gebhart/patrepeval huggingface dataset:
Applying General Access Structure to Metering Schemes. (2002)

In order to decide on advertisement fees for web servers, Naor and Pinkas introduced metering schemes secure against coalition of corrupt servers and clients. In their schemes any server is able to construct a proof to be sent to an audit agency if and only if it has been visited by at least a certain number of clients. Several researchers have generalized the idea of Naor and Pinkas: first metering scheme with pricing and dynamic multithreshold metering schemes have been proposed; later the solution has been extended to allow for general access structures and an approach on linear algebra has been introduced. In this paper we are interested in the efficiency of applying general access structures and linear algebra techniques to metering schemes. We propose a new model considering general access structures for clients, corrupted clients and servers. Then we bind the access structures for clients and corrupted clients into one. We propose a new metering scheme, which is more efficient w.r.t. communication complexity and memory requirements than the scheme of Blundo et al. 1
A Model for How Signal Duration Can Determine Distinct Outcomes of Gene Transcription Programs (2012)

The reason why IL-6 induces a pro-inflammatory response, while IL-10 induces an anti-inflammatory response, despite both cytokines activating the same transcription factor, STAT3, is not well understood. It is known that IL-6 induces a transient STAT3 signal and that IL-10 induces a sustained STAT3 signal due to the STAT3-induced inhibitor SOCS3's ability to bind to the IL-6R and not the IL-10R. We sought to develop a general transcriptional network that is capable of translating sustained signals into one response, while translating transient signals into a second response. The general structure of such a network is that the transcription factor STAT3 can induce both an inflammatory response and an anti-inflammatory response by inducing two different genes. The anti-inflammatory gene can bind to and inhibit the inflammatory gene's production and the inflammatory gene can bind to its own promoter and induce its own transcription in the absence of the signal. One prediction that can be made from such a network is that in SOCS3-/- mice, where IL-6 induces a sustained STAT3 signal, that IL-6 would act as an anti-inflammatory cytokine, which has indeed been observed experimentally in the literature.
Oxytocin bolus versus oxytocin bolus and infusion for control of blood loss at elective caesarean section: double blind, placebo controlled, randomised trial (2011)

The addition of an oxytocin infusion after caesarean delivery reduces the need for additional uterotonic agents but does not affect the overall occurrence of major obstetric haemorrhage. Trial Registration Current Controlled Trials ISRCTN17813715.
Anlamsal Wiki: Bilgisayar Mühendisliği Eğitiminde İşbirlikçi Öğrenme Ortamı İçin Bir Araç (2013)

Computer engineering education encourages students to enhance their communication skills, critical thinking, analysis capabilities and abilities with group working. A successful way of improving student abilities is to organize them in work teams for specific tasks. These specific tasks play an important role for computer engineering students to gain habit of working together during all stages of a project development. Active learning methods can be used in the development of fundamental student qualifications.Collaborative learning methods such as project oriented learning and problem based learning are beneficial techniques to accomplish powerful active learning to promote engineering student’s creative and critical thinking. In recent years, web-based collaborative learning strategies have emerged with the growing usage of Web 2.0 based internet technologies which allow web users to create and exchange information actively. One of the most popular tools is the Media Wiki platform used for collaboration among students in web-based education. This Wiki tool creates new opportunities for students to edit learning resources and to share, create, discuss or to modify their projects together. Wikis are mature technology constructed with new trends in e-learning education such as discussion pages and history pages. On the other hand, Semantic Wiki that is a combination of Wiki and Semantic Web (Web 3.0) technology has not completely explored yet. Semantic Wiki enables users more advanced searching and navigation facilities by using annotations of course materials. In this paper, we introduce the opportunities of Media Wiki and Semantic Wiki platforms for collaborative computer engineering education
Investigation of Polarization-Insensitive Phase Regeneration Using Polarization-Diversity Phase-Sensitive Amplifier (2013)

We investigate a polarization-diversity PSA for polarization-insensitive phase regeneration of single and dual-polarization phase modulation formats. We show effective reduction on phase noise insensitive to signal's polarization by simulations and preliminarily verify this PSA by experiments.
QSAR Models for the Analysis of Bioresponse Data from Combinatorial Libraries of Biomaterials (2005)

Abstract We present two surrogate (semi‐empirical) models for prediction of both Protein Adsorption (PA) onto, and Cellular Response (CR) to, the surfaces of biodegradable polymers that have been designed for tissue engineering applications. We explore several of the key issues in the modeling process including the selection of adequate input variables, and the influence of the choice of the training set and the number of input variables on the accuracy of the predictions. The models are each built using five input variables selected from over 800 choices that include experimentally measured values, empirical estimates of chain hydrophobicity, and parameters that describe molecular shape. For both the PA and CR surrogate models, increasing the number of input variables from five up to seventeen resulted in no significant increase in model accuracy. Further, we examined the influence of the number of iterations in a Monte Carlo analysis designed to ensure that the amount of experimental error is realistically accounted for in the models. We found two ANN‐based surrogate models that predict PA and CR for 77 and 71% of the validation sets to within experimental uncertainty, respectively.
Surface plasmon enhanced light emission from semiconductor materials (2008)

Abstract Surface plasmon (SP) coupling technique was used to enhance light emissions from semiconductor nanocrystals with evaporated metal layers. We found that the SP coupling can increase the internal quantum efficiencies (IQE) of emission from CdSe‐based nanocrystals regardless of the initial efficiencies. This suggests that this technique should be much effective for various materials that suffer from low quantum efficiencies. We also obtained 70‐fold enhancement of emission from silicon nanocrystals in silicon dioxide. Obtained IQE value is 38%, which is as large as that of a compound semiconductor with direct transition. The SP coupling technique would bring a great improvement to silicon photonics. (© 2008 WILEY‐VCH Verlag GmbH &amp; Co. KGaA, Weinheim)
Optimization of OH-CEST contrast at 3T for clinical application of glucoCEST MRI (2018)

A 3D snapshot CEST sequence is optimized for contrast originating from hydroxyl groups of glucose molecules. Multi-B1-multi-pH measurements allow fitting of exchange rates of four glucose hydroxyl groups, which are then used to optimize pre-saturation parameters in simulation. The optimal protocol gave highly reproducible signals in 6 healthy volunteers, and showed no contrast when tested in a brain tumor patient. This protocol provides a robust baseline for glucose injection studies.
Modular mixing in plasmonic metal oxide nanocrystal gels with thermoreversible links (2023)

Gelation offers a powerful strategy to assemble plasmonic nanocrystal networks incorporating both the distinctive optical properties of constituent building blocks and customizable collective properties. Beyond what a single-component assembly can offer, the characteristics of nanocrystal networks can be tuned in a broader range when two or more components are intimately combined. Here, we demonstrate mixed nanocrystal gel networks using thermoresponsive metal-terpyridine links that enable rapid gel assembly and disassembly with thermal cycling. Plasmonic indium oxide nanocrystals with different sizes, doping concentrations, and shapes are reliably intermixed in linked gel assemblies, exhibiting collective infrared absorption that reflects the contributions of each component while also deviating systematically from a linear combination of the spectra for single-component gels. We extend a many-bodied, mutual polarization method to simulate the optical response of mixed nanocrystal gels, reproducing the experimental trends with no free parameters and revealing that spectral deviations originate from cross-coupling between nanocrystals with distinct plasmonic properties. Our thermoreversible linking strategy directs the assembly of mixed nanocrystal gels with continuously tunable far- and near-field optical properties that are distinct from those of the building blocks or mixed close-packed structures.
Counter-forensics of median filtering (2013)

Median filtering is a well-known non linear denoising filter often used as an harmless post-processing, sometimes also employed to affect the reliability of some forensic techniques. In this work, we present a novel counter-forensic method able to conceal the characteristic traces left by median filtering. By exploiting the knowledge of features used in existing median filtering detectors, we are able to remove the characteristic footprints via suitable random pixel modification, while keeping the quality of the counter-attacked image high. Experimental results show that the proposed method is very effective, computationally efficient and competitive with other state-of-the-art techniques.
Morlin, an inhibitor of cortical microtubule dynamics and cellulose synthase movement (2007)

Morlin (7-ethoxy-4-methyl chromen-2-one) was discovered in a screen of 20,000 compounds for small molecules that cause altered cell morphology resulting in swollen root phenotype in Arabidopsis. Live-cell imaging of fluorescently labeled cellulose synthase (CESA) and microtubules showed that morlin acts on the cortical microtubules and alters the movement of CESA. Morlin caused a novel syndrome of cytoskeletal defects, characterized by cortical array reorientation and compromised rates of both microtubule elongation and shrinking. Formation of shorter and more bundled microtubules and detachment from the cell membrane resulted when GFP::MAP4-MBP was used to visualize microtubules during morlin treatment. Cytoskeletal effects were accompanied by a reduction in the velocity and redistribution of CESA complexes labeled with YFP::CESA6 at the cell cortex. Morlin caused no inhibition of mouse myoblast, bacterial or fungal cell proliferation at concentrations that inhibit plant cell growth. By contrast, morlin stimulated microtubule disassembly in cultured hippocampal neurons but had no significant effect on cell viability. Thus, morlin appears to be a useful new probe of the mechanisms that regulate microtubule cortical array organization and its functional interaction with CESA.
Numerical Analysis of Bead Magnetophoresis from Flowing Blood in a Continuous-Flow Microchannel: Implications to the Bead-Fluid Interactions (2019)

In this work, we report a numerical flow-focused study of bead magnetophoresis inside a continuous-flow microchannel in order to provide a detailed analysis of bead motion and its effect on fluid flow. The numerical model involves a Lagrangian approach and predicts the bead separation from blood and their collection into a flowing buffer by the application of a magnetic field generated by a permanent magnet. The following scenarios are modelled: (i) one-way coupling wherein momentum is transferred from the fluid to beads, which are treated as point particles, (ii) two-way coupling wherein the beads are treated as point particles and momentum is transferred from the bead to the fluid and vice versa, and (iii) two-way coupling taking into account the effects of bead volume in fluid displacement. The results indicate that although there is little difference in the bead trajectories for the three scenarios, there is significant variation in the flow fields, especially when high magnetic forces are applied on the beads. Therefore, an accurate full flow-focused model that takes into account the effects of the bead motion and volume on the flow field should be solved when high magnetic forces are employed. Nonetheless, when the beads are subjected to medium or low magnetic forces, computationally inexpensive models can be safely employed to model magnetophoresis.
Coupling of Hormonal Stimulation and Transcription via the Cyclic AMP-Responsive Factor CREB Is Rate Limited by Nuclear Entry of Protein Kinase A (1993)

Cyclic AMP (cAMP) regulates a number of eukaryotic genes by mediating the protein kinase A (PKA)-dependent phosphorylation of the CREB transcription factor at Ser-133. In this study, we test the hypothesis that the stoichiometry and kinetics of CREB phosphorylation are determined by the liberation and subsequent translocation of PKA catalytic subunit (C subunit) into the nucleus. Using fluorescence imaging techniques, we observed that PKA was activated in a stimulus-dependent fashion that led to nuclear entry of C subunit over a 30-min period. The degree of CREB phosphorylation, assessed with antiserum specific for CREB phosphorylated at Ser-133, correlated with the amount of PKA liberated. The time course of phosphorylation closely paralleled the nuclear entry of the catalytic subunit. There was a linear relationship between the subsequent induction of the cAMP-responsive somatostatin gene and the degree of CREB phosphorylation, suggesting that each event--kinase activation, CREB phosphorylation, and transcriptional induction--was tightly coupled to the next. In contrast to other PKA-mediated cellular responses which are rapid and quantitative, the slow, incremental regulation of CREB activity by cAMP suggests that multifunctional kinases like PKA may coordinate cellular responses by dictating the kinetics and stoichiometry of phosphorylation for key substrates like CREB.
Supply Chain Sustainability Analysis of Renewable Hydrocarbon Fuels via Indirect Liquefaction, Ex Situ Catalytic Fast Pyrolysis, Hydrothermal Liquefaction, Combined Algal Processing, and Biochemical Conversion: Update of the 2019 State-of-Technology Cases (2020)

This technical report describes the supply chain sustainability analysis (SCSAs) for the production of renewable hydrocarbon transportation fuels via a range of conversion technologies: (1) renewable high octane gasoline (HOG) via indirect liquefaction (IDL) of woody lignocellulosic biomass (note that the IDL pathway in this SCSA represents the syngas conversion design in the 2019 SOT); (2) renewable gasoline (RG) and diesel (RD) blendstocks via ex situ catalytic fast pyrolysis of woody lignocellulosic biomass; (3) RD via hydrothermal liquefaction (HTL) of wet sludge from a wastewater treatment plant; (4) renewable hydrocarbon fuels via biochemical conversion of herbaceous lignocellulosic biomass; (5) renewable diesel via HTL of a blend of algae and woody biomass; and (6) renewable diesel via combined algae processing (CAP). This technical report focuses on the environmental performance of these six biofuel production pathways in their 2019 SOT cases. The results of these renewable hydrocarbon fuel pathways in these SCSA analyses update those for the respective 2018 SOT cases. They also provide an opportunity to examine the impact of technology improvements in both biomass feedstock production and biofuel production that have been achieved in 2019 SOTs on the sustainability performance of these renewable transportation fuels, and they reflect updates to Argonne National Laboratory’s Greenhouse gases, Regulated Emissions, and Energy use in Transportation (GREET®) model, which was released in October 2019. These GREET updates include the production of natural gas, electricity, and petroleum-based fuels that can influence biofuels’ supply chain greenhouse gas (GHG) (CO₂, CH₄, and N₂O) emissions, water consumption, and air pollutant emissions. GHG emissions, water consumption, and nitrogen oxides (NOx) emissions are the main sustainability metrics assessed in this analysis. In this analysis, we define water consumption as the amount of water withdrawn from a freshwater source that is not returned (or returnable) to a freshwater source at the same level of quality. Life-cycle fossil energy consumption and net energy balance, which is the life-cycle fossil energy consumption deducted from the renewable biofuel energy produced, are also assessed.
Negative Regulation of BRCA1 Gene Expression by HMGA1 Proteins Accounts for the Reduced BRCA1 Protein Levels in Sporadic Breast Carcinoma (2003)

A drastic reduction in BRCA1 gene expression is a characteristic feature of aggressive sporadic breast carcinoma. However, the mechanisms underlying BRCA1 downregulation in breast cancer are not well understood. Here we report that both in vitro and in vivo HMGA1b protein binds to and inhibits the activity of both human and mouse BRCA1 promoters. Consistently, murine embryonic stem (ES) cells with the Hmga1 gene deleted display higher Brca1 mRNA and protein levels than do wild-type ES cells. Stable transfection of MCF-7 cells with the HMGA1b cDNA results in a decrease of BRCA1 gene expression and in a lack of BRCA1 induction after estrogen treatment. Finally, we found an inverse correlation between HMGA1 and BRCA1 mRNA and protein expression in human mammary carcinoma cell lines and tissues. These data indicate that HMGA1 proteins are involved in transcriptional regulation of the BRCA1 gene, and their overexpression may have a role in BRCA1 downregulation observed in aggressive mammary carcinomas.
Plasma‐Resistant Dense Yttrium Oxide Film Prepared by Aerosol Deposition Process (2007)

Dense yttrium oxide film was prepared on a quartz substrate by the aerosol deposition process at the room temperature. The deposition rate was very high, 60 m/h. Thick film of 10 m was easily achievable on the quartz substrate. Transmission electron microscopy showed that the film was highly dense without voids and was composed of randomly oriented Y 2 O 3 crystallites of sizes smaller than 20 nm. The interface between the film layer and the quartz substrate was homogeneous. The film (2‐m thick) had a high transmittance (55–85%) in the wavelength region of 250‐800 nm. The mechanical properties of the film were very good. The adhesion force of the interface between the Y 2 O 3 layer and the quartz substrate was over 80 MPa. The Vickers hardness of the film was 7.7 GPa. The film also had an excellent plasma resistance in a gas mixture of CF 4 /O 2 . Outstanding results were noted in eroded depth, surface roughness, nanostructure, and transmittance change after plasma exposure of the film.
L-PGDS Attenuates Acute Lung Injury by Prostaglandin D2 in Both Dependent and Independent Ways (2021)

Lipocalin-type PG D synthase (L-PGDS) has two roles: it can be a PGD synthase, or it can be a carrier protein of hydrophobic small molecules. In this study, we investigated the dual roles of L-PGDS in acute lung injury by using L-PGDS-deficient and point-mutated mice, which lack PGD<sub>2</sub> producibility but maintain lipocalin ability. Hydrochloride (HCl) administration (0.1 M intratracheally for 6 h) caused hemorrhage and dysfunction in the wild-type (WT) mouse lung. These symptoms were accompanied by an increase in PGD<sub>2</sub> production. Both deficiency and point mutation of L-PGDS aggravated the HCl-induced hemorrhage and dysfunction. Although both the gene modifications decreased PGD<sub>2</sub> production, only L-PGDS-deficient mice, but not point mutation mice, lacked protein expressions of L-PGDS in the lungs. In the WT mice, HCl administration caused pulmonary edema, indexed as an increase in lung water content and protein leakage in bronchoalveolar lavage fluid. L-PGDS deficiency and point mutation similarly aggravated edema formation. HCl administration also stimulated mucin production and bronchoalveolar lavage fluid leukocyte infiltration in the WT mouse lungs. Of interest, L-PGDS deficiency, but not point mutation, exacerbated these manifestations. Consistently, only L-PGDS deficiency increased the mRNA expression of IL-33, which stimulates mucin production in the inflamed lung. These results show that L-PGDS attenuated HCl-induced acute lung injury progresses in two different ways: L-PGDS produced PGD<sub>2</sub>, which inhibited pulmonary edema formation, whereas its lipocalin ability decreased mucin formation and inflammatory cell infiltration in the inflamed lung.
NVGRE and VXLAN Encapsulation Extension for L3 Overlay (2013)

Both NVGRE and VXLAN encapsulations were originally designed for L2
overlay only. This draft proposes the enhancement on both to support
L3 overlay as well. The proposed method completely decouples the L3
overlay from the L2 overlay in terms of encoding schema and data
processing.
SimulCap : Single-View Human Performance Capture With Cloth Simulation (2019)

This paper proposes a new method for live free-viewpoint human performance capture with dynamic details (e.g., cloth wrinkles) using a single RGBD camera. Our main contributions are: (i) a multi-layer representation of garments and body, and (ii) a physics-based performance capture procedure. We first digitize the performer using multi-layer surface representation, which includes the undressed body surface and separate clothing meshes. For performance capture, we perform skeleton tracking, cloth simulation, and iterative depth fitting sequentially for the incoming frame. By incorporating cloth simulation into the performance capture pipeline, we can simulate plausible cloth dynamics and cloth-body interactions even in the occluded regions, which was not possible in previous capture methods. Moreover, by formulating depth fitting as a physical process, our system produces cloth tracking results consistent with the depth observation while still maintaining physical constraints. Results and evaluations show the effectiveness of our method. Our method also enables new types of applications such as cloth retargeting, free-viewpoint video rendering and animations.
Effect of focal spot scanning method in agarose gel and chicken breast on heating efficiency in cavitation-enhanced ultrasonic heating (2021)

Abstract High-intensity focused ultrasound (HIFU) treatment is a non-invasive method of cancer treatment. In a HIFU treatment, ultrasound is focused on a target tumor tissue leading to temperature rise that coagulates the tissue. The treatment has a problem of long treatment time because a tumor is usually larger than the focal spot of HIFU. To reduce the treatment time, cavitation bubbles can be used for accelerating ultrasonic heating. Additionally, the heat conducting away from a focal spot can be utilized by properly scanning the focus. In this study, three sequences of scanning the focus to form six foci were compared by observing cavitation bubbles and measuring temperature rise in an excised chicken breast tissue and an agarose gel as well as a thin slice of tissue sandwiched between agarose gels. The results showed that there were differences in the behavior of bubbles and the efficient sequence between the tissue and the gel.
Advances in Multiphoton Microscopy (2012)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text J. Squier, E. Hoover, E. Chandler, M. Young, S. Hill, S. Backus, and C. Durfee, "Advances in Multiphoton Microscopy," in Frontiers in Optics 2012/Laser Science XXVIII, OSA Technical Digest (online) (Optica Publishing Group, 2012), paper FM4D.4. Export Citation BibTex Endnote (RIS) HTML Plain Text Get Video Citation alert Save article