gebhart/patrepeval huggingface dataset:
Control of Protein Activity and Cell Fate Specification via Light-Mediated Nuclear Translocation (2015)

Light-activatable proteins allow precise spatial and temporal control of biological processes in living cells and animals. Several approaches have been developed for controlling protein localization with light, including the conditional inhibition of a nuclear localization signal (NLS) with the Light Oxygen Voltage (AsLOV2) domain of phototropin 1 from Avena sativa. In the dark, the switch adopts a closed conformation that sterically blocks the NLS motif. Upon activation with blue light the C-terminus of the protein unfolds, freeing the NLS to direct the protein to the nucleus. A previous study showed that this approach can be used to control the localization and activity of proteins in mammalian tissue culture cells. Here, we extend this result by characterizing the binding properties of a LOV/NLS switch and demonstrating that it can be used to control gene transcription in yeast. Additionally, we show that the switch, referred to as LANS (light-activated nuclear shuttle), functions in the C. elegans embryo and allows for control of nuclear localization in individual cells. By inserting LANS into the C. elegans lin-1 locus using Cas9-triggered homologous recombination, we demonstrated control of cell fate via light-dependent manipulation of a native transcription factor. We conclude that LANS can be a valuable experimental method for spatial and temporal control of nuclear localization in vivo.
Laser photolysis studies on quenching processes of triplet benzophenone by amines in fluid solution (1975)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTLaser photolysis studies on quenching processes of triplet benzophenone by amines in fluid solutionSatoshi Arimitsu, Hiroshi Masuhara, Noboru Mataga, and Hiroshi TsubomuraCite this: J. Phys. Chem. 1975, 79, 13, 1255–1259Publication Date (Print):June 1, 1975Publication History Published online1 May 2002Published inissue 1 June 1975https://doi.org/10.1021/j100580a005RIGHTS & PERMISSIONSArticle Views218Altmetric-Citations87LEARN 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 InReddit PDF (599 KB) Get e-Alerts
Culture-independent phylogenetic analysis of the faecal flora of the rat (2003)

The dominant faecal flora of the rat was determined using randomly cloned 16S rDNA comparative sequence analysis. A total of 109 near full-length 16S rDNA clones were sequenced, representing 69 unique 16S rRNA phylotypes or operational taxonomic units (OTUs). Estimates of species richness indicated that approximately 338 species were present in the faeces, suggesting that only 20% of species were identified. Only two of 39 Gram-negative clones aligned with previously cultured species, the remainder fell into a separate lineage within the Bacteroides-Cytophaga phylum. Several clones within this new group were related to 16S rDNA sequences previously identified from mouse faeces. Lactobacilli were the most abundant Gram-positive species, representing 23% of the total clones but only 7% of OTUs. The remaining Gram-positive clones were distributed among the Clostridium coccoides group (9%), the Clostridium leptum subgroup (18%), and throughout the low GC Gram-positive bacteria (13%). The majority of OTUs (63/69 or 91%) were less than 97% homologous to previously cultured bacteria. Faecal samples were also cultured using a variety of anaerobic media. With the exception of the lactobacilli, the cultured isolates demonstrated low species diversity and poorly reflected the population, as defined through comparative sequence analysis.
QoS-Aware Rechargeable UAV Trajectory Optimization for Sensing Service (2019)

Unmanned aerial vehicles (UAVs) have attracted attention from both the academic and industry because of its highly controllable mobility. The UAV has hence become a potential alternative for a large amount of geographically distributed sensors in provisioning sensing service where the information of different locations (e.g., temperature, humidity, pollutant level and traffic condition) are sensed and sent to the ground station (GS). However, the UAV on-board battery is usually limited due to the size and weight constraints, and greatly affects the UAV performance. Practically, the UAV usually needs to return to the GS for recharging before the battery exhaustion. The trajectory routes, therefore, should be well designed to meet the battery capacity constraint and improve the quality of service (QoS). In this paper, we investigate the trajectory optimization of rechargeable UAV for sensing service to minimize the task completion latency. We formulate this problem as a mixed integer linear programming (MILP) model. A Clone Searching Algorithm (CSA), which clones the rechargeable UAV into several non-rechargeable virtual UAVs and simultaneously search trajectory routes for each virtual UAV, is then designed to reduce the computational complexity of MILP. Numerical results demonstrate the performance of our proposed algorithm.
Environmental epigenetic transgenerational inheritance and somatic epigenetic mitotic stability (2011)

The majority of environmental factors can not modify DNA sequence, but can influence the epigenome. The mitotic stability of the epigenome and ability of environmental epigenetics to influence phenotypic variation and disease, suggests environmental epigenetics will have a critical role in disease etiology and biological areas such as evolutionary biology. The current review presents the molecular basis of how environment can promote stable epigenomes and modified phenotypes, and distinguishes the difference between epigenetic transgenerational inheritance through the germ line versus somatic cell mitotic stability.
Series Resonant DC-DC Converter with Single-Switch Full-Bridge Boost Rectifier Operating at Fixed Switching Frequency (2020)

In this paper, a PWM scheme is proposed for the series resonant converter (SRC) with a full-bridge boost rectifier at the output side. This rectifier is comprised of a switch and three diodes. It was previously presented with a static control switching between the modes of full-bridge and voltage doubler rectifiers. The proposed PWM scheme controls the voltage gain between these two modes arbitrary using the duty cycle of the switch. In addition, SRC is operating at a fixed switching frequency. The proposed PWM scheme forces the resonant current to have a roughly sinusoidal shape in the first half-cycle of the switching period. This could reduce the peak current at turning on/off of the semiconductors. Then, a boosting interval is applied to the rectifier switch, so that the resonant inductor charges similar to the boost converter to boost the input voltage. The primary side semiconductors achieve the zero voltage switching (ZVS) at the turn-on. At the same time, the rectifier diodes achieve zero current switching (ZCS) at the turn-off. Theoretical analysis and a 250 W prototype are provided to prove the feasibility of the proposed scheme. The converter achieves a peak efficiency of 95.9%.
All-fiber periodically Q-switched laser (2007)

Q-switched fiber lasers provide a cheap and relatively simple means of generating nanosecond-scale high-energy optical pulses with high peak power. The pulse energy and peak power achievable in actively Q-switched fiber lasers is often limited by the Q-switching device. For example, coupling to any active modulator device (e.g. electrooptic modulator, Pockels cell) increases both the cavity length and intracavity loss, and often introduces low levels of reflection from interfaces of fiber-coupled elements. The latter imperfections can significantly limit the laser performance, e.g. limiting the maximum inversion before the onset of CW lasing, reducing the laser efficiency, and increasing the Q-switched pulse duration, resulting in reduced peak power and reduced pulse energy. Additionally, the large powers achieved in fiber lasers in recent years make damage an increasing concern, even at fiber ends and interfaces. Consequently all-fiber Q-switched lasers are receiving attention, e.g. using a modulated Bragg grating to modulate the cavity loss (Delgado-Pinar et al., 2006). Here we present a simple loss modulation technique using a vibrating fiber and mirror. The method combines the advantages of high dynamic range and high damage threshold. We demonstrate its application in a short all-fiber Q-switched laser.
The Evolution of the MVS Operating System (1981)

The mechanization of computer operations and the extension of hardware functions are seen as the basic purposes of an operating system. An operating system must fulfill those purposes while providing stability and continuity to its users. Starting with the data processing environment of twenty-five years ago, this paper describes the forces that led to the development of the OS/360 system design and then traces the evolution which led to today's MVS system.
A new Markov model of N version programming systems (2002)

Reliability performance modeling of N version programming is given. The study is based on continuous time Markov model for the general case of N versions. Derived mathematical relations between reliability performances (as a function of version execution time) and modeling parameters enable us to gain a great deal of quantitative results. The obtained results can be used to guide a design of actual systems.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Donor–acceptor semiconducting polymers for organic solar cells (2012)

Abstract This review describes the synthesis and photovoltaic performance of donor–acceptor (D–A) semiconducting polymers that have been reported during the last decade. 9,9‐Dialkyl‐2,7‐ fluorene, 2,7‐carbazole, cyclopenta[2,1‐ b :3,4‐ b′ ]dithiophene, dithieno[3,2‐ b :2′,3′‐ d ]silole, dithieno[3,2‐ b :2′,3′‐ d ]pyrrole, benzo[1,2‐ b :4,5‐ b′ ]dithiophene, benzo[1,2 b:4,5 b′]difuran building blocks, and their D–A copolymers are described in this review. © 2012 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem, 2013
Visible light-exposed lignin facilitates cellulose solubilization by lytic polysaccharide monooxygenases (2023)

Lytic polysaccharide monooxygenases (LPMOs) catalyze oxidative cleavage of crystalline polysaccharides such as cellulose and are crucial for the conversion of plant biomass in Nature and in industrial applications. Sunlight promotes microbial conversion of plant litter; this effect has been attributed to photochemical degradation of lignin, a major redox-active component of secondary plant cell walls that limits enzyme access to the cell wall carbohydrates. Here, we show that exposing lignin to visible light facilitates cellulose solubilization by promoting formation of H<sub>2</sub>O<sub>2</sub> that fuels LPMO catalysis. Light-driven H<sub>2</sub>O<sub>2</sub> formation is accompanied by oxidation of ring-conjugated olefins in the lignin, while LPMO-catalyzed oxidation of phenolic hydroxyls leads to the required priming reduction of the enzyme. The discovery that light-driven abiotic reactions in Nature can fuel H<sub>2</sub>O<sub>2</sub>-dependent redox enzymes involved in deconstructing lignocellulose may offer opportunities for bioprocessing and provides an enzymatic explanation for the known effect of visible light on biomass conversion.
Direct and sensitive miRNA profiling from low-input total RNA (2006)

We have developed a sensitive, accurate, and multiplexed microRNA (miRNA) profiling assay that is based on a highly efficient labeling method and novel microarray probe design. The probes provide both sequence and size discrimination, yielding in most cases highly specific detection of closely related mature miRNAs. Using a simple, single-vial experimental protocol, 120 ng of total RNA is directly labeled using Cy3 or Cy5, without fractionation or amplification, to produce precise and accurate measurements that span a linear dynamic range from 0.2 amol to 2 fmol of input miRNA. The results can provide quantitative estimates of the miRNA content for the tissues studied. The assay is also suitable for use with formalin-fixed paraffin-embedded clinical samples. Our method allows rapid design and validation of probes for simultaneous quantitative measurements of all human miRNA sequences in the public databases and to new miRNA sequences as they are reported.
Capillary Rise on Legs of a Small Animal and on Artificially Textured Surfaces Mimicking Them (2014)

The wharf roach Ligia exotica is a small animal that lives by the sea and absorbs water from the sea through its legs by virtue of a remarkable array of small blades of micron scale. We find that the imbibition dynamics on the legs is rather complex on a microscopic scale, but on a macroscopic scale the imbibition length seems to simply scale linearly with elapsed time. This unusual dynamics of imbibition, which usually slows down with time, is advantageous for long-distance water transport and results from repetition of unit dynamics. Inspired by the remarkable features, we study artificially textured surfaces mimicking the structure on the legs of the animal. Unlike the case of the wharf roach, the linear dynamics were not reproduced on the artificial surfaces, which may result from more subtle features on the real legs that are not faithfully reflected on the artificial surfaces. Instead, the nonlinear dynamics revealed that hybrid structures on the artificial surfaces speed up the water transport compared with non-hybrid ones. In addition, the dynamics on the artificial surfaces turn out to be well described by a composite theory developed here, with the theory giving useful guiding principles for designing hybrid textured surfaces for rapid imbibition and elucidating physical advantages of the microscopic design on the legs.
Feasibility and Safety of Hydrotherapy in Critically Ill Ventilated Patients (2015)

Contains fulltext : 155272.pdf (Publisher’s version ) (Open Access)
An independent validation of vulnerability discovery models (2012)

The vulnerability discovery process normally refers to the post-release stage where people identify and report security flaws of a released software. Vulnerability discovery models (VDM) operate on the known vulnerability data to estimate the total number of vulnerabilities present in the software. Successful models can be useful hints for both software vendors and users in allocating resources to handle potential breaches, and tentative patch update. For example, we do not exactly know the day of major snow falls but cities expect it to fall in winter and therefore plan resources for road clearing in that period. The effective planning is important because security bugs are different than "normal" bugs. A normal bugs might be filed and be scheduled for fixing in the next release. Meanwhile a security vulnerability might required an urgent patch to be shipped to customers lest their browser be subject to rogue campaigns. Major shifts in browser usage are often attributed to (real or perceived) "more" security. Understanding the security trend is therefore important.
Feature Extraction and Image Recognition with Convolutional Neural Networks (2018)

The human has a very complex perception system, including vision, auditory, olfactory, touch, and gustation. This paper will introduce the recent studies about providing a technical solution for image recognition, by applying a algorithm called Convolutional Neural Network (CNN) which is inspired by animal visual system. Convolution serves as a perfect realization of an optic nerve cell which merely responds to its receptive field and it performs well in image feature extraction. Being highly-hierarchical networks, CNN is structured with a series of different functional layers. The function blocks are separated and described clearly by each layer in this paper. Additionally, the recognition process and result of a pioneering CNN on MNIST database are presented.
Clonal antibody dominance after influenza vaccination in IgA nephropathy patients and controls. (1995)

Chemicals/CAS: hemagglutinin, 37333-12-3; sialidase, 9001-67-6; Antibodies, Monoclonal; Antibodies, Viral; Hemagglutinins, Viral; Immunoglobulin A; Immunoglobulin G; Influenza Vaccine; Neuraminidase, EC 3.2.1.18
Lack of prognostic significance for major adverse cardiac events of soluble suppression of tumorigenicity 2 levels in patients with ST-segment elevation myocardial infarction (2020)

sST2 concentration have predictive value for LV remodeling on echocardiography in patients with STEMI who underwent primary PCI. However, sST2 concentration was not associated with short-term and long-term MACE.
Epoxidation of Olefins Catalyzed by Polyoxomolybdates Formed in-situ in Ionic Liquids (2013)

Polyoxomolybdates were generated in situ by treating a carboxylic acid-functionalized ionic liquid with an aqueous solution of sodium molybdate. This reaction mixture was applied in the catalytic epoxidation of olefins using hydrogen peroxide as oxidant. The influence of acid and catalyst concentration as well as of the reaction temperature was investigated. The system showed a good performance for the epoxidation reaction and can be reused several times without a significant loss of activity. We present an easy, cheap and environmentally friendly catalytic system for the epoxidation of cis-cyclooctene.
Design and deployment of a buried geophone array for CO2 geosequestration monitoring: CO2CRC Otway Project, Stage 2C (2015)

Summary Stage 2C of the CO2CRC Otway project aims to demonstrate the stabilization of a gas plume following the injection of approximately 15,000 tonnes of CO2-rich gas mixture into the saline aquifer and examine the capabilities of 4D seismic to detect and track the plume in the subsurface. The ability to detect and monitor the plume is controlled by both strength of the signal and level of the time-lapse noise. Extensive modeling and field trials show that the use of buried receiver arrays for long-term monitoring of the CO2 geosequestration has the potential to reduce both land impact for landowners and cost impact to the project. To this end, a buried receiver array was designed and deployed at the CO2CRC Otway site. The array comprises ∼900 high-sensitivity geophones deployed at 4 m depth below the surface. Preliminary benchmark tests show a significant improvement in raw data quality compared to surface geophones. Absence of cables and other seismic infrastructure on the surface (with the exception of eleven cross-line boxes) significantly reduces the impact of the survey on farming activities as only the sources will need access to the farmland for the future monitor surveys.
Effect of Dietary Supplementation of Extracts of Mushroom Mycelium on Survival and Growth of juvenile Flounder, Paralichthys olivacceus (2006)

The effects of mycelium cultural extract supplemented diet, hematology and disease resistance against Vibrio anguillarum in juvenile flounder, Paralichthys olivaceus were evaluated. Fish were fed the Phellinus linteus with Coriolus militaris versicolor mixed mycelium cultural extract supplemented diet, Phellinus linteus mycelium cultural extract supplemented diet and Coriolus militaris tmycelium cultural extract supplemented diet a commercial diet for 12 week. The body weight and length gain from the fish fed on daily the phellinus with coriolus versicolor mixed mycelium cultural extract supplemented diet, phellinus linteus mycelium cultural extract supplemented diet and Coriolus versicolor mycelium cultural extract supplemented diet of each mycelium cultural extract were higher than the control and the Glutamic oxalacetic transaminase (GPT) were of lower than the control. The relative precent survival rate (RPS) after an artificial challenge with of Vibrio anguillarum per fish was higher than the control.
Moral Hazard in Home Equity Conversion (1998)

are preliminary materials circulated to stimulate discussion and critical comment. Requests for single copies of a Paper will be filled by the Cowles Foundation within the limits of the supply. References in publications to Discussion Papers (other than mere acknowledgment by a writer that he has access to such unpublished material) should be cleared with the author to protect the tentative character of these papers.
Precise and programmable manipulation of microbubbles by two-dimensional standing surface acoustic waves (2012)

A microfluidic device is developed to transport microbubbles (MBs) along a desired trajectory in fluid by introducing the phase-shift to a planar standing surface acoustic wave (SSAW). The radiation force of SSAW due to the acoustic pressure gradient modulated by a phase-shift can move MBs to anticipated potential wells in a programmable manner. The resolution of the transportation is approximately 2.2 µm and the estimated radiation force on the MBs is on the order of 10−9 N. This device can be used for manipulation of bioparticles, cell sorting, tissue engineering, and other biomedical applications.
Acoustic droplet vaporization for temporal and spatial control of tissue occlusion: a kidney study (2005)

Acoustic droplet vaporization (ADV) has been introduced with the potential application of tumor treatment via occlusion and subsequent necrosis. New Zealand White rabbits were anesthetized, and their left kidney was externalized. An imaging array and single-element transducer were positioned in a tank with direct access to the kidney's vasculature and renal artery. Filtered droplet emulsions (diameter <6 microm) were injected intra-arterially (IA) into the left heart during insonification of the renal artery, and the extent of blood flow reduction by ADV was compared to the untreated right kidney. Flow cytometry (using colored microspheres) of kidney tissue samples and reference blood from the femoral artery allowed the quantitative estimation of regional blood flow. A maximum regional blood flow reduction in the treated region of >90% and an average organ perfusion reduction of >70% was achieved using ADV. After treatment of the left kidney, the control kidney on the contralateral side showed a maximum decrease in regional blood flow of 18% relative to the pre-ADV baseline. Image-based hyper-echogenicity from ADV of IA injections was monitored for approximately 90 minutes, and cortex perfusion was reduced by >60% of its original value for more than 1 hour. This could be enough time for the onset of cell death and possible tumor treatment via ischemic necrosis. Moreover, currently used radiofrequency tissue ablation-based tumor treatment could benefit from ADV due to the decreased heat loss via vascular cooling.