gebhart/patrepeval huggingface dataset:
Effect of Free Radical Scavengers on Changes in Ion Conductance During Exposure to Therapeutic Ultrasound (1993)

Ultrasound has been used in physical therapy for > 4 decades. Recent studies indicate that non-thermal mechanisms such as cavitation are involved in the observed effects. Free radicals and other highly reactive compounds are known to form during sonochemical reactions associated with acoustic cavitation. Using frog skin as a biological model, the possibility that the increase in ionic conductance (Gt) upon exposure to therapeutic ultrasound is due to the effect of free radicals generated by sonochemical reactions, was investigated. It was found that the presence of cystamine, cysteamine and sodium ascorbate significantly reduced the increase in conductance caused by the exposure to 300 mW/cm2 (1 MHz CW) therapeutic ultrasound. The attenuation in the effects was dependent on the concentration of the radical scavengers/antioxidants used, the incubation time, and the intensity of ultrasound. The effects were also dependent on the lipid solubility of free radical scavengers/antioxidants. The time constant for the recovery process of Gt in the presence of free radical scavengers and antioxidants after exposure to ultrasound was found to be not significantly different from control. These results suggest that the increase in Gt due to ultrasound is induced by free radicals and other reactive species generated from acoustic cavitation. This study provides an indirect evidence to the contingent that free radicals are generated and act inside the cells. Furthermore, the radical scavengers and antioxidants used provide protection from oxidative damage without being involved in the recovery of Gt towards steady state values after sonication.
Disassembly of actin and keratin networks by Aurora B kinase at the midplane of cleaving Xenopus laevis eggs (2019)

Abstract We investigated how bulk cytoplasm prepares for cytokinesis in Xenopus laevis eggs, which are large, rapidly dividing cells. The egg midplane is demarcated by Chromosomal Passenger Complex (CPC) localized on microtubule bundles between asters. Using an extract system and intact eggs we found that local kinase activity of the AURKB subunit of the CPC caused disassembly of F-actin and keratin between asters, and local softening of the cytoplasm as assayed by flow patterns. Beads coated with active CPC mimicked aster boundaries and caused AURKB-dependent disassembly of F-actin and keratin that propagated ~40 μm without microtubules, and much farther with microtubules present, due to CPC auto-activation. We propose that active CPC at aster boundaries locally reduces cytoplasmic stiffness by disassembling actin and keratin networks. This may help sister centrosomes move apart after mitosis, prepare a soft path for furrow ingression and/or release G-actin to build the furrow cortex.
2-Aminoadipic Acid–C(O)–Glutamate Based Prostate-Specific Membrane Antigen Ligands for Potential Use as Theranostics (2018)

The design and synthesis of prostate specific membrane antigen (PSMA) ligands derived from 2-aminoadipic acid, a building block that has not previously been used to construct PSMA ligands, are reported. The effects of both the linker length and of an N-substituent of our PSMA ligands were probed, and X-ray structures of five of these ligands bound to PSMA were obtained. Among the ligands disclosed herein, <b>13b</b> showed the highest inhibitory activity for PSMA. As ligand <b>13b</b> can readily be radiolabeled since its fluorine atom is adjacent to the nitrogen atom of its pyridine ring, the use of this and related compounds as theranostics can be pursued.
cAMP-binding proteins in epithelial cells cultured from human sweat glands (1990)

This study characterized the various adenosine 3',5'-cyclic monophosphate (cAMP)-binding proteins in epithelial cells cultured from human sweat glands to identify potential pathways of cAMP action in this tissue. The cAMP-binding proteins were identified by specific labeling with the photoprobe 8-azido-[32P]-cAMP and visualized by autoradiography after electrophoresis on polyacrylamide gels in the presence of sodium dodecyl sulfate. Three cAMP-binding proteins, with molecular masses of 48, 52, and 54 kDa, were identified in subcellular fractions of the cultured sweat glands. On the basis of their relative electrophoretic mobilities and reactivity with specific antisera, the 48-kDa protein was identified as the regulatory subunit of the type 1 cAMP-dependent protein isozyme, and the 54-kDa protein was identified as the regulatory subunit of the type 2 cAMP-dependent protein kinase isozyme. The 52-kDa cAMP-binding protein appeared to be a distinct isoform of the regulatory subunit, possibly related to the subclass associated with neural tissue. As determined from the relative distributions of the photolabel, the 48-, 52-, and 54-kDa binding proteins were present in the cell cytosol at a ratio of 1:2:1. The 48- and 52-kDa proteins bound the photoprobe with apparent dissociation constants (Kd) of 20-40 nM, whereas the 54-kDa protein bound the photoprobe with much lower affinity (Kd 230 nM). Only the 48- and 52-kDa proteins were associated with cell membranes. They were present in the membrane fractions in approximately equal amounts and bound the photoprobe with apparent Kd values of greater than 100 nM.(ABSTRACT TRUNCATED AT 250 WORDS)
Single‐breath clinical imaging of hyperpolarized 129xe in the airspaces, barrier, and red blood cells using an interleaved 3D radial 1‐point Dixon acquisition (2015)

This study illustrates the feasibility of acquiring single-breath, 3D isotropic images of (129)Xe in the airspaces, barrier, and RBCs using a 1-point Dixon 3D radial acquisition.
Z3RO Precoder Canceling Nonlinear Power Amplifier Distortion in Large Array Systems (2021)

Large array-based transmission uses the combination of a massive number of antenna elements and clever precoder designs to achieve array gain and spatially multiplex different users. These precoders require linear front-ends, and more specifically linear power amplifiers (PAs). However, this reduces energy efficiency since PAs are most efficient close to saturation, where they generate most nonlinear distortion. Moreover, the use of conventional precoders, such as \gls{mrt}, induces a coherent combining of distortion at the user location, degrading the signal quality. In this work, a linear precoder is proposed that allows working close to saturation while canceling the coherent combining of the third order nonlinear \gls{pa} distortion at the user location. In contrast to other solutions, the zero third-order distortion (Z3RO) precoder does not require prior knowledge of the signal statistics and the PA model. The design consists of saturating a single or a few antennas on purpose together with an opposite phase shift to compensate for the distortion of all other antennas. The resulting array gain penalty becomes negligible as the number of base station antennas grows large.
Lowering the Interfacial Resistance in LLZTO:PEO Electrolytes By Covalent Surface Modifications (2020)

Reducing the high interfacial resistance across the cubic Li 7 La 3 Zr 2 O 12 (LLZO) | poly(ethylene oxide) (PEO) interface in LLZO:PEO membranes is one of the key challenges to realize future solid-state lithium batteries. 1,2 Recently, several groups presented various approaches to enhance the ionic charge transport across the interface. 3,4 As an example, Gupta and Sakamoto showed that heat treatment to remove surface impurities and that an increase in the Li-salt concentration in PEO to match the chemical potential between LLZO and PEO lead to significantly lower interfacial resistance. 3 Herein, we present an alternative but complimentary approach to improve the interfacial kinetics by an advance surface modification strategy. For this purpose, we activated the surface terminated oxygen of Li 6.4 La 3 Zr 1.4 Ta 0.6 O 12 (LLZTO) particles by plasma etching and functionalized the activated oxygen by immersing the LLZTO particles in a (3-glycidyloxypropyl)trimethoxysilane solution to form covalently bonded self-assembled monolayers (SAMs). The SAMs are terminated by an epoxy group that react with the hydroxyl group of the PEO’s according to a ring-opening reaction. This reaction may lead to an ordered arrangement of covalently bonded PEO segments around the LLZO particles enabling the Li ions to easily cross the LLZTO | PEO interface. Indeed, we managed to lower the interfacial resistance by more than four orders of magnitude. Finally, with our approach we realized an area specific resistance of 500 Ω cm 2 at 20 °C; to our knowledge, this value is the lowest one reported so far. Reference s : [1] J. Schwenzel, K. Kun, F. Langer in: R. Murugan, W. Weppner (Eds.), Solid Electrolytes, Springer, Swizerland, 2019, pp. 281–304. [2] X. Judez, G.G. Eshetu, C. Li, L.M. Rodriguez-Martinez, H. Zhang, M. Armand, Joule 2 (2018) 2208–2224. [3] A. Gupta, J. Sakamoto, Electrochem. Soc. Interface 28 (2019) 63–69. [4] Z. Huang, W. Pang, P. Liang, Z. Jin, N. Grundish, Y. Li, C.A. Wang, C.A., J. Mater. Chem. A, 7 (2019) 16425–16436.
HyperBeta: characterizing the structural dynamics of proteins and self-assembling peptides (2021)

Self-assembling processes are ubiquitous phenomena that drive the organization and the hierarchical formation of complex molecular systems. The investigation of assembling dynamics, emerging from the interactions among biomolecules like amino-acids and polypeptides, is fundamental to determine how a mixture of simple objects can yield a complex structure at the nano-scale level. In this paper we present HyperBeta, a novel open-source software that exploits an innovative algorithm based on hyper-graphs to efficiently identify and graphically represent the dynamics of [Formula: see text]-sheets formation. Differently from the existing tools, HyperBeta directly manipulates data generated by means of coarse-grained molecular dynamics simulation tools (GROMACS), performed using the MARTINI force field. Coarse-grained molecular structures are visualized using HyperBeta 's proprietary real-time high-quality 3D engine, which provides a plethora of analysis tools and statistical information, controlled by means of an intuitive event-based graphical user interface. The high-quality renderer relies on a variety of visual cues to improve the readability and interpretability of distance and depth relationships between peptides. We show that HyperBeta is able to track the [Formula: see text]-sheets formation in coarse-grained molecular dynamics simulations, and provides a completely new and efficient mean for the investigation of the kinetics of these nano-structures. HyperBeta will therefore facilitate biotechnological and medical research where these structural elements play a crucial role, such as the development of novel high-performance biomaterials in tissue engineering, or a better comprehension of the molecular mechanisms at the basis of complex pathologies like Alzheimer's disease.
PRC2 direct transfer from G-quadruplex RNA to dsDNA: Implications for RNA-binding chromatin modifiers (2022)

Abstract The chromatin-modifying enzyme, Polycomb Repressive Complex 2 (PRC2), deposits the H3K27me3 epigenetic mark to negatively regulate expression at numerous target genes, and this activity has been implicated in embryonic development, cell differentiation, and various cancers. A biological role for RNA binding in regulating PRC2 histone methyltransferase activity is generally accepted, but the nature and mechanism of this relationship remains an area of active investigation. Notably, many in vitro studies demonstrate that RNA inhibits PRC2 activity on nucleosomes through mutually antagonistic binding, while some in vivo studies indicate that PRC2’s RNA-binding activity is critical for facilitating its biological function(s). Here we use biochemical, biophysical, and computational approaches to interrogate PRC2’s RNA and DNA binding kinetics. Our findings demonstrate that PRC2-polynucleotide dissociation rates are dependent on the concentration of free ligand, indicating the potential for direct transfer between ligands without a free-enzyme intermediate. Direct transfer explains the variation in dissociation kinetics reported previously, allows reconciliation of prior in vitro and in vivo studies, and expands the potential mechanisms of RNA-mediated PRC2 regulation. Moreover, simulations indicate that such a direct transfer mechanism could be obligatory for RNA to recruit proteins to chromatin. Significance Studies of PRC2 in vitro indicate that RNA inhibits its histone methyltransferase (HMTase) activity through mutually antagonistic binding with nucleosomes, but some in vivo studies paradoxically suggest that RNA binding is necessary to facilitate chromatin occupancy and HMTase activity. Our findings unveil a protein-intrinsic mechanism for directly exchanging RNA and DNA/nucleosome in PRC2’s binding site(s), which reconciles these prior findings by allowing antagonistic or synergistic RNA-mediated regulation dependent on RNA-nucleosome proximity. Furthermore, there is an increasing awareness that multiple chromatin-associated proteins exhibit regulatory RNA binding activity, and our findings indicate this “direct transfer” mechanism may be generally required for such regulation.
Elastocapillarity: Adhesion and Wetting in Soft Polymeric Systems (2014)

We have developed a generalized model of particle-substrate interactions describing both adhesion and wetting behavior. Using a combination of the molecular dynamics simulations and scaling analysis we have shown that the crossover between adhesion and wetting-like behavior for a particle with size Rp and shear modulus Gp interacting with a substrate of shear modulus Gs is determined by the dimensionless parameter β ∝ γ*(G* Rp)−2/3W–1/3, where G* = GpGs/(Gp + Gs) is the effective shear modulus, W is the work of adhesion between particle and substrate, and γ* = Wgr + γp(1–2gr) + γspgr2 is the effective surface tension of the particle/substrate system with γp and γs being surface tensions of particle and substrate, γsp − surface tension of the particle-substrate interface, and gr = Gp/(Gp + Gs). This parameter β is proportional to the ratio of elastocapillary length γ*/G* and contact radius a, β ∝ γ*/G*a. In the limit of small values of the parameter β < 1, when the contact radius a is larger than the elastocapillary length γ*/G*, our model reproduces Johnson, Kendall, and Roberts results for particle adhesion on elastic substrates (adhesion regime). However, in the opposite limit, β > 1 (a < γ*/G*), the capillary forces play a dominant role and determine particle-substrate interactions (wetting regime). Model predictions are in a very good agreement with simulation and experimental results.
ChemInform Abstract: Platelet Glycoprotein IIb—IIIa Antagonists as Prototypical Integrin Blockers: Novel Parenteral and Potential Oral Antithrombotic Agents (2000)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Pretargeting with labeled bivalent peptides allowing the use of four radionuclides: (111)In, (131)I, (99m)Tc, and (188)Re. (2003)

Using a newly developed bivalent peptide, this pretargeting approach can now be used for targeting with the matched pair (188)Re and (99m)Tc.
A new class of nitrosoureas. III. Synthesis and antitumor activity of 3,3-disubstituted-1-(2-chloroethyl)-1-nitrosoureas having an arabinopyranosyl, xylopyranosyl or ribopyranosyl moiety. (1982)

Many kinds of 3, 3-disubstituted-1-(2-chloroethyl)-1-nitrosourea derivatives (V) of aldopentoses were synthesized and tested for antitumor activities against leukemia L1210 and Ehrlich ascites carcinoma. The reaction of aldopentoses with primary amines followed by treatment with 2-chloroethyl isocyanate usually gave a mixture of two or three structural isomers of glycosylureas (III'). Complete isomerization into thermodynamically stable glycopyranosylureas (III) was observed when the mixture of the isomers was dissolved in formic acid. Glycopyranosylureas (III) were nitrosated with 4 equivalents of dinitrogen tetroxide followed by treatment with methanol to give the corresponding nitrosoureas (V) in good yields. A large number of nitrosoureas (V) were remarkably active against leukemia L1210 and Ehrlich ascites carcinoma and showed greater therapeutic ratios than the positive controls, 1-(2-chloroethyl)-3-cyclohexyl-1-nitrosourea, 3-[(4-amino-2-methyl-5-pyrimidinyl) methyl]-1-(2-chloroethyl)-1-nitrosourea, and 1-(2-chloroethyl)-3-(β-D-glucopyranosyl)-1-nitrosourea. In particular, many of the arabinopyranosyl-nitrosoureas had large therapeutic ratios (more than fifty) against leukemia L1210 and even larger ones (more than a hundred) against Ehrlich ascites carcinoma. These nitrosoureas (V) appear to be activated nonenzymatically by attack of the hydroxyl group of the sugar moiety on the carbonyl group to give the cyclic carbamate (VII) without generation of the isocyanate.
Imaged capillary isoelectric focusing employing fluorocarbon and methylcellulose coated fused silica capillary for characterization of charge heterogeneity of protein biopharmaceuticals (2023)

Abstract Identifying and characterizing charge heterogeneity is essential for the successful development and production of biopharmaceuticals. Imaged capillary isoelectric focusing technology based on isoelectric point differentiation has been becoming the gold standard of quality and manufactory process control in the biopharmaceutical industry due to its high‐resolution characterization of protein charge variants with high throughput. Fluorocarbon‐coated capillaries are widely used in the imaged capillary isoelectric focusing to suppress the electroosmotic flow and minimize the protein adsorption onto the fused silica capillary inner surface. Additionally, polymers such as methylcellulose are usually added to the sample solution to serve as a dynamic capillary coating that improves the peak shape and resolution during the imaged capillary isoelectric focusing separation, especially for complex proteins. However, the addition of methylcellulose tends to result in tedious operation, “spike peaks” from bubble generation, and frequent capillary blockage during the imaged capillary isoelectric focusing separation. In addition, methylcellulose is not compatible with mass spectrometry and easily produces the contamination of mass spectrometry ion source when carrying out imaged capillary isoelectric focusing—mass spectrometry direct coupling. Recently, a new imaged capillary isoelectric focusing method was developed employing a methylcellulose‐coated capillary cartridge, to avoid the addition of methylcellulose which is then present throughout the whole analysis. When applied to protein drug characterization the established imaged capillary isoelectric focusing method demonstrated high repeatability, stable coatings, outstanding separation efficiency, and excellent isoelectric point differentiation. In addition, we compared imaged capillary isoelectric focusing separation using the methylcellulose‐coated capillary with that utilizing the routinely coated capillary such as fluorocarbon, illustrating that methylcellulose coating provided consistent results and could be seamlessly integrated into an existing drug discovery process. Finally, the methylcellulose‐coated fused silica capillary was applied to imaged capillary isoelectric focusing—mass spectrometry for characterizing protein charge variants allowing reliable identification of mass spectrometry after imaged capillary isoelectric focusing separation. This can greatly simplify the operation steps and prevent the contamination of mass spectrometry ion source that often results from using routinely coated capillaries ultimately making this an essential innovation of imaged capillary isoelectric focusing—mass spectrometry that greatly improves the imaged capillary isoelectric focusing compatibility with mass spectrometry.
Novel seed layer formation using direct electroless copper deposition on ALD-Ru layer for high aspect ratio TSV (2012)

High aspect ratio through-Si vias (2 μmφ, AR 15) have been filled without voids on coupon scale by using an electroless deposited Cu seed layer on ALD-Ru. The total Cu overburden, which is ELD and filling Cu, was about 700 nm. In addition, the electroless Cu bath showed good stability during 2 hours with controlling pH to stabilize the deposition process. These results show the feasibility of electroless deposition in TSV processing.
Fully packaged dense wavelength-division demultiplexer for optical networks (2000)

A fully packaged dense wavelength division demultiplexer by using dispersion-enhanced volume holographic grating and V- grooved silicon fiber array is demonstrated. The device demultiplexes eight optical channels, namely at wavelengths of 1549 nm to 1536 nm every 2 nm respectively. The system insertion losses are -5.68 dB, -5.6 dB, -5.3 dB, -5.68 dB, -5.59 dB, -5.58 dB, -5.49 dB respectively. Typical adjacent cross-talks among these eight channels are less than -35dB. Epoxy and UV curing are used for fixing most parts of the optical components, which ensures the low cost of the devices. The trade-offs between getting smaller physical packaging size and linear dispersion ability at different wavelength is addressed.
P‐181L: Late‐News Poster : A Novel Optically Compensated Tunable Birefringence (OCTB) Liquid Crystal Electro‐optical Device Exhibiting High Speed Response (2014)

Abstract A novel optically compensated tunable birefringence (OCTB)–LC electro‐optical device that exhibits a fast response has been developed by making a crossly stacked TB cell especially designed their optical retardation should be π/2+α, where α is to be from ‐0.1 to ‐0.6.
INHIBITION OF PLASMINOGEN ACTIVATOR PRODUCTION BY S-ADENOSYL HOMOCYSTEINE ANALOGUES (1981)

Conference Abstract| April 01 1981 INHIBITION OF PLASMINOGEN ACTIVATOR PRODUCTION BY S-ADENOSYL HOMOCYSTEINE ANALOGUES Michele VEDEL Michele VEDEL 1Christiane TEMPETE and Malka ROBERT-GERO, Institut de Chimie des Substances Naturelles CNRS 91190 Gif sur Yvette France Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1981) 9 (2): 261P. https://doi.org/10.1042/bst009261pe Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter LinkedIn Cite Icon Cite Get Permissions Citation Michele VEDEL; INHIBITION OF PLASMINOGEN ACTIVATOR PRODUCTION BY S-ADENOSYL HOMOCYSTEINE ANALOGUES. Biochem Soc Trans 1 April 1981; 9 (2): 261P. doi: https://doi.org/10.1042/bst009261pe Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search nav search search input Search input auto suggest search filter All ContentAll JournalsBiochemical Society Transactions Search Advanced Search This content is only available as a PDF. © 1981 Biochemical Society1981 Article PDF first page preview Close Modal You do not currently have access to this content.