gebhart/patrepeval huggingface dataset:
Mechanism of DNA binding and sequence recognition by T7 DNA primase (2006)

DNA primases catalyze the synthesis of oligoribonucleotides (primers) required for initiating DNA polymerization activity on the lagging strand. Prokaryotic primases are composed of two domains: a zinc‐binding domain (ZBD) that recognizes a specific sequence on DNA, and an RNA polymerase domain (RPD) that catalyzes the condensation of rNTPs. Previous structural and biochemical studies on bacteriophage T7 primase revealed that the RPD and ZBD are connected by a flexible region and that association of the two parts is essential for primer synthesis in a template‐dependent manner. However, little is known about the mechanism by which T7 primase recognizes a specific sequence on ssDNA. Using a combination of surface plasmon resonance and biochemical assays, we demonstrate that T7 primase preferentially binds to ssDNA containing a primase recognition sequence. Alteration in the ZBD results in loss of this specific DNA binding, while alteration in the RPD leads to a significant decrease in DNA binding affinity yet still retaining the specific sequence recognition. The binding of the primase to DNA and its sequence recognition is enhanced by the presence of ATP and CTP. We present a model in which binding of cognate NTPs to the active site induces conformational changes that facilitate contact of the ZBD with RPD (closed conformation) and consequently primer synthesis in a sequence dependent fashion. This work was supported by Public Health Service Grant GM 54397–4.
Regulation of Sialomucin Complex Expression and Its Affect on Her Receptor Interaction (96 Breast) (1999)

Abstract : Sialomucin complex (SMC) is a heterodimeric glycoprotein complex consisting of a mucin subunit ASGP-1 (ascites sialoglycoprotein-1) and a transmembrane subunit, ASGP-2, which can act a S a ligand for the receptor tyrosine kinase ErbB2. SMC is a highly expressed protein on the surface of ascites 13762 rat mammary adenocarcinoma cells, approximately 10 to the 2nd power times the level in lactating mammary gland and 10 to the 4th power times that in virgin mammary gland. SMC is largely post transcriptionally regulated in developing mammary gland. Additionally, SMC can be post transcriptionally in normal cultured rat mammary epithelial cells (MEC) but nor 13762 MAT-B1 mammary tumor cells by Matrigel by inhibition of SMC precursor synthesis. SMC is also post translationally regulated by TGF beta in cultured normal MEC by inhibition of SMC precursor processing into mature ASGP-1 and ASGP-2. Interestingly, SMC levels in 13762 MAT-B1 tumor cells are unaffected by TGF beta. SMC and ErbB-2 have similar expression patterns in normal developing mammary gland and can be found in a complex in virgin as well as lactating mammary tissue.
Calcium Niobate Semiconductor Nanosheets as Catalysts for Photochemical Hydrogen Evolution from Water (2007)

We have studied the photochemical water splitting activity of individually dispersed, semiconductor nanosheets derived from the Dion−Jacobsen phase HCa2Nb3O10 by exfoliation with tetrabutylammonium hydroxide. The dimensions of the nanosheets are 0.001 × 1.2 × 1.2 μm3 based on TEM measurements and crystallographic data, and their band gap is determined as 3.53 eV based on the absorption band edge at 350 nm. When an aqueous suspension of the nanosheets is irradiated with light from a Hg lamp, hydrogen is produced at rates of up to 2.28 μmol/h with a quantum efficiency (QE) of 0.22%. No oxygen is evolved. Derivatization of the nanosheets with Pt nanoparticles increases the hydrogen production rate to 78.37 μmol (QE = 7.5%). Restacking of the nanosheets at low pH does not significantly affect the catalytic activity. Transient absorption measurements of the nanosheets reveal charge separation on a nanosecond time scale.
The Refractive Index of Matter in Cylindrical Form (1940)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text A. H. Pfund, "The Refractive Index of Matter in Cylindrical Form," J. Opt. Soc. Am. 30, 410-412 (1940) Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
FASD: A Fault-tolerant, Adaptive, Scalable, Distributed Search Engine (2002)

This paper introduces FASD, a fault-tolerant, adaptive, scalable, and distributed search layer designed to augment existing peer-to-peer applications. The FASD layer operates as a network of identical nodes that collectively pool their storage space to cache &amp;quot;metadata keys&amp;quot; and cooperatively route queries to the nodes most likely to satisfy them. A &amp;quot;metadata key&amp;quot; is a list of weighted terms that describe the information content of a document in the underlying network. Although completely decentralized, FASD&amp;apos;s approach is able to e#ciently match the recall and precision of a centralized search engine. Simulation results indicate that latency and bandwidth consumption scale logarithmically with the size of a FASD network.
Hybridization and the Extinction of Rare Plant Species (1996)

Much has been written about the role of interspecific competition, disease, herbivory, and the loss of key mutualisms in the extinction of rare plant species. Interspecific hybridization rarely is considered among the biotic interactions that promote extinction. We show how hybridization may contribute to the demise of rare plant species through demographic swamping and genetic assimilation by an abundant congener. We contend that the growth of the hybrid subpopulation is the key to rare species assimilation, and we show how the production of hybrid seed, the fitness of hybrids, and pest pressure affect hybrid proliferation. We also discuss how habitat disturbance, unspecialized pollinators, and weak crossing barriers promote hybridization, and how the negative consequences of hybridization are unlikely to be compensated for by immigration from conspecific populations. We also illustrate stages in the demise of species in island floras. We suggest that hybridization is an increasing threat to rare species because ecological barriers are being disrupted by human activities.
Analysis of Rare Amino Acid Replacements Supports the Coelomata Clade (2007)

The recent analysis of a novel class of rare genomic changes, RGC_CAMs (after conserved amino acids-multiple substitutions), supported the Coelomata clade of animals as opposed to the Ecdysozoa clade (Rogozin et al. 2007). A subsequent reanalysis, with the sequences from the sea anemone Nematostella vectensis included in the set of outgroup species, suggested that this result was an artifact caused by reverse amino replacements and claimed support for Ecdysozoa (Irimia et al. 2007). We show that the internal branch connecting the sea anemone to the bilaterian animals is extremely short, resulting in a weak statistical support for the Coelomata clade. Direct estimation of the level of homoplasy, combined with taxon sampling with different sets of outgroup species, reinforces the support for Coelomata, whereas the effect of reversals is shown to be relatively minor.
Low-voltage high CMRR OTA for electrophysiological measurements (2009)

With the advent of miniaturised sensors for various engineering and medical applications there is an increased demand of low-power, low-voltage analog building blocks like opamps and OTAs. Degradation of certain amplifier characteristics with supply voltage is a major concern for low-voltage design and often poses contradictory requirement. CMRR (common mode rejection ratio), one such feature, is essential for sensing small bio-electric signals riding over large common-mode voltage. Here we focus on the challenging task of building a low-voltage OTA with high CMRR along with wide CMR (common mode range) and high output impedance. Robust tail current sources for a complementary differential pair OTA with folded cascode output is implemented for the purpose. The circuits are designed and simulated in 0.35 mum standard CMOS technology with supply voltage of 1.8 V. We could demonstrate a maximum of upto 40 dB increase in CMRR for a range of common-mode voltages.
Detecting cluster numbers based on density changes using density-index enhanced Scale-invariant density-based clustering initialization algorithm (2017)

Despite high accuracy, K-means relies mainly on the determination of the suitable number of clusters. To cope with, it is hypothesized that in a dataset region with high density tends to be a cluster. The present study is based on Scaleinvariant density-based clustering initialization, in which a cluster numbers is derived from density change analysis or density distribution analysis. However, the density calculation under this approach is based on the number and volume of data, which may result in inaccuracy for cluster detection. Thus, the objective of this study was to improve the performance of Scaleinvariant density-based clustering initialization to detect the appropriate cluster numbers and initial cluster centers. We proposed a density calculation based on data distance. The density value obtained from the calculation was used as a condition of data division and data merging for cluster detection. According to the experiment, compared to the Scale invariant density-based clustering initialization, the proposed method could detect the cluster numbers and initial cluster centers more equal or closer to the actual number of clusters. In addition, the level of accuracy in clustering was higher than its counterpart.
Terpenoid Transport in Plants: How Far from the Final Picture? (2023)

Contrary to the biosynthetic pathways of many terpenoids, which are well characterized and elucidated, their transport inside subcellular compartments and the secretion of reaction intermediates and final products at the short- (cell-to-cell), medium- (tissue-to-tissue), and long-distance (organ-to-organ) levels are still poorly understood, with some limited exceptions. In this review, we aim to describe the state of the art of the transport of several terpene classes that have important physiological and ecological roles or that represent high-value bioactive molecules. Among the tens of thousands of terpenoids identified in the plant kingdom, only less than 20 have been characterized from the point of view of their transport and localization. Most terpenoids are secreted in the apoplast or stored in the vacuoles by the action of ATP-binding cassette (ABC) transporters. However, little information is available regarding the movement of terpenoid biosynthetic intermediates from plastids and the endoplasmic reticulum to the cytosol. Through a description of the transport mechanisms of cytosol- or plastid-synthesized terpenes, we attempt to provide some hypotheses, suggestions, and general schemes about the trafficking of different substrates, intermediates, and final products, which might help develop novel strategies and approaches to allow for the future identification of terpenoid transporters that are still uncharacterized.
A Murine Tail Lymphedema Model (2021)

Lymphedema is extremity swelling caused by lymphatic dysfunction. The affected limb enlarges because of accumulation of fluid, adipose, and fibrosis. There is no cure for this disease. A mouse tail model that uses a focal full thickness skin excision near the base of the tail, resulting in tail swelling, has been used to study lymphedema. However, this model may result in vascular comprise and consequent tail necrosis and early tail swelling resolution, limiting its clinical translatability. The chronic murine tail lymphedema model induces sustained lymphedema over 15 weeks and a reliable perfusion to the tail. Enhancements of the traditional murine tail lymphedema model include 1) precise full thickness excision and lymphatic clipping using a surgical microscope, 2) confirmation of post-operative arterial and venous perfusion using high resolution laser speckle, and 3) functional assessment using indocyanine green near infrared laser lymphangiography. We also use tissue nanotransfection technology (TNT) for novel non-viral, transcutaneous, focal delivery of genetic cargo to the mouse tail vasculature.
Verification in factory and office automation (2003)

After considering the literature on verification in factory and office automation, the paper uses a timed Logic of Actions and Timestamp Petri Nets to specify processes. Proving techniques are introduced to verify a process realization against its specification. Afterwards, this approach to proving, which has been applied to technical problems in the past, is applied here to business processes. Finally, this transfer of results from factory to office automation is used to motivate further investigations in which results can be transferred between these research areas.
High Energy Density Asymmetric Quasi-Solid-State Supercapacitor Based on Porous Vanadium Nitride Nanowire Anode (2013)

To push the energy density limit of asymmetric supercapacitors (ASCs), a new class of anode materials is needed. Vanadium nitride (VN) holds great promise as anode material for ASCs due to its large specific capacitance, high electrical conductivity, and wide operation windows in negative potential. However, its poor electrochemical stability severely limits its application in SCs. In this work, we demonstrated high energy density, stable, quasi-solid-state ASC device based on porous VN nanowire anode and VOx nanowire cathode for the first time. The VOx//VN-ASC device exhibited a stable electrochemical window of 1.8 V and excellent cycling stability with only 12.5% decrease of capacitance after 10,000 cycles. More importantly, the VOx//VN-ASC device achieved a high energy density of 0.61 mWh cm(-3) at current density of 0.5 mA cm(-2) and a high power density of 0.85 W cm(-3) at current density of 5 mA cm(-2). These values are substantially enhanced compared to most of the reported quasi/all-solid-state SC devices. This work constitutes the first demonstration of using VN nanowires as high energy anode, which could potentially improve the performance of energy storage devices.
An efficient LKH tree balancing algorithm for group key management (2006)

The efficiency and security of secure group communication are dependent on the group key manager (GKM), which manages the group keys and membership. Although a GKM can employ any kind of group key management algorithm, we adopt the logical key hierarchy (LKH) for its efficiency and scalability. LKH is a tree-based group key management algorithm, which is more efficient when the key tree is balanced. However, only a few papers or documents have dealt with practical tree balancing techniques so far. In this letter, we propose LKH tree manager, an LKH key tree balancing algorithm that is efficient for a large and highly dynamic secure group.
Lateral growth of MoS2 2D material semiconductors over an insulator via electrodeposition (2021)

Developing novel techniques for depositing transition metal dichalcogenides is crucial for the industrial adoption of 2D materials in optoelectronics. In this work, the lateral growth of molybdenum disulfide (MoS2) over an insulating surface is demonstrated using electrochemical deposition. By fabricating a new type of microelectrodes, MoS2 2D films grown from TiN electrodes across opposite sides have been connected over an insulating substrate, hence, forming a lateral device structure through only one lithography and deposition step. Using a variety of characterization techniques, the growth rate of MoS2 has been shown to be highly anisotropic with lateral to vertical growth ratios exceeding 20-fold. Electronic and photo-response measurements on the device structures demonstrate that the electrodeposited MoS2 layers behave like semiconductors, confirming their potential for photodetection applications. This lateral growth technique paves the way towards room temperature, scalable and site-selective production of various transition metal dichalcogenides and their lateral heterostructures for 2D materials-based fabricated devices.
ChemInform Abstract: A New Method for the Synthesis of Perfluorooxaziridines. Preparation of Perfluoro‐cis‐2,3‐dialkyloxaziridines. (1993)

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.
Neuroprotective Effects of C-Type Natriuretic Peptide on Rat Retinal Ganglion Cells (2010)

PURPOSE. To evaluate the potential neuroprotective effects of C-type natriuretic peptide (CNP) on rat retinal ganglion cells (RGCs). METHODS. Cultured adult rat retinal cells were treated with vehicle, CNP, or atrial natriuretic peptide (ANP), followed by cytotoxic insults (glutamate, TNFalpha, or withdrawal of trophic factor). RGC survival was analyzed by counting Thy-1-positive cells in each well. For in vivo evaluation, N-methyl-d-aspartate (NMDA) with or without CNP was injected intravitreally into rat eyes. At various time points after injection, retinal cross-sections were analyzed for thickness changes in the retinal layers, and retinal flat mounts were assessed by counting cresyl violet-labeled or TUNEL-positive cells. Expressions of natriuretic peptide receptor-B (NPRB) and apoptosis-related genes in retina, including Bcl-xL, BAX, and micro-calpain, were analyzed by quantitative reverse transcription-polymerase chain reaction (qRT-PCR). RESULTS. At 50 and 500 nM, CNP, but not ANP, significantly (P < 0.05) protected against glutamate-insult and trophic factor withdrawal-induced RGC death in vitro. Neither peptide significantly affected TNFalpha-induced cytotoxicity. Intravitreal injection of NMDA (20 nanomoles) significantly (P < 0.05) decreased the thickness of the inner plexiform layer (IPL), induced cell loss, increased the number of TUNEL-positive cells in the RGC layer, and upregulated the expression of Bcl-xL, BAX, and micro-calpain. All these effects were significantly (P < 0.05) alleviated by concomitant injection of CNP (4.5 nmol, 10 microg). The neuroprotective effects of CNP were maintained up to 14 days after CNP injection. CONCLUSIONS. CNP protects rat RGCs against the apoptotic damage induced by insults such as excitatory amino acid, both in vitro and in vivo.
Different cytokine signatures in children with localized and invasive adenovirus infection after stem cell transplantation (2010)

HAdV infection is a dangerous complication after pediatric SCT. In this study, we aimed at determining the cytokine profile in plasma samples in case of HAdV infection after SCT to gain more knowledge about the HAdV-specific immune response. In this prospective study, 47 pediatric SCT recipients were included in three yr. By using particle-based MIA, 17 different cytokines were analyzed in 41 plasma samples of patients with a localized HAdV infection (presence of HAdV in feces, urine or throat detected by culture) and patients with invasive HAdV infection (HAdV viremia in blood, detected by PCR). In patients with invasive HAdV infection, but not in patients with localized HAdV infection, the pro-inflammatory cytokines IL1beta, IL6, IL8, IL12, IFNgamma, TNFalpha, and also IL17, MIP1alpha, OSM, and IP10 were produced. The simultaneous release of the cytokines IL1beta, IL17, IL18, OSM, MIP1alpha, and IP10 was related to invasive HAdV infections. We also show that cytokine signatures can be helpful to differentiate invasive HAdV infection from GvHD and EBV infections. In conclusion, after SCT, children with invasive HAdV infection have a different cytokine profile compared with patients with a localized HAdV infection.
High-power Ar-N&lt;inf&gt;2&lt;/inf&gt;transfer laser at 3577 Å (1974)

A peak laser power of 0.5 MW with an estimated efficiency of 0.2 percent has been obtained at 3577 Å from a mixture of 92 psia Ar and 8 psia N <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</inf> which was excited by an <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">E</tex> -beam of 400 A/cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> at 1.3 MeV in a 20-ns pulse. A saturation intensity of ∼100 kW/cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> was deduced and a beam divergence of 10 mrad was measured from the laser having a 10-cm gain length.
Ern Malley's namesake (1995)

Ernst Mally was an Austrian philosopher who, early in this century, helped to develop Alexius Meinong's theory of nonexistent objects. Ernest Malley, better known as Ern, was a nonexistent object. The coincidence of names, if coincidence it be, strains credulity.
Non‐invasive CT screening for pulmonary arteriovenous malformations in children with confirmed hereditary hemorrhagic telangiectasia: Results from two pediatric centers (2017)

This study highlights the usefulness of genetic screening in children with known HHT family. It also suggests that a non-invasive protocol such as HRTC is an efficient approach to detect non-symptomatic lesions that are present early on in children carrying the ENG (HHT1), but also the ACVRL1 mutations (HHT2). Pediatr Pulmonol. 2017;52:642-649. © 2017 Wiley Periodicals, Inc.
Simultaneous synthesis of mass‐exchange and regeneration networks (1990)

Abstract A systematic procedure is developed for the simultaneous synthesis of primary transfer mass‐exchange networks and their associated mass‐exchange regeneration networks. The purpose of the primary transfer network is to preferentially transfer certain species from a set of rich streams to a set of lean streams. The regeneration network aims at regenerating any recyclable lean stream. The proposed procedure deals with the problem in two stages. In the first stage, a mixed‐integer nonlinear program is solved to minimize the cost of mass‐separating and regenerating agents. The solution of this program provides the location of the pinch points as well as the optimal flow rates of all the lean and the regenerative streams without any prior commitment to the network structure . In the second stage, a mixed‐integer linear program is solved to minimize the number of exchangers in both networks. An example problem with industrial relevance is solved to elucidate the merits offered by the devised synthesis procedure.
Impact of glycogen resynthesis on lean mass (2014)

Background It has frequently been demonstrated that resistance training has a negative effect on muscle glycogen content. Additionally, the rate of resynthesis seems to be dependent upon the degree of depletion. However, the impact of glycogen resynthesis on lean mass in a resistance trained population consuming a very low carbohydrate diet has yet to be examined. This has important implications for athletic populations as body composition appears to be related to performance]. Therefore, the purpose of this study was to examine the effects of glycogen resynthesis on body composition in resistance trained individuals consuming a ketogenic diet.
ChemInform Abstract: New Antitumor Agents Containing the Anthracene Nucleus. (1988)

Abstract Treatment of anthracene‐9,10‐dicarboxaldehyde (I) with the hydrazines (II) gives the bisanthrene analogues (III).
Harmonic Generation in Soliton-Induced Waveguides (1999)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text Song Lan, Ming-feng Shih, Greg Mizell, J. A. Giordmaine, Zhigang Chen, Charalambos Anastassiou, John Martin, and Mordechai Segev, "Harmonic Generation in Soliton-Induced Waveguides," Optics & Photonics News 10(12), 27_1-28 (1999) Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article