gebhart/patrepeval huggingface dataset:
Electron Tomography of RabA4b‐ and PI‐4Kβ1‐Labeled Trans Golgi Network Compartments in Arabidopsis (2010)

The trans Golgi network (TGN) of plant cells sorts and packages Golgi products into secretory (SV) and clathrin-coated (CCV) vesicles. We have analyzed of TGN cisternae in Arabidopsis root meristem cells by cell fractionation and electron microscopy/tomography to establish reliable criteria for identifying TGN cisternae in plant cells, and to define their functional attributes. Transformation of a trans Golgi cisterna into a Golgi-associated TGN cisterna begins with cisternal peeling, the formation of SV buds outside the plane of the cisterna and a 30-35% reduction in cisternal membrane area. Free TGN compartments are defined as cisternae that have detached from the Golgi to become independent organelles. Golgi-associated and free TGN compartments, but not trans Golgi cisternae, bind anti-RabA4b and anti-phosphatidylinositol-4 kinase (PI-4K) antibodies. RabA4b and PI-4Kβ1 localize to budding SVs in the TGN and to SVs en route to the cell surface. SV and CCV release occurs simultaneously via cisternal fragmentation, which typically yields ∼30 vesicles and one to four residual cisternal fragments. Early endosomal markers, VHA-a1-green fluorescent protein (GFP) and SYP61-cyan fluorescent protein (CFP), colocalized with RabA4b in TGN cisternae, suggesting that the secretory and endocytic pathways converge at the TGN. pi4k1/pi4k2 knockout mutant plants produce SVs with highly variable sizes indicating that PI-4Kβ1/2 regulates SV size.
Privacy-friendly Forecasting for the Smart Grid using Homomorphic Encryption and the Group Method of Data Handling (2017)

While the smart grid has the potential to have a positive impact on the sustainability and efficiency of the electricity market, it also poses some serious challenges with respect to the privacy of the consumer. One of the traditional use-cases of this privacy sensitive data is the usage for forecast prediction. In this paper we show how to compute the forecast prediction such that the supplier does not learn any individual consumer usage information. This is achieved by using the Fan-Vercauteren somewhat homomorphic encryption scheme. Typical prediction algorithms are based on artificial neural networks that require the computation of an activation function which is complicated to compute homomorphically. We investigate a different approach and show that Ivakhnenko’s group method of data handling is suitable for homomorphic computation.
Supplementary Figures 1-11 from PERK–Dependent Regulation of Ceramide Synthase 6 and Thioredoxin Play a Key Role in <i>mda</i>-7/IL-24–Induced Killing of Primary Human Glioblastoma Multiforme Cells (2023)

Supplementary Figures 1-11 from PERK–Dependent Regulation of Ceramide Synthase 6 and Thioredoxin Play a Key Role in &lt;i&gt;mda&lt;/i&gt;-7/IL-24–Induced Killing of Primary Human Glioblastoma Multiforme Cells
Tridimensional Visualization through Optical Illusion (2014)

Holography is a technique that uses the properties of light as a way of registering and representing three-dimensional scenes and objects. However, holography is not the only technique that makes it possible to visualize in three dimensions. In this work will be detailed another form of three-dimensional visualization based on an invention of the late 19th century. Different applications that use this approach will be presented, as well as their results that are quite similar to those of holography. A solution involving hardware/software for 3D visualization through optical illusion is proposed. Using a prism with specific geometric proportions, is possible project the generated content with the developed tool to visualize objects and even 3D point clouds relating to faces captured with the Microsoft Kinect sensor.
Knowledge-grounded Dialog State Tracking (2022)

Knowledge (including structured knowledge such as schema and ontology, and unstructured knowledge such as web corpus) is a critical part of dialog understanding, especially for unseen tasks and domains. Traditionally, such domain-specific knowledge is encoded implicitly into model parameters for the execution of downstream tasks, which makes training inefficient. In addition, such models are not easily transferable to new tasks with different schemas. In this work, we propose to perform dialog state tracking grounded on knowledge encoded externally. We query relevant knowledge of various forms based on the dialog context where such information can ground the prediction of dialog states. We demonstrate superior performance of our proposed method over strong baselines, especially in the few-shot learning setting.
Biomarkers for EGFR-Antagonist Response: In the Genes and on the Genes! (2012)

Patients with non-small cell lung carcinoma containing epidermal growth factor receptor (EGFR)-activating mutations benefit from EGFR-antagonist therapy. EGFR-antagonist sensitivity is also correlated with epithelial-mesenchymal transition, which Walter and colleagues show to be marked by DNA-methylation changes. If validated, these markers could help identify patients with wild-type EGFR who will benefit from EGFR therapy.
Only one DQ-beta restriction fragment pattern of each DR specificity is associated with insulin-dependent diabetes. (1986)

Abstract Insulin-dependent diabetes is generally associated with the serologic HLA-DR specificities 3 and 4, in particular with DR-3,4 heterozygosity. The disease is negatively associated with DR-2. To investigate these associations further at the genomic level, DNA from 13 families with a proband having insulin-dependent diabetes, from 11 other individuals with the same disease, and from HLA-DR-matched control individuals was subjected to restriction fragment analysis. Three different enzymes (Bam HI, Eco RI, and Pvu II) and cDNA clones for three HLA-D region class II antigen alpha- and beta-chains (DR-beta, DQ-beta, and DQ-alpha) were used. In six families, a total of 11 siblings HLA-DR-identical to the proband were examined. There was no discrepancy between the hybridization patterns of the proband and those of the DR-identical siblings. Two different DQ-B fragment patterns were detected with each one of the serologic specificities DR-2 and DR-4. In both cases, only one of the patterns correlated significantly with diabetes. Thus, DQ-beta genomic hybridization may be used in conjunction with HLA-DR typing to identify individuals with higher relative risk to acquire insulin-dependent diabetes. These results may suggest that insulin-dependent diabetes is associated with the DQ rather than with the DR locus.
Combined clozapine-lithium treatment for schizophrenia and schizoaffective disorder (1998)

Three adolescent and two adult patients suffering from chronic excited psychoses (either schizophrenia or schizoaffective disorder) resistant to traditional neuroleptics and clozapine were treated with combined clozapine-lithium. Improvement was assessed with the Positive and Negative Symptoms Scale, the Brief Psychiatric Rating Scale and the Clinical Global Impressions, administered before and during combined clozapine-lithium treatment. All patients demonstrated a significant improvement with this combination. There was no occurrence of agranulocytosis, neuroleptic malignant syndrome or other clinically significant adverse effects.
Phosphorylase a is an allosteric inhibitor of the glycogen and microsomal forms of rat hepatic protein phosphatase‐1 (1986)

The dephosphorylation of glycogen synthase by protein phosphatase-1 in hepatic glycogen and microsomes was inhibited by nanomolar concentrations of phosphorylase a. The I50 for phosphorylase a was 1000-fold lower than its Km as a substrate, while tryptic digestion increased the I50 1000-fold without affecting Km. Protein phosphatase-1 from skeletal muscle and protein phosphatase-2A from liver were only inhibited at 1000-fold higher concentrations. Protein phosphatase-1 became desensitized to phosphorylase a when released from hepatic microsomes, but sensitivity was partially restored by readdition of the solubilized enzyme to the microsomes. The results demonstrate that phosphorylase a is a potent allosteric inhibitor of hepatic protein phosphatase-1 and suggest that inhibition may be conferred by a novel phosphorylase a-binding subunit.
GDNF-deprived sympathetic neurons die via a novel nonmitochondrial pathway (2003)

The mitochondrial death pathway is triggered in cultured sympathetic neurons by deprivation of nerve growth factor (NGF), but the death mechanisms activated by deprivation of other neurotrophic factors are poorly studied. We compared sympathetic neurons deprived of NGF to those deprived of glial cell line-derived neurotrophic factor (GDNF). In contrast to NGF-deprived neurons, GDNF-deprived neurons did not die via the mitochondrial pathway. Indeed, cytochrome c was not released to the cytosol; Bax and caspase-9 and -3 were not involved; overexpressed Bcl-xL did not block the death; and the mitochondrial ultrastructure was not changed. Similarly to NGF-deprived neurons, the death induced by GDNF removal is associated with increased autophagy and requires multiple lineage kinases, c-Jun and caspase-2 and -7. Serine 73 of c-Jun was phosphorylated in both NGF- and GDNF-deprived neurons, whereas serine 63 was phosphorylated only in NGF-deprived neurons. In many NGF-deprived neurons, the ultrastructure of the mitochondria was changed. Thus, a novel nonmitochondrial caspase-dependent death pathway is activated in GDNF-deprived sympathetic neurons.
Effect of Point-Spread Function Reconstruction for Indeterminate PSMA-RADS-3A Lesions on PSMA-Targeted PET Imaging of Men with Prostate Cancer (2021)

The use of PSF reconstructions for <sup>18</sup>F-DCFPyL PET can allow the appropriate re-categorization of a small number of indeterminate PSMA-RADS-3A soft tissue lesions as more definitive PSMA-RADS-4 lesions. The routine use of PSF reconstructions for PSMA-targeted PET may be of value at those sites that utilize this technology.
Tympanometry and Acoustic Impedance (1977)

In recordings of the acoustic impedance of the middle ear (tympanometry) the change in air pressure in the ear canal will mostly influence the capacitive component of the acoustic impedance. By choosing a probe tone frequency close to the resonance frequency of the middle ear, characteristic tympanometric patterns can be demonstrated in certain middle ear lesions. The shapes of the curves are discussed in relation to the behaviour of the different components of the middle ear impedance.
A Novel Method for Even Odd Parametric Oscillation Stability Analysis of a Microwave Power Amplifier (2006)

High power amplifiers frequently exhibit parametric oscillations, when driven near compression. This paper describes a new analysis and design methodology for predicting and eliminating even and odd parametric oscillation modes in power amplifiers. Large pumped signal, synchronized with a small signal, for stability analysis based on small signal oscillation conditions is proposed. The method has been applied to a Ku band MMIC power amplifier to predict a parametric even mode frequency divider/oscillator and to stabilize it using RC elements at each transistor gate
Self-transmission control in IoT over heterogeneous wireless networks (2017)

With the increasing development of the IoT applications, heterogeneous wireless networks may coexist. IEEE 802.11ah and IEEE 802.15.4g are two wireless technologies designed for IoT applications. 802.11ah is primarily developed for outdoor applications such as smart city and 802.15.4g is principally developed for large scale outdoor process control applications such as smart utility network. Both technologies have communication range up to 1000 meters. Therefore, 802.11ah network and 802.15.4g network are likely to coexist. Our simulation results show that 802.11ah network can severely interfere with 802.15.4g network since 802.11ah devices are more aggressive than 802.15.4g devices in wireless medium access contention. This capability heterogeneity can lead to significant packet loss in 802.15.4g network. Due to asymmetrical features such as modulation scheme and packet structure, devices in different networks can not understand each other. Thus, the self-transmission control mechanism is needed for more aggressive 802.11ah devices. This paper proposes a learning based self-transmission control method for 802.11ah devices to improve their coexistence with 802.15.4g devices. Using the proposed self-transmission control technique, 802.11ah devices predict the packet transmission of 802.15.4g devices and postpone their transmissions to avoid interference.
Auxin-binding protein mutants in maize. (2000)

The proper treatment of tendinous ankle injuries will yield a strong, stable joint. Generally, athletes can expect to return to their preinjury athletic level. Tendon strain or inflammation, either from a single incident or simple overuse, requires prolonged conservative therapy. Tendon rupture should be approached aggressively to insure a powerful, stable ankle.
Supplementary Figure Legends 1-12 from Reactivation of ERK Signaling Causes Resistance to EGFR Kinase Inhibitors (2023)

&lt;p&gt;PDF file - 83K&lt;/p&gt;
Does inhibition of proteolytic activity improve adhesive luting? (2013)

Endogenous enzymes may be involved in the biodegradation of adhesive restoration-tooth interfaces. Inhibitors of matrix metalloproteinases (MMPs) have been suggested to retard the bond-degradation process. Limited data are available on whether composite cements may also benefit from MMP inhibitors. Therefore, the aim of this study was to determine the effect of two MMP inhibitors--chlorhexidine digluconate (CHX) and galardin--on the microtensile bond strength (μTBS) of two self-adhesive composite cements to dentin. Ceramic specimens were cemented to bur-cut dentin surfaces using the self-adhesive composite cements RelyX Unicem 2 (3M ESPE) or Clearfil SA (Kuraray), or the etch-and-rinse composite cement Nexus 3 (Kerr) that served as the control. The surfaces were left untreated or were pretreated with MMP inhibitors (2% CHX or 0.2 mM galardin). The μTBS was determined 'immediately' and upon ageing (water storage for 6 months). Statistical analysis revealed a significant effect of the factors 'composite cement' and 'storage', as well as all interactions, but no effect of the MMP inhibitors. After 6 months of ageing, the μTBS decreased for all cements, except for the multistep etch-and-rinse luting composite when it was applied without MMP inhibitors. The MMP inhibitors could not prevent the decrease in μTBS upon ageing and therefore do not improve the luting durability of the composite cements tested.
Calcium imaging, MEA recordings, and immunostaining images dataset of neuron-astrocyte networks in culture under the effect of norepinephrine (2018)

Our dataset is sufficient to show significant changes in activity and morphology of neuron-astrocyte networks in culture under the applied stimulations. More than 100 recordings of 58 different cultures give insight of the observation's significance and led to conclusions about astrocyte activity and neuron-astrocyte network communication. Making it available here will allow others to test new tools for calcium imaging analysis and extracellular neuronal voltage recordings.
Transition Mechanisms for Complex Ordered Phases in Block Copolymer Melts (1998)

We describe microstructural aspects of phase transitions between the lamellar (L), perforated layer (PL), and gyroid (G) morphologies in diblock copolymer melts. Using small-angle scattering, dynamic mechanical spectroscopy, and transmission electron microscopy, we show that these transformations proceed through the nucleation and growth of the final phase, in contrast to recent calculations that assume evolution from a thermodynamically unstable initial state. Direct L → G transitions are suppressed by the high surface tension associated with L−G grain boundaries; the formation of the metastable PL structure under such conditions reflects the ease with which the L → PL transition can occur, compared to L → G. Similar effects dominate the G → L transition. Mismatches in spacings between epitaxially related lattice planes also influence relaxation kinetics; the P → LG transition rate depends strongly on the relative spacings of the PL [10] and G [211] planes, and the considerable discrepancy between the G ...
Intracorporeal Sonoporation-Induced Drug/Gene Delivery Using a Catheter Ultrasound Transducer (2022)

Ultrasound (US) has been recently demonstrated promising in cancer immunotherapy. By virtue of microbubble-mediated cavitation, US can induce temporary pores in the cell membrane to enhance drug/gene delivery and this process is termed sonoporation. Currently, the typical US transducer for sonoporation is extracorporeal, lacking the ability to target lesions behind bones and fat efficiently, as well as to inject microbubbles (MBs) and nucleic acids into the US treatment zone simultaneously. These issues can decrease the drug/gene delivery effectiveness and increase the undesired systemic toxicity for cancer immunotherapy. Here we demonstrated an 800 kHz miniaturized US transducer for intracorporeal sonoporation-induced drug/gene delivery. Acoustic simulation using k-Wave toolbox was carried out to explore the 800 kHz US wave propagation in a 384-well cell culture plate. In-vitro sonoporation tests using human embryonic kidney (HEK) 293T cells and green fluorescent protein-luciferase (GFP-LUC) encoded plasmid DNA were conducted with various sonication parameters (i.e., 0.1 – 0.7 MPa peak-negative pressure; 20 – 2000 cycle number). The LUC assay demonstrated a significantly enhanced transfection, indicating the developed catheter transducer is promising for intracorporeal sonoporation-induced drug/gene delivery, such as intratumoral immunotherapy.
Clinical and MRI remission in patients with nonradiographic axial spondyloarthritis who received long-term open-label adalimumab treatment: 3-year results of the ABILITY-1 trial (2018)

ClinicalTrials.gov , NCT00939003 ; registered on July 10, 2009.
Relationship between Mobility and Diffusion Coefficient in Molecularly Doped Polymers (2006)

A theoretical photocurrent transient equation for a thin or thick sample was derived from the charge transport equation. This equation has been fitted to measured photocurrent transients of molecularly doped polymers in order to obtain the actual relationship between the mobility (µ) and the diffusion coefficient (D). The relationship between the mobility and the diffusion coefficient has been derived from the Langevin equation which takes into account the random electric field resulting from the randomly located and the randomly oriented electric dipoles. A time correlation function of the fluctuating electric field necessary for calculating the diffusion coefficient is assumed to be 2σE2exp (-|t|/τ), where σE is the dispersion of the fluctuating electric field, which is proportional to the electric dipole moment, and τ is the correlation time of the electric field fluctuation. The result, D=τσE2 µ2, was consistent with the actual relation, D∝µ2.
The NIKA instrument: results and perspectives towards a permanent KID\n based camera for the Pico Veleta observatory (2013)

The New IRAM KIDs Array (NIKA) is a pathfinder instrument devoted to\nmillimetric astronomy. In 2009 it was the first multiplexed KID camera on the\nsky; currently it is installed at the focal plane of the IRAM 30-meters\ntelescope at Pico Veleta (Spain). We present preliminary data from the last\nobservational run and the ongoing developments devoted to the next NIKA-2\nkilopixels camera, to be commissioned in 2015. We also report on the latest\nlaboratory measurements, and recent improvements in detector cosmetics and\nread-out electronics. Furthermore, we describe a new acquisition strategy\nallowing us to improve the photometric accuracy, and the related automatic\ntuning procedure.\n
Experiment of zero dispersion tuning by stretching down-sized HNLF (2006)

Zero dispersion of drawn HNLF was tuned by fiber stretching. Small cladding fiber is attractive for this purpose. 16nm tuning range of λ <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0</sub> was realized and performance of this tuning was confirmed by FWM wavelength conversion experiments.
Variance reduction using wafer patterns in I/sub ddQ/ data (2002)

The subject of this paper is I/sub ddQ/ testing for deep sub-micron CMOS technologies. The key concept introduced is the need to reduce the variance of good and faulty I/sub ddQ/ distributions. Other I/sub ddQ/ based techniques are reviewed within the context of variance reduction. Using the SEMATECH data and production data, variance reduction techniques are demonstrated. The main contribution of the paper is the systematic use of the die location and patterns in the I/sub ddQ/ data to reduce variance. Variance reduction is completed before any I/sub ddQ/ threshold limits are set.
Activity of Citrus Essential Oils against  Escherichia coli  O157:H7 and  Salmonella  spp. and Effects on Beef Subprimal Cuts under Refrigeration (2011)

CEOs are natural compounds that have been designated as Generally Recognized as Safe (GRAS). They can be used to control Salmonella spp. and E. coli O157:H7 on beef carcasses at the chilling stage.
High-throughput identification of crystalline natural products from crude extracts enabled by microarray technology and microED (2023)

The structural determination of natural products (NPs) can be arduous due to sample heterogeneity. This often demands itera-tive purification processes and characterization of complex molecules that may only be available in miniscule quantities. Microcrystal electron diffraction (microED) has recently shown promise as a method to solve crystal structures of NPs from nanogram quantities of analyte. However, its implementation in NP discovery remains hampered by sample throughput and purity requirements akin to traditional NP-discovery workflows. In the methods described herein, we leverage the resolving power of transmission electron microscopy (TEM) and the miniaturization capabilities of DNA microarray technology to address these challenges through the establishment of an NP screening platform, array electron diffraction (ArrayED). In this workflow, an array of HPLC fractions taken from crude extracts are deposited onto TEM grids in picoliter-sized droplets. This multiplexing of analytes on TEM grids enables 1200 or more unique samples to be simultaneously inserted into a TEM equipped with an autoloader. Selected area electron diffraction analysis of these microarrayed grids allows for rapid identification of crystalline metabolites. In this study, ArrayED enabled structural characterization of 14 natural products, including four novel crystal structures and two novel polymorphs, from 20 crude extracts. Moreover, we identify several chemical species that would not be detected by standard mass spectrometry (MS) or UV/Vis and crystal forms that would not be characterized using traditional methods.