gebhart/patrepeval huggingface dataset:
Computational inference of transcriptional regulatory networks from expression profiling and transcription factor binding site identification (2004)

We have developed a computational method for transcriptional regulatory network inference, CARRIE (Computational Ascertainment of Regu latory Relationships Inferred from Expression), which combines microarray and promoter sequence analysis. CARRIE uses sources of data to identify the transcription factors (TFs) that regulate gene expression changes in response to a stimulus and generates testable hypotheses about the regulatory network connecting these TFs to the genes they regulate. The promoter analysis component of CARRIE, ROVER (Relative OVER-abundance of cis-elements), is highly accurate at detecting the TFs that regulate the response to a stimulus. ROVER also predicts which genes are regulated by each of these TFs. CARRIE uses these transcriptional interactions to infer a regulatory network. To demonstrate our method, we applied CARRIE to six sets of publicly available DNA microarray experiments on Saccharomyces cerevisiae. The predicted networks were validated with comparisons to literature sources, experimental TF binding data, and gene ontology biological process information.
The joint inverse filtering and parametric identification for complex radar image (2011)

The paper suggests combining the inverse filtering and the parametric identification in the post-processing sequence of the complex radar image. The image can be modeled assuming the superposition of the identical partial responses from the effective target point-scatterers. Their positions correspond to the geometrical profile of target in the image coordinate plane. The proposed algorithm of radar image post-processing consists of the parametric and the non-parametric procedures which are used to improve the image resolution and to identify geometrical form of the target. The presented simulated results illustrate the main steps of radar image post-processing.
Teamwork fosters successful, pleasing environment for patient accounts employees. (1994)

If a patient accounts manager can cultivate teamwork successfully--if he or she can "tear down the walls" and "open up the lines of communication"--a positive and productive working environment can be created. Too often, though, invisible barriers exist within a patient accounts department: One area is in conflict with another area, representatives from each area blaming the other for high receivables and low cash flow. If this situation exists, the atmosphere it creates ultimately is reflected in every employee's performance. Further, if a patient accounts manager is engulfed by this atmosphere, his or her support staff certainly will be affected adversely.
One-step Synthesis of Dibutyl Furandicarboxylates from Galactaric Acid (2007)

Abstract Dibutyl 2,5-furandicarboxylate (2) and dibutyl 2,3-furandicarboxylate (3) were synthesized using one step from galactaric acid and 1-butanol. Sulfuric acid, p-toluenesulfonic acid, and heteropolyacids were good catalysts for the reaction. The reaction time was dependent on the amount of the catalyst, but the final yields of the main product, 2 remained unchanged.
Inhibition of lysine biosynthesis: an evolving antibiotic strategy (2007)

Bacterial biosynthesis of lysine has come under increased scrutiny as a target for novel antibacterial agents as it provides lysine for protein synthesis and both lysine and meso-diaminopimelate for construction of the bacterial peptidoglycan cell wall. In this Highlight article we review recent advances in the validation of antibiotic targets, studies of the enzymes of the lysine biosynthetic pathway and development of inhibitors of these enzymes.
A Novel Approach for Capacity Improvement of 2x2 MIMO in LOS Channel Using Reflectarray (2011)

Multiple-input multiple-output (MIMO) transmission schemes with a high radio frequency are expected to make ultra high-rate mobile communications practical due to their high frequency utilization efficiency. On the other hand, since the high radio frequency incurs a large propagation loss that results in a contraction of the service area, there is an increase in the probability of a line-of-sight (LOS) environment. There is a significant degradation in terms of channel capacity in the MIMO transmission in a LOS channel and this is a considerable issue. This paper introduces a novel approach for improving the channel capacity of MIMO transmission in a LOS channel by employing a simple reflectarray within the LOS channel. We also perform an analysis of the eigenvalue and condition number for a 2 × 2 MIMO pure LOS channel matrix when using a reflectarray. The computer simulation results for the 2 × 2 LOS-MIMO channel show remarkable improvement in the condition number and the maximum increase of almost double the channel capacity when establishing one reflectarray within the LOS channel.
Movable shark scales act as a passive dynamic micro-roughness to control flow separation (2014)

Shark scales on fast-swimming sharks have been shown to be movable to angles in excess of 50°, and we hypothesize that this characteristic gives this shark skin a preferred flow direction. During the onset of separation, flow reversal is initiated close to the surface. However, the movable scales would be actuated by the reversed flow thereby causing a greater resistance to any further flow reversal and this mechanism would disrupt the process leading to eventual flow separation. Here we report for the first time experimental evidence of the separation control capability of real shark skin through water tunnel testing. Using skin samples from a shortfin mako Isurus oxyrinchus, we tested a pectoral fin and flank skin attached to a NACA 4412 hydrofoil and separation control was observed in the presence of movable shark scales under certain conditions in both cases. We hypothesize that the scales provide a passive, flow-actuated mechanism acting as a dynamic micro-roughness to control flow separation.
An adaptive early skip mode decision scheme for multiview video coding (2010)

In this work a novel scheme is proposed for adaptive early SKIP mode decision in the multiview video coding based on mode correlation in the 3D-neighborhood, variance, and ratedistortion properties. Our scheme employs an adaptive thresholding mechanism in order to react to the changing values of Quantization Parameter (QP). Experimental results demonstrate that our scheme provides a consistent time saving over a wide range of QP values. Compared to the exhaustive mode decision, our scheme provides a significant reduction in the encoding complexity (up to 77%) at the cost of a small PSNR loss (0.172 dB in average). Compared to state-of-the-art, our scheme provides an average 2x higher complexity reduction with a relatively higher PSNR value (avg. 0.2 dB).
Identification and Privacy: Zero-Knowledge is not Enough. (2008)

At first glance, privacy and zero-knowledgeness seem to be similar properties. A scheme is private when no information is revealed on the prover and in a zero-knowledge scheme, communications should not leak provers&apos; secrets. Until recently, privacy threats were only partially formalized and some zero-knowledge (ZK) schemes have been proposed so far to ensure privacy. We here explain why the intended goal is not reached. Following the privacy model proposed by Vaudenay at Asiacrypt 2007, we then reconsider the analysis of these schemes and thereafter introduce a general framework to modify identification schemes leading to different levels of privacy. Our new protocols can be useful, for instance, for identity documents, where privacy is a great issue. Furthermore, we propose efficient implementations of zero-knowledge and private identification schemes based on modi cations of the GPS scheme. The security and the privacy are based on a new problem: the Short Exponent Strong Diffie-Hellman (SESDH) problem. The hardness of this problem is related to the hardness of the Strong Diffie-Hellman (SDH) problem and to the hardness of the Discrete Logarithm with Short Exponent (DLSE) problem. The security and privacy of these new schemes are proved in the random oracle paradigm.
An Efficient and Practical Process for the Synthesis of Bis(indolyl)methanes Catalyzed by Zirconium Tetrachloride (2005)

Zirconium tetrachloride is used as a catalyst for the electrophilic substitution reaction of indole with aldehydes or ketones at ambient temperature to afford the corresponding bis(indolyl)methanes in good to excellent yields.
Incorporation of adenosine and its metabolites into brain nucleotides (1980)

Dogs were subjected to cerebrospinal fluid (CSF) convesity-cisternal perfusion with [U-14C]adenosine, [U-14C]inosine, or [U-14C]hypoxanthine to determine the mechanism of incorporation of these purines into brain adenine nucleotides. After craniotomy, brain tissue was frozen in situ, and the adenine nucleotides were separated by chromatography. A portion of the nucleotide fraction from the brain and [U-14C]purine from CSF were hydrolyzed enzymatically to nucleosides and bases and the specific activities (SA) measured. The pathway of incorporation of adenosine and inosine was determined by comparing the ratio of SA nucleoside to SA base obtained from degraded brain to that obtained from degraded CSF. Adenosine was directly phosphorylated to AMP, but inosine was degraded before incorporation into brain nucleotides. By comparing the SA of the brain nucleotides to that of the purine precursor in the cerebral spinal perfusion fluid, the incorporation of adenosine was found to be sevenfold greater than that of inosine or hypoxanthine. Measurement of the radioactivity in sagittal venous blood during convexity-cisternal perfusion yielded a larger percentage of counts after perfusion with [U-14C]inosine than with adenosine or hypoxanthine. In comparison to other tissues, a unique salvage system thus exists in the brain for adenosine that serves to conserve the adenine nucleotide pool.
Symmetric-gain, zero-offset, self-aligned, and refractory-contact double HBT's (1987)

We report double-heterostructure bipolar transistors using refractory emitter and base contacts (WSi <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">x</inf> /InAs for n-type, and W with rapid diffusion of Zn for p-type) and self-aligned implantation. These devices have near-symmetric gain (∼ 100) across a fairly large current range (∼ four decades), negligible offset voltage, and a weak current gain dependence on device size. This results from suppression of surface recombination obtained using a P-GaAlAs electron barrier at the extrinsic-base surface. We also demonstrate use of a technique for deconvolving various recombination mechanisms. The major gain-limiting mechanisms in these devices are shown to be (a) residual damage from ion implantation and its effects on base transport factor, and (b) Shockley-Read-Hall recombination in the depletion regions and its effect on injection efficiency. Devices similar to the above showed gains approaching theoretical values of ∼ 1000 at high currents, and greater than 10 at picoampere currents when the processing was designed to obtain high lifetime in the implanted region.
Applications of texture attribute analysis to 3D seismic data (2006)

In this study, texture attribute analysis application to 3D surface seismic data is presented. This is done by choosing a cubic texel (texture element) from the seismic data to generate a gray-level occurrence matrix, which in turn is used to compute second-order statistical measures of textural characteristics. The cubic texel is then successively made to glide through the 3D seismic volume to transform it to a plurality of texture attributes. Application of texture attributes to two case studies from Alberta confirm that these attributes enhance understanding of the reservoir by providing a clearer picture of the distribution, volume, and connectivity of the hydrocarbon-bearing facies in the reservoir.
An electron synchrotron maser based on an intense relativistic electron beam (1975)

An electron cyclotron maser has been operated with an output of ∼50 MW of coherent radiation at a frequency ∼8 GHz. A magnetic field configuration is described which effectively converts streaming electron energy into energy transverse to the streaming direction. The redistribution of beam energy makes available a source of free energy to be converted, via an instability, into radiation at the Doppler-shifted relativistic electron cyclotron frequency. A nonlinear theoretical analysis shows that the coherent synchrotron radiation is a relativistic negative mass type instability reflecting the fact that the cyclotron frequency is a function of the electron energy. The emission was narrow band with a coherence time ≳50 nsec, and was also spatially coherent being primarily radiated into the TE01 circular waveguide mode. The potential for making a frequency tunable maser by employing a tapered drift tube has also been demonstrated.
Mechanism of Adenomatous Polyposis Coli (APC)-Mediated Blockage of Long-Patch Base Excision Repair (2006)

Recently, we found an interaction between adenomatous polyposis coli (APC) and DNA polymerase beta (pol-beta) and showed that APC blocks strand-displacement synthesis of long-patch base excision repair (LP-BER) (Narayan, S., Jaiswal, A. S., and Balusu, R. (2005) J. Biol. Chem. 280, 6942-6949); however, the mechanism is not clear. Using an in vivo LP-BER assay system, we now show that the LP-BER is higher in APC-/- cells than in APC+/+ cells. In addition to pol-beta, the pull-down experiments showed that the full-length APC also interacted with flap endonuclease 1 (Fen-1). To further characterize the interaction of APC with pol-beta and Fen-1, we performed a domain-mapping of APC and found that both pol-beta and Fen-1 interact with a 138-amino acids peptide from the APC at the DRI-domain. Our functional assays showed that APC blocks pol-beta-mediated 1-nucleotide (1-nt) as well as strand-displacement synthesis of reduced abasic, nicked-, or 1-nt gapped-DNA substrates. Further studies demonstrated that APC blocks 5'-flap endonuclease as well as the 5'-3' exonuclease activity of Fen-1 resulting in the blockage of LP-BER. From these results, we concluded that APC can have three different effects on the LP-BER pathway. First, APC can block pol-beta-mediated 1-nt incorporation and strand-displacement synthesis. Second, APC can block LP-BER by blocking the coordinated formation and removal of the strand-displaced flap. Third, APC can block LP-BER by blocking hit-and-run synthesis. These studies will have important implications for APC in DNA damage-induced carcinogenesis and chemoprevention.
PERFORMANCE EVALUATION OF ELECTROCOAGULATION PROCESS FOR DIAZINON REMOVAL FROM AQUEOUS ENVIRONMENTS BY USING IRON ELECTRODES (2007)

The present study investigates the removal of pesticide by electrocoagulation process. A glass tank in 1.56 L volume with four iron plate electrodes was used to perform the experiments. The electrodes connected to a DC power supply (bipolar mode). The tank was filled with synthetic wastewater were which contained diazinon pesticide in concentration of 10, 50 and 100 mg/L. The percent of diazinon removal was measured at pH= 3, 7 and 10 and in electric potential range of 20-40V by thin layer chromatography method. The results indicated that initial concentration of diazinon can affect efficiency removal and for higher concentrations of diazinon, higher electrical potential or more reaction time is needed. The results showed that for a given time, the removal efficiency increased significantly with increase of voltage. The highest electrical potential (40V) produced the quickest treatment with >99% diazinon reduction occurring after 60 min. The final pH for iron electrodes was always higher than initial pH. Finally it can be concluded that electrocoagulation process (using iron electrodes) is a reliable, efficient and cost-effective method for removal of diazinon from aqueous environments, especially designed for pH=3 and voltage=40V.
Development of a New Method to Induce Angiogenesis at Subcutaneous Site of Streptozotocin-Induced Diabetic Rats for Islet Transplantation (2001)

The subcutaneous space is a potential site for clinical islet transplantation. Even though there are several advantages, poor blood supply at this site mainly causes failure of islet survival. In this study, angiogenesis was induced in advance at the diabetic rats subcutis for islet transplantation by implanting a polyethylene terephthalate (PET) mesh bag containing gelatin microspheres incorporating basic fibroblast growth factor (bFGF) (MS/bFGF) and a collagen sponge. The bFGF was incorporated into gelatin microspheres for controlled release of bFGF. As controls, a PET mesh bag with or without either collagen sponges or MS/bFGF was implanted at the subcutaneous site of diabetic rats. Macroscopic and microscopic examinations revealed the formation of capillary network in and around the PET mesh bag containing MS/bFGF and collagen sponges 7 days after implantation when compare with other control groups. When tissue hemoglobin level was also measured, a significantly high level of hemoglobin amount was observed compared with that of control groups. When allogeneic islets mixed with 5% agarose were transplanted into the prevascularized rat subcutis, normoglycemia was maintained for more than 40 days, while other control groups were ineffective. This study demonstrated that combination of gelatin microspheres incorporating bFGF and collagen sponges enabled the mesh to induce neovascularization even at the subcutaneous site of streptozotocin-induced diabetic rats, resulting in improved function of islet transplantation.
Escritório de Advocacia, Sâo Paulo. (2003)

Neurons are situated in a microenvironment composed of various mechanical cues, where stretching is thought to have a major impact on neurons, resulting in microstructural changes in neural tissue and further leading to abnormal electrophysiological function. In spite of significant experimental efforts, the underlying mechanism remains elusive, more works are needed to provide a detailed description of the process that leads to the observed phenomena. Here, we developed a mechanoelectrical coupling model of central neurons under stretching and specially considered the plastic deformation of neurons. With the model, we showed that the increasing axial strain induces a decreased membrane action potential and a more frequent neuronal firing, which agree well with experimental observations reported in the literature. The simulation results also showed a faster electrophysiological signal conduction. Our model provides a reference for the prediction and regulation of neuronal function under simplified conditions of mechanical loadings.
Refinement of d(GCGAAGC) Hairpin Structure Using One- and Two-Bonds Residual Dipolar Couplings (2003)

The structure of the 13C,15N-labeled d(GCGAAGC) hairpin, as determined by NMR spectroscopy and refined using molecular dynamics with NOE-derived distances, torsion angles, and residual dipolar couplings (RDCs), is presented. Although the studied molecule is of small size, it is demonstrated that the incorporation of diminutive RDCs can significantly improve local structure determination of regions undefined by the conventional restraints. Very good correlation between the experimental and back-calculated small one- and two-bond 1H-13C, 1H-15N, 13C-13C and 13C-15N coupling constants has been attained. The final structures clearly show typical features of the miniloop architecture. The structure is discussed in context of the extraordinary stability of the d(GCGAAGC) hairpin, which originates from a complex interplay between the aromatic base stacking and hydrogen bonding interactions.
[Dynamics of milk ejection reflex during continuous rhythmic stimulation of areola-nipple complex of the mammary gland]. (2000)

In continuous 10-minute simultaneous action of the vacuum and compression stimuli at a 1 cycle/second frequency, the rate of the milk ejection from the breast was periodically changing in lactating women. The milk flow first peaks latency was 0.5-3.0 minutes, the number of peaks being 2-7 per minute with the inter-peak interval 2-4 minutes during a 10-minute milk ejection. The women revealed an individual pattern of the milk flow peaks. The findings suggest that a central gate mechanism intervenes to set the periodicity of the milk ejection.
Effect of different herbicides on mixed weed flora, yield and economics of wheat (Triticum aestivum) under irrigated conditions of Jammu (2007)

A field experiment was conducted during the winter (rabi) season of 2004-05 and 2005-06 to study the effect of various herbicides and their mixtures on weeds and yield of wheat in Jammu region. Application of fenoxaprop +metribuzin (120+100 g/ha), sulfosulfuron+2,4-D (25+500 glha), clodinafop+metsulfuron methyl (60+2 g/ha), isoproturon+2,4-D (g/ha), metribuzin (175 or 200 g/ha) significantly reduced both grass and broad leaf weeds besides the N-uptake by weeds, whereas fenaxoprop (120 giha) and clodinafop (60 gka) proved effective against grass weeds only and metsulfuron methyl (4 g/ha) and 2,4-D (750 g/ha) controlled broad leaf weeds significantly than weedy check and other herbicide treatments in comparison thereby resulting in significant increase in the effective tillerslm and yield of wheat during both the years of experimentation. Application of metribuzin proved slightly phytotoxic to wheat crop, whereas isoproturon+2,4-D (750+500 g/ha) proved to be the best economical treatment. Maximum grain yield and effective tillerslm were recorded in weed free plots during both years.
Excited‐State Dynamics of Pentacene Derivatives with Stable Radical Substituents (2014)

The excited-state dynamics of pentacene derivatives with stable radical substituents were evaluated in detail through transient absorption measurements. The derivatives showed ultrafast formation of triplet excited state(s) in the pentacene moiety from a photoexcited singlet state through the contributions of enhanced intersystem crossing and singlet fission. Detailed kinetic analyses for the transient absorption data were conducted to quantify the excited-state characteristics of the derivatives.
New fluoroionophores for alkali-metal cations based on tetrameric calixarenes (1994)

The synthesis and fluorescence behaviour of two novel fluorescent calix[4]arenes containing four anthracene moieties on the lower rim are described. The calixarenes exhibit an optically selective fluorescent response to complexation with group 1 metal cations. Interesting optical responses to Li+, Na+ and K+ have been found with the tetraester derivative and high affinity for Na+ ions with the tetraamide derivative. They may prove to be useful components for the fabrication of optical sensors for the determination of these ions. 1 H NMR studies enable the molecular basis for differences in the optical behaviour of the two ligands to be understood at least partially, and perhaps explain why the tetraamide calixarene has better potential as an Na+ sensor material.