gebhart/patrepeval huggingface dataset:
Disulphide-bond formation in protein folding catalysed by highly-purified protein disulphideisomerase (1981)

Conference Article| February 01 1981 Disulphide-bond formation in protein folding catalysed by highly-purified protein disulphideisomerase ROBERT B. FREEDMAN; ROBERT B. FREEDMAN *Biological Laboratory, University of Kent, Canterbury CT2 7NJ, Kent, U.K. Search for other works by this author on: This Site PubMed Google Scholar DAVID A. HILLSON; DAVID A. HILLSON ‡ *Biological Laboratory, University of Kent, Canterbury CT2 7NJ, Kent, U.K. Search for other works by this author on: This Site PubMed Google Scholar THOMAS E. CREIGHTON THOMAS E. CREIGHTON †MRC Laboratory of Molecular Biology, Hills Road, Cambridge CB2 2QH, U.K. Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1981) 9 (1): 79–80. https://doi.org/10.1042/bst0090079 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter LinkedIn Cite Icon Cite Get Permissions Citation ROBERT B. FREEDMAN, DAVID A. HILLSON, THOMAS E. CREIGHTON; Disulphide-bond formation in protein folding catalysed by highly-purified protein disulphideisomerase. Biochem Soc Trans 1 February 1981; 9 (1): 79–80. doi: https://doi.org/10.1042/bst0090079 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search nav search search input Search input auto suggest search filter All ContentAll JournalsBiochemical Society Transactions Search Advanced Search This content is only available as a PDF. © 1981 Biochemical Society1981 Article PDF first page preview Close Modal You do not currently have access to this content.
G2: A Network Optimization Framework for High-Precision Analysis of Bottleneck and Flow Performance (2019)

Congestion control algorithms for data networks have been the subject of intense research for the last three decades. While most of the work has focused around the characterization of a flow's bottleneck link, understanding the interactions amongst links and the ripple effects that perturbations in a link can cause on the rest of the network has remained much less understood. The Theory of Bottleneck Ordering is a recently developed mathematical framework that reveals the bottleneck structure of a network and provides a model to understand such effects. In this paper we present G2, the first operational network optimization framework that utilizes this new theoretical framework to characterize with high-precision the performance of bottlenecks and flows. G2 generates an interactive graph structure that describes how perturbations in links and flows propagate, providing operators new optimization insights and traffic engineering recommendations to help improve network performance. We provide a description of the G2 implementation and a set of experiments using production TCP/IP code to demonstrate its operational efficacy.
A treatment recommender clinical decision support system for personalized medicine: method development and proof-of-concept for drug resistant tuberculosis (2022)

Our novel and flexible hybrid knowledge- and data-driven treatment recommender CDSS is a first step towards the automation of individualized treatment for personalized medicine. Further research should assess its value in fields other than drug resistant tuberculosis, develop solid statistical approaches to assess model performance, and evaluate their accuracy in real-life clinical settings.
Supervillin-mediated Suppression of p53 Protein Enhances Cell Survival (2013)

Integrin-based adhesions promote cell survival as well as cell motility and invasion. We show here that the adhesion regulatory protein supervillin increases cell survival by decreasing levels of the tumor suppressor protein p53 and downstream target genes. RNAi-mediated knockdown of a new splice form of supervillin (isoform 4) or both isoforms 1 and 4 increases the amount of p53 and cell death, whereas p53 levels decrease after overexpression of either supervillin isoform. Cellular responses to DNA damage induced by etoposide or doxorubicin include down-regulation of endogenous supervillin coincident with increases in p53. In DNA-damaged supervillin knockdown cells, p53 knockdown or inhibition partially rescues the loss of cell metabolic activity, a measure of cell proliferation. Knockdown of the p53 deubiquitinating enzyme USP7/HAUSP also reverses the supervillin phenotype, blocking the increase in p53 levels seen after supervillin knockdown and accentuating the decrease in p53 levels triggered by supervillin overexpression. Conversely, supervillin overexpression decreases the association of USP7 and p53 and attenuates USP7-mediated p53 deubiquitination. USP7 binds directly to the supervillin N terminus and can deubiquitinate and stabilize supervillin. Supervillin also is stabilized by derivatization with the ubiquitin-like protein SUMO1. These results show that supervillin regulates cell survival through control of p53 levels and suggest that supervillin and its interaction partners at sites of cell-substrate adhesion constitute a locus for cross-talk between survival signaling and cell motility pathways.
Encoded bitmap indexing for data warehouses (2002)

Complex query types, huge data volumes, and very high read/update ratios make the indexing techniques designed and tuned for traditional database systems unsuitable for data warehouses (DW). We propose an encoded bitmap indexing for DWs which improves the performance of known bitmap indexing in the case of large cardinality domains. A performance analysis and theorems which identify properties of good encodings for better performance are presented. We compare encoded bitmap indexing with related techniques, such as bit slicing, projection-, dynamic-, and range-based indexing.
Identification of key differentially expressed genes and gene mutations in breast ductal carcinoma in situ using RNA-seq analysis (2020)

The differentially expressed TFs, TFs regulating DEGs (e.g., E2F1 and CREB1), and high-frequency mutant genes (RWDD4, SDHC, SEPT7, and SFN) might play key roles in the pathogenesis of DCIS.
Tandem mass spectra of tryptic peptides at signal‐to‐background ratios approaching unity using electrospray ionization high‐field asymmetric waveform ion mobility spectrometry/hybrid quadrupole time‐of‐flight mass spectrometry (2002)

High-field asymmetric waveform ion mobility spectrometry (FAIMS) has been coupled to a quadrupole time-of-flight mass spectrometer for the tandem mass spectrometric analysis of tryptic peptides of pig hemoglobin. Using FAIMS, low levels (fmol/microL) of multiply charged tryptic peptides were separated from relatively intense chemical background such that their tandem mass spectra (MS/MS) lacked many background-related fragment ions observed using a conventional ESI-QqTOFMS instrument. Substantial improvements in both first-order and tandem mass spectra were realized while maintaining approximately the same absolute intensities.
Novel Electrode Shape to Reduce Heating in Light-Actuated Digital Microfluidics (2011)

A novel, ring-shaped optical electrode is employed to reduce heating in light-actuated digital microfluidics. Using thermo-sensitive hydrogel microspheres, the temperature rise is measured to be 0.35°C, about 15x lower than those using square electrodes.
Time-resolved diagnostics of pulsed plasmas by UV and VUV absorption spectroscopy and by modulated beam Mass spectrometry (2011)

International audience
In Situ Strain Evolution on Pt Nanoparticles during Hydrogen Peroxide Decomposition (2020)

Fundamental understanding of structural changes during catalytic reactions is crucial to understanding the underlying mechanisms and optimizing efficiencies. Surface energy and related catalytic mechanisms are widely studied. However, the catalyst lattice deformation induced by catalytic processes is not well understood. Here, we study the strain in an individual platinum (Pt) nanoparticle (NP) using Bragg coherent diffraction imaging under in situ oxidation and reduction reactions. When Pt NPs are exposed to H<sub>2</sub>O<sub>2</sub>, a typical oxidizer and an intermediate during the oxygen reduction reaction process, alternating overall strain distribution near the surface and inside the NP is observed at the (111) Bragg reflection. In contrast, relatively insignificant changes appear in the (200) reflection. Density functional theory calculations are employed to rationalize the anisotropic lattice strain in terms of induced stress by H<sub>2</sub>O<sub>2</sub> adsorption and decomposition on the Pt NP surface. Our study provides deeper insight into the activity-structure relationship in this system.
Painted dreams: Serial form and Australian television (1999)

The popularity of 'soaps' such as Neighbours and Home and Away with school children often evokes revulsion, terror and a condescending sense of pity in the hearts of many teachers. Such attitudes, however, demonstrate little understanding of the distinctive aspects of this narrative form and the reasons why this form has captured the hearts and minds of prime time television drama viewers in the last few years.
Investigation of Thermal Coefficient for Polycrystalline Silicon Thermal Sensor Diode (1992)

Thermal sensors utilizing p-n junction diodes built into the polycrystalline silicon layer are developed. The effective factors influencing the thermal coefficient of polycrystalline silicon thermal sensor diodes are clarified. It is found that diodes with a light boron dose have a larger thermal coefficient than those with a heavy boron dose. The plural p-n diodes connected with more cascade series number have a larger thermal coefficient than ones with less cascade series number. The periphery of the thermal sensor seems to have little effect on the thermal coefficient. In addition, the thermal coefficient will become higher as a larger forward current is selected. The thermal coefficient of the sensor with a boron dose of 1×10 15 cm -2 will reach a saturation value of -2 mV/K when the forward current is above 2 µA.
Controlling the DC-link midpoint potential in a six-phase motor-drive (2005)

Traditionally electrical motors have three phases, but multiphase motors have shown to improve motor performance and efficiency. This paper concentrates about the control algorithm for a six-phase induction motor with third harmonic current injection. The problem is that typically a seventh inverter branch and filter inductance is needed for stabilizing the midpoint potential of the series connected DC-capacitor link. A new control strategy that pre-calculates the allowed voltage ripple and controls the motor voltage accordingly (using two standard three phase inverter modules) is suggested. With this new control strategy the seventh branch and an inductance can be saved. It also opens the possibility to use two standard three-phase inverters to supply the six-phase motor. An experimental setup is build and the theory is verified in the test case. The proposed control strategy works satisfactory. A drawback is that the voltage ripple in the midpoint increases, if a third harmonic current is injected specially at low speed, which could demand a higher voltage rating of the capacitors. Another drawback is that the higher voltage ripple will stress the capacitors hence the lifetime may be shortened.
Surface-plasmon enabled control over magnetization dynamics in hybrid magnetoplasmonic crystals (2017)

Summary form only given. Non-thermal, optical magnetization control and switching offers new opportunities for data recording. Future applications require not only temporal, but also spatial control of magnetization at the nanoscale, which can be realized using surface plasmon polaritons (SPP) - electromagnetic modes highly localized at metal/dielectric interfaces. Here, promising materials are hybrid structures with ferromagnetic iron garnets [1-3], where the laser-induced magnetization switching can be realized using the photomagnetism or the inverse Faraday effect. Recent investigations have shown that plasmonic and magnetic effects can be effectively combined in hybrid magnetoplasmonic crystals consisting of a garnet with a noble metal grating on top (Fig. 1, a) [4, 5]. These structures support SPPs at both sides of the metal grating [6], providing flexibility in the localization of the excitation at the nanoscale and enabling local SPP-assisted manipulation of magnetization. Combining spatial nanoscale with sub-picosecond time resolution, magneto-plasmonics is a promising playground for novel future devices utilizing SPPs for transmitting and recording the magnetically stored data.
Fabrication with Semiconductor Packaging Technologies and Characterization of a Large‐Scale Flexible Thermoelectric Module (2018)

Abstract Recently, flexible thermoelectric generator (FlexTEG) modules using organic or thin film materials have gained much attention due to their potential applications for, for example, wireless sensors and wearable power. However, the performance of these modules is poor and still far from the requirement for energy harvesting. Here, the traditional semiconductor packaging technique is adapted to fabricate a large‐scale FlexTEG, for use in energy harvesting on both planar and nonplanar surfaces. The module uses high‐performance bismuth‐telluride p‐ and n‐type chips on a flexible thin plastic substrate. Using a unique isotropic design for mounting the chips, a FlexTEG module consisting of 250 p‐n pairs is successfully fabricated on a 50 × 50 mm 2 flexible substrate. The output power, mechanical strength, and bending properties are investigated at different temperature gradients and bending cycles. The module exhibits a maximum output power density of 158 mW cm −2 at d T = 105 K, corresponding to an efficiency value of 1.84%, which is comparable to a conventional bulk TEG. Mechanical tests reveal that the flexible module is reliable and stable during bending. These results open great potential for applications in portable, wearable, or implantable electronic devices.
3D quater- and quinquethiophenesilanes as promising electron-donor materials for BHJ photovoltaic cells and photodetectors (2010)

The synthesis of new soluble tetrasubstituted quater- and quinquethiophenesilanes and their application as donor materials in bulk heterojunction solar cells and photodetectors has been described. The solubility of these compounds is governed by their 3D molecular structure, solubilizing linear n-hexyl (for quaterthiophenesilane), and branched 2-ethylhexyl groups (for quinquethiophenesilane). It was demonstrated that oligothiophenesilanes blended with fullerene derivatives can be used as promising active layer materials in organic bulk heterojunction solar cells. The maximum power conversion efficiency of the devices increased proportionally with the conjugation length of the oligothiophene units and reached 1.0% and 1.4% for quater- and quinquethiophenesilane respectively. Photodetectors based on the oligothiophenesilane/fullerene composites showed unusually high speeds of operation, which suggests another direction for the practical implementation of the three-dimensional organic semiconductor family designed herein.
Utility of flow cytometric reticulocyte quantification as a predictor of engraftment in autologous bone marrow transplantation (1989)

Flow cytometric reticulocyte quantification with thiazole orange (TO) was used to study erythropoiesis in 20 patients following autologous bone marrow transplantation for the treatment of acute myelogenous leukemia. Flow cytometric reticulocyte analysis provided not only the reticulocyte percentage and absolute reticulocyte count but a quantitative reticulocyte maturity index (RMI) proportional to the amount of RNA in the reticulocytes. The RMI values, but not the reticulocyte percentage or absolute counts, correlated temporally with the rise in the absolute neutrophil counts in the posttransplantation period. In the majority of patients (12/20), the RMI value was the earliest indicator of bone marrow engraftment. The findings of this study demonstrate an important clinical utility of TO reticulocyte analysis by flow cytometry and indicate the diagnostic importance of the RMI measurement in the evaluation of erythropoietic activity in bone marrow transplant patients.
F:End filters: etalon on the beveled facet of a fiber with an outdiffused core (1991)

FiEnd (fiber end) etalon filters have been made by multilayer deposition directly on the beveled end facets of fibers. Both standard depressed-cladding single-mode fibers and beam-expanded fibers made by thermal diffusion of the core dopant of standard fibers were used. The fiber end facets were polished at appropriate bevel angles to eliminate back reflection. It was found that, if a standard fiber is used, the bandpass of the FiEnd etalon filter is asymmetric and skewed toward shorter wavelengths. It was also shown that to make reflection free FiEnd etalon filters on beveled fiber and facets with bandpasses smaller than about 5 nm, it is necessary to use fibers with mode field diameters larger than those of standard fibers.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
431 Study on the Analysis of Actual Operating Conditions of Data-Center Air Conditioners (2009)

Indices for rating operating efficiency in equipment have existed for some time, but the need for an accurate index based on actual operating conditions has recently been felt. The annual performance factor (APF) has been stipulated as a new efficiency index for office-oriented air-cooled packaged air conditioners, but no index yet exists for air conditioners in data centers that provide cooling year-round. This paper presents a detailed analysis of actual operating conditions of data-center air conditioners and proposes a new efficiency evaluation index for large-scale air conditioners in data centers.
Benchmark datasets for phylogenomic pipeline validation, applications for foodborne pathogen surveillance (2017)

These five benchmark datasets will help standardize comparison of current and future phylogenomic pipelines, and facilitate important cross-institutional collaborations. Our work is part of a global effort to provide collaborative infrastructure for sequence data and analytic tools-we welcome additional benchmark datasets in our recommended format, and, if relevant, we will add these on our GitHub site. Together, these datasets, dataset format, and the underlying GitHub infrastructure present a recommended path for worldwide standardization of phylogenomic pipelines.
On the Tails of the Distribution of the Sum of Lognormals (2007)

Finding the distribution of the sum of lognormal random variables is an important mathematical problem in wireless communications, as well as in many other fields. While several methods exist to approximate this distribution, their performance tends to deteriorate in both tails. Finding a good overall fit remains an open problem. Other disadvantages of these methods are their complexity and, in some cases, their limitation to particular scenarios. In this paper we examine the sum of independent lognormal random variables with arbitrary parameters. We define the concept of best lognormal fit to a tail and show what it means in terms of convergence. We restate a known result about asymptotes to the higher tail of the distribution. To our knowledge, the lower tail has not yet been studied. We give a simple closed-form expression for an asymptote to the lower tail. We also show that known methods for finding the sum of lognormals use distribution functions that do not have this asymptotic behaviour in the tails. Our results are complementary to the existing knowledge, which together can combine to solve the problem of the sum of lognormals simply and exactly. We support our results by simulations.
Blue Light-Mediated, Photocatalyst-Free Decarboxylative Alkylation of Heteroaryl Sulfinimines (2022)

We report a diastereoselective, photocatalyst-free decarboxylative alkylation of (hetero)aryl sulfinimines using redox-active esters under blue light. High yields and diastereoselectivities can be achieved under mild conditions, and we demonstrate its utility as a synthetic method, especially for medicinal chemists.
ChemInform Abstract: Regioselective Synthesis of Ceralure B1 and A, Ethyl cis‐(and trans‐) 5‐Iodo‐trans‐2‐methylcyclohexane‐1‐carboxylate. (1995)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
A DNA Nanotransport Device Powered by Polymerase ϕ29 (2008)

Polymerases are a family of enzymes responsible for copying or replication of nucleic acids (DNA or RNA) templates and hence sustenance of life processes. In this paper, we present a method to exploit a strand-displacing polymerase phi29 as a driving force for nanoscale transportation devices. The principal idea behind the device is strong strand displacement ability of phi29, which can displace any DNA strand from its template while extending a primer hybridized to the template. This capability of phi29 is used to power the movement of a target nanostructure on a DNA track. The major advantage of using a polymerase driven nanotransportation device as compared to other existing nanorobotical devices is its speed. phi29 polymerase can travel at the rate of 2000 nucleotides per minute at room temperature, which translates to approximately 680 nm min(-1) on a nanostructure. We also demonstrate transportation of a DNA cargo on a DNA track with the help of fluorescence resonance electron transfer data.
0535 Improvements in Quality of Life in Female Obstructive Sleep Apnea Patients using a Gender Specific Auto-adjusting Positive Airway Pressure Device (2019)

Gender differences have been reported in OSA. Females have more flow limitation, lower AHIs, shorter apneas, and less severe oxygen desaturations. A female specific APAP (fAPAP) treatment algorithm (AutoSet for Her, ResMed) has been developed to address these characteristics. Minimal data exists on how this device impacts quality of life. Female patients with AHI ≥ 15 were invited into this study. Participants completed 5 baseline questionnaires: FOSQ; PHQ9; ESS; CSFQ; and EQ-5D. Participants then used the fAPAP in the home environment. On treatment PSG and questionnaires were repeated after 3 months. 97 patients were enrolled and 87 completed the study. The average age was 54.1 ± 9.8; BMI was 31.9 ± 5.59; and baseline AHI was 39.0 ± 17.7. There was a significant improvement (p<.0001) in the primary outcome (FOSQ score) from baseline to 3 months’ post CPAP treatment (15.0 ± 3.3. vs. 16.8 ± 3.3). Significant improvements were also seen in the PHQ-9 (12.4 ± 5.8 vs. 7.1 ± 5.3); ESS (10.6 ± 4.9 vs. 8.0 ± 4.9); EQ-5D Index scores (0.656 ± 0.245 vs. 0.773 ± 0.211), and EQ-5D VAS scores (54.2 ± 22.6 vs. 65.4 ± 22) (all p-values <.0001). Comparing the baseline PSG to on-treatment PSG after 3 months, fAPAP was shown to be efficacious, with AHI, ODI, SaO2 baseline and SaO2 minimum all significantly improving (all p-values <.0001). Total sleep time, total sleep efficiency, and time in slow wave sleep did not significantly change. Participants spent significantly less time in stage 1 sleep (39.1 ± 38.1 vs. 29.4 ± 25.2 minutes, p = 0.015), and significantly more time in REM sleep (39.7 ± 24.0 vs 48.1 ± 24.5 minutes, p = 0.022). Average daily usage was 4.9 ± 2.0 hours per night. This data shows a significant quality of life improvement, more REM sleep, and good compliance in female OSA patients after using PAP therapy with a female specific treatment algorithm for 3 months. Study supported by ResMed