gebhart/patrepeval huggingface dataset:
Practical protocols for stepwise solid‐phase synthesis of cysteine‐containing peptides (2002)

This study details a series of conditions that may be applied to ensure 'safe' incorporation of cysteine with minimal racemization during automated or manual solid-phase peptide synthesis. Earlier studies from our laboratories [Han et al. (1997) J. Org. Chem. 62, 4307-4312] showed that several common coupling methods, including those exploiting in situ activating agents such as N-[(dimethylamino)-1H-1,2,3-triazolo[4,5-b]pyridin-1-ylmethylene]-N-methylmethanaminium hexafluorophosphate N-oxide (HATU), N-[1H-benzotriazol-1-yl)-(dimethylamino)methylene]-N-methylmethanaminium hexafluorophosphate N-oxide (HBTU), and (benzotriazol-1-yl-N-oxy)tris(dimethylamino)phosphonium hexafluorophosphate (BOP) [all in the presence of N-methylmorpholine (NMM) or N,N-diisopropylethylamine (DIEA) as a tertiary amine base], give rise to unacceptable levels (i.e. 5-33%) of cysteine racemization. As demonstrated on the tripeptide model H-Gly-Cys-Phe-NH(2), and on the nonapeptide dihydrooxytocin, the following methods are recommended: O-pentafluorophenyl (O-Pfp) ester in DMF; O-Pfp ester/1-hydroxybenzotriazole (HOBt) in DMF; N,N'-diisopropylcarbodiimide (DIPCDI)/HOBt in DMF; HBTU/HOBt/2,4,6-trimethylpyridine (TMP) in DMF (preactivation time 3.5-7.0 min in all of these cases); and HBTU/HOBt/TMP in CH(2)Cl(2)/DMF (1:1) with no preactivation. In fact, several of the aforementioned methods are now used routinely in our laboratory during the automated synthesis of analogs of the 58-residue protein bovine pancreatic trypsin inhibitor (BPTI). In addition, several highly hindered bases such as 2,6-dimethylpyridine (lutidine), 2,3,5,6-tetramethylpyridine (TEMP), octahydroacridine (OHA), and 2,6-di-tert-butyl-4-(dimethylamino)pyridine (DB[DMAP]) may be used in place of the usual DIEA or NMM to minimize cysteine racemization even with the in situ coupling protocols.
Genome Insights into the Plant Growth-Promoting bacterium Saccharibacillus brassicae ATSA2T (2022)

Abstract Endophytes can facilitate the improvement of plant growth and health in agriculturally important crops, yet their genomes and secondary metabolites remain largely unexplored. We previously isolated Saccharibacillus brassicae strain ATSA2 T from surface-sterilized seeds of kimchi cabbage and represented a novel species of the genus Saccharibacillus . In this study, we evaluated the plant growth-promoting effect of strain ATSA2 T in kimchi cabbage, bok choy, and pepper plants grown in soils. We found a significant effect on the shoot and root biomass and chlorophyll contents following strain ATSA2 T treatment. Furthermore, genome analysis of this strain suggested the presence of gene clusters involved in iron acquisition ( fhuABD, afuABC, fbpABC , and fepCDG ) and phosphate solubilization ( pstABCHS , phoABHLU , and phnCDEP ) and other phytohormone biosynthesis genes, including indole-3-acetic acid ( trpABCDEFG ), in the genome. Interestingly, the secondary metabolites cerecidin, carotenoid, siderophore (staphylobactin), and bacillaene underlying plant growth promotion were found in the whole genome via antiSMASH analysis. Overall, physiological testing and genome analysis data provide comprehensive insights into plant growth-promoting mechanisms, suggesting the relevance of strain ATSA2 T in agricultural biotechnology.
Plasmon filters and resonators in metal-insulator-metal waveguides (2012)

We present the numerical and experimental demonstration of plasmonic Bragg filters and resonators inside metal-insulator-metal (MIM) waveguides. The presented filters and resonators are fabricated using standard top down lithography methods. The optical bandgap of the integrated Bragg filters is experimentally observed and its optical properties are investigated as a function of the grating pitch and the number of grating periods. Transmission filters based on a nanocavity resonance were measured, obtaining Q-factors above 30. Tuning of the cavity wavelength was experimentally achieved by varying the cavity length.
1A1-E08 Augmentation of Thermal Sense on Palm using Spatial Summation(Haptic Interface (1)) (2013)

This paper presents the development of an augmented reality (AR) thermal display. This device is proposed to augment the thermal sense as the user's palm touches a real object. The concept used for AR thermal display is the phenomenon of spatial summation which related to skin's area of stimulation. The critical aspects of this display are the thermal display is placed on the back of hand and the palm can touch object directly. An experiment is conducted to identify whether spatial summation can occur between the back of hand and the palm. From this experiment, spatial summation is confirmed to take place when the same type of receptor is triggered on the back of hand and the palm. Moreover, the experiment proved that the AR thermal display is effective for augmentation of thermal sense; a cool and warm object was perceived colder and warmer respectively, than the actual temperature.
Optimal Hovering Kinematics of Flapping Wings for Micro Air Vehicles (2011)

This paper presents theoretical and experimental analyses of insect flapping mechanics and aerodynamics, with the aim of developing flapping-wing micro air vehicles. A model of an insect thorax flapping mechanism is developed that includes a quasi-steady aerodynamic model. Computer simulations of the thorax model show insectlike wing kinematics, including passive wing rotation at the end of the stroke. These kinematics are perturbed in a sequence of experiments using a robotic flapping-wing device to determine optimal hovering kinematics. Experiments are supported with numerical optimization based on the aerodynamic model. Apart from optimal kinematics, this study shows negative aerodynamic power required during wing rotation, which explains passive wing rotation at the end of the stroke. Copyright ?? 2010.
Attempt to Control Spatial Distribution of Nano-Gold Particles Using Nanoporous Surfaces of FeAl Single Crystal (2007)

In this study, the distribution of colloidal nano-gold particles on the nanoporous surfaces of FeAl single crystals was investigated. Colloidal nano-gold particles were dropped onto the nanoporous surface, and their distribution was observed by TEM. Some of nano-gold particles located at the edges of nanopores. A few additional attempts to improve the wettability of the surfaces were made using surface treatments. As a result, the frequency of nano-gold particles put into nanopores was achieved up to 98.3%.
Classification and Adaptive Novel Class Detection of Feature-Evolving Data Streams (2012)

Data stream classification poses many challenges to the data mining community. In this paper, we address four such major challenges, namely, infinite length, concept-drift, concept-evolution, and feature-evolution. Since a data stream is theoretically infinite in length, it is impractical to store and use all the historical data for training. Concept-drift is a common phenomenon in data streams, which occurs as a result of changes in the underlying concepts. Concept-evolution occurs as a result of new classes evolving in the stream. Feature-evolution is a frequently occurring process in many streams, such as text streams, in which new features (i.e., words or phrases) appear as the stream progresses. Most existing data stream classification techniques address only the first two challenges, and ignore the latter two. In this paper, we propose an ensemble classification framework, where each classifier is equipped with a novel class detector, to address concept-drift and concept-evolution. To address feature-evolution, we propose a feature set homogenization technique. We also enhance the novel class detection module by making it more adaptive to the evolving stream, and enabling it to detect more than one novel class at a time. Comparison with state-of-the-art data stream classification techniques establishes the effectiveness of the proposed approach.
Mycobacterium smegmatisbiofilm formation and sliding motility are affected by the serine/threonine protein kinase PknF (2007)

Eighteen 'eukaryotic-like' serine/threonine kinases are present in the Mycobacterium smegmatis genome. One of them encoded by the ORF 3677 demonstrates high similarity to the Mycobacterium tuberculosis protein kinase PknF. A merodiploid strain was generated, which showed reduced growth associated with irregular cell structure. The merodiploid strain displayed altered colony morphology, defective sliding motility and biofilm formation. These data indicate a role for PknF in biofilm formation, possibly associated with alterations in glycopeptidolipid composition.
Total posterior approach for femoropopliteal bypass. (2000)

Standard approaches to the femoral and popliteal arteries are used in most extremity arterial reconstructions. In unusual circumstances, such as infection, reoperation, or variant anatomy, novel approaches to infrainguinal bypass may be useful, particularly in reoperative or infected cases. One such approach involves exposure of the femoral and popliteal arteries through posterolateral incisions with the patient prone. The major advantage of this exposure is the increased accessibility to the distal above-knee popliteal artery, which is not easily reached through either medial or lateral incisions. This approach also can be useful in cases of significant groin sepsis. The details of this exposure and its application in an illustrative case are presented.
Molecular Insights Into Withaferin-A-Induced Senescence: Bioinformatics and Experimental Evidence to the Role of NFκB and CARF (2018)

Withaferin-A (Wi-A) has been shown to possess anticancer activity. Molecular mechanism(s) of its action has not been fully resolved. We recruited low dose of Wi-A that caused slow growth arrest in cancer cells and was relatively safe for normal cells. Consistently, we detected nuclear translocation of nuclear factor kappa B (NFκB) and activation of p38MAPK selectively in cancer cells. Bioinformatics analyses revealed that Wi-A did not disrupt IKKα/IKKβ-Nemo complex that regulates NFκB activity. However, it caused moderate change in the conformation of IKKβ-Nemo interacting domain. Experimental data revealed increased level of phosphorylated IκBα in Wi-A-treated cells, suggesting an activation of IKK complex that was supported by nuclear translocation of NFκB. Molecular docking analysis showed that Wi-A did not disrupt; however, decreased the stability of the NFκB-DNA complex. It was supported by downregulation of DNA-binding and transcriptional activities of NFκB. Further analysis revealed that Wi-A caused upregulation of CARF (collaborator of ARF) demonstrating an activation of DNA damage oxidative stress response in both cancer and normal cells. In line with this, upregulation of p21WAF1, p16INK4A, and hypophosphorylated pRB and induction of senescence were observed demonstrating that Wi-A-induced senescence is mediated by multiple pathways in which CARF-mediated DNA damage and oxidative stress play a major role.
Chitosan improves stability of carbon nanotube biocathodes for glucose biofuel cells (2014)

We demonstrate a novel combined chitosan-carbon-nanotube-enzyme biocathode with a greatly enhanced and stable long-term current density of -0.19 mA mL(-1). The fibrous microstructure of the electrode improves the performance of the biocathode by creating a protective microenvironment, preventing the loss of the electrocatalytic activity of the enzyme, and providing good oxygen diffusion.
Accommodating Irregular Panel Profiles and Thicknesses in LET Joint Arrays (2022)

Abstract Origami-inspired mechanisms can produce compact, easily-manufacturable designs. Compliant mechanisms have been used to create surrogate folds in many kinds of engineering materials by allowing large deflections without yielding. LET arrays are best used as surrogate folds when the regions being folded on each other have parallel sides, keeping the LET joint segment geometry constant. This consistency allows for homogeneous stresses/strains throughout the joint and constant curvature along the joint is achieved. However, when panel sides are irregular, optimal LET design is not necessarily obvious. This paper presents an exploration into characterizing folding motions of LET joints to achieve arbitrary curvatures of the folded region. Curvatures are obtained through variations in joint segment geometry whether length, width, thickness, or a combined approach. Testing of several specimens is conducted and the results are consistent with the analysis.
Small protein sequences can induce cellular uptake of complex nanohybrids (2019)

In this letter, we highlight that a low fraction of functional fusion proteins can significantly change the interaction of complex nanohybrids with cells and induce cellular uptake.
Structures for Interpolation, Decimation, and Nonuniform Sampling Based on Newton's Interpolation Formula (2009)

HAL is a multi-disciplinary open access archive for the deposit and dissemination of sci-entific research documents, whether they are pub-lished or not. The documents may come from teaching and research institutions in France or abroad, or from public or private research centers. L’archive ouverte pluridisciplinaire HAL, est destinée au dépôt et a ̀ la diffusion de documents scientifiques de niveau recherche, publiés ou non, émanant des établissements d’enseignement et de recherche français ou étrangers, des laboratoires publics ou privés.
CAR T-Cells Depend on the Coupling of NADH Oxidation with ATP Production (2021)

The metabolic milieu of solid tumors provides a barrier to chimeric antigen receptor (CAR) T-cell therapies. Excessive lactate or hypoxia suppresses T-cell growth, through mechanisms including NADH buildup and the depletion of oxidized metabolites. NADH is converted into NAD<sup>+</sup> by the enzyme <i>Lactobacillus brevis</i> NADH Oxidase (<i>LbNOX</i>), which mimics the oxidative function of the electron transport chain without generating ATP. Here we determine if <i>LbNOX</i> promotes human CAR T-cell metabolic activity and antitumor efficacy. CAR T-cells expressing <i>LbNOX</i> have enhanced oxygen as well as lactate consumption and increased pyruvate production. <i>LbNOX</i> renders CAR T-cells resilient to lactate dehydrogenase inhibition. But in vivo in a model of mesothelioma, CAR T-cell's expressing <i>LbNOX</i> showed no increased antitumor efficacy over control CAR T-cells. We hypothesize that T cells in hostile environments face dual metabolic stressors of excessive NADH and insufficient ATP production. Accordingly, futile T-cell NADH oxidation by <i>LbNOX</i> is insufficient to promote tumor clearance.
Chlorine resistant desalination membranes based on directly sulfonated poly(arylene ether sulfone) copolymers (2007)

The present invention provides a membrane, kit, and method of making a hydrophilic-hydrophobic random copolymer membrane. The hydrophilic-hydrophobic random copolymer membrane includes a hydrophilic-hydrophobic random copolymer. The hydrophilic-hydrophobic random copolymer includes one or more hydrophilic monomers having a sulfonated polyarylsulfone monomer and a second monomer and one or more hydrophobic monomers having a non-sulfonated third monomer and a fourth monomer. The sulfonated polyarylsulfone monomer introduces a sulfonate into the hydrophilic-hydrophobic random copolymer prior to polymerization.
Novel Homogeneous Anion Exchange Membranes for Reproducible and Sensitive Nucleic Acid Detection via Current–Voltage Characteristic Measurement (2020)

One-pot synthesis of novel hydrogel-based anion exchange membranes (AEMs), with only a single-phase monomer mixture, was used to eliminate surface heterogeneity and generate reproducible electroconvective microvortices in the over-limiting region of the current-voltage characteristic (CVC) curves. Diallyldimethylammonium chloride (DDA) was used as the main component to provide the cation charge groups, and 2-hydroxyethyl methacrylate (HEMA) and ethylene glycol dimethyl acrylate (EGDMA) were used as the auxiliary structure monomers. The uniform membrane structure allowed reproducible and sensitive DNA detection and quantification, as probe-target surface complexes can gate the ion flux and produce large voltage shifts in the over-limiting region. Suppressed membrane curvature due to controlled swelling is a crucial part to avoid the reduction of depletion region for maintaining the influence of target gene hybridization. Fourier-transform infrared (FTIR) spectroscopy verified the synthesized membrane structure, with a residual vinyl group that allows easy carboxylation via additional photografting reaction. Consequently, a significantly higher DNA probe functionalization efficiency is obtained on the homogeneous AEMs, evidenced by the increasing nitrogen element content and bonding via X-ray photoelectron spectroscopy (XPS). The DDA content was optimized to provide a sufficient coulomb force between AEM and nucleic acid backbone to promote the specific binding efficiency but without high dimensional swelling which might change the surface geometry and restrict the voltage shifting for sensing in the over-limiting region, and the optimal DDA/HEMA ratio was found to be 4/10. The synthesized AEM sensor for recombinant 35S promoter sequence identification exhibited a reproducible calibration standard curve with dynamic range between 30 fM and 1 μM and high selectivity with only 0.01 V shift for 1 μM nontarget oligo.
InGaAlAs-InGaAsP Heteromaterial Monolithic Integration for Advanced Long-Wavelength Optoelectronic Devices (2009)

High-coupling-efficiency high-reliability hetero-material integration of InGaAlAs-based and InGaAsP-based optical components on a single InP substrate was achieved. A butt-jointing process with in situ cleaning was used to integrate an InGaAlAs-based component and an InGaAsP-based component. Optical-coupling efficiency at the butt-jointed interface of a novel multiple-butt-jointed laser was quantitatively estimated to be more than 97%. An InGaAlAs laser integrated with an InGaAsP-based component and an InGaAsP laser integrated with an InGaAlAs-based component were fabricated by the butt-jointing process. The fabricated 1.3- mum InGaAlAs laser integrated with an InGaAsP distributed Bragg reflector exhibited 100degC, 10-Gbps direct modulation at a low drive current of 14-mA peak-to-peak. Furthermore, the fabricated 1.55-mum InGaAsP distributed feedback laser integrated with an InGaAlAs electroabsorption modulator exhibited the first uncooled 10-Gbps 40-km transmission (with a 1-dB power penalty) from 0 to 85degC. Aging tests on both types of lasers showed no significant degradation in their driving current for more than one thousand hours.
Cost/performance optimized IEEE802.11A/B/G front end with integrated antenna diversity (2006)

This paper deals with an optimized architecture of an antenna and its RF Front End compliant with the IEEE 802.11a/b/g standards. It is based on the use of two printed end-fire antennas (Minard et al., 2005), where each antenna has separated accesses at 2.4 GHz and 5 GHz (Minard et al., 2005). These two accesses are sufficiently decorrelated and well matched on their respective bands. The use of separated access at the 2 bands connected to a single broadband antenna allows the suppression of components such as diplexers and relaxes the constraints on others components such as DPDT (double port double through). Thus a lower cost and better performances RF Front End is achieved. This antenna-RF Front End could be used in a 2*2 MIMO system, compatible with the Cardbus format.
X-Ray determination of the structure and absolute configuration of a novel sesquiterpenoid, melampodin (1972)

The structure and absolute configuration of the recently isolated sesquiterpenoid lactone, melampodin, have been determined by X-ray crystallography using direct statistical methods; a revised constitutional formula is also given for heliangine.
Mobile phone measurement including the antenna (2002)

Some investigations of a test method for validating the mobile handset proposed by Telia has been made. Test results of 10 commercially available GSM handsets measured in the Telia test setup has been compared with measurements of the power, based on 3D radiation pattern measurements performed in an anechoic room. Comparing just the transmitted power of the 10 tested phones with the Telia test results a rather large deviation was observed. The principal difference between the measurement methods is the radio environment. This difference has been investigated in this paper by performing 3D radio environment measurements in the Telia test room.
Quantum cryptography with highly entangled photons from semiconductor quantum dots (2021)

Measurement data used within the main manuscript and the supplementary material.
Gas-Phase Ion-Mobility Characterization of SAM-Functionalized Au Nanoparticles (2008)

We present results of a systematic examination of functionalized gold nanoparticles (Au-NPs) by electrospray-differential mobility analysis (ES-DMA). Commercially available, citrate-stabilized Au colloid solutions (10-60 nm) were sized using ES-DMA, from which changes in particle size of less than 0.3 nm were readily discerned. It was found that the formation of salt particles and the coating of Au-NPs by salt during the electrospray process can interfere with the mobility analysis, which required the development of sample preparation and data correction protocols to extract correct values for the Au-NP size. Formation of self-assembled monolayers (SAMs) of alkanethiol molecules on the Au-NP surface was detected from a change in particle mobility, which could be modeled to extract the surface packing density of SAMs. A gas-phase temperature-programmed desorption (TPD) kinetic study of SAMs on Au-NPs found the data to be consistent with a second-order Arrhenius-based rate law, yielding an Arrhenius factor of 1.0 x 10 (11) s (-1) and an activation energy approximately 105 kJ/mol. For the size range of SAM-modified Au-NP we considered, the effect of surface curvature on the energetics of binding of carboxylic acid terminated SAMs is evidently negligible, with binding energies determined by TPD agreeing with those reported for the same SAMs on planar surfaces. This study suggests that the ES-DMA can be added to the tool set of characterization methods used to study the structure and properties of coated nanoparticles.
Use Cases for Data Center Network Virtualization Overlay Networks (2017)

This document describes Network Virtualization over Layer 3 (NVO3) use
cases that can be deployed in various data centers and serve different
data-center applications.
Tunable microcantilever sensors with embedded piezotransistors (2010)

Microcantilevers with embedded piezotransistors formulate simple and sensitive MEMS sensors. In this reported work, three different p-type metal-oxide-semiconductor field-effect transistor (PMOSFET) embedded microcantilevers are fabricated and their responses to physical displacements are evaluated. Effects of gate bias on the drain current change and device sensitivity are investigated. Specifically, a wide tuning range above 200% is demonstrated for the PMOSFET with the width/length ratio of 5 within a gate bias span of 6 V. Such tunable feature can be very useful to compensate process variations and optimise device performance for maximum sensitivity.