gebhart/patrepeval huggingface dataset:
Adapting optimal control theory and using learning loops to provide experimentally feasible shaping mask patterns (2001)

In this article we present two algorithms that provide optimal control pulses directly applicable in experiment. These are, namely, the optimal control algorithm, in which we incorporated spectral pressure during optimization, and complementarily a theoretical variant of the learning loop based on an evolutionary algorithm. With these tools a productive dialog between theory and experiments on optimal control is imaginable. The implementation of these pulses is assured by calculating the optimal mask pattern, that serves as an interface between theory and experiment.
Epidermal and Fibroblast Growth Factors Behave as Mitogenic Regulators for a Single Multipotent Stem Cell-Like Population from the Subventricular Region of the Adult Mouse Forebrain (1999)

The subventricular zone (SVZ) of the adult mammalian forebrain contains kinetically distinct precursor populations that contribute new neurons to the olfactory bulb. Because among forebrain precursors there are stem-like cells that can be cultured in the presence of mitogens such as epidermal growth factor (EGF) and fibroblast growth factor 2 (FGF2), we asked whether distinct subsets of stem-like cells coexist within the SVZ or whether the proliferation of a single type of SVZ stem-like cell is controlled by several GFs. We show that the latter is the case. Thus cells isolated from the SVZ coexpress the EGF and FGF receptors; by quantitative analysis, the number of stem-like cells isolated from the SVZ by either FGF2 or EGF is the same, whereas no additive effect occurs when these factors are used together. Furthermore, short-term administration of high-dose [3H]thymidine in vivo depletes both the EGF- and FGF2-responsive stem-like cell populations equally, showing they possess closely similar proliferation kinetics and likely belong to the constitutively proliferating SVZ compartment. By subcloning and population analysis, we demonstrate that responsiveness to more than one GF endows SVZ cells with an essential stem cell feature, the ability to vary self-renewal, that was until now undocumented in CNS stem-like cells. The multipotent stem cell-like population that expands slowly in the presence of FGF2 in culture switches to a faster growth mode when exposed to EGF alone and expands even faster when exposed to both GFs together. Analogous responses are observed when the GFs are used in the reverse order, and furthermore, these growth rate modifications are fully reversible.
Functionally diverse type V CRISPR-Cas systems (2018)

Type V CRISPR-Cas systems are distinguished by a single RNA-guided RuvC domain-containing effector, Cas12. Although effectors of subtypes V-A (Cas12a) and V-B (Cas12b) have been studied in detail, the distinct domain architectures and diverged RuvC sequences of uncharacterized Cas12 proteins suggest unexplored functional diversity. Here, we identify and characterize Cas12c, -g, -h, and -i. Cas12c, -h, and -i demonstrate RNA-guided double-stranded DNA (dsDNA) interference activity. Cas12i exhibits markedly different efficiencies of CRISPR RNA spacer complementary and noncomplementary strand cleavage resulting in predominant dsDNA nicking. Cas12g is an RNA-guided ribonuclease (RNase) with collateral RNase and single-strand DNase activities. Our study reveals the functional diversity emerging along different routes of type V CRISPR-Cas evolution and expands the CRISPR toolbox.
Bovine respiratory disease complex (1995)

Respiratory disease is the principal cause of loss of young cattle worldwide. The syndrome arises from a number of factors, including those involving the animal, e.g., age, general condition and immune status; its environment, e.g., changes in food, temperature and humidity that lead to stress; and the presence of infectious agents, e.g., bacteria, viruses and mycoplasmas. The syndrome, in a method preferred by the author, can be classified into four grades; Grade 1, subclinical disease; Grade 2, compensated clinical disease (at this stage, the inflammatory reaction generated tends to limit the impact of the disease on the animal); Grade 3, noncompensated clinical disease (at this stage, the inflammatory reaction is excessive and must be controlled); and Grade 4, irreversible clinical disease (which threatens the animal's survival). The increase in frequency and economic impact of bovine respiratory disease complex can be correlated with the escalating industrialization of cattle production. In intensive operations, commingling of animals from multiple sources, exposure to many organisms, stress and management practices are all factors that can lead to disease. The predisposition of cattle, especially beef calves, to respiratory problems is related to their lack of functional pulmonary hardiness. Selection of breeds that demonstrate adequate pulmonary function and sufficient ventilatory reserve may help in the control of the bovine respiratory disease complex, hut this approach is difficult to implement and slow to produce results. Prophylactic measures, including vaccination programs and modifying management practices to reduce stress, also have a place in preventing the bovine respiratory disease complex. Unfortunately, these measures are not always easy to put into operation and cannot completely eradicate the problem. Therapeutic strategies to minimize the economic impact of the syndrome include use of appropriate antibacterial therapy, modulation of the pulmonary inflammatory reaction and correction of mechanical disorders.
Quorum‐Sensing Control of Biofilm Factors inStaphylococcus epidermidis (2003)

Staphylococcus epidermidis is the most frequent cause of nosocomial sepsis and catheter-related infections, in which biofilm formation is considered to be the main virulence mechanism. Quorum-sensing systems have been recognized as important regulators of virulence and biofilm formation in many bacteria. There is a single quorum-sensing system in S. epidermidis encoded by the agr operon. To investigate quorum-sensing control of biofilm formation, we constructed an agr deletion mutant, assayed for the different stages of biofilm formation, and determined agr-dependent regulation of biofilm factors. The agr mutant showed increased biofilm formation, primary attachment, and expression of the autolysin AtlE, but lacked delta-toxin production. However, the level of polysaccharide intercellular adhesin expression was equivalent to the isogenic wild-type strain. In contrast to AtlE, which is known to influence primary attachment, delta-toxin appeared to exert its effect on attachment to polystyrene during later stages of biofilm formation. Importantly, addition of cross-inhibiting pheromones mimicked an agr mutation and significantly enhanced biofilm formation, which suggests that care should be used when treating S. epidermidis infections with cross-inhibiting peptides. Our data demonstrate the importance of quorum sensing in the establishment of a biofilm in this critical human pathogen.
Synthetic Polysaccharides. V. Polymerization of Various Aldoses (1960)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSynthetic Polysaccharides. V. Polymerization of Various AldosesPeter T. Mora, John W. Wood, and Vivian W. McFarlandCite this: J. Am. Chem. Soc. 1960, 82, 13, 3418–3421Publication Date (Print):July 1, 1960Publication History Published online1 May 2002Published inissue 1 July 1960https://pubs.acs.org/doi/10.1021/ja01498a045https://doi.org/10.1021/ja01498a045research-articleACS PublicationsRequest reuse permissionsArticle Views195Altmetric-Citations28LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
P‐213: Imaging and Chromatic Behavior Analysis of a Wedge‐Plate Display (2006)

Abstract We deduced the basic formula of ray tracing in a wedge plate and investigated, both analytically and numerically, the imaging behavior of wedge‐plate display. As an exploration, a 2‐inch thick wedge display that with 52‐inch screen diagonal, in which the ratio of the thickness versus the screen diagonal is 1:25, is analyzed. The chromatic behaviors are also clarified. Keyword: Wedge plate display, chromatic shift
Perovskite solar cells: an emerging photovoltaic technology (2014)

Perovskite solar cells based on organometal halides represent an emerging photovoltaic technology. Perovskite solar cells stem from dye-sensitized solar cells. In a liquid-based dye-sensitized solar cell structure, the adsorption of methylammonium lead halide perovskite on a nanocrystalline TiO2 surface produces a photocurrent with a power conversion efficiency (PCE) of around 3–4%, as first discovered in 2009. The PCE was doubled after 2 years by optimizing the perovskite coating conditions. However, the liquid-based perovskite solar cell receives little attention because of its stability issues, including instant dissolution of the perovskite in a liquid electrolyte. A long-term, stable, and high efficiency (∼10%) perovskite solar cell was developed in 2012 by substituting the solid hole conductor with a liquid electrolyte. Efficiencies have quickly risen to 18% in just 2 years. Since PCE values over 20% are realistically anticipated with the use of cheap organometal halide perovskite materials, perovskite solar cells are a promising photovoltaic technology. In this review, the opto-electronic properties of perovskite materials and recent progresses in perovskite solar cells are described. In addition, comments on the issues to current and future challenges are mentioned.
Chiral Aziridines—Their Synthesis and Use in Stereoselective Transformations (1994)

Abstract The preparation of enantiomerically pure compounds is one of the major areas of organic chemistry. Much emphasis is placed on the elaboration of naturally occurring starting materials and on the development of techniques for enantio‐selective transformations of achiral substrates. In this field, chiral aziridines form an attractive class of compounds, since they are available in enantiomerically pure (or highly enriched) form by a variety of procedures and can be used for asymmetric synthesis in a number of different ways. The chemistry of aziridines is dominated by ring‐opening reactions, the driving force for which is relief of ring strain. By suitable choice of sub‐stituents on the carbon and nitrogen atoms, excellent stereo‐ and regiocontrol can be attained in ring‐opening reactions with a wide variety of nucleophiles, including organometallic reagents; this makes chiral aziridines useful as substrates for the synthesis of important biologically active species including alkaloids, amino acids, and /Mactam antibiotics. Substrate‐controlled diastereo‐selective synthesis is also possible by use of aziridines as removable chiral auxiliaries , while metalation at a ring carbon atom allows aziridines to be used as chiral reagents for asymmetric synthesis. Chiral bisaziridines can act as ligands for transition metals, and applications in the challenging field of enantioselective catalysis can be envisioned. Today, the exclusion of three‐membered carbo‐ and heterocycles from the arsenal of the organic chemist is inconceivable . H. Heimgartner, Angew. Chem. 1991 , 103 , 271; Angew. Chem. Int. Ed. Engl. 1991 , 30 , 238.
Adenosine A2A Receptor Antagonists and Parkinsons Disease: State of the Art and Future Directions (2008)

Adenosine A(2A) receptors present in the central nervous system have been implicated in the modulation of motor functions. Accordingly, adenosine A(2A) receptor antagonists currently constitute an attractive non-dopaminergic option for use in the treatment of Parkinson's disease (PD). The highly enriched distributions of adenosine A(2A) receptors in striatopallidal neurons, and their ability to form functional heteromeric complexes with dopamine D(2) and metabotropic glutamate mGlu5 receptors, render A(2A) receptor antagonists of particular interest in the modulation of motor behavior, whilst at the same time displaying a low predisposition to inducing non-motor side effects. Furthermore, adenosine A(2A) receptor antagonists appear to exert a marked efficacy on PD tremor and in reducing the progress of underlying neurodegeneration and maladaptive neuroplasticity that complicates standard dopamine replacement treatments in PD. Finally, recent evidence has illustrated an improvement of cognitive function as well as enhancement of attention in rodents following administration of A(2A) receptor antagonists. This article is aimed at examining preclinical studies describing these findings as well as reports from clinical trials, in order to provide a comprehensive review of the evidence suggesting that this class of drugs may represent an advance in the treatment of PD.
Rapid identification of dengue virus serotypes by using polymerase chain reaction (1991)

Four primer pairs were selected on the basis of the published sequence data of four dengue virus serotypes so that each unique target sequence size could be amplified for each serotype by polymerase chain reaction. The procedure consists of (i) RNA preparation, (ii) reverse transcription, and (iii) polymerase chain reaction, all of which could be completed within 2 h in a single tube for each specimen. The amplified sequence size revealed by ethidium bromide-stained agarose gel electrophoresis was unique for each serotype, using infected culture fluid of isolates from dengue fever or dengue hemorrhagic fever patients in Thailand, Indonesia, and the Philippines as well as from prototype viruses, thus facilitating simultaneous identification and typing.
Sequence analysis of 28S ribosomal DNA from the amphibianXenopus laevis (1983)

We have determined the complete nucleotide sequence of Xenopus laevis 28S rDNA (4110 bp). In order to locate evolutionarily conserved regions within rDNA, we compared the Xenopus 28S sequence to homologous rDNA sequences from yeast, Physarum, and E. coli. Numerous regions of sequence homology are dispersed throughout the entire length of rDNA from all four organisms. These conserved regions have a higher A + T base composition than the remainder of the rDNA. The Xenopus 28S rDNA has nine major areas of sequence inserted when compared to E. coli 23S rDNA. The total base composition of these inserts in Xenopus is 83% G + C, and is generally responsible for the high (66%) G + C content of Xenopus 28S rDNA as a whole. Although the length of the inserted sequences varies, the inserts are found in the same relative positions in yeast 26S, Physarum 26S, and Xenopus 28S rDNAs. In one insert there are 25 bases completely conserved between the various eukaryotes, suggesting that this area is important for eukaryotic ribosomes. The other inserts differ in sequence between species and may or may not play a functional role.
High-power ultralow-noise semiconductor external cavity lasers based on low-confinement optical waveguide gain media (2009)

For the past several years, we have been developing a new class of high-power, low-noise semiconductor optical gain medium based on the slab-coupled optical waveguide (SCOW) concept. The key characteristics of the SCOW design are (i) large (&gt; 5 x 5 &mu;m), symmetric, fundamental-transverse-mode operation attained through a combination of coupledmode filtering and low index-contrast, (ii) very low optical confinement factor (&Gamma; ~ 0.3-0.5%), and (iii) low excessoptical loss (&alpha;i ~ 0.5 cm<sup>-1</sup>). The large transverse mode and low confinement factor enables SCOW lasers (SCOWLs) and amplifiers (SCOWAs) having Watt-class output power. The low confinement factor also dictates that the waveguide length be very large (0.5-1 cm) to achieve useful gain, which provides the benefits of small ohmic and thermal resistance. In this paper, we review the operating principles and performance of the SCOW gain medium, and detail its use in 1550-nm single-frequency SCOW external cavity lasers (SCOWECLs). The SCOWECL consists of a doublepass, curved-channel InGaAlAs quantum-well SCOWA and a narrowband (2.5 GHz) fiber Bragg grating (FBG) external cavity. We investigate the impact of the cavity Q on SCOWECL performance by varying the FBG reflectivity. We show that a bench-top SCOWECL having a FBG reflectivity of R = 10% (R = 20%) has a maximum output power of 450 mW (400 mW), linewidth of 52 kHz (28 kHz), and RIN at 2-MHz offset frequency of -155 dB/Hz (-165 dB/Hz).
Measured performance of an Ethernet local network (1980)

The Ethernet communications network is a broadcast, multiaccess system for local computer networking, using the techniques of carrier sense and collision detection . Recently we have measured the actual performance and error characteristics of an existing Ethernet installation which provides communications services to over 120 directly connected hosts. This paper is a report on some of those measurements—characterizing “typical” traffic characteristics in this environment and demonstrating that the system works very well. About 300 million bytes traverse the network daily; under normal load, latency and error rates are extremely low and there are very few collisions. Under extremely heavy load—artificially generated—the system shows stable behavior, and channel utilization approaches 98 percent, as predicted.
Electrochemistry-Assisted Top-Down Characterization of Disulfide-Containing Proteins (2012)

Covalent disulfide bond linkage in a protein represents an important challenge for mass spectrometry (MS)-based top-down protein structure analysis as it reduces the backbone cleavage efficiency for MS/MS dissociation. This study presents a strategy for solving this critical issue via integrating electrochemistry (EC) online with a top-down MS approach. In this approach, proteins undergo electrolytic reduction in an electrochemical cell to break disulfide bonds and then undergo online ionization into gaseous ions for analysis by electron-capture dissociation (ECD) and collision-induced dissociation (CID). The electrochemical reduction of proteins allows one to remove disulfide bond constraints and also leads to increased charge numbers of the resulting protein ions. As a result, sequence coverage was significantly enhanced, as exemplified by β-lactoglobulin A (24 vs 75 backbone cleavages before and after electrolytic reduction, respectively) and lysozyme (5 vs 66 backbone cleavages before and after electrolytic reduction, respectively). This methodology is fast and does not need chemical reductants, which would have an important impact in high-throughput proteomics research.
A novel orphan receptor specific for a subset of thyroid hormone-responsive elements and its interaction with the retinoid/thyroid hormone receptor subfamily. (1994)

The steroid/hormone nuclear receptor superfamily comprises several subfamilies of receptors that interact with overlapping DNA sequences and/or related ligands. The thyroid/retinoid hormone receptor subfamily has recently attracted much interest because of the complex network of its receptor interactions. The retinoid X receptors (RXRs), for instance, play a very central role in this subfamily, forming heterodimers with several receptors. Here we describe a novel member of this subfamily that interacts with RXR. Using a v-erbA probe, we obtained a cDNA which encodes a novel 445-amino-acid protein, RLD-1, that contains the characteristic domains of nuclear receptors. Northern (RNA) blot analysis showed that in mature rats, the receptor is highly expressed in spleen, pituitary, lung, liver, and fat. In addition, weaker expression is observed in several other tissues. Amino acid sequence alignment and DNA-binding data revealed that the DNA-binding domain of the new receptor is related to that of the thyroid/retinoid subgroup of nuclear receptors. RLD-1 preferentially binds as a heterodimer with RXR to a direct repeat of the half-site sequence 5'-G/AGGTCA-3', separated by four nucleotides (DR-4). Surprisingly, this binding is dependent to a high degree on the nature of the spacing nucleotides. None of the known nuclear receptor ligands activated RLD-1. In contrast, a DR-4-dependent constitutive transcriptional activation of a chloramphenicol acetyltransferase reporter gene by the RLD-1/RXR alpha heterodimer was observed. Our data suggest a highly specific role for this novel receptor within the network of gene regulation by the thyroid/retinoid receptor subfamily.
The Entner-Doudoroff pathway: history, physiology and molecular biology (1992)

The Entner-Doudoroff pathway is now known to be very widely distributed in nature. Biochemical and physiological studies show that the Entner-Doudoroff pathway can operate in a linear and catabolic mode, in a 'cyclic' mode, in a modified mode involving non-phosphorylated intermediates, or in alternative modes involving C1 metabolism and anabolism. Molecular and genetic analyses of the Entner-Doudoroff pathway in Zymomonas mobilis, Escherichia coli and Pseudomonas aeruginosa have led to an improved understanding of some fundamental aspects of metabolic controls. It can be argued that the Entner-Doudoroff pathway is more primitive than Embden-Meyerhof-Parnas glycolysis.
Treatment of prostate cancer by radioiodine therapy after tissue-specific expression of the sodium iodide symporter. (2000)

Causing prostate cancer cells to express functionally active sodium iodide symporter (NIS) by targeted NIS gene transfer might offer the possibility of radioiodine therapy of prostate cancer. Therefore, we investigated radioiodine accumulation and therapeutic effectiveness of 131I in NIS-transfected prostate cancer cells in vitro and in vivo. The human prostatic adenocarcinoma cell line LNCaP was stably transfected with NIS cDNA under the control of the prostate-specific antigen promoter. The stably transfected LNCaP cell line NP-1 showed perchlorate-sensitive, androgen-dependent iodide uptake in vitro that resulted in selective killing of these cells by 131I in an in vitro clonogenic assay. Xenografts were established in athymic nude mice and imaged using a gamma camera after i.p. injection of 500 microCi of 123I. In contrast to the NIS-negative control tumors (P-1) which showed no in vivo uptake of 123I, NP-1 tumors accumulated 25-30% of the total 123I administered with a biological half-life of 45 h. In addition, NIS protein expression in LNCaP cell xenografts was confirmed by Western blot analysis and immunohistochemistry. After a single i.p. application of a therapeutic 131I dose (3 mCi), significant tumor reduction was achieved in NP-1 tumors in the therapy group compared with P-1 tumors and tumors in the control group. In conclusion, a therapeutic effect of 131I has been demonstrated in prostate cancer cells after induction of tissue-specific iodide uptake activity by prostate-specific antigen promoter-directed NIS expression in vitro and in vivo. This study demonstrates the potential of NIS as a novel therapeutic gene for nonthyroidal cancers, in particular prostate cancer.