gebhart/patrepeval huggingface dataset:
Intrathyroidal T Cell Clones from Patients with Autoimmune Thyroid Disease* (1987)

We cloned activated T cells from thyroid tissue of patients with autoimmune thyroid disease. After separation on 40% Percoll gradients, T cells were cultured for 2-7 days with T cell growth factor (interleukin 2; 20 U/mL) and cloned by limiting dilution (0.3 cells/well) in the presence of irradiated autologous peripheral blood mononuclear cells (PMC; 10,000/well) as feeder cells. Fifty-seven clones were successfully expanded and tested for reactivity, cytotoxicity, helper/suppressor function, and phenotype. In the reactivity assays clones were tested for responses to autologous and allogeneic PMC, thyroid cells, human thyroglobulin (hTg), and microsomal antigen. Two distinct patterns of functional T cell clones emerged from these characterization studies. Seventy-five percent of T cell clones recovered from Graves' disease thyroid tissue (n = 21) were of helper-induced (CD4+/4B4+) phenotype, and most were effective immunoglobulin helper clones. Fifty percent of Graves' T cell clones responded to autologous PMC, and 33% had a proliferative response to autologous thyroid cells. No cytotoxic clones were derived from Graves' thyroid tissue. By contrast, intrathyroidal T cell clones from patients with autoimmune thyroiditis (n = 36) were 59% suppressor/cytotoxic (CD8+) phenotype, 17% suppressed immunoglobulin secretion, and 55% were cytotoxic to allogeneic blast cells. Fifty-five percent of clones also responded to autologous PMC, and one clone was nonspecifically autocytotoxic. In the thyroid antigen proliferation assays 11% of thyroiditis clones reacted to human thyroglobulin, but none responded to microsomal antigen. Two clones were cytotoxic to autologous but not allogeneic thyroid cells. These data demonstrate that the majority of intrathyroidal T cells in autoimmune thyroid disease are autoreactive. However, small numbers of thyroid-specific T cell clones are present within the thyroid of such patients; they are principally helper-inducer T cells in Graves' disease thyroid and cytotoxic T cells in autoimmune thyroiditis.
Trapping of DNA by dielectrophoresis (2002)

Under suitable conditions, a DNA molecule in solution will develop a strong electric dipole moment. This induced dipole allows the molecule to be manipulated with field gradients, in a phenomenon known as dielectrophoresis (DEP). Pure dielectrophoretic motion of DNA requires alternate current (AC) electric fields to suppress the electrophoretic effect of the molecules net charge. In this paper, we present two methods for measuring the efficiency of DEP for trapping DNA molecules as well as a set of quantitative measurements of the effects of strand length, buffer composition, and frequency of the applied electric field. A simple configuration of electrodes in combination with a microfluidic flow chamber is shown to increase the concentration of DNA in solution by at least 60-fold. These results should prove useful in designing practical microfluidic devices employing this phenomenon either for separation or concentration of DNA.
Coincidence in high‐speed flow cytometry: Models and measurements (1991)

In flow cytometry, the coincident arrival of particles becomes a major problem when high sample rates are required. For the development of our high-speed photodamage flow cytometer (ZAPPER), it was of importance to understand the behavior of cells at flow rates of around 50,000-250,000 event/s. We developed and compared two models that describe the relation between the real cell rate and the detectable single cell rate. Both the Computer Simulation model and the Input/Output Device model show distinct optima for the cell rate. The models were compared to measurements performed on the ZAPPER-prototype. Fits of the two models to the experimental data were excellent for cycle times of 4 and 15 microseconds and acceptable for a 2 microseconds cycle time. A third model (Mercer WB, Rev. Sci. Instr. 37:1515-1521,1966) could be fitted to the experimental data, after the proportionality constant k was adapted to the experimental data. At a yield of detectable single cells of 70%, the maximum cell rates are 180,000, 100,000, and 40,000 cells/s for cycle times of 2, 4, and 15 microseconds, respectively. Based on these results we can now select an optimal cell rate for analysis and sorting based on criteria such as accepted cell loss. In addition, the advantages of reducing the cycle time can now be evaluated with respect to the costs of that modification.
Studies in Newtonian Flow. II. The Dependence of the Viscosity of Liquids on Free-Space (1951)

In this paper it is shown that the viscosity of the liquid normal paraffins can be accurately defined as a simple function of relative free-space except for values in the neighborhood of the freezing points of each compound. A novel method of extrapolating the specific volumes of this family of compounds to absolute zero is described which permits the calculation of reliable values of the relative free-space from density data. An expression of the same form as the author's function, but in which temperature rather than free-space is the primary variable (the so-called Andrade equation), fails to reproduce the viscosity of n-heptadecane over the same range of temperatures within the limits of the known accuracy of the measurements.
Activation of the Lectin Pathway by Natural IgM in a Model of Ischemia/Reperfusion Injury (2006)

Reperfusion of ischemic tissues elicits an acute inflammatory response involving serum complement, which is activated by circulating natural IgM specific to self-Ags exposed by ischemia. Recent reports demonstrating a role for the lectin pathway raise a question regarding the initial events in complement activation. To dissect the individual roles of natural IgM and lectin in activation of complement, mice bearing genetic deficiency in early complement, IgM, or mannan-binding lectin were characterized in a mesenteric model of ischemia reperfusion injury. The results reveal that IgM binds initially to ischemic Ag providing a binding site for mannan-binding lectin which subsequently leads to activation of complement and injury.
Laser ablation characteristics of yttria-doped zirconia in the nanosecond and femtosecond regimes (2010)

The laser ablation characteristics of yttria-stabilized zirconia (YSZ) have been investigated as a function of the target microstructure and dopant level for different nanosecond- [ArF, KrF, and XeCl excimers; Nd:YAG (yttrium aluminum garnet) (fourth harmonic)] and femtosecond-laser sources [Ti:sapphire (fundamental and third harmonic)]. Particle ejection, which compromises the quality of coatings prepared by pulsed laser deposition (PLD), was analyzed in detail. Nanosecond-laser pulses cause a severe thermomechanical surface cracking and exfoliation of micron-sized fragments on a microsecond to millisecond time scale in the case of 8–9.5 mol % Y2O3-doped, fully stabilized zirconia (8YSZ and 9.5YSZ) targets. As a consequence of the intrinsic material brittleness, fully stabilized YSZ coatings deposited by PLD contained particles for all tested conditions. Lower doped partially stabilized zirconia (3YSZ) exhibits a superior fracture toughness attributed to a laser-induced partial transition to the monoclinic phase, detected by Raman spectroscopy, which enables the deposition of particle-free dense thin films by conventional PLD using nanosecond-UV laser radiation at moderate fluences of 1.2–1.5 J/cm2. The ablation dynamics of ultrashort laser pulses differ fundamentally from the nanosecond regime as evidenced, e.g., by time-resolved shadowgraphy and light scattering experiments. Femtosecond pulses prevent the exfoliation of micron-sized fragments but result invariably in a pronounced ejection of submicron particles. The resulting PLD coatings are porous and reveal a large surface roughness as they consist of an agglomeration of nanoparticles. Femtosecond-NIR pulses provide a factor of 2.5–10 higher material removal rates compared to nanosecond- and femtosecond-UV pulses. The ablation metrics, i.e., threshold fluence and effective absorptivity, mainly depend on the laser wavelength while the pulse duration, target microstructure, and dopant level are of minor importance. Evidence is presented that incubation effects play a significant role in nanosecond- and femtosecond-laser ablations of YSZ enabling material removal at comparatively low fluences for sub-bandgap photon energies.
Análisis estadístico de supervivencia y factores asociados con el pronóstico en oncología infantil (1998)

El trabajo presentado por D, Juan Antonio Salas Mesa, para optar al
grado de doctor en Medicina, se compone de los siguientes apartados:

Introduccion. Objetivos Generales.

* Capitulo 1o, Base de datos de tumores infantiles.

* Capitulo 2o, Serie general de tumores infantiles de la Unidad de Oncologia
infantil del Hospital Universitario Virgen del Rocio de Sevilla.

Conclusiones.

* Capitulo 3o Analisis de la serie de rabdomiosarcomas de la misma Unidad.
Conclusiones.

El autor ha aplicado conocimientos y tecnicas informaticas a datos existentes
en la Unidad de Oncologia Infantil del Hospital Universitario Virgen del
Rocio de Sevilla correspondiente a los anos 1.994 a 1.997. Ha operativizado
mediante su tratamiento automatizado la informacion que tenia recogida
dicha Unidad, con miras a agilizar su utilizacion tanto en trabajo clinico
como para el analisis cientifico.
Training linear SVMs in linear time (2006)

Linear Support Vector Machines (SVMs) have become one of the most prominent machine learning techniques for high-dimensional sparse data commonly encountered in applications like text classification, word-sense disambiguation, and drug design. These applications involve a large number of examples n as well as a large number of features N, while each example has only s
Surface-enhanced Raman scattering (1998)

We present an introduction to surface-enhanced Raman scattering (SERS) which reviews the basic experimental facts and the essential features of the mechanisms which have been proposed to account for the observations. We then review very recent fundamental developments which include: SERS from single particles and single molecules; SERS from fractal clusters and surfaces; and new insights into the chemical enhancement mechanism of SERS.
A Comparative Study on Feature Selection in Text Categorization (1997)

This paper is a comparative study of feature selection methods in statistical learning of text categorization. The focus is on aggres-sive dimensionality reduction. Five meth-ods were evaluated, including term selection based on document frequency (DF), informa-tion gain (IG), mutual information (MI), a 2-test (CHI), and term strength (TS). We found IG and CHI most eective in our ex-periments. Using IG thresholding with a k-nearest neighbor classier on the Reuters cor-pus, removal of up to 98 % removal of unique terms actually yielded an improved classi-cation accuracy (measured by average preci-sion). DF thresholding performed similarly. Indeed we found strong correlations between the DF, IG and CHI values of a term. This suggests that DF thresholding, the simplest method with the lowest cost in computation, can be reliably used instead of IG or CHI when the computation of these measures are too expensive. TS compares favorably with the other methods with up to 50 % vocabulary reduction but is not competitive at higher vo-cabulary reduction levels. In contrast, MI had relatively poor performance due to its bias towards favoring rare terms, and its sen-sitivity to probability estimation errors. 1
Texts, Themes, and Theologies: A Response to John Goldingay’s The Theology of the Book of Isaiah (2016)

This review offers a critical reading of John Goldingay’s The Theology of the Book of Isaiah from the author’s perspective as a Pentecostal literary critic and exegete. Focussing on Goldingay’s distinction between meaning and significance , it commends Goldingay’s attention to the difference between the theologies in the book of Isaiah and a variety of theologies which might be seen as arising from the book, and draws out some fundamental questions which Goldingay’s observations pose more broadly for Pentecostal interpreters.
IL-1 receptor antagonist inhibits recurrence of disease after syngeneic pancreatic islet transplantation to spontaneously diabetic non-obese diabetic (NOD) mice (1997)

The effect of an IL-1 receptor antagonist on recurrence of hyperglycaemia after syngeneic pancreatic islet transplantation to spontaneously diabetic female NOD mice was investigated. The transplanted animals were treated with either the receptor antagonist (8.0 mg/kg body weight per day for 12-14 days) or PBS, delivered by subcutaneously implanted osmotic pumps. In the control animals, a transient normoglycaemia was achieved, but hyperglycaemia was generally observed 6 days after islet transplantation. Administration of IL-1 receptor antagonist had a clear protective effect against recurrence of hyperglycaemia until day 14, but after cessation of drug delivery hyperglycaemia re-appeared. The results indicate that continuous administration of the IL-1 receptor antagonist can prevent recurrence of the diabetogenic process in NOD mice. IL-1 receptor antagonist may therefore become a useful adjuvant immunomodulating therapy after human islet transplantation in insulin-dependent diabetes mellitus.
Field Emitter Arrays for Plasma and Microwave Source Applications (1998)

Field emitter arrays (FEAs) stand to strongly impact device performance when physical size, weight, power consumption, beam current, and/or high pulse repetition frequencies are an issue. FEAs are capable of instant ON/OFF performance, high brightness, high current density, large transconductance to capacitance ratio, and low voltage operation characteristics. Advanced microwave power tubes, and in particular, inductive output amplifiers, are by far the most technically challenging use to date. Other important uses include, e.g., electron sources for micropropulsion systems–Hall thrusters–and tethers for satellites, and (the most widely pursued application) field emission displays. The characteristics of field emitters that make them attractive to such applications shall be surveyed. A thorough analytical model of a field emitter array, beginning with a review of the nature of field emission and continuing with an analytical model of a single emitter and the operation of an array of emitters, shall be presented. In particular, attention shall be directed towards those features of FEAs that render them attractive as cold cathode candidates for electron beam generation. Tip characteristics, such as emission distribution, and array operation, such as space charge effects, will be analyzed in the context of the model. Finally, restricting attention to microwave applications, the performance of a tapered-helix inductive output amplifier to highlight the advantages of high frequency emission gating of the electron beam in a power tube shall be investigated.
Convolution kernels on discrete structures (1999)

We introduce a new method of constructing kernels on sets whose elements are discrete structures like strings, trees and graphs. The method can be applied iteratively to build a kernel on a infinite set from kernels involving generators of the set. The family of kernels generated generalizes the family of radial basis kernels. It can also be used to define kernels in the form of joint Gibbs probability distributions. Kernels can be built from hidden Markov random fields, generalized regular expressions, pair-HMMs, or ANOVA decompositions. Uses of the method lead to open problems involving the theory of infinitely divisible positive definite functions. Fundamentals of this theory and the theory of reproducing kernel Hilbert spaces are reviewed and applied in establishing the validity of the method. 1 Introduction Many problems in statistics and pattern recognition demand that discrete structures likes strings, trees, and graphs be classified or clustered based on similarity. To do th...
Recombinant adeno-associated virus vector hybrids efficiently target different skeletal cells (2007)

Finding the optimal recombinant adeno-associated virus (rAAV) serotypes for efficient as well as tissue specific transduction has become imperative for successful gene therapy. We used rat condylar chondrocytes, osteoblast-like cell line UMR106 and bone marrow stromal cells (BMSCs) to evaluate the transduction efficiency of different rAAV serotypes in vitro; hoping to establish an efficient in vivo rAAV mediated delivery system for gene therapy in craniofacial region. All of the selected rAAV serotypes were able to infect target cells and gave rise to eGFP expression and VEGF secretion. Quantified by fluorescence activated cell sorter (FACS) and ELISA analysis, rAAV2 was superior for efficient transduction of rat chondrocytes, rAAV1 was most efficient when introduced into UMR 106 cell line and rAAV5 yielded the highest infection efficiency in BMSCs. Hence, differences in receptor binding in different oral tissues and transduction pathways suggest rAAV based hybrids have various transduction efficiencies and can efficiently target different oral tissues.
Observation of persistent spectral hole burning in CuBr quantum dots (1995)

Persistent spectral hole-burning phenomenon in CuBr quantum dots embedded in glass was observed. The spectral hole and the sideband holes were made together with the redshift of the absorption spectrum in proportion to the logarithm of the laser fluence and were preserved for more than 8 h at 2 K. They were erasable by the temperature rise or by the light exposure. Electron trapping at the surface of the dots and hole tunneling into traps in the glass host is the most probable origin of the persistent spectral hole-burning phenomenon in CuBr quantum dots.
A Reality Check for Data Snooping (2000)

Data snooping occurs when a given set of data is used more than once for purposes of inference or model selection. When such data reuse occurs, there is always the possibility that any satisfactory results obtained may simply be due to chance rather than to any merit inherent in the method yielding the results. This problem is practically unavoidable in the analysis of time-series data, as typically only a single history measuring a given phenomenon of interest is available for analysis. It is widely acknowledged by empirical researchers that data snooping is a dangerous practice to be avoided, but in fact it is endemic. The main problem has been a lack of sufficiently simple practical methods capable of assessing the potential dangers of data snooping in a given situation. Our purpose here is to provide such methods by specifying a straightforward procedure for testing the null hypothesis that the best model encountered in a specification search has no predictive superiority over a given benchmark model. This permits data snooping to be undertaken with some degree of confidence that one will not mistake results that could have been generated by chance for genuinely good results.
Total Synthesis of Roseophilin (1998)

The first total synthesis of the antitumor agent roseophilin 1 is reported. Its intricate macrotricyclic core 2 is obtained by means of a new palladium-catalyzed manifold for the formation of ansa-bridged pyrroles which proceeds via vinyl oxirane 8 and allyl lactone 11 as key intermediates. After conversion of the latter into pyrrolophane 14, a base-induced elimination of the sulfone group followed by the Michael addition of a zincate onto the resulting enone 18 installs the isopropyl substituent in a stereoselective manner. The pyrrolylfuran side chain 3 of roseophilin is prepared from 4-methoxy-2(5H)-furanone (24) and methyl 4-chloropyrrole-2-carboxylate (26) as the starting materials. The appropriate building blocks 25a and 28 derived thereof are combined via a sequence comprising a directed metal−halogen exchange reaction, transmetalation of the resulting lithiopyrrole to the corresponding organozinc compound, a palladium-catalyzed cross coupling of the latter, and a subsequent acid-catalyzed closure of the resulting ketone 29 leading to the furan entity of the target. The triisopropylsilyl-protected side chain 3b is first deprotonated with n-BuLi and then transmetalated with CeCl3 to give a highly nucleophilic organocerium reagent, which readily attacks the sterically hindered 2-(trimethylsilyl)ethoxymethyl-protected keto pyrrole 2c. Deprotection and final dehydration of the tertiary alcohol derivative 30 thus obtained leads to the intact azafulvene chromophore of the natural product and completes our total synthesis of this alkaloid.
Specialization and complementarity in microbial molecule recognition by human myeloid and plasmacytoid dendritic cells (2001)

Following encounter with pathogens, dendritic cells (DC) mature and migrate from peripheral tissues to the T cell areas of secondary lymphoid organs, where they produce regulatory cytokines and prime naive T lymphocytes. We investigated in two subsets of human peripheral blood DC the expression of Toll-like receptors (TLR1 through TLR9) and the regulation of chemokine receptors and cytokine production in response to different maturation stimuli. Myeloid DC express all TLR except TLR7 and TLR9, which are selectively expressed by plasmacytoid DC. Myeloid and plasmacytoid DC respond to pathogen-associated molecular patterns according to their TLR expression. In response to the appropriate stimuli both DC types up-regulate CCR7, a receptor that drives DC migration to the T cell areas. Type I IFN was produced only by plasmacytoid DC and at early time points after stimulation. Furthermore, its production was elicited by some of the maturation stimuli tested. These results reveal a remarkable specialization and complementarity in microbial molecule recognition as well as a flexibility in effector function among myeloid and plasmacytoid DC.
The c-myc coding region determinant-binding protein: a member of a family of KH domain RNA-binding proteins (1998)

The half-life of c- myc mRNA is regulated when cells change their growth rates or differentiate. Two regions within c- myc mRNA determine its short half-life. One is in the 3'-untranslated region, the other is in the coding region. A cytoplasmic protein, the coding region determinant-binding protein (CRD-BP), binds in vitro to the c- myc coding region instability determinant. We have proposed that the CRD-BP, when bound to the mRNA, shields the mRNA from endonucleolytic attack and thereby prolongs the mRNA half-life. Here we report the cloning and further characterization of the mouse CRD-BP, a 577 amino acid protein containing four hnRNP K-homology domains, two RNP domains, an RGG RNA-binding domain and nuclear import and export signals. The CRD-BP is closely related to the chicken beta-actin zipcode-binding protein and is similar to three other proteins, one of which is overexpressed in some human cancers. Recombinant mouse CRD-BP binds specifically to c- myc CRD RNA in vitro and reacts with antibody against human CRD-BP. Most of the CRD-BP in the cell is cytoplasmic and co-sediments with ribosomal subunits.