gebhart/patrepeval huggingface dataset:
Effects of Ca2+ channel antagonists on acetylcholine and catecholamine releases in the in vivo rat adrenal medulla (2004)

To elucidate the types of voltage-dependent Ca(2+) channels controlling ACh and catecholamine releases in the in vivo adrenal medulla, we implanted microdialysis probes in the left adrenal medulla of anesthetized rats and investigated the effects of Ca(2+) channel antagonists on ACh, norepinephrine, and epinephrine releases induced by nerve stimulation. The dialysis probes were perfused with Ringer solution containing a cholinesterase inhibitor, neostigmine. The left splanchnic nerves were electrically stimulated at 2 and 4 Hz before and after intravenous administration of Ca(2+) channel antagonists. omega-Conotoxin GVIA (an N-type Ca(2+) channel antagonist, 10 microg/kg) inhibited ACh release at 2 and 4 Hz by approximately 40%, norepinephrine release at 4 Hz by approximately 50%, and epinephrine release at 2 and 4 Hz by approximately 45%. A fivefold higher dose of omega-conotoxin GVIA (50 microg/kg) did not further inhibit these releases. omega-Conotoxin MVIIC (a P/Q-type Ca(2+) channel antagonist, 50 microg/kg) inhibited ACh and epinephrine releases at 4 Hz by approximately 30%. Combined omega-conotoxin GVIA (50 microg/kg) and MVIIC (250 microg/kg) inhibited ACh release at 2 and 4 Hz by approximately 70% and norepinephrine and epinephrine releases at 2 and 4 Hz by approximately 80%. Nifedipine (an L-type Ca(2+) channel antagonist, 300 and 900 microg/kg) did not change ACh release at 2 and 4 Hz; however, nifedipine (300 microg/kg) inhibited epinephrine release at 4 Hz by 20%, and nifedipine (900 microg/kg) inhibited norepinephrine and epinephrine releases at 4 Hz by 30%. In conclusion, both N- and P/Q-type Ca(2+) channels control ACh release on preganglionic splanchnic nerve endings while L-type Ca(2+) channels do not. L-type Ca(2+) channels are involved in norepinephrine and epinephrine releases on chromaffin cells.
Inactivation of the RNase Activity of Glycoprotein E rns of Classical Swine Fever Virus Results in a Cytopathogenic Virus (1998)

Envelope glycoprotein E(rns) of classical swine fever virus (CSFV) has been shown to contain RNase activity and is involved in virus infection. Two short regions of amino acids in the sequence of E(rns) are responsible for RNase activity. In both regions, histidine residues appear to be essential for catalysis. They were replaced by lysine residues to inactivate the RNase activity. The mutated sequence of E(rns) was inserted into the p10 locus of a baculovirus vector and expressed in insect cells. Compared to intact E(rns), the mutated proteins had lost their RNase activity. The mutated proteins reacted with E(rns)-specific neutralizing monoclonal and polyclonal antibodies and were still able to inhibit infection of swine kidney cells (SK6) with CSFV, but at a concentration higher than that measured for intact E(rns). This result indicated that the conformation of the mutated proteins was not severely affected by the inactivation. To study the effect of these mutations on virus infection and replication, a CSFV mutant with an inactivated E(rns) (FLc13) was generated with an infectious DNA copy of CSFV strain C. The mutant virus showed the same growth kinetics as the parent virus in cell culture. However, in contrast to the parent virus, the RNase-negative virus induced a cytopathic effect in swine kidney cells. This effect could be neutralized by rescue of the inactivated E(rns) gene and by neutralizing polyclonal antibodies directed against E(rns), indicating that this effect was an inherent property of the RNase-negative virus. Analyses of cellular DNA of swine kidney cells showed that the RNase-negative CSFV induced apoptosis. We conclude that the RNase activity of envelope protein E(rns) plays an important role in the replication of pestiviruses and speculate that this RNase activity might be responsible for the persistence of these viruses in their natural host.
Single Substrate Electrically Small Huygens Dipole Antenna Design With Reactive Loading (2022)

A single substrate electrically small Huygens dipole antenna is presented. The antenna is designed to operate at 868 MHz with an input impedance matched to 100 $\Omega$ reference impedance, having an electrical size ka of 0.61. The short-circuit excitation technique is used to excite the antenna with lumped capacitors loading on the electric dipole and the magnetic dipole. The simulated performance shows perfect matching to the reference impedance, 79% radiation efficiency, and 3.5 dBi realized gain including capacitors resistive losses.
Flow Cytometric Characterization of Murine B Cell Development (2021)

Extensive studies have characterized the development and differentiation of murine B cells in secondary lymphoid organs. Antibodies secreted by B cells have been isolated and developed into well-established therapeutics. Validation of murine B cell development, in the context of autoimmune prone mice, or in mice with modified immune systems, is a crucial component of developing or testing therapeutic agents in mice and is an appropriate use of flow cytometry. Well established B cell flow cytometric parameters can be used to evaluate B cell development in the murine peritoneum, bone marrow, and spleen, but a number of best practices must be adhered to. In addition, flow cytometric analysis of B cell compartments should also complement additional readouts of B cell development. Data generated using this technique can further our understanding of wild type, autoimmune prone mouse models as well as humanized mice that can be used to generate antibody or antibody-like molecules as therapeutics.
Optoelectronic Logic Gate for Real Time Data Mining in a Bit Stream (2013)

Invention is an optoelectronic logic gate, which can perform both XNOR and XOR operations at the same time. The main advantage the invention offers is that it can handle multiple input signals simultaneously realizing real parallel processing in multiple channels. The invention has been built and successfully tested. We have demonstrated detecting and locating a 2 bit long target bit sequence inside a streaming input data in real time, without requiring recording of the streaming input data. A prototype is located in CREOL Lab 256. See attached manuscript for details of the invention.
A kernel-based statistical analysis of the residual error in video coding (2015)

Video compression techniques exploit the statistical redundancy present in video signals to efficiently reduce the amount of information sent to the decoder. We contribute with a kernel-based analysis of the residual error blocks. In particular, we borrow dimension reduction techniques from machine learning, namely Principal Component Analysis (PCA) and nonlinear Kernel Principal Component Analysis (KPCA), to assess the spatial structure of block residuals. Interestingly, a nonlinear structure is observed that correlates to the rate-distortion costs of the blocks. Simulations by using a test set of videos with cropped Ultra High Definition (UHD) resolution show interesting results.
Abstract 917: AZD2014, a dual mTORC1 and mTORC2 inhibitor is differentiated from allosteric inhibitors of mTORC1 in ER+ breast cancer (2012)

Abstract The mammalian target of rapamycin (mTOR) is a major sensor of nutrients and energy and is part of two multiprotein complexes mTORC1 and mTORC2. mTOR activation is widely reported in cancer and is associated with poor prognosis and resistance to standard of care treatment. Allosteric inhibitors of mTOR such as rapamycin partially inhibit mTORC1 and do not inhibit mTORC2. AZD2014 is a close analogue of AZD8055 and a selective inhibitor of mTOR kinase. AZD2014 has greater inhibitory activity against mTORC1 compared to rapamycin: AZD2014 decreases p4EBP1 Thr37/46, inhibits the translation initiation complex and decreases overall protein synthesis while rapamycin has no effect. AZD2014 also inhibits the mTORC2 biomarkers pAKTSer473 and pNDRG1Thr346. AZD2014 has broad antiproliferative activity across multiple tumour cell lines. In particular, AZD2014 induces growth inhibition and cell death in breast cancer cell lines, including ER+ cell lines with acquired resistance to hormone therapy. In vitro, the potency of AZD2014 is ∼ 5-fold lower compared to AZD8055. However, AZD2014 has improved pharmacokinetics compared to AZD8055. In vivo, AZD2014 induces tumour growth inhibition against several xenograft models including a human primary explant model of ER+ breast cancer refractory to tamoxifen. The antitumour activity is associated with modulation of both mTORC1 and mTORC2 substrates. Overall, AZD2014 is a potent mTOR kinase inhibitor with an in vitro profile comparable to AZD8055 but with improved pharmacokinetic properties over AZD8055. AZD2014 is currently in phase 1 clinical trials. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 103rd Annual Meeting of the American Association for Cancer Research; 2012 Mar 31-Apr 4; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2012;72(8 Suppl):Abstract nr 917. doi:1538-7445.AM2012-917
Dracena: A Real-Time IoT Service Platform Based on Flexible Composition of Data Streams (2019)

How to process the increasing amount of IoT data in real-time collected from a huge number of devices in the real world into a cloud data center with high frequency is a challenging problem. Furthermore, to share the data among multiple data processing pipelines each of which is to provide an IoT service and to allow service developers agilely develop IoT services through a trial-and-error process, a new IoT platform which enables flexible composition of data streams is required. We developed the data processing platform “Dracena” which enables the flexible composition of real-time IoT services. Every real-world device can synchronize its state to the corresponding virtual object on Dracena through sending the state data to the platform. The behavior of each virtual object, that is data processing on the object, can be agilely defined through Dracena's plug-in mechanism. In this paper, we introduce the architecture of Dracena, show a trial application built on it for mobility services designed to handle a large number of connected vehicles, and experimentally evaluate its performance. The results of the evaluation demonstrate that Dracena has the ability to process frequently generated data in real time sent from hundreds of thousands of devices, while allowing the data produced by real-world people or things to be used across multiple services.
Abstract 570: Developing a novel adaptor CAR-T cell platform based on the recognition of the P329G Fc mutation in therapeutic IgG1 antibodies for adoptive T cell therapy (2022)

Abstract Chimeric antigen receptor (CAR) T cells have shown promising results for the treatment of blood cancers and various CAR-T cell approaches are in development for use in different tumor indications. Universal or modular CARs do not directly recognize the tumor target antigen, but bind via an adaptor molecule to their respective tumor target. We describe the P329G-CAR-T platform as a novel modular CAR-T cell platform that recognizes the P329G mutation in the Fc portion of IgG1 antibodies, a mutation frequently applied to abolish the Fc immune effector function of therapeutic antibodies. In contrast to other adaptor CAR-T cell platforms this approach does not rely on haptens or artificial tags fused to the targeting antibody.The crystal structure analysis of the anti-P329G Fab fragment in complex with a P329G-Fc portion showed that the Fab fragment recognizes the Fc mutation with 1:1 binding stoichiometry. Surface plasmon resonance analysis determined the equilibrium binding affinity of the P329G antibody to the P329G Fc-portion to be 15 nM. Cell assays using Jurkat-NFAT reporter cell lines and primary T cells transduced with the P329G-CAR showed specific recruitment of P329G CAR-T cells by P329G-containing antibodies, and potent and dose dependent tumor cell killing accompanied by IFNg release and subsequent T cell activation for several unrelated tumor antigens including CD20, CD33, HER2, FOLR1 and mesothelin. Notably, P329G-CAR-T cell killing activity was comparable to the activity of the respective direct scFv-based CAR-T cells, both in terms of kinetics and absolute killing potency. Finally, comparable activity was determined in comparison to CD16 extracellular domain (ECD)-based CAR-T cells engaging the CAR-T cells via the Fc-CD16-ECD interaction. In summary, P329G-CAR-T cells mediate potent tumor cell killing in combination with various tumor targeting antibodies as adaptor molecules. The combination with tumor targeting antibodies enables control of CAR-T activity by adjusting the dose and schedule of the respective antibody adaptor molecule. Importantly, different from CD16-ECD-based CAR-T cells, P329G-CAR-T cells cannot be engaged by endogenous immunoglobulins. In vivo studies to investigate efficacy and safety of P329G CAR-T cells are currently being completed and will be reported. Citation Format: Diana Darowski, Mohamed-Reda Benmebarek, Christian Jost, Kay Stubenrauch, Uwe Wessels, Joerg Benz, Anne Freimoser-Grundschober, Ekkehard Moessner, Pablo Umana, Sebastian Kobold, Christian Klein. Developing a novel adaptor CAR-T cell platform based on the recognition of the P329G Fc mutation in therapeutic IgG1 antibodies for adoptive T cell therapy [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2022; 2022 Apr 8-13. Philadelphia (PA): AACR; Cancer Res 2022;82(12_Suppl):Abstract nr 570.
<title>Polymer physics in poled polymers for second-order nonlinear optics</title> (1994)

A special class of thermally stable poly(arylene ether) phosphine oxide polymers is being investigated for second-order nonlinear optical applications because of their high glass transition temperatures (&gt; 200 degree(s)C). These polymers also have strong hydrogen bonding sites that can interact with the chromophores which may improve the temporal stability of chromophore orientation following poling. This work describes the polymer physics including structure/property relationships; in particular, the chromophore/polymer interactions and polymer backbone structures that influence the thermal and temporal stability of chromophore orientation in these polymer matrices. Second harmonic generation is sensitive to local changes in the polymer microenvironment and thus is an excellent technique for probing chromophore orientational dynamics during and following poling and the effect of dopant/polymer interactions on the temporal stability. Dielectric relaxation is employed to examine the intermolecular cooperativity and segmental relaxation behavior arising from different polymer backbone structures and steric effects. It is critical to understand how structure/property relationships affect the chromophore orientational dynamics and polymer relaxation in these polymers so that one can better tailor materials for nonlinear optical device applications.
A Compact kHz-Repetition-Rate 2-mJ sub-200-fs cw-Pumped Yb,Na:CaF2 Amplifier (2009)

Using a novel broadband Yb-doped crystal close-loop cooled at −130°C we demonstrate a 2–6-W multi-kilohertz amplifier delivering sub-200-fs pulses with energies up to 2 mJ. This technology is straightforwardly scalable toward a kHz-repetition-rate multi-mJ output.
Molecular analysis of duplicated esterase genes in Drosophila melanogaster. (1990)

Genomic clones containing sequences homologous to an esterase 6 (Est-6) cDNA clone were isolated from a library of Drosophila melanogaster DNA. Comparison of the genomic and cDNA sequences revealed that the Est-6 gene comprises two exons, one of 1,387 bp and one of 248 bp, separated by a short intron of 51 bp. Further sequencing revealed the presence of a tandem duplication of the Est-6 gene (denoted Est-P) which also has an exon of 1,387 bp and an exon of 248 bp, separated by a short intron of 56 bp. The two genes show similarities of 64% and 60% at the DNA and protein levels, respectively. The coding regions of the genes are 197 bases apart, and presumptive 5' regulatory sequences of Est-P overlap at least the 3' noncoding region of Est-6. Transcripts homologous to Est-P were detected in late larvae and adults of each sex, whereas Est-6 transcripts are present in all life stages but are predominant in adult males. This suggests different physiological functions for the products of the two genes. Southern and Northern blot hybridization analyses of the 20-kb region surrounding the Est-6/Est-P duplication failed to detect any other duplicated esterase genes, although this region is actively transcribed.
Transbilayer transport of phosphatidic acid in response to transmembrane pH gradients (1991)

Preliminary studies have shown that asymmetric transbilayer distributions of phosphatidic acid (PA) can be induced by transmembrane pH gradients (delta pH) in large unilamellar vesicles [Hope et al. (1989) Biochemistry 28, 4181-4187]. Here the mechanism of PA transport is examined employing TNS as a fluorescent probe of lipid asymmetry. It is shown that the kinetics of PA transport are consistent with the transport of the uncharged (protonated) form. Transport of the neutral form can be rapid, exhibiting half-times for transbilayer transport of approximately 25 s at 45 degrees C. It is also shown that PA transport is associated with a large activation energy (28 kcal/mol) similar to that observed for phosphatidylglycerol. The maximum induced transbilayer asymmetry of PA corresponded to approximately 95% on the inner monolayer for vesicles containing 5 mol % PA.
Computing Energy Levels by Inversion of Imaginary-Time Cross-Correlation Functions (2003)

As proposed by Ceperley and Bernu, the excited-state energies can be obtained from imaginary-time cross-correlation functions (rather than autocorrelation functions) generated by quantum Monte Carlo (QMC) simulations. We show that, when processed by the filter diagonalization method (FDM), the same cross-correlation functions yield excited-state energies of higher accuracy and greater stability. The reason is that unlike the other methods FDM uses all the time domain information available. The superior performance of the cross-correlation FDM is demonstrated for a two-dimensional harmonic oscillator with closely lying eigenvalues. Because QMC does not take advantage of the separability in the Hamiltonian, this model system provides a challenging and generic test case.
Understanding Multi-Device Usage Patterns: Physical Device Configurations and Fragmented Workflows (2022)

To better ground technical (systems) investigation and interaction design of cross-device experiences, we contribute an in-depth survey of existing multi-device practices, including fragmented workflows across devices and the way people physically organize and configure their workspaces to support such activity. Further, this survey documents a historically significant moment of transition to a new future of remote work, an existing trend dramatically accelerated by the abrupt switch to work-from-home (and having to contend with the demands of home-at-work) during the COVID-19 pandemic. We surveyed 97 participants, and collected photographs of home setups and open-ended answers to 50 questions categorized in 5 themes. We characterize the wide range of multi-device physical configurations and identify five usage patterns, including: partitioning tasks, integrating multi-device usage, cloning tasks to other devices, expanding tasks and inputs to multiple devices, and migrating between devices. Our analysis also sheds light on the benefits and challenges people face when their workflow is fragmented across multiple devices. These insights have implications for the design of multi-device experiences that support people’s fragmented workflows.
Peptidylarginine deiminase from Porphyromonas gingivalis citrullinates human fibrinogen and α‐enolase: Implications for autoimmunity in rheumatoid arthritis (2010)

Our findings demonstrate that among the oral bacterial pathogens tested, P gingivalis is unique in its ability to citrullinate proteins. We further show that P gingivalis rapidly generates citrullinated host peptides by proteolytic cleavage at Arg-X peptide bonds by arginine gingipains, followed by citrullination of carboxy-terminal arginines by bacterial PAD. Our results suggest a novel model where P gingivalis-mediated citrullination of bacterial and host proteins provides a molecular mechanism for generating antigens that drive the autoimmune response in RA.
Detection of language (model) errors (2000)

The bigram language models are popular, in much language processing applications, in both Indo-European and Asian languages. However, when the language model for Chinese is applied in a novel domain, the accuracy is reduced significantly, from 96% to 78% in our evaluation. We apply pattern recognition techniques (i.e. Bayesian, decision tree and neural network classifiers) to discover language model errors. We have examined 2 general types of features: model-based and language-specific features. In our evaluation, Bayesian classifiers produce the best recall performance of 80% but the precision is low (60%). Neural network produced good recall (75%) and precision (80%) but both Bayesian and Neural network have low skip ratio (65%). The decision tree classifier produced the best precision (81%) and skip ratio (76%) but its recall is the lowest (73%).
Treatment Options for Thoracolumbar Spine Fractures (2005)

A decision for operative versus nonoperative management of thoracolumbar fractures should NEVER be based solely on one factor. Only after a thorough physical, neurological, and spinal examination, and an assessment of a patient’s prior activity, social and educational background and patient’s expectations, one should review the patient’s radiographs and CT scans to determine risks and benefits of operative versus nonoperative care. Both treatment options are discussed in this paper. As a surgical option our preference is short-segment instrumentation and fusion. Careful and appropriate patient selection and an excellent operative technique insure the minimum complications.
Coherent growth of β-(Al x Ga1−x )2O3 alloy thin films on (010) β-Ga2O3 substrates using mist CVD (2023)

Abstract Herein, we demonstrate β -(Al x Ga 1− x ) 2 O 3 thin films that were coherently grown on a (010) β -Ga 2 O 3 substrate using mist chemical vapor deposition (CVD). X-ray diffraction and reciprocal space mapping results revealed that the β -(Al x Ga 1− x ) 2 O 3 thin films were of high-crystalline quality and were grown coherently to attain an Al content of 18.3% as measured by Rutherford backscattering spectroscopy. Importantly, based on their surface morphologies, the coherently grown β -(Al x Ga 1− x ) 2 O 3 thin films have atomically flat surfaces. These results indicate that mist CVD is a promising technique for β -(Al x Ga 1− x ) 2 O 3 / β -Ga 2 O 3 heterojunction devices.
Circulating microRNAs in patients with hormone receptor‐positive, metastatic breast cancer treated with dovitinib (2017)

We conclude that changes in the expression patterns of circulating miRs can be indicators of drug responses that merit prospective studies for validation.