gebhart/patrepeval huggingface dataset:
Diagnostic microRNA profiling in cutaneous T-cell lymphoma (CTCL) (2011)

Cutaneous T-cell lymphomas (CTCLs) are the most frequent primary skin lymphomas. Nevertheless, diagnosis of early disease has proven difficult because of a clinical and histologic resemblance to benign inflammatory skin diseases. To address whether microRNA (miRNA) profiling can discriminate CTCL from benign inflammation, we studied miRNA expression levels in 198 patients with CTCL, peripheral T-cell lymphoma (PTL), and benign skin diseases (psoriasis and dermatitis). Using microarrays, we show that the most induced (miR-326, miR-663b, and miR-711) and repressed (miR-203 and miR-205) miRNAs distinguish CTCL from benign skin diseases with > 90% accuracy in a training set of 90 samples and a test set of 58 blinded samples. These miRNAs also distinguish malignant and benign lesions in an independent set of 50 patients with PTL and skin inflammation and in experimental human xenograft mouse models of psoriasis and CTCL. Quantitative (q)RT-PCR analysis of 103 patients with CTCL and benign skin disorders validates differential expression of 4 of the 5 miRNAs and confirms previous reports on miR-155 in CTCL. A qRT-PCR-based classifier consisting of miR-155, miR-203, and miR-205 distinguishes CTCL from benign disorders with high specificity and sensitivity, and with a classification accuracy of 95%, indicating that miRNAs have a high diagnostic potential in CTCL.
Chemical modification of normal tissue damage induced by photodynamic therapy. (1996)

One of the limitations of successful use of photodynamic therapy (PDT) employing porphyrins is the acute and long-term cutaneous photosensitivity. This paper describes results of experiments designed to test the effects of two radiation protective agents (WR-2721, 500 mg kg-1 or WR-3689, 700 mg kg-1) on murine skin damage induced by PDT. C3H mice were shaved and depilated three days prior to injection with the photosensitiser, Photofrin (5 or 10 mg kg-1). Twenty-four hours later, the mice were injected intraperitoneally with a protector 30 min prior to Argon dye laser (630 nm) exposure. The skin response was followed for two weeks post irradiation using an arbitrary response scale. A light dose response as well as a drug dose response was obtained. The results indicate that both protectors reduced the skin response to PDT, however WR-2721 was demonstrated to be the most effective. The effect of the protectors on vascular stasis after PDT was determined using a fluorescein dye exclusion assay. In mice treated with Photofrin (5 mg kg-1), and 630 nm light (180 J cm-2) pretreatment with either WR-2721 or WR-3689 resulted in significant protection of the vascular effects of PDT. These studies document the ability of the phosphorothioate class of radiation protective agents to reduce the effects of light on photosensitized skin. They do so in a drug dose-dependent fashion with maximum protection at the highest drug doses.
Evidence for Widespread Convergent Evolution around Human Microsatellites (2004)

Microsatellites are a major component of the human genome, and their evolution has been much studied. However, the evolution of microsatellite flanking sequences has received less attention, with reports of both high and low mutation rates and of a tendency for microsatellites to cluster. From the human genome we generated a database of many thousands of (AC)(n) flanking sequences within which we searched for common characteristics. Sequences flanking microsatellites of similar length show remarkable levels of convergent evolution, indicating shared mutational biases. These biases extend 25-50 bases either side of the microsatellite and may therefore affect more than 30% of the entire genome. To explore the extent and absolute strength of these effects, we quantified the observed convergence. We also compared homologous human and chimpanzee loci to look for evidence of changes in mutation rate around microsatellites. Most models of DNA sequence evolution assume that mutations are independent and occur randomly. Allowances may be made for sites mutating at different rates and for general mutation biases such as the faster rate of transitions over transversions. Our analysis suggests that these models may be inadequate, in that proximity to even very short microsatellites may alter the rate and distribution of mutations that occur. The elevated local mutation rate combined with sequence convergence, both of which we find evidence for, also provide a possible resolution for the apparently contradictory inferences of mutation rates in microsatellite flanking sequences.
Order of Nonlinearity as a Complexity Measure for Models Generated by Symbolic Regression via Pareto Genetic Programming (2008)

This paper presents a novel approach to generate data-driven regression models that not only give reliable prediction of the observed data but also have smoother response surfaces and extra generalization capabilities with respect to extrapolation. These models are obtained as solutions of a genetic programming (GP) process, where selection is guided by a tradeoff between two competing objectives - numerical accuracy and the order of nonlinearity. The latter is a novel complexity measure that adopts the notion of the minimal degree of the best-fit polynomial, approximating an analytical function with a certain precision. Using nine regression problems, this paper presents and illustrates two different strategies for the use of the order of nonlinearity in symbolic regression via GP. The combination of optimization of the order of nonlinearity together with the numerical accuracy strongly outperforms ldquoconventionalrdquo optimization of a size-related expressional complexity and the accuracy with respect to extrapolative capabilities of solutions on all nine test problems. In addition to exploiting the new complexity measure, this paper also introduces a novel heuristic of alternating several optimization objectives in a 2-D optimization framework. Alternating the objectives at each generation in such a way allows us to exploit the effectiveness of 2-D optimization when more than two objectives are of interest (in this paper, these are accuracy, expressional complexity, and the order of nonlinearity). Results of the experiments on all test problems suggest that alternating the order of nonlinearity of GP individuals with their structural complexity produces solutions that are both compact and have smoother response surfaces, and, hence, contributes to better interpretability and understanding.
Low-temperature reactive ion etching and microwave plasma etching of silicon (1988)

A new low-temperature reactive ion etching and microwave plasma etching method is described. Highly anisotropic silicon etching with extremely small width shifts has been performed with high selectivities of 30 for organic resist films. High etch rates of 500 and 1000 nm/min by reactive ion etching and microwave plasma etching, respectively, were achieved with a SF6 gas plasma at low wafer temperatures from −130 to −100 °C. It is concluded that lower temperatures during plasma treatment yield lower side etching and increase the dry etch resistance of organic masks.
The Synthesis and in Vitro and in Vivo Stability of 5-Fluorouracil Prodrugs Which Possess Serum Albumin Binding Potency. (1993)

For a new drug delivery system of 5-fluorouracil, we prepared prodrugs possessing certain desired properties. The prodrugs, 1-(N-4-chlorophenyl-N-methylcarbamoyl)-5-fluorouracil and 1-(N-2,4-dichlorophenyl-N-methylcarbamoyl)-5-fluorouracil, contain high serum albumin binding potency and a comparably long half life in the bloodstream in vivo to Tegafur. These two prodrugs are expected to be retained in the bloodstream as a polymeric complex with albumin and to circulate in the body for a long time, like a polymeric prodrug.
Crystal structure of the I-domain from the CD11a/CD18 (LFA-1, alpha L beta 2) integrin. (1995)

We report the 1.8-A crystal structure of the CD11a I-domain with bound manganese ion. The CD11a I-domain contains binding sites for intercellular adhesion molecules 1 and 3 and can exist in both low- and high-affinity states. The metal-bound form reported here is likely to represent a high-affinity state. The CD11a I-domain structure reveals a strained hydrophobic ridge adjacent to the bound metal ion that may serve as a ligand-binding surface and is likely to rearrange in the absence of bound metal ion. The CD11a I-domain is homologous to domains found in von Willebrand factor, and mapping of mutations found in types 2a and 2b von Willebrand disease onto this structure allows consideration of the molecular basis of these forms of the disease.
Modafinil for Excessive Sleepiness Associated with Shift-Work Sleep Disorder (2005)

Treatment with 200 mg of modafinil reduced the extreme sleepiness that we observed in patients with shift-work sleep disorder and resulted in a small but significant improvement in performance as compared with placebo. However, the residual sleepiness that was observed in the treated patients underscores the need for the development of interventions that are even more effective.
Hybrid Microelectronics Handbook (1995)

NEPA air and water pollution programmes air and water planning programmes hazardous waste management and cleanup toxics and pesticides resource planning and perservation programmes enforcement and citizen suits state programmes constitutional and federalism issues trends in environmental law.
Development and Control of a Holonomic Mobile Robot for Mobile Manipulation Tasks (2000)

Mobile manipulator systems hold promise in many industrial and service applications including assembly, inspection, and work in hazardous environments. The integration of a manipulator and a mobile robot base places special demands on the vehicle’s drive system. For smooth, accurate motion and coordination with an on-board manipulator, a holonomic vibration-free wheel system that can be dynamically controlled is needed. In this paper, we present the design and development of a powered caster vehicle (PCV), which is shown to possess the desired mechanical properties. To dynamically control the PCV, a new approach for modeling and controlling the dynamics of this parallel redundant system is proposed. The experimental results presented in the paper illustrate the performance of this platform and demonstrate the significance of dynamic control and its effectiveness in mobile manipulation tasks.
The origin of DNA associated with mucus glycoproteins in cystic fibrosis sputum (1990)

The relative importance of host and bacteria-derived deoxyribonucleic acid (DNA) in the increased viscoelasticity of purulent sputum in cystic fibrosis (CF) and other airway diseases is unclear. We report the identification of the DNA associated with mucus glycoproteins purified from the purulent sputum of 9 patients with CF. Mucus glycoproteins were purified from CF sputum by gel exclusion chromatography and the co-purifying DNA isolated by phenol extraction. Electrophoresis indicated that the DNA preparations had a size of approximately 300 to greater than 50,000 bases. The origin of the DNA was determined by slot blotting and subsequent hybridization with 32P-labelled DNA probes specific for human DNA sequences and those from bacterial species commonly isolated from CF sputum. The results indicated that in all cases the DNA was almost entirely human in origin. This implies that it is the patient's own DNA which may contribute to the rheological abnormalities of CF sputum.
Novel Robust Hepatitis C Virus Mouse Efficacy Model (2006)

The lack of a robust small-animal model for hepatitis C virus (HCV) has hindered the discovery and development of novel drug treatments for HCV infections. We developed a reproducible and easily accessible xenograft mouse efficacy model in which HCV RNA replication is accurately monitored in vivo by real-time, noninvasive whole-body imaging of gamma-irradiated SCID mice implanted with a mouse-adapted luciferase replicon-containing Huh-7 cell line (T7-11). The model was validated by demonstrating that both a small-molecule NS3/4A protease inhibitor (BILN 2061) and human alpha interferon (IFN-alpha) decreased HCV RNA replication and that treatment withdrawal resulted in a rebound in replication, which paralleled clinical outcomes in humans. We further showed that protease inhibitor and IFN-alpha combination therapy was more effective in reducing HCV RNA replication than treatment with each compound alone and supports testing in humans. This robust mouse efficacy model provides a powerful tool for rapid evaluation of potential anti-HCV compounds in vivo as part of aggressive drug discovery efforts.
Validation of Cell-Cycle Arrest Biomarkers for Acute Kidney Injury after Pediatric Cardiac Surgery (2014)

www.germanctr.de/, DRKS00005062.
rK39: A Cloned Antigen of Leishmania chagasi that Predicts Active Visceral Leishmaniasis (1996)

The diagnosis of visceral leishmaniasis (VL), a serious and often fatal parasitic disease caused by members of the Leishmania donovani complex, remains problematic. Current methods rely on clinical criteria, parasite identification in aspirate material, and serology. The latter methods use crude antigen preparations lacking in specificity. A previously described cloned antigen, rK39, of Leishmania specific for all members of the L. donovani complex (L. chagasi, L. donovani, L. infantum) was very useful in the serodiagnosis by ELISA of both human and canine VL. The present study demonstrated that rK39 seroreactivity correlated with active disease. The sera from early or self-healing infected subjects reacted with leishmanial lysate and were generally nonreactive with rK39. These data demonstrate the utility of rK39 in the serodiagnosis of VL and as an indicator of active disease.
Manipulating Spatiotemporal Degrees of Freedom of Waves in Random Media (2009)

We show that all the spatiotemporal degrees of freedom available in a complex medium can be harnessed and converted into spatial ones. This is demonstrated experimentally through an instantaneous spatial inversion, using broadband ultrasonic waves in a multiple scattering sample. We show theoretically that the inversion convergence is governed by the total number of degrees of freedom available in the medium for a fixed bandwidth and demonstrate experimentally its use for complex media investigation. We believe our approach has potential in sensing, imagery, focusing, and telecommunication.
Achromatic triplet using holographic optical elements (1977)

An achromatic optical system can be made using three holographic optical elements. A very simple design scheme is presented, and the properties of the system are discussed.
Reduced high density lipoprotein cholesterol in human cholesteryl ester transfer protein transgenic mice (1991)

The human cholesteryl ester transfer protein (CETP) facilitates the exchange of neutral lipids among lipoproteins. In order to evaluate the effects of increased plasma CETP on lipoprotein levels, a human CETP minigene was placed under the control of the mouse metallothionein-I promoter and used to develop transgenic mice. Integration of the human CETP transgene into the mouse genome resulted in the production of active plasma CETP. Zinc induction of CETP transgene expression caused depression of serum cholesterol due to a significant reduction of high density lipoprotein cholesterol. There was no change in total cholesterol content in very low and low density lipoproteins. However, there was a decrease in the free cholesterol/cholesteryl ester ratio in plasma and in all lipoprotein fractions of transgenic mouse plasma, suggesting stimulation of plasma cholesterol esterification. The results suggest that high levels of plasma CETP activity may be a cause of reduced high density lipoproteins in humans.
Primary Cell Culture (1994)

To obtain cells for culture, they must be isolated from a donor animal tissue or organ. When first initiated in culture, the cell isolates are termed primary cells. After the first subculture, they are called cell strains. Thus, all cell lines are cell strains (the converse is not necessarily true; see Chapter 8). Usually the primary cells are obtained to establish a culture that is composed of a single cell type. In some cases, however, the goal is to establish a mixture of cell types in the culture system. Examples are organ culture and mixtures of cells to examine cell interaction (see Laerum and Bjerkiv, 1990, as an example of comparison of single-cell and mixed-cell cultures derived from the same tissue).
Isozyme monitoring of genetic variation in Lycopersicon. (1983)

Linkages with isozymic loci facilitate the investigation of certain classes of genetic variation. Due to the mapping of 20 isozymic loci on nine of the 12 chromosomes of the cultivated tomato (Lycopersicon esculentum), much progress has been made in these applications, particularly in the analysis of interspecific hybrids. Isozymes can expedite the selective elimination of inferior wild parent germ plasm in backcross transfer of desired genes to the cultivated parent. Allelic isozyme constitution also aids in identification of lines, particularly in evaluating the purity of F1 hybrid cultivars. Advantages that isozymes impart to such investigations are: (1) unequivocal classification of phenotypes, (2) detection of heterozygotes, (3) lack of epistasis between isozyme loci, (4) lack of effect of allelic isozymes per se on morphology or physiology, (5) prolific source of monogenic markers, and (6) phenotyping at early developmental stages. Each of these attributes can be exploited to great advantage, but collectively they constitute a formidable argument for monitoring genetic variation by means of isozymes. Linkages between isozyme loci and qualitative loci can be exploited as in the monitoring of Mi (gene for root-knot nematode resistance derived from L peruvianum) by the very tightly linked Aps-1(1); in similar fashion, Prx-2(1) serves as a useful marker for ms-10 (male sterility). Asp-1 monitoring in the former is more reliable than testing for nematode resistance per se; codominance of Prx-2 alleles of the latter solves problems incurred by the recessiveness of ms-10; in both instances phenotypes can be ascertained at earlier growth stages for isozymes than for economic traits. In the first backcross of the interspecific hybrid L esculentum x Solanum pennellii to the former, the segregation of four quantitative traits was monitored by allelic isozymes at 12 loci, situated on at least eight chromosomes, covering approximately 60% of the known tomato genome. At least five quantitative trait loci (QTL) were found to determine each of the four traits. Each parent contributes alleles with positive as well as negative effects, the greatest balance for stigma exsertion, the trait also exhibiting the greatest extent of transgressive segregation. Three pairs of linked isozymic loci permitted a crude form of three-point mapping of the associated QTL. interactions between QTL linked with pairs of isozymic genes were tested in all possible combinations; 18 of the 274 comparisons showed significant interactions, indicating epistasis.(ABSTRACT TRUNCATED AT 400 WORDS)
OxycodoneN-oxide (2012)

The title compound, (5R,9R,13S,14S,17R)-14-hydroxy-3-methoxy-17-methyl-4,5-epoxymorphinan-6-one N-oxide, C(18)H(21)NO(5), has been prepared in a diastereomerically pure form by the reaction of oxycodone with 3-chloroperbenzoic acid and subsequent crystallization of the product from chloroform. The crystal packing shows that the molecule exhibits intramolecular O-H···O [D···A = 2.482 (2) Å] hydrogen bonding. In addition, there are weak intermolecular C-H...O interactions which, along with van der Waals forces, stabilize the structure. The new chiral center at the 17-position is demonstrated to be R.
Immunological tolerance to allergenic protein determinants: a therapeutic approach for selective inhibition of IgE antibody production. (1979)

Administration of stable conjugates prepared by coupling protein antigens such as ovalbumin or antigen E of ragweed extract to the synthetic random copolymer of D-glutamic acid and D-lysine (D-GL) is effective in inducing a state of long-lasting, antigen-specific immunological tolerance in experimental animals. A striking aspect of the tolerance induced by protein-D-GL conjugates is the remarkable selectivity of the tolerance for antibody responses of the IgE class. Protein-D-GL conjugates of either type were capable of inducing such tolerance both in unsensitized and in previously sensitized animals when administered in appropriate doses. Comparable doses of unconjugated proteins were likewise capable of suppressing IgE antibody production, although the duration of suppression in these cases was significantly less than that observed with protein-D-GL conjugates. If such conjugates act in man as they do in experimental animals, they could be of great value as therapeutic agents in selectively diminishing IgE antibody production while sparing antibody production in the IgG class.
Validation of a new strength measurement device for amyotrophic lateral sclerosis clinical trials (2011)

ATLIS is convenient for patients and evaluators, produces precise strength measurements, and is easily moved between examining rooms.
Heme Oxygenase-1 (2005)

As aspects of basic science come to play an increasingly prominent role in clinical medicine, heme oxygenase-1 is one of several molecules emerging as a central player in diseases of the lung and intensive care unit. Although the apparent raison d'être of this enzyme is to dispose of heme, its activity results in cytoprotection against oxidative injury and cellular stresses. As the lung interfaces directly with an oxidizing environment, it is expected that heme oxygenase-1 would be involved in many aspects of lung health and disease. The protective effects of heme oxygenase-1 and products of its enzymatic activity, including carbon monoxide, biliverdin and bilirubin, and ferritin, have opened the door to potential therapeutic and disease-monitoring possibilities that one day may be applicable to pulmonary medicine. This article introduces readers to the history of heme oxygenase research, the role of this enzyme in the lung, and related new developments to look forward to in the fields of pulmonary and critical care medicine.
28 GHz optical injection-locked 1.55 µm VCSELs (2004)

A record resonance frequency of 28 GHz and an intrinsic laser 3 dB bandwidth of 34 GHz is reported for a directly modulated injection-locked 1.55 µm VCSEL. The small-signal modulation response is experimentally investigated using polarisation-maintaining components.
Automatic chunk detection in human-computer interaction (1994)

This paper describes an algorithm to detect user's mental chunks by analysis of pause lengths in goal-directed human-computer interaction. Identifying and characterizing users' chunks can help in gauging the users' level of expertise. The algorithm described in this paper works with information collected by an automatic logging mechanism. Therefore, it is applicable to situations in which no human intervention is required to perform the analysis, such as adaptive interfaces. An empirical study was conducted to validate the algorithm, showing that mental chunks and their characteristics can indeed be inferred from analysis of human-computer interaction logs. Users performing a variety of goal-directed tasks were monitored. Using an automated logging tool, every command invoked, every operation performed with the input devices, as well as all system responses were recorded. Analysis of the interaction logs was performed by a program that implements a chunk detection algorithm that looks at command sequences and timings. The results support the hypothesis that a significant number of user mental chunks can be detected by our algorithm.