gebhart/patrepeval huggingface dataset:
Use of a gene expression system based on potato virus X to rapidly identify and characterize a tomato Pto homolog that controls fenthion sensitivity. (1995)

A novel transient gene expression system was used to study both the tomato disease resistance gene Pto and a Pto homolog designated Fen. The gene expression system was based on potato virus X (PVX). Tomato plants that were both susceptible to strains of Pseudomonas syringae pv tomato carrying the corresponding avirulence gene avrPto and insensitive to the insecticide fenthion were infected with in vitro-generated transcripts of PVX derivatives containing either Pto or Fen. Expression of the Pto gene from the virus genome failed to elicit P.s. tomato resistance, indicating that the PVX system is not suitable for the study of Pto. However, expression of the Fen gene resulted in sensitivity to fenthion. The utility of the PVX gene expression system was further demonstrated through structure/function studies of the Fen gene. A correlation was shown between Fen protein kinase activity and the ability of this protein to confer fenthion sensitivity to tomato. Furthermore, it was demonstrated that mutation of a putative N-terminal myristoylation site, proposed to be involved in membrane targeting, rendered the Fen protein inactive. Analysis of a Pto-Fen chimeric gene allowed the fenthion sensitivity domain to be localized to the C-terminal part of the Fen protein. Interestingly, expression of the Fen kinase from the PVX genome in Nicotiana spp resulted in a fenthion-independent necrotic response. Our results support the involvement of the Fen gene in a signal transduction pathway(s).
Interplatform reproducibility of liver and spleen stiffness measured with MR elastography (2015)

This study demonstrates that 2D-GRE MRE provides platform- and observer-independent LS and SS measurements.
HLA-Glyco: A large-scale interrogation of the glycosylated immunopeptidome (2022)

Abstract MHC-associated peptides (MAPs) bearing post-translational modifications (PTMs) have raised intriguing questions regarding their attractiveness for targeted therapies. Here, we developed a novel computational glyco-immunopeptidomics workflow that integrates the ultrafast glycopeptide search of MSFragger with a glycopeptide-focused false discovery rate (FDR) control. We performed a harmonized analysis of 8 large-scale publicly available studies and found that glycosylated MAPs are predominantly presented by the MHC class II. We created HLA-Glyco, a resource containing over 3,400 human leukocyte antigen (HLA) class II N-glycopeptides from 1,049 distinct protein glycosylation sites. Our comprehensive resource reveals high levels of truncated glycans, conserved HLA-binding cores, and differences in glycosylation positional specificity between classical HLA class II allele groups. To support the nascent field of glyco-immunopeptidomics, we include the optimized workflow in the FragPipe suite and provide HLA-Glyco as a free web resource.
Impedance Based Design Method for Interoperable Wireless Power Transfer Systems (2021)

The recently published standard for wireless power transfer for electric vehicles (EV) from SAE provides an impedance based approach to describe and ensure interoperability between the primary and secondary side. This paper extends and utilizes this approach to derive a powerful and flexible design method for interoperable WPT systems. Operational boundaries for the electronics and coils are used to establish an impedance capability range at each interface, which then can be transferred to any other interface and used as a design space, or for assessing a component. This method can be used in various ways, one of which is presented as a process to derive early stage inverter requirements for an interoperable primary system. Furthermore, the method is used to show that the magnetics of the reference primary system in the standard requires active tuning in order to achieve full interoperability at the middle range air-gap class.
Identification of Synaptic Targets of Drosophila Pumilio (2008)

Drosophila Pumilio (Pum) protein is a translational regulator involved in embryonic patterning and germline development. Recent findings demonstrate that Pum also plays an important role in the nervous system, both at the neuromuscular junction (NMJ) and in long-term memory formation. In neurons, Pum appears to play a role in homeostatic control of excitability via down regulation of para, a voltage gated sodium channel, and may more generally modulate local protein synthesis in neurons via translational repression of eIF-4E. Aside from these, the biologically relevant targets of Pum in the nervous system remain largely unknown. We hypothesized that Pum might play a role in regulating the local translation underlying synapse-specific modifications during memory formation. To identify relevant translational targets, we used an informatics approach to predict Pum targets among mRNAs whose products have synaptic localization. We then used both in vitro binding and two in vivo assays to functionally confirm the fidelity of this informatics screening method. We find that Pum strongly and specifically binds to RNA sequences in the 3'UTR of four of the predicted target genes, demonstrating the validity of our method. We then demonstrate that one of these predicted target sequences, in the 3'UTR of discs large (dlg1), the Drosophila PSD95 ortholog, can functionally substitute for a canonical NRE (Nanos response element) in vivo in a heterologous functional assay. Finally, we show that the endogenous dlg1 mRNA can be regulated by Pumilio in a neuronal context, the adult mushroom bodies (MB), which is an anatomical site of memory storage.
Development of High Quality 4H-SiC Thick Epitaxy for Reliable High Power Electronics Using Halogenated Precursors (2016)

Abstract : Research is conducted to investigate the epitaxial growth of thick films using halogenated precursors: chlorine-based dichlorosilane (DCS) and fluorine-based tetrafluorosilane (TFS). TFS (SiF4) has been utilized for the first time to completely eliminate Si droplet formation and suppress parasitic deposition, thus enabling high quality SiC growth. Ni/4H-SiC Schottky diodes fabricated on TFS-grown epilayers show superior performance with high barrier heights and low ideality factors.
Fyn Kinase regulates GluN2B subunit-dominant NMDA receptors in human induced pluripotent stem cell-derived neurons (2016)

NMDA receptor (NMDAR)-mediated fast excitatory neurotransmission is implicated in a broad range of physiological and pathological processes in the mammalian central nervous system. The function and regulation of NMDARs have been extensively studied in neurons from rodents and other non-human species, and in recombinant expression systems. Here, we investigated human NMDARs in situ by using neurons produced by directed differentiation of human induced pluripotent stem cells (iPSCs). The resultant cells showed electrophysiological characteristics demonstrating that they are bona fide neurons. In particular, human iPSC-derived neurons expressed functional ligand-gated ion channels, including NMDARs, AMPA receptors, GABAA receptors, as well as glycine receptors. Pharmacological and electrophysiological properties of NMDAR-mediated currents indicated that these were dominated by receptors containing GluN2B subunits. The NMDAR currents were suppressed by genistein, a broad-spectrum tyrosine kinase inhibitor. The NMDAR currents were also inhibited by a Fyn-interfering peptide, Fyn(39-57), but not a Src-interfering peptide, Src(40-58). Together, these findings are the first evidence that tyrosine phosphorylation regulates the function of NMDARs in human iPSC-derived neurons. Our findings provide a basis for utilizing human iPSC-derived neurons in screening for drugs targeting NMDARs in neurological disorders.
Minimizing Interferences in Wireless Ad Hoc Networks through Topology Control (2008)

This paper investigates minimizing mutual interferences in wireless ad hoc networks by means of topology control. Prior work defines interference as a relationship between link and node. This paper attempts to capture the physical situation more realistically by defining interference as a relationship between link and link. We formulate the pair-wise interference condition between two links, and show that the interference conditions for the minimum-transmit-power strategy and the equal-transmit-power strategy are equivalent. Based on the pair-wise definition, we further investigate the "typical" interference relationship between a link and all other links in its surrounding. To characterize the extent of the interference between a link and its surrounding links, we define a new metric called the interference coefficient. We investigate the property of interference coefficient in detail by means of analysis and simulation. Based on the insight obtained, we propose a topology control algorithm - minimum interference algorithm (MIA) - to minimize the overall network interference. Simulation results indicate that the network topologies produced by MIA show good performance in terms of network interference and spanner property compared with known algorithms such as LIFE, Gabriel Graph and k-NEIGH.
Sulfilimine. II. IR, UV and NMR Spectroscopic Studies (1970)

Abstract The physical properties of several N-p-tolylsulfonylsulfilimines were studied by means of infrared, ultraviolet and NMR spectroscopic determinations. Four characteristic infrared absorption bands due to both sulfonyl and sulfilimino groups are observed and those due to both N–S(IV) and N–S(VI) stretching vibrations appear at nearly the same positions and overlap with each other. The ultraviolet spectra suggest that the sulfilimino group is not an electron donor but an electron acceptor group when conjugated with a phenyl ring and could be used to measure the pKa value of methyl-p-methoxyphenyl derivative. The NMR chemical shift of methyl protons attached to the S atom of S-methyl-S-p-tolyl derivative appears at 2.81 ppm, whereas the shifts of the corresponding sulfoxide and the sulfone groups appear at 2.69 and 3.04 ppm, respectively. From these results, it seems that the N–S(IV) bond of N-p-tolylsulfonylsulfilimine is of semipolar character while the charges on the S(IV) atom and the N atom are delocalized substantially with strong dπ conjugation into S(IV)–N–S(VI) bondings.
A simple and efficient binary shape coding technique based on bitmap representation (2002)

This article presents a technique based on the JBIG algorithm for binary shape coding in both lossless and lossy modes. Because it is applied directly to the bitmap representing the shape information, it bypasses the overhead in computation of an intermediate contour representation and its associated conversions. This leads to a simpler algorithm which is more suitable for a larger class of shape data. In addition a mechanism is proposed which allows a rate control for lossy coding mode.
Self-Detachable Through-Metal Acoustic Wireless Power Transfer (2022)

Unlike electromagnetic waves, acoustic vibrations waves can be used to transfer power directly through metal structures without being shielded. In this article, a novel design of a self-detachable acoustic wireless power transfer system that can be used to transfer power through the thickness of a steel plate is presented, which does not require the use of any couplant. Electro-permanent-magnets (EPMs) were used to provide magnetic clamping force along the perimeter of the receiver transducer disk to enhance coupling to the steel plate, while the transmitter transducer was bonded to the other side of the plate. The EPM clamping force can be switched ON/ OFF electronically with low power consumption. Unlike past work reliant on additional bonding materials or liquid/gel couplant, this approach enables the receiver to be attached and detached at will, opening up the possibility of a simple charging pad for unmanned aerial vehicles (UAVs) or other consumer devices for harsh environment applications. Power transfer efficiency up to 63% was achieved, and the effect of varying steel plate thickness and clamping force was also investigated. A finite element model was also constructed to understand the vibration mode shape.
Non-steady-state enhancement cavities using pulse-dumping as power scaling concept of femtosecond lasers (2013)

Novel laser applications such as laser-wake-field acceleration of particles require extreme parameters from ultra-short-pulse systems. We propose a concept capable to realize simultaneously multi-TW peak powers and multi-kW average powers by employing spatially and temporally separated amplification of chirped laser pulses delivered by fiber-amplifiers. As a combining element for the temporally 100 ns separated pulses (10 MHz repetition rate) we suggest a non-steady-state enhancement cavity using a fast switching-element to dump out the enhanced pulses at 15 kHz.
RADIATION HEAT MEASUREMENT ON THERMALLY-ISOLATED DOUBLE-PIPE FOR DC SUPERCONDUCTING POWER TRANSMISSION (2008)

Multilayer insulator (MLI) is a strong tool for use as a radiation heat shield, though the use of MLI has disadvantages in construction and evacuation for a long superconducting power cable. We have proposed the “MLI-free” radiation heat shielding for DC superconducting power cable and have measured the radiation heat transfer for thermally-isolated double-pipes with different surfaces. Here, Zn coating, MLI, and Al-foil sheet were tested. Consequently, from the radiation heat of 9.7 W/m for bare stainless-steel pipe, Zn-coated stainless-steel surface reduced to 2.6 W/m, whereas the use of MLI reduced to 0.2 W/m. It is expected that the simultaneous use of Zn coating and MLI can reduce the number of total MLI sheets to reduce the evacuation time.
A 14b Low-power Pipeline A/D Converter Using a Pre-charging Technique (2007)

A pre-charging technique to improve the settling response of pipeline stages is demonstrated in a Mbit pipeline A/D converter (ADC). The prototype ADC fabricated in a 0.25μm CMOS process consumes 102mW at 30 MSample/s. Measured SNDR and SFDR are 70.7dB and 82.8dB, respectively.
Characterization and potential applications of a dual‐layer flat‐panel detector (2020)

We characterized a prototype DL FPD and demonstrated its ability to perform accurate single-exposure DE radiography/fluoroscopy and DE-CBCT. The merits of the DL detector approach include superior spatial and temporal registration between its constituent images, and less complicated acquisition sequences.
Path integrity aware traffic engineering (2005)

Dynamic traffic engineering requires the operation of load balanced routing. Load sharing, however, implies a thus far neglected, currently hidden problem: insufficient path integrity. Since load balancing requires changing the routes of traffic in order to achieve proper load distribution, path changes of ongoing communications go hand in hand with dynamic traffic engineering. Frequent path changes will not only degrade the performance of current TCP based applications but they will also dramatically influence the grade of service experienced by future QoS critical applications. To overcome this problem, we present a two level hashing based mechanism for route pinning under load balancing. We analytically formalise the path integrity and convergence time achievable for our routing model, and use these formulas for dimensioning path integrity aware load balancing.
Targeted therapy of esophageal squamous cell carcinoma: the NRF2 signaling pathway as target (2018)

Esophageal squamous cell carcinoma (ESCC) is a deadly disease that requires extensive research. Here, we review the current understanding of the functions of the nuclear factor erythroid-derived 2-like 2 (NRF2) signaling pathway in the esophagus. Genomic data suggest that gene mutations and several other mechanisms result in NRF2 hyperactivation in human ESCC. As a consequence, NRF2<sup>high</sup> ESCC is more resistant to chemoradiotherapy and associated with poorer survival than NRF2<sup>low</sup> ESCC. Mechanistically, we believe NRF2, functioning as a transcription factor, causes an esophageal phenotype through regulation of gene transcription. We discuss metabolism, mitochondria, proteasomes, and several signaling pathways as downstream players that may contribute to an esophageal phenotype due to NRF2 hyperactivation. Finally, strategies are proposed to target the NRF2 signaling pathway for therapy of NRF2<sup>high</sup> ESCC.
Diagnosis of Prosthetic Joint Infection by Use of PCR-Electrospray Ionization Mass Spectrometry (2013)

We compared PCR-electrospray ionization mass spectrometry (PCR-ESI/MS) to culture using sonicate fluid from 431 subjects with explanted knee (n = 270) or hip (n = 161) prostheses. Of these, 152 and 279 subjects had prosthetic joint infection (PJI) and aseptic failure, respectively. The sensitivities for detecting PJI were 77.6% for PCR-ESI/MS and 69.7% for culture (P = 0.0105). The specificities were 93.5 and 99.3%, respectively (P = 0.0002).
trans-4-[4-(Methoxyphenyl)cyclohexyl]-1-arylpiperazines:  A New Class of Potent and Selective 5-HT1A Receptor Ligands as Conformationally Constrained Analogues of 4-[3-(5-Methoxy-1,2,3,4-tetrahydronaphthalen-1-yl)propyl]-1- arylpiperazines (2001)

The present paper concerns the influence of conformational parameters on the recognition by rat 5-HT1A receptors of derivatives 4-[3-(5-methoxy-1,2,3,4-tetrahydronaphthalen-1-yl)propyl]-1-(2-pyridinyl)piperazine (1a) and 3-(5-methoxy-1,2,3,4-tetrahydronaphthalen-1-yl)-N-[2-(2-pyridyloxy)ethyl]propanamine (3b), two highly potent and selective 5-HT1A receptor ligands. Fifteen corresponding flexible and rigid analogues were prepared following several synthetic routes and were tested in binding assays with radioligands at 5-HT1A, D2, and alpha1 receptors from rat brain membranes. Among the new derivatives emerged trans-4-[4-(3-methoxyphenyl)cyclohexyl]-1-(2-pyridinyl)piperazine (trans-8a) and trans-N-[4-(3-methoxyphenyl)cyclohexyl]-2-(2-pyridyloxy)ethylamine (trans-8b). These compounds can be considered as conformationally constrained analogues of compounds 1a and 3a, respectively. In fact, compounds trans-8a and trans-8b showed a marked enhancement in 5-HT1A receptor affinity when compared to the corresponding cis isomers. Because compound trans-8a was a potent and selective 5-HT1A ligand (K(i), nM: 5-HT1A = 0.028, D2 = 2194, alpha1 = 767), it was chosen as a lead to prepare other analogues that were tested at 5-HT1A, D2, and alpha1 receptors from rat brain membranes, showing high affinity at the 5-HT1A and selectivity vs D2 and alpha1 receptors. Selected compounds were tested for their affinity at the human cloned 5-HT1A, alpha1a, alpha1b, alpha1d receptor subtypes. They were also submitted to the [35S]GTPgammaS binding assay stimulating the 5-HT1A receptor-mediated G-protein activation, therefore behaving as full or as partial agonists. Finally, the ability of iv administration of trans-8a to induce fore-paw treading in rats was evaluated in comparison with 8-OH-DPAT. Although the affinity (K(i)) and in vitro activity (pD'2) of trans-8a at the 5-HT1A receptor were higher than those of 8-OH-DPAT, the compound was less potent than the reference standard in inducing the symptom.
LWIP and Wi-Fi Boost Link Management (2016)

3GPP LWIP Release 13 technology and its prestandard version Wi-Fi Boost have recently emerged as an efficient LTE and Wi-Fi integration at the IP layer, allowing uplink on LTE and downlink on Wi-Fi. This solves all the contention problems of Wi-Fi and allows an optimum usage of the unlicensed band for downlink. In this paper, we present a new feature of Wi-Fi Boost, its radio link management, which allows to steer the downlink traffic between both LTE and Wi-Fi upon congestion detection in an intelligent manner. This customised congestion detection algorithm is based on IP probing, and can work with any Wi-Fi access point. Simulation results in a typical enterprise scenario show that LWIP R13 and Wi-Fi Boost can enhance network performance up to 5x and 6x over LTE-only, and 4x and 5x over Wi-Fi only networks, respectively, and that the the proposed radio link management can further improve Wi-Fi Boost performance over LWIP R13 up to 19 %. Based on the promising results, this paper suggests to enhance LWIP R13 user feedback in future LTE releases.
ChemInform Abstract: Syntheses of Isomers of Protoporphyrins‐IX with Permuted Propionic Side‐Chains. (1986)

Abstract (Id) des Protoporphyrins (Ia) werden im angegebenen Sinne durch stufenweisen Aufbau aus Pyrrolon, Di‐ und Tri‐pyrrolen hergestellt, und ihre Orientierung in Protein‐Systemen wird diskutiert.
Ultrashort Pulse Laser Irradiation Tests on Silica Glass with Random Antireflective Surface Structures (2018)

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 L. E. Busse, S. R. Flom, J. A. Frantz, L. B. Shaw, C. Wilson, I. D. Aggarwal, and J. S. Sanghera, "Ultrashort Pulse Laser Irradiation Tests on Silica Glass with Random Antireflective Surface Structures," in Conference on Lasers and Electro-Optics, OSA Technical Digest (online) (Optica Publishing Group, 2018), paper SM1N.1. Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
Target Recycling Amplification Process for Digital Detection of Exosomal MicroRNAs Through Photonic Resonator Absorption Microscopy (2022)

Abstract Exosomal microRNAs (miRNAs) have considerable potential as pivotal biomarkers to monitor cancer development, dis-ease progression, treatment effects and prognosis. Here, we report an efficient target recycling amplification process (TRAP) for the digital detection of exosomal miRNAs using photonic resonator absorption microscopy (PRAM). Through toehold-mediated DNA strand displacement reactions, we achieve multiplex digital detection with sub-attomolar sensitivity in 20 minutes, robust selectivity for single nucleotide variants, and a broad dynamic range from 1 aM to 1 pM. We then applied our TRAP system to quantify miRNA in exosomal total RNAs isolated from human cancer cell lines. Compared with traditional qRT-PCR methods, TRAP showed similar accuracy in profiling exosomal miRNAs derived from cancer cells, but also exhibited at least 31-fold and 61-fold enhancement in the limits of miRNA-375 and miRNA-21 detection, respectively. The TRAP approach is ideal for exosomal or circulating miRNA biomarker quantification, where the miRNAs are present in low concentrations or sample volume, with potentials for frequent, low-cost, and minimally invasive point-of-care testing.
ARTD1/PARP1 Negatively Regulates Glycolysis by Inhibiting Hexokinase 1 Independent of NAD+ Depletion (2014)

ARTD1 (PARP1) is a key enzyme involved in DNA repair through the synthesis of poly(ADP-ribose) (PAR) in response to strand breaks, and it plays an important role in cell death following excessive DNA damage. ARTD1-induced cell death is associated with NAD(+) depletion and ATP loss; however, the molecular mechanism of ARTD1-mediated energy collapse remains elusive. Using real-time metabolic measurements, we compared the effects of ARTD1 activation and direct NAD(+) depletion. We found that ARTD1-mediated PAR synthesis, but not direct NAD(+) depletion, resulted in a block to glycolysis and ATP loss. We then established a proteomics-based PAR interactome after DNA damage and identified hexokinase 1 (HK1) as a PAR binding protein. HK1 activity is suppressed following nuclear ARTD1 activation and binding by PAR. These findings help explain how prolonged activation of ARTD1 triggers energy collapse and cell death, revealing insight into the importance of nucleus-to-mitochondria communication via ARTD1 activation.