gebhart/patrepeval huggingface dataset:
Detecting ALK, ROS1 and RET Fusion Genes in Cell Block Samples (2014)

Whether Cell block (CB) samples are applicable to detect anaplastic lymphoma kinase (ALK), c-ros oncogene 1 (ROS1) and ret proto-oncogene (RET) fusion genes in lung adenocarcinoma is still unknown. In this study, 108 cytological samples that contained lung adenocarcinoma cells were collected, and made into CB. The CB samples all contained at least 30% lung adenocarcinoma cells. In these patients, 48 harbored EGFR mutation. Among the 50 EGFR wild type patients who detected fusion genes, 14 carried EML4-ALK fusion (28%), 2 had TPM3-ROS1 fusion (4%), and 3 harbored KIF5B-RET fusion (6%). No double fusions were found in one sample. Patients with fusion genes were younger than those without fusion genes (p = 0.032), but no significant difference was found in sex and smoking status (p > 0.05). In the thirty-five patients who received first-line chemotherapy, patients with fusion gene positive had disease control rate (DCR) (72.7% VS 50%, p > 0.05) and objective response rate (ORR) (9.1% VS 4.2%, p > 0.05) compared with those having fusion gene negative. The median progression free survival (mPFS) were 4.0 and 2.7 months in patients harbored fusion mutations and wild type, respectively (p > 0.05). We conclude that CB samples could be used to detect ALK, ROS1 and RET fusions in NSCLC. The frequency distribution of three fusion genes is higher in lung adenocarcinoma with wild-type EGFR, compared with unselected NSCLC patient population. Patients with fusion genes positive are younger than those with fusion gene negative, but they had no significantly different PFS in first-line chemotherapy.
Zero Poynting vector E∥H Beltrami field cylindrical cavity resonators (2022)

In this paper, we present novel cylindrical cavity resonators accommodating spatially and temporally zero Poynting vector Beltrami standing waves with the parallel electric and magnetic fields (E∥H). We introduce the special boundary conditions, i.e., longitudinal electromagnetic conductor (LEMC) on which zero longitudinal electromagnetic components are enforced and circumferential electromagnetic conductor (CEMC) on which zero circumference electromagnetic components are enforced in an axisymmetric waveguide system, and show that the zero Poynting vector E∥H Beltrami standing wave is generated as a superposition of dual degenerated axisymmetric TM and TE standing waves in a cylindrical resonator using the LEMC and CEMC boundary conditions. We present physical implementation methods of the LEMC and CEMC boundary conditions composed of the circumferentially arranged corrugations and the concentrically aligned cylindrical thin fins, respectively. In addition, we numerically demonstrate the Beltrami standing field generation and reveal its peculiar electromagnetic properties: the spatially and temporally E∥H with zero Poynting vector distribution, identical electric and magnetic energy density distributions, and zero local reactive energy flow.
Development of Potent and Selective Dipeptidyl Peptidase II Inhibitors. (2003)

Abstract For Abstract see ChemInform Abstract in Full Text.
Comparison of mandibular anterior alveolar bone thickness in different facial skeletal types (2010)

Objective: The purpose of this study was to determine differences of mandibular anterior alveolar bone thickness and symphysial cross sectional area in 9 different horizontal and vertical facial types. Methods: By using the initial cephalometric radiographs of 270 adult patients (male 135, female 135), the authors measured the buccolingual thickness of anterior alveolar bone on the basis of the root axis and symphysial cross sectional distance. Results: The high angle group showed significantly thinner buccolingual alveolar bone width except for the CEJ area and lingual alveolar bone width ($p$ &lt; 0.05). The low angle group and Class I, II average group showed similar or significantly thicker alveolar bone width than the Class I average group ($p$ &lt; 0.05). The Class III average group showed significantly thinner buccolingual and lingual alveolar bone width than Class I and II average groups ($p$ &lt; 0.05). The Class III high angle group showed minimal alveolar bone width in all facial skeletal types. No significant difference was found in the symphysial cross sectional area of the different vertical facial skeletal types ($p$ &gt; 0.05). Conclusions: The results of this study found that Class III high angle patients have thinner mandibular anterior alveolar bone thickness; therefore, more attention will be needed to determine the incisor position during orthodontic treatment for this group of patients
Development of High Tech and Increased Efficiency Retrofit Options for the GE MS3002 Gas Turbine (2000)

This paper deals with a new complete uprate for the after-market of the General Electric MS3002H/J/AT two-shaft gas turbine. The new version, called MS3002KHE, is being developed to increase cycle efficiency by a minimum of 8% over the existing JAT units. After a brief introduction, marketing evaluations behind the selected target chosen are pointed out. A description of the GT components which were focused to be uprated follows, with an explanation of all implemented development activities.
Adding value to T. cacao germplasm collections combining GWAS and genome sequence analysis. W118 (2012)

Large germplasm collections exist for the conservation of Theobroma cacao genetic resources. These collections have been extensively characterised for many cocoa useful traits. Genotyping of these genetic resources provide valuable information to decipher the genetic and molecular bases of T. cacao useful traits using genome wide association studies (GWAS). Due to reduced confidence interval of the trait/marker associations, compared to classical QTL studies, the search for candidate genes at the origin of trait variations is facilitated when exploring the genome sequence recently produced. An example is given for the study of quality traits carried out in a collection of genetic resources corresponding to an hybrid " Nacional " pool, cultivated in Ecuador and characterised by its floral flavor allowing to classify it as fine flavor cocoa. Quality traits of each of the 170 individuals of this population has been characterised for sensorial and biochemical (108 volatils and 7 non volatils) traits evaluated on non roasted and roasted cocoa beans, and potentially linked to quality. The population was genotyped with 180 SSR. Many marker/trait associations were revealed for sensorial and biochemical traits. The search for candidate genes involved in the trait variation was made with the Criollo genome sequence. Several candidate genes have been identified, and particularly for polyphenols, fat and terpenes compound variation. (Texte integral)
Mining discriminative adjectives and prepositions for natural scene recognition (2009)

This paper presents a method that considers not only patch appearances, but also patch relationships in the form of adjectives and prepositions for natural scene recognition. Most of the existing scene categorization approaches only use patch appearances or co-occurrence of patch appearances to determine the scene categories, but the relationships among patches remain ignored. Those relationships are, however, critical for recognition and understanding. For example, a `beach' scene can be characterized by a `sky' region above `sand', and a `water' region between `sky' and `sand'. We believe that exploiting such relations between image regions can improve scene recognition. In our approach, each image is represented as a spatial pyramid, from which we obtain a collection of patch appearances with spatial layout information. We apply a feature mining approach to get discriminative patch combinations. The mined patch combinations can be interpreted as adjectives or prepositions, which are used for scene understanding and recognition. Experimental results on a fifteen class scene dataset show that our approach achieves competitive state-of-the-art recognition accuracy, while providing a rich description of the scene classes in terms of the mined adjectives and prepositions.
Effect of human insulin-like growth factor-binding protein-1 on the half-life and action of administered insulin-like growth factor-I in rats (1993)

We have determined the effect of human insulin-like growth factor-binding protein-1 (hIGFBP-1) on the circulating half-life (t1/2) of human insulin-like growth factor-I (hIGF-I) and on hIGF-I-stimulated 2-deoxyglucose uptake in tissues of the cannulated conscious rat. The levels of hIGF-I in rat serum were measured by radioimmunoassay. The assay was carried out in the presence of partially purified rat IGF to remove interference from any IGFBPs not removed by acid-ethanol extraction. An intravenous bolus of 12.5 micrograms hIGF-I, given to 12-h fasted rats, disappeared from the circulation in a double exponential fashion with an initial t1/2 of 1.2 +/- 0.2 min (n = 8), which increased to 5.3 +/- 0.9 min when 100 micrograms hIGFBP-1 was co-administered (n = 5; P < 0.001). The second phase of disappearance of hIGF-I indicated an apparent t1/2 of 35.7 +/- 5.6 min which was not significantly altered by the co-infusion of hIGFBP-1. Circulating hIGFBP-1, measured with a primate-specific radioimmunoassay, disappeared in a single exponential fashion with a t1/2 of 8.8 +/- 0.7 min. A tracer amount of 2-deoxy-[1-3H]glucose was administered intravenously at the same time as the peptide(s) and the rate of tissue uptake and phosphorylation of 2-deoxy-[1-3H]glucose determined. Compared with a control group (n = 4), hIGF-I significantly stimulated hexose uptake into heart, soleus and red quadriceps muscles and hIGFBP-1 partially reversed this effect.(ABSTRACT TRUNCATED AT 250 WORDS)
Integrated program verification tools in education (2012)

SUMMARY Automated software verification is an active field of research, which has made enormous progress both in theoretical and practical aspects. Even if not ready for large‐scale industrial adoption, the technology behind automated program verifiers is now mature enough to gracefully handle the kind of programs that arise in introductory programming courses. This opens exciting new opportunities in teaching the basics of reasoning about program correctness to novice students. However, for these tools to be effective, command‐line‐style user‐interfaces need to be replaced. In this paper, we report on our experience using the verifying compiler for PEST in an introductory programming course as well as in a more advanced course on program analysis. PEST is an extremely basic programming language, but with expressive annotations capabilities and semantics amenable to verification. In particular, we comment on the crucial role played by the integration of this verifying compiler with the Eclipse integrated development environment. Copyright © 2012 John Wiley &amp; Sons, Ltd.
Localization of the elongation factor EF-Tu binding site on Escherichia coli ribosomes (1983)

Fluorescent techniques were used to study binding of peptide elongation factor Tu (EF-Tu) to Escherichia coli ribosomes and to determine the distances of the bound factor to points on the ribosome. Thermus thermophilus EF-Tu was labeled with 3-(4-maleimidylphenyl)-4-methyl-7-(diethyl-amino)coumarin (CPM) without loss of activity. In the presence of Phe-tRNA and a nonhydrolyzable analogue of GTP, 70S ribosomes bind the CPM-EF-Tu [Kb = (3 +/- 1.2) X 10(6) M-1] causing a decrease of CPM fluorescence. Binding of CPM-EF-Tu to 50S subunits was at least 1 order of magnitude lower than with 70S ribosomes, and binding to 30S subunits could not be detected. Reconstituted 70S ribosomes containing either S1 labeled with fluoresceinmaleimide or ribosomal RNAs labeled at their 3' ends with fluorescein thiosemicarbazide were used for energy transfer from CPM-EF-Tu. The distances between CPM-EF-Tu bound to the ribosomes and the 3' ends of 16S RNA, 5S RNA, 23S RNA, and the closest sulfhydryl group of S1 were calculated to be 82, 70, 73, and 62-68 A, respectively.
Feasibility Study on Near field Optical Memory Using A Catadioptric Optical System (1998)

Recently, technologies related to optical memory using near field optical phenomena have been studied [1],[2].
Exact expressions for calculating thin-film absorption coefficients from laser calorimetric data (1984)

Analytic expressions for the optical absorptance of a single-layer thin film of arbitrary thickness on a substrate are derived. Multireflections are considered to be coherent within the thin film and incoherent within the substrate; absorptance is assumed to be small. Substrate and thin-film absorptance can be separated by means of two measurements: in one case light enters the coating–substrate system from the coated side, in the other case from the uncoated side. With this technique, optical absorption coefficients of ZnS and hard carbon coatings have been determined using a CO2 laser calorimeter.
Supplementary Figure Legends 1-3 from CYP2S1 and CYP2W1 Mediate 2-(3,4-Dimethoxyphenyl)-5-Fluorobenzothiazole (GW-610, NSC 721648) Sensitivity in Breast and Colorectal Cancer Cells (2023)

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Investigation of vibration reduction methods from fitness activity (2018)

Noise and vibration from activity in fitness facilities, in particular drops of heavy weights, is a common source of disturbance and complaint in residential, commercial, and mixed-use building types. There is no standardized method for evaluating the reduction in noise or vibration provided by these products and systems. The authors previously reported (Internoise 2015, Noise-Con 2016, ASA Boston 2017) a preliminary test method to evaluate athletic tile flooring with heavy weight drops, based on the reduction in floor vibration (ΔLV) achieved due to the insertion of the products. Preliminary results indicated that the ΔLV measurement adequately described the impact reduction due to athletic tile, over a certain frequency range, reasonably independent of structure. This paper continues the research with measurements with additional materials and sources, and preliminary analytical investigations of the effects of mitigation methods.
Effect of Black Seed on Dextromethorphan O- and N-Demethylation in Human Liver Microsomes and Healthy Human Subjects (2010)

Black seed significantly inhibited CYP2D6 and CYP3A4 mediated metabolism of DEX in human liver microsomes and healthy human volunteers indicating that it has the potential to interact with CYP2D6 and CYP3A4 substrates.
Organization and regulation of the rat Cx31 gene Implication for a crucial role of the intron region (2001)

The connexin31 (Cx31) gene, a member of the connexin multigene family, is expressed in a characteristic spatiotemporal pattern during placental development in rodents. To elucidate the trophoblast-specific regulation of Cx31, we have isolated the rat Cx31 gene and performed structural and functional promoter analysis. The isolated Cx31 gene contains two exons separated by an intron of 2.6 kb. The first exon of the Cx31 gene is preceded by a TATA-less promoter region. Transcription is initiated in exon 1 from two transcription start sites producting transcripts of 105 and 139 bp. The 935 bp of the 5' flanking region of exon 1 comprises five putative binding sites for the GATA transcription factors as well as a NF-kappa B element, a CAAT-box and E-box/E-box-related sequences. For functional promoter analysis, the rat choriocarcinoma cell line Rcho-1 and the mouse keratinocyte cell line Hel37, which both express Cx31, were chosen. Only constructs including exon 1 and the complete intron showed high activity in transient transfection experiments in both cell lines. All deletion fragments of the putative promoter region, but which contain the entire intron sequence, did not reveal any obvious changes in luciferase activity. However, deletion of 1.1 kb of the intron sequence downstream of the splice donor site resulted in the loss of promoter activity. The intron exhibits no enhancer activity for the gene; however, the mRNA stability was increased in the presence of the intron sequence. These results indicate that parts of the intron sequence are critical for basic promoter function of the Cx31 gene.
Analysis of the piggyBac transposase reveals a functional nuclear targeting signal in the 94 c-terminal residues (2008)

Through n and c-terminal truncations, targeted internal deletions, and specific amino acid mutations of the piggyBac TPase open reading frame, we found that not only is the PSORTII-predicted NLS required for the TPase to enter the nucleus of S2 cells, but there are additional requirements for negatively charged amino acids a short length upstream of this region for nuclear localization.
Genomic epidemiology of SARS-CoV-2 transmission lineages in Ecuador (2021)

Characterisation of SARS-CoV-2 genetic diversity through space and time can reveal trends in virus importation and domestic circulation, and permit the exploration of questions regarding the early transmission dynamics. Here we present a detailed description of SARS-CoV-2 genomic epidemiology in Ecuador, one of the hardest hit countries during the early stages of the COVID-19 pandemic. We generate and analyse 160 whole genome sequences sampled from all provinces of Ecuador in 2020. Molecular clock and phylgeographic analysis of these sequences in the context of global SARS-CoV-2 diversity enable us to identify and characterise individual transmission lineages within Ecuador, explore their spatiotemporal distributions, and consider their introduction and domestic circulation. Our results reveal a pattern of multiple international importations across the country, with apparent differences between key provinces. Transmission lineages were mostly introduced before the implementation of non-pharmaceutical interventions (NPIs), with differential degrees of persistence and national dissemination.
Kinetics and mechanism of pyrogallol autoxidation: Calibration of the dynamic response of an oxygen electrode (1993)

Abstract The kinetics of the reaction between 1,2,3‐trihydroxybenzene (pyrogallol) and O 2 (autoxidation) have been determined by monitoring the concentration of dissolved dioxygen with a polarographic oxygen electrode. The reaction is carried out in pseudo‐first‐order excess pyrogallol, 25°C, 0.08 M NaCl, and 0.04 M phosphate buffer in the pH range 6.9–10.5. Data collection precedes reaction initiation, but only the data recorded after the estimated 3.2 s dead time are used in kinetics calculations. Observed rate constants are corrected for incomplete mixing, which is treated as a first‐order process that has an experimentally determined mixing rate constant of 4.0 s −1 . The rate law for the reaction is − d [O 2 ]/ dt = k app [PYR] tot [O 2 ], in which [PYR] tot is the total stoichiometric pyrogallol concentration. A mechanism is presented which explains the increase in rate with increasing [OH − ] by postulating that H 2 PYR − ( k 2 ) has greater reactivity with dissolved dioxygen than does H 3 PYR ( k 1 ). The data best fit the equation k app =( k 1 + k 2 K H [OH − ])/(1 + K H [OH − ]) when the value of the hydrolysis constant K H (the quotient of the pyrogallol acid dissociation and water autoprotolysis constants) for this medium equals 3.1×10 4 M −1 . The resulting values of k 1 and k 2 , respectively, equal (0.13 + 0.01) M −1 s −1 and (3.5 plusmn; 0.1) M −1 s −1 . This reaction is recommended as a test reaction for calibrating the dynamic response of an O 2 ‐electrode. © 1993 John Wiley &amp; Sons, Inc.
Design considerations for complementary inchworm actuators (2006)

An inchworm actuator is described, which uses complementary configurations for the two clamping sections. In one configuration, clamping and release are achieved using high and low voltages, respectively, while for the other, clamping and release are achieved using low and high voltages, respectively. The resulting inchworm actuator can be driven by a two-channel controller with the two clamps sharing the first channel and the extender piezoelectric actuator using the second channel. The paper also describes a diode-shunted delay circuit that causes unclamping to occur more slowly than clamping. It is shown that by using the delay circuit in series with each clamp, the overall force drive capability of the actuator is increased. The paper presents simulated and experimental results of clamp force versus time during the switching transient. An analysis of a generalized delay circuit having both resistive and reactive elements shows that a purely resistive design provides the better tradeoff between increased force drive capability and power loss in the delay circuit.
Frequency following circuit (1981)

Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter Facebook Reddit LinkedIn Tools Icon Tools Reprints and Permissions Cite Icon Cite Search Site Citation Robert A. Moog; Frequency following circuit. J. Acoust. Soc. Am. 1 November 1981; 70 (5): 1556. https://doi.org/10.1121/1.387065 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAcoustical Society of AmericaThe Journal of the Acoustical Society of America Search Advanced Search |Citation Search
Data set from shake table tests of free‐standing rocking bodies (2021)

In earthquake engineering, structural models are validated by performing a time history analysis and comparing its maximum to the maximum response obtained by a shake table test. It has been shown that this is a sufficient (but not a necessary) precondition to accept a numerical model. Numerical models can fail to predict the planar rocking response of a rigid block, but may succeed in predicting the statistics of the response to an ensemble of ground motions. As seismic response is inherently stochastic, comparison of the statistics of the numerically simulated response to the statistics of the experimentally obtained benchmark response for the same ensemble of earthquake excitation is a sufficient (and easier to pass) model validation test. This article describes the publicly available data of a set of 12 free rocking vibration and 115 shake table tests of six three‐dimensional rocking and sliding columns, designed at ETH Zurich and performed at EQUALS Laboratory, University of Bristol. The data can be used to statistically validate different approaches that aim to model three‐dimensional rocking structures.
The circuit paradigm in nanoelectronics - field-coupled and hybrid nanoelectronic circuits [Plenary lecture] (2006)

The case studies presented in this paper show the efforts and call the attention on the difficulties of metal wiring in nanoelectronics. Metal wired nanoelectronic circuits suffer from a basic limitation. Nanodevices and wires are different in nature. In this paper, an alternative approach is reviewed. Nanodevices can be connected not only with (i) wires, but they can be coupled with electromagnetic fields between neighboring devices as well, with (ii) Coulomb forces between charges, with (iii) magnetic forces between magnets, and also with (iv) electromagnetic radiation between "nano-antennas." We are referring to circuits coupled according to (ii), (iii) and (iv) as "field-coupled nanoelectronic circuits." Recently circuits have been proposed and demonstrated composed of filed-coupled nano-scale devices and sub-circuits embedded in microelectronic environment. To interface the two worlds of different scales, special, so called "hybrid," devices are needed. Nanoelectronic devices embedded in microelectronic systems is referred as "hybrid nanoelectronic circuits." In this paper, we review the application of the circuit paradigm to field-coupled nanoelectronic and hybrid micro-nano circuits.