gebhart/patrepeval huggingface dataset:
RhoA Signaling via Serum Response Factor Plays an Obligatory Role in Myogenic Differentiation (1998)

Serum response factor (SRF) plays a central role during myogenesis, being required for the expression of striated alpha-actin genes. As shown here, the small GTPase RhoA-dependent activation of SRF results in the expression of muscle-specific genes, thereby promoting myogenic differentiation in myoblast cell lines. Co-expression of activated V14-RhoA and SRF results in an approximately 10-fold activation of the skeletal alpha-actin promoter in replicating myoblasts, while SRFpm1, a dominant negative SRF mutant, blocks RhoA dependent skeletal alpha-actin promoter activity. Serum withdrawal further potentiates RhoA- and SRF-mediated activation of alpha-actin promoter to about 30-fold in differentiated myotubes. In addition, the proximal SRE1 in the skeletal alpha-actin promoter is sufficient to mediate RhoA signaling via SRF. Furthermore, SRFpm1 and to a lesser extent dominant negative N19-RhoA inhibit myoblast fusion, postreplicative myogenic differentiation, and expression of direct SRF targets such as skeletal alpha-actin and indirect targets such as myogenin and alpha-myosin heavy chain. Moreover, RhoA also stimulates the autoregulatable murine SRF gene promoter in myoblasts, and the expression level of SRF is reduced in myoblasts overexpressing N19-RhoA. Our study supports the concept that RhoA signaling via SRF serves as an obligatory muscle differentiation regulatory pathway.
Valproate and Carbamazepine in the Treatment of Panic and Posttraumatic Stress Disorders, Withdrawal States, and Behavioral Dyscontrol Syndromes (1992)

A number of preclinical studies and preliminary clinical reports, in some cases augmented by controlled studies, suggest that valproate and carbamazepine may have therapeutic effects in the treatment of certain anxiety disorders (panic disorder, post-traumatic stress disorder), alcohol and sedative-hypnotic withdrawal states, and behavioral dyscontrol syndromes. We review the theoretical rationale and available clinical data supporting the potential value of these anticonvulsants in these psychiatric disorders.
Electronic Tuning of Nickel‐Based Bis(dicarbollide) Redox Shuttles in Dye‐Sensitized Solar Cells (2010)

Redox “B”ees: Rational design of a new series of boron-functionalized NiIII/NiIV–bis(dicarbollide) clusters results in a family of robust and tunable redox shuttles (see diagram; EDG and EWG denote electron-donating and -withdrawing groups, respectively). This offers a means to rationally control the redox properties in dye-sensitized solar cells (DSCs), leading to exceptionally high open-circuit voltages. Detailed facts of importance to specialist readers are published as ”Supporting Information”. Such documents are peer-reviewed, but not copy-edited or typeset. They are made available as submitted by the authors. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Einleitung (1988)

›Duden‹ steht nicht im Duden, jedenfalls nicht in der neuen Mannheimer Ausgabe der ›Rechtschreibung‹.
Bistable resistor (biristor) - gateless silicon nanowire memory (2010)

A gateless NPN Si nanowire, which has been named `biristor' originating from bistable resistor, is presented for a high-density and high-speed memory with a standard CMOS technology. A hysteric I-V characteristic is utilized for the data storage, exhibiting a write and read time of less than 2nsec, a sensing current window of 0.23mA, and a hold retention time of 200msec. The biristor is free of cyclic endurance/reliability problem induced by hot-carrier injection due to the gateless structure.
Interleukin 31 mediates MAP kinase and STAT1/3 activation in intestinal epithelial cells and its expression is upregulated in inflammatory bowel disease (2007)

IEC express the functional IL31 receptor complex. IL31 modulates cell proliferation and migration suggesting a role in the regulation of intestinal barrier function particularly in intestinal inflammation.
The Influence of Dissolved Oxygen Concentration on the Respiration and Glucose Metabolism of Klebsiella aerogenes during Growth (1967)

SUMMARY The influence of dissolved oxygen concentration on the metabolism and respiration of growing Klebsiella aerogenes NCTC 8017 was studied by means of a continuous-flow culture technique. Different dissolved oxygen tensions (equivalent partial pressures) were obtained by varying the partial pressure of oxygen in the gas phase. The respiration rate (oxygen uptake rate per unit mass organism) was independent of dissolved oxygen tensions above 10–15 mm. Hg when the culture was said to be in the 'excess oxygen state'. With dissolved oxygen tensions below about 10 mm. Hg, the 'limited oxygen state' developed. In the transition to this state, complex oscillations in the dissolved oxygen tension occurred. The oscillations reflected alternate stimulation and inhibition of the respiration rate. A decrease in dissolved oxygen tension to below 5 mm. Hg immediately increased the respiration rate; an increase in dissolved oxygen tension from 5 to 10 mm. Hg immediately decreased the respiration rate. These effects formed part of the mechanism of the oscillations which could be sustained indefinitely. The oscillations in respiration rate occurred irrespective of change from pH 6·0 to 7·4 or whether growth was limited by glucose or ammonium supply. The pattern of oscillations in respiration rate varied with growth rate over the range 0·2–0·5 hr–1. It is suggested that decreasing the oxygen tension to about 5 mm. Hg acted like an uncoupler of oxidative phosphorylation. In the excess oxygen state with excess glucose and growth limited by ammonium supply, the glucose carbon was largely accounted for as CO2, pyruvate and organisms, irrespective of the pH value. Pyruvate was not accumulated when growth was glucose-limited. In the limited oxygen state, the glucose carbon was largely accounted for as: organisms, CO2, 2:3-butanediol, ethanol, acetic acid, formic acid, lactic acid. The proportions of these fermentation products varied with oxygen supply, pH value and whether growth was ammonium-limited or glucose-limited.
Selective binding of Escherichia coli RNA polymerase to topoisomers of minicircles carrying the TAC16 and TAC17 promoters. (1994)

We have studied the effect of DNA supercoiling on open complex formation by Escherichia coli RNA polymerase at the TAC16 and TAC17 promoters. A two-dimensional gel retardation assay was used to measure the relative rate of association between RNA polymerase and the TAC promoters on individual topoisomers. Plasmid DNAs usually have several promoters that complicate the analysis of RNA polymerase binding to only one of them. We avoided this problem by using minicircles of DNA carrying only a single promoter. These were generated in vivo by the site-specific recombination system of bacteriophage lambda. Both the TAC16 and TAC17 promoters exhibited a biphasic response to negative supercoiling. Between superhelical densities of 0 and -0.04, increases in the negative linking difference favored binding. Beyond -0.04, either no effect on binding (TAC16) or a slight inhibition of binding (TAC17) was observed for increases in the negative linking difference. The unwinding at the rate-limiting step was calculated for both TAC promoters at moderate superhelical densities. This unwinding was found to be a fraction (about 20-30%) of the total unwinding measured by topoisomerase I relaxation (about one turn). In addition, the 1-base pair difference in spacer length between the TAC16 and TAC17 promoters resulted in different extents of activation and inhibition by negative supercoiling.
Targeted Recombination Demonstrates that the Spike Gene of Transmissible Gastroenteritis Coronavirus Is a Determinant of Its Enteric Tropism and Virulence (1999)

Targeted recombination within the S (spike) gene of transmissible gastroenteritis coronavirus (TGEV) was promoted by passage of helper respiratory virus isolates in cells transfected with a TGEV-derived defective minigenome carrying the S gene from an enteric isolate. The minigenome was efficiently replicated in trans and packaged by the helper virus, leading to the formation of true recombinant and pseudorecombinant viruses containing the S proteins of both enteric and respiratory TGEV strains in their envelopes. The recombinants acquired an enteric tropism, and their analysis showed that they were generated by homologous recombination that implied a double crossover in the S gene resulting in replacement of most of the respiratory, attenuated strain S gene (nucleotides 96 to 3700) by the S gene of the enteric, virulent isolate. The recombinant virus was virulent and rapidly evolved in swine testis cells by the introduction of point mutations and in-phase codon deletions in a domain of the S gene (nucleotides 217 to 665) previously implicated in the tropism of TGEV. The helper virus, with an original respiratory tropism, was also found in the enteric tract, probably because pseudorecombinant viruses carrying the spike proteins from the respiratory strain and the enteric virus in their envelopes were formed. These results demonstrated that a change in the tropism and virulence of TGEV can be engineered by sequence changes in the S gene.
Identification and Characterization of Novel Superantigens from Streptococcus pyogenes (1999)

Three novel streptococcal superantigen genes (spe-g, spe-h, and spe-j) were identified from the Streptococcus pyogenes M1 genomic database at the University of Oklahoma. A fourth novel gene (smez-2) was isolated from the S. pyogenes strain 2035, based on sequence homology to the streptococcal mitogenic exotoxin z (smez) gene. SMEZ-2, SPE-G, and SPE-J are most closely related to SMEZ and streptococcal pyrogenic exotoxin (SPE)-C, whereas SPE-H is most similar to the staphylococcal toxins than to any other streptococcal toxin. Recombinant (r)SMEZ, rSMEZ-2, rSPE-G, and rSPE-H were mitogenic for human peripheral blood lymphocytes with half-maximal responses between 0.02 and 50 pg/ml (rSMEZ-2 and rSPE-H, respectively). SMEZ-2 is the most potent superantigen (SAg) discovered thus far. All toxins, except rSPE-G, were active on murine T cells, but with reduced potency. Binding to a human B-lymphoblastoid line was shown to be zinc dependent with high binding affinity of 15-65 nM. Evidence from modeled protein structures and competitive binding experiments suggest that high affinity binding of each toxin is to the major histocompatibility complex class II beta chain. Competition for binding between toxins was varied and revealed overlapping but discrete binding to subsets of class II molecules in the hierarchical order (SMEZ, SPE-C) > SMEZ-2 > SPE-H > SPE-G. The most common targets for the novel SAgs were human Vbeta2.1- and Vbeta4-expressing T cells. This might reflect a specific role for this subset of Vbetas in the immune defense of gram-positive bacteria.
Heat Transfer Physics (2014)

This graduate textbook describes atomic-level kinetics (mechanisms and rates) of thermal energy storage, transport (conduction, convection, and radiation), and transformation (various energy conversions) by principal energy carriers. The approach combines the fundamentals of molecular orbitals-potentials, statistical thermodynamics, computational molecular dynamics, quantum energy states, transport theories, solid-state and fluid-state physics, and quantum optics. The textbook presents a unified theory, over fine-structure/molecular-dynamics/Boltzmann/macroscopic length and time scales, of heat transfer kinetics in terms of transition rates and relaxation times, and its modern applications, including nano- and microscale size effects. Numerous examples, illustrations, and homework problems with answers that enhance learning are included. This new edition includes applications in energy conversion (including chemical bond, nuclear, and solar), expanded examples of size effects, inclusion of junction quantum transport, and discussion of graphene and its phonon and electronic conductances. New appendix coverage of Phonon Contributions Seebeck Coefficient and Monte Carlo Methods are also included.
Transposable elements in yeasts (2011)

With the development of new sequencing technologies in the past decade, yeast genomes have been extensively sequenced and their structures investigated. Transposable elements (TEs) are ubiquitous in eukaryotes and constitute a limited part of yeast genomes. However, due to their ability to move in genomes and generate dispersed repeated sequences, they contribute to modeling yeast genomes and thereby induce plasticity. This review assesses the TE contents of yeast genomes investigated so far. Their diversity and abundance at the inter- and intraspecific levels are presented, and their effects on gene expression and genome stability is considered. Recent results concerning TE–host interactions are also analyzed.
Trafficking of Natural Killer Cells (2004)

Natural killer (NK) cells comprise a set of lymphocytes that is capable of mediating innate immune responses to viral infections, malignancies, and allogeneic bone marrow grafts. This review summarizes what is known about the mechanisms NK cells use to arrive at their sites of action. NK cells express a wide array of adhesion molecules including alphaLbeta2, alphaMbeta2, alphaXbeta2, and alpha4beta1 integrins, ICAM-1, PSGL-1, and L-selectin. Like other immune and inflammatory cells, NK cells use the blood circulation to enter tissues and organs, which requires that they interact with the vessel wall under flow conditions, arrest, and transmigrate. NK cells are able to chemotax to a variety of cytokines and chemokines, including IL-12, IFN-(alpha/beta, CCL2, 3, 4, 5, 7, 8, CXCL8, and CX3CL1. In many cases, NK cells appear to migrate towards these soluble factors without any kind of priming. These cells also appear to distribute in secondary and tertiary lymphoid sites (i.e., spleen, bone marrow, liver, lung, and lymph nodes) both with and without stimulation. In addition to their ability to move throughout the body in an unprimed state, activated NK cells may have increased specificity in homing to sites of inflammation. NK cells not only react to, but also produce IFN-gamma, TNF-alpha, GM-CSF, CCL3, CCL4, and CCL5, enabling them to recruit various immune cells to sites of immune response.
Asymmetric Synthesis of 3,3-Diarylpropanals with Chiral Diene−Rhodium Catalysts (2005)

A general route to enantioenriched 3,3-diarylpropanals is presented. These useful building blocks are prepared via an asymmetric rhodium-catalyzed conjugate addition of arylboronic acids to cinnamaldehyde derivatives in the presence of chiral dienes. The addition of both electron-poor as well as electron-rich boronic acids proceeds smoothly with various enals in 63-90% yield with high enantioselectivities (89-93% ee).
Increased F 2 ‐isoprostanes in Alzheimer's disease: evidence for enhanced lipid peroxidation in vivo (1998)

Alzheimer's disease (AD) includes a group of dementing neurodegenerative disorders that have diverse etiologies but the same hallmark brain lesions. Since oxidative stress may play a role in the pathogenesis of AD and isoprostanes are chemically stable peroxidation products of arachidonic acid, we measured both iPF2alpha-III and iPF2alpha -VI using gas chromatography-mass spectrometry in AD and control brains. The levels of both isoprostanes, but not of 6-keto PGF1alpha, an index of prostaglandin production, were markedly elevated in both frontal and temporal poles of AD brains compared to the corresponding cerebella. Levels were also elevated compared to corresponding areas of brains from patients who had died with schizophrenia or Parkinson's disease or from nonneuropsychiatric disorders. iPF2alpha -IV, but not iPF2alpha-III, levels were higher in ventricular CSF of AD brains relative to the non-AD brains. These data suggest that specific isoprostane analysis may reflect increased oxidative stress in AD.
Thermally annealed GaN nucleation layers and the device-quality metal organic chemical vapor deposition growth of Si-doped GaN films on (00.1) sapphire (1994)

The effect of epitaxial growth temperature (985–1050 °C) on the properties of Si-doped GaN layers on self-nucleated (00.1) sapphire has been investigated. Several device-related properties monotonically improve with increasing growth temperature, including (a) carrier density and (b) volume fraction of heteroepitaxial domains. However, a number of equally important device-related properties show a local maximum and include (a) optical second-harmonic generation intensity, (b) structural coherence, and particularly (c) surface morphology. The antecedents of the first class lie in increases in surface and bulk diffusion and reductions in film defect incorporation and stress at the GaN/GaN (nucleation layer)/α-Al2O3 heterointerface. The second class arises from the quite limited range over which the thermally annealed GaN nucleation layer stimulates pseudo-two-dimensional growth of the GaN overlayer.
MELP: the new Federal Standard at 2400 bps (2002)

This paper describes the new U.S. Federal Standard at 2400 bps. The mixed excitation linear prediction (MELP) coder was chosen by the DoD Digital Voice Processing Consortium to replace the existing 2400 bps Federal Standard FS 1015 (LPC-10). This new standard provides equal or improved performance over the 4800 bps Federal Standard FS 1016 (CELP) at a rate equivalent to LPC-10. The MELP coder is based on the traditional LPC model, but includes additional features to improve its performance.
Arsenic Trioxide in Patients With Adenocarcinoma of the Pancreas Refractory to Gemcitabine (2008)

Despite promising in vitro data, arsenic trioxide has no activity in pancreatic cancer patients who develop progressive disease after gemcitabine. Multicenter phase II trials are feasible in this patient population, and novel agents are clearly needed.
Interaction of the Human NF-κB p52 Transcription Factor with DNA-PNA Hybrids Mimicking the NF-κB Binding Sites of the Human Immunodeficiency Virus Type 1 Promoter (1999)

We determined whether peptide nucleic acids (PNAs) are able to interact with NF-kappaB p52 transcription factor. The binding of NF-kappaB p52 to DNA-DNA, DNA-PNA, PNA-DNA, and PNA-PNA hybrid molecules carrying the NF-kappaB binding sites of human immunodeficiency type 1 long terminal repeat was studied by (i) biospecific interaction analysis (BIA) using surface plasmon resonance technology, (ii) electrophoretic mobility shift, (iii) DNase I footprinting, and (iv) UV cross-linking assays. Our results demonstrate that NF-kappaB p52 does not efficiently bind to PNA-PNA hybrids. However, a DNA-PNA hybrid molecule was found to be recognized by NF-kappaB p52, although the molecular complexes generated exhibited low stability. From the theoretical point of view, our results suggest that binding of NF-kappaB p52 protein to target DNA motifs is mainly due to contacts with bases; interactions with the DNA backbone are, however, important for stabilization of the protein-DNA complex. From the practical point of view, our results suggest that DNA-PNA hybrid can be recognized by NF-kappaB p52 protein, although with an efficiency lower than DNA-DNA NF-kappaB target molecules; therefore, our results should encourage studies on modified PNAs in order to develop potential agents for the decoy approach in gene therapy.
Depth measurement by the multi-focus camera (2002)

In this paper, we first introduce the multi-focus camera, a new image sensor used for depth from defocus (DFD) range measurement. It can capture three images with different focus values simultaneously. We then propose two different depth measurement methods using the camera. The first method, an augmented version of the one proposed by N. Asada et al. (1998), employs a noniterative optimization process to compute depth values on edge points. The second one incorporates a coded aperture with the camera; and applies model-based pattern matching to estimate depth values of textured surfaces. Here we propose two types of coded apertures and corresponding analysis algorithms: 1D Fourier analysis to acquire a depth map and a blur-free image from three defocused images taken with a pair of pinholes, and 2D convolution based model matching for the fast and precise depth measurement using a coded aperture with four pinholes. Experimental results showed that the multi-focus camera works well as a practical DFD range sensor and that the coded apertures much improve its range estimation capability for real world scenes.
Contractile activity and smooth muscle α-actin organization in thrombin-induced human lung myofibroblasts (2003)

Activated fibroblasts, or myofibroblasts, are crucial players in tissue remodeling, wound healing, and various fibrotic disorders, including interstitial lung fibrosis associated with scleroderma. Here we characterize the signaling pathways in normal lung fibroblasts exposed to thrombin as they acquire two of the main features of myofibroblasts: smooth muscle (SM) alpha-actin organization and collagen gel contraction. Our results show that the small G protein Rho is involved in lung myofibroblast differentiation. Thrombin induces Rho-35S-labeled guanosine 5'-O-(3-thiotriphosphate) binding in a dose-dependent manner. It potently stimulates Rho activity in vivo and initiates protein kinase C (PKC)-epsilon-Rho complex formation. Toxin B, which inactivates Rho by ADP ribosylation, inhibits thrombin-induced SM alpha-actin organization, collagen gel contraction, and PKC-epsilon-SM alpha-actin and PKC-epsilon-RhoA coimmunoprecipitation. However, it has no effect on PKC-epsilon activation or translocation of PKC-epsilon to the membrane. Overexpression of constitutively active PKC-epsilon and constitutively active RhoA induces collagen gel contraction or SM alpha-actin organization, whereas, individually, they do not perform these functions. We therefore conclude that the contractile activity of myofibroblasts induced by thrombin is mediated via PKC-epsilon- and RhoA-dependent pathways and that activation of both of these molecules is required. We postulate that PKC-epsilon-RhoA complex formation is an early event in thrombin activation of lung fibroblasts, followed by PKC-epsilon-SM alpha-actin coimmunoprecipitation, which leads to the PKC-epsilon-RhoA-SM alpha-actin ternary complex formation.