriminative training of GMM for speaker identification (2002)

We describe a novel discriminative training procedure for a Gaussian mixture model (GMM) speaker identification system. The proposal is based on the segmental generalized probabilistic descent (GPD) algorithm formulated to estimate the GMM parameters. Two major innovations over similar formulations of segmental GPD training are proposed. (1) A misclassification measure based on an individual representation of competing speakers, that explicitly allows to take into account different learning strategies for correctly or incorrectly classified speakers. (2) An empirical loss function to control the training procedure convergence, with a likelihood-based selection of correctly or incorrectly classified competing speakers. A comparison between the proposed method and the traditional GPD algorithm is also presented.
"Gamma (40 Hz) phase synchronicity" and symptom dimensions in schizophrenia (2003)

The failure of integrative brain function is a fundamental characteristic of schizophrenia. Synchronous Gamma (40 Hz) activity, proposed as a candidate mechanism underlying the integration ("binding") of distributed brain activities, may provide a direct window into schizophrenic disintegration.40 schizophrenia and 40 age/gender-matched control subjects participated in an auditory oddball paradigm. We examined both early (Gamma 1) and later Gamma (Gamma 2) phase synchrony to target stimuli. Factor analysis scores were used to examine the associations between Gamma synchrony and three syndromes (Psychomotor Poverty, Reality Distortion, and Disorganisation).Multiple analyses of variance revealed an overall decrease in frontal and left hemisphere Gamma synchrony, but increased posterior Gamma 2 synchrony in schizophrenia compared to controls. Schizophrenia syndromes were differentiated by distinct patterns of Gamma disturbances: Psychomotor Poverty showed decreased left hemisphere synchrony; Reality Distortion was associated with increased right synchrony; Disorganisation showed a widespread enhancement with a delay in frontal Gamma synchrony.These findings are consistent with previous evidence for left hemisphere and frontal disturbances in the schizophrenia group. However, the syndrome results point to more distinctive patterns of dysregulation in network integration: widespread and excessive in Disorganisation, localised and enhanced in Reality Distortion, versus localised and diminished in Psychomotor Poverty.
Object orientation in RF field determines thermoacoustic contrast (2009)

As in MRI, orientation of the patient relative to field lines significantly impacts signal generated. Oblong inclusions generate far less thermoacoustic signal when oriented with long axis perpendicular to E field lines of radiofrequency excitation. We present simulated and low-power measured results below.
Investigation of high frequency transducers and coded signals suitable for cartilage volume imaging (2019)

Cartilage degeneration in joints causing pain and various types of knee problems is a serious problem-affecting people in all ages. Degenerated articular cartilage is also known as a central hallmark of osteoarthritis, which is a complex musculoskeletal disorder involving numerous contributory genetic, constitutional and biomechanical factors. As a part of the cartilage degeneration, the volume occupied by the collagen fibers becomes reduced and the cell (chondrocyte) volume increased. Since high frequency ultrasound has the capability of resolving individual chondrocytes, ultrasound has been suggested as a promising method for determining the cartilage status. In the current work, the main objective has been to compare images taken in vitro with different transducer types, in order to determine their suitability for cartilage imaging.
Cold Spray Forming Inconel 718 (2012)

Abstract In this investigation, Inconel 718, a material known to cause nozzle clogging upon cold spraying, was cold spray formed to 6 mm-thick using the Plasma Giken cold spray system PCS- 1000. This was made possible due to the novel non-clogging nozzle material combined with a nozzle water cooling system. Coatings were as-spray formed using both nitrogen and helium as the propelling gasses. The resulting microstructures as well as the corresponding mechanical properties were studied. In addition, the effect of post-heat treatments was also investigated. It was found that for a given propelling gas used, the coating porosity level remained relatively similar (about 2.4% for nitrogen and 3.6% for helium) regardless of the coating treatment (as-sprayed or heat treated). Visual inspection from SEM micrographs showed a higher fraction of inter-particle metallurgical bonds for nitrogen gas sprayed coatings heat treated at 1250°C for 1 hour due to some sintering effect. This significantly affected its tensile properties with an average resulting ductility of 24.7%.
Band gap scaling and dispersion of the electronic Kerr effect (1990)

A significant dispersion of the electronic Kerr effect n2 recently was observed within the two-photon absorption (2PA) band in ZnSe. The dispersion and magnitude of the observed n2 can be partially described using a Kramers-Kronig analysis, which effectively gives a causal relation between imaginary (2PA coefficient) and real n2 components of the third-order nonlinear susceptibility. Starting with the magnitude, bandgap scaling, and dispersion of the 2PA in semiconductors, the authors have obtained by means of the KK transformation technique the corresponding properties for the refractive counterpart, namely, the bound electron Kerr effect n2. The derived expression for n2 gives excellent agreement with the measured values in semiconductors as well as wide-gap dielectrics and, therefore, would seem to be universal.
Overview of Algorithms for Freeway On-ramp Merging Using Intelligent Vehicles (2014)

Congestion at freeway junctions is a trafﬁc phenomenon degrading the infrastructure that could lead to break-down of trafﬁc ﬂow and associated reduction in capacity. Innovative communication technologies and advances in trafﬁc control open new possibilities to prevent or delay this phenomenon. This paper presents a review of control algorithms for facilitating freeway on-ramp merging using intelligent vehicles. A common structure is identiﬁed, and the algorithms and evaluation methods are reviewed critically based on their characteristics to identify similarities, dissimilarities, trends and research gaps. Using a similar approach, an overview of the methods used to evaluate the algorithms underlines signiﬁcant aspects that should be considered by newly proposed researches in this ﬁeld.
Photoresponse Properties of Polycrystalline BaSi<sub>2</sub>Films Grown on SiO<sub>2</sub>Substrates Using (111)-Oriented Si Layers by an Aluminum-Induced Crystallization Method (2009)

Polycrystalline BaSi2 layers with 300 nm thickness were grown by molecular beam epitaxy on (111)-oriented 100-nm-thick polycrystalline Si layers fabricated by an aluminum-induced crystallization method on SiO2. Photocurrents were clearly observed for photons with energies greater than 1.25 eV when bias voltage was applied between the 1.5-mm-spacing striped Al electrodes formed on the surface. The photoresponsivity increased sharply with increasing photon energy, attaining a maximum at approximately 1.60 eV. The external quantum efficiency increased with the bias voltage and reached approximately 8% at 5 V. This value is larger than that obtained for BaSi2 epitaxial films on Si(111).
Post‐Transition Metal Electrodes for Sensing Heavy Metal Ions by Stripping Voltammetry (2021)

Abstract Heavy metal ions contamination is an ever‐growing threat to human health and ecosystems. Analytic sensing of heavy metal ions is a prerequisite step toward addressing this challenge. Electroanalytical technique is an effective and convenient way to detect heavy metal ions. Especially, stripping voltammetry techniques have been utilized for sensing metal ions at trace levels in different sample matrices. The choice of the working electrode materials plays a decisive role in the precision and sensitivity of stripping voltammetry. Post‐transition metals (including elements in group 12) are elements with low melting points, demonstrating unique properties including amalgamation with heavy metal ions that enhance the performance of stripping voltammetry during the pre‐concentration step, which make them particularly suitable for heavy metal ion sensing. Here, for better understanding the features and advantages of post‐transition metals in stripping voltammetry, eight classes of working electrodes based on zinc (Zn), mercury (Hg), gallium (Ga), indium (In), tin (Sn), lead (Pb), antimony (Sb), and bismuth (Bi), are reviewed, with their efficiency and effectiveness compared and recent progresses discussed. Additionally, liquid metal electrodes based on post‐transition metals and alloys are also presented. This review provides viable directions for future development of heavy metal ion sensors based on post‐transition metals.
Split-Transgene Expression in Wheat (2012)

The establishment of traits that result from the concerted expression of complementing transgene fragments is a feasible tool for trait control or gene flow control in plants. This chapter describes the methodology for producing herbicide-resistant and pollen-sterile wheat plants by the intein-mediated assembly of inactive precursor protein fragments (protein trans-splicing). We suggest the design of intein-containing vectors for split-transgene expression. We describe transient plant assays that can be used to analyse the functionality of the system and describe the transformation of wheat plants using a split selection marker.We hope that this chapter will be a helpful guideline for researchers who are interested in applying similar split-gene approaches in wheat or other monocotyledonous crops.
Cyclopentane Construction by Rhodium(II)‐Mediated Intramolecular C—H Insertion (2005)

Abstract For Abstract see ChemInform Abstract in Full Text.
COVID-19 in healthcare workers: A review of existing literature (2020)

Background: Healthcare workers (HCWs) are particularly at a risk of acquiring COVID-19 infection. The pattern of disease and outcome in HCWs has not been studied adequately. This review was done to determine the prevalence of COVID-19 in HCWs and to find out the clinical profile and mortality of COVID-19 in HCWs. Materials and Methods: A systematic search of all published or in press studies from January 1, 2020, to July 15, 2020, with confirmed COVID-19 HCWs was done in PubMed, Scopus, and Google Scholar and in other key journals using terms such as “2019-nCoV,” “novel coronavirus 2019,” “COVID-19,” “SARS-CoV-2,” “Wuhan coronavirus,” “health care worker,” “health care professional,” “physician,” and “medical staff.” Results: We analyzed 43 research articles, mostly cross-sectional studies with 20 studies from China, and included 13,725 COVID-19–positive HCWs. Proportion of COVID-19–positive HCWs (n = 8405) among all HCWs (n = 276,392) were 3.04% (95% confidence interval [CI]: 0.62–9.76), while the proportion of positive HCWs (n = 9458) among all COVID-19–positive patients (n = 230,626) were 4.1% (95% CI: 1.44–12.46). The mean age of HCWs was 42.78 ± 6.82 years, 34.47% were males, and 51.04% were nurses. Most COVID-19–positive HCWs were asymptomatic (64.41%), while severe disease occurred in 4.08% with a mortality of 0.80% (47/5823). The incidence of severe disease and mortality among HCWs (n = 9458) and general population (n = 230,626) was extracted from nine studies, and it was seen that severe disease (1.7%) or mortality (0.04%) in HCWs was significantly less as compared to non-HCWs population (8.26% and 1.23%, respectively) (P < 0.001). Conclusion: There is a considerable risk of contracting COVID-19 infection among HCWs which re-emphasizes the strong need of personal protective measures. However, the incidence of severe disease and deaths is significantly low among HCWs, which may somewhat reduce apprehension and be morale boosting for HCWs all across the world.
Performance analysis for tandem manufacturing lines under variable structure production control method (2011)

In this paper we introduce novel results for the performance of the surplus-based decentralised production control method. The main objective of this production method is to guarantee that the cumulative number of produced products follows the cumulative production demand on the output of any given network. As a starting point of our research a general idea of this method is presented for the case of one manufacturing machine. Then our analysis is extended to a line of N machines. The proposed methodology is reformulated in terms of variable structure control. The production flow process is described by means of difference equations and, in order to analyse the performance, the Lyapunov theory approach is exploited. The results obtained for the production error bounds for each machine in the line and for the buffer content bounds for each intermediate buffer are discussed. Performance and robustness issues of closed-loop flow line models are illustrated by numerical simulations. It is shown that the method can be implemented in enterprise planning tools.