gebhart/patrepeval huggingface dataset:
Chromosomal Integration of Adenoviral Vector DNA In Vivo (2010)

So far there has been no report of any clinical or preclinical evidence for chromosomal vector integration following adenovirus (Ad) vector-mediated gene transfer in vivo. We used liver gene transfer with high-capacity Ad vectors in the FAH(Deltaexon5) mouse model to analyze homologous and heterologous recombination events between vector and chromosomal DNA. Intravenous injection of Ad vectors either expressing a fumarylacetoacetate hydrolase (FAH) cDNA or carrying part of the FAH genomic locus resulted in liver nodules of FAH-expressing hepatocytes, demonstrating chromosomal vector integration. Analysis of junctions between vector and chromosomal DNA following heterologous recombination indicated integration of the vector genome through its termini. Heterologous recombination occurred with a median frequency of 6.72 x 10(-5) per transduced hepatocyte, while homologous recombination occurred more rarely with a median frequency of 3.88 x 10(-7). This study has established quantitative and qualitative data on recombination of adenoviral vector DNA with genomic DNA in vivo, contributing to a risk-benefit assessment of the biosafety of Ad vector-mediated gene transfer.
Physiological Effects of Adenoviral Gene Transfer of Sarcoplasmic Reticulum Calcium ATPase in Isolated Rat Myocytes (1997)

We found that adenovirus-mediated gene transfer of SR Ca(2+)-ATPase can modify intracellular calcium handling and shortening in myocardial cells. Such vectors should be useful in examining the role of reduced SERCA2a activity in the pathophysiology of heart failure and in developing strategies for gene therapy.
Irinotecan Hydrochloride (CPT-11) Resistance Identified by K-ras Mutation in Patients with Progressive Colon Cancer After Treatment with 5-Fluorouracil (5-FU) (1997)

Determination of the presence of a K-ras mutation may predict survival in patients with progressive colon cancer after treatment with 5-fluorouracil who receive CPT-11.
Virtualization in energy-efficient future home environments (2009)

Home environments promise high potential in terms of resource sharing and energy saving. More and more home computers are running on an always-on basis (e.g., media centers or file sharing clients). Such home environments have not been sufficiently analyzed regarding the possibility of aggregating home user resources in an energy-efficient way. This article describes a future home environment in which available hardware resources (e.g., CPU cycles, disk space, or network capacity) are shared energy efficiently and balanced among end users. Furthermore, the article provides an overview of different virtualization methods that are needed in future home environments to enable cooperation of home networks. Virtualization-related requirements are discussed in detail and virtualization methods and concepts are compared to each other with respect to their usability in the architecture.
<title>Blood characterization using UV/vis spectroscopy</title> (1995)

The current methods used for typing blood involve an agglutination reaction which results from the association of specific antibodies with antigens present on the erythrocyte cell surface. While this method is effective, it requires involved laboratory procedures to detect the cell surface antigens. As an alternative technique, uv/vis spectroscopy has been investigated as a novel way to characterize and differentiate the blood types. Typing with this technique is based on spectral differences which appear throughout portions of both the ultraviolet and visible range. The origin of these spectral differences is unknown and presently under investigation. They may be due to intrinsic absorption differences at the molecular level, and/or they may be due to scattering differences brought about by either subtle variation in cell surface characteristics, cell shape or state of aggregation. As the background optical density in these samples is identified and accounted for, the spectral differences become more defined. This work and the continuation of this project will be included in a general database encompassing a wide range of blood samples. In addition, long term goals involve the investigation of diseased blood with the potential of providing a more rapid diagnosis for blood borne pathogens.
A igualdade como norma e o (quase) obsoleto marxismo (1994)

Porque acreditavam que a igualdade econômica era inevitável, os marxistas clássicos preocuparam-se mais com a questão de como realizá-la do que com o problema da justificação da igualdade enquanto uma norma. As suposições fatuais que fundamentavam a crença nessa inevitabilidade, entretanto, já não se verificam ou revelaram-se equivocadas. Por essa razão a defesa do socialismo hoje requer muito mais argumentação moral do que os marxistas clássicos julgaram necessário.
Integrin-mediated Activation of MAP Kinase Is Independent of FAK: Evidence for Dual Integrin Signaling Pathways in Fibroblasts (1997)

Integrin-mediated cell adhesion causes activation of MAP kinases and increased tyrosine phosphorylation of focal adhesion kinase (FAK). Autophosphorylation of FAK leads to the binding of SH2-domain proteins including Src-family kinases and the Grb2-Sos complex. Since Grb2-Sos is a key regulator of the Ras signal transduction pathway, one plausible hypothesis has been that integrin-mediated tyrosine phosphorylation of FAK leads to activation of the Ras cascade and ultimately to mitogen activated protein (MAP) kinase activation. Thus, in this scenario FAK would serve as an upstream regulator of MAP kinase activity. However, in this report we present several lines of evidence showing that integrin-mediated MAP kinase activity in fibroblasts is independent of FAK. First, a beta1 integrin subunit deletion mutant affecting the putative FAK binding site supports activation of MAP kinase in adhering fibroblasts but not tyrosine phosphorylation of FAK. Second, fibroblast adhesion to bacterially expressed fragments of fibronectin demonstrates that robust activation of MAP kinase can precede tyrosine phosphorylation of FAK. Finally, we have used FRNK, the noncatalytic COOH-terminal domain of FAK, as a dominant negative inhibitor of FAK autophosphorylation and of tyrosine phosphorylation of focal contacts. Using retroviral infection, we demonstrate that levels of FRNK expression sufficient to completely block FAK tyrosine phosphorylation were without effect on integrin-mediated activation of MAP kinase. These results strongly suggest that integrin-mediated activation of MAP kinase is independent of FAK and indicate the probable existence of at least two distinct integrin signaling pathways in fibroblasts.
Toward Next-Gen Mobile AR Games (2008)

Mobile augmented reality games offer a new and rich game experience allowing players to move and interact in their physical environment with 3D content. The authors review existing approaches to mobile AR games and identify two major trends: small, user-modifiable AR games and larger-scale, event-based AR games that are interwoven with their physical environment.
Conceptual schema & relational database design (1995)

Information Levels. Fact Types. Uniqueness Constraints. Mandatory Roles. Value, Set Comparison and Subtype Constraints. Other Constraints and Final Checks. Relational Implementation. Conceptual Schema Transformations. Other Design Methods, Issues and Trends.
Constrained optimization and protein structure determination (1991)

Energy minimization is one of the main approaches to the computational determination of macromolecular structure. Due to the approximations in the empirical free-energy functions and due to the computational difficulties in locating their global minima, the problem is at present intractable when the only information available is the sequence of subunits forming the molecule. A less-demanding problem in terms of both physics and mathematics is constrained optimization, which uses additional but incomplete experimental information such as distances between certain atoms. This paper reviews methods for generating molecular structure using bond lengths and angles as variables and shows how the structure can be fully specified in terms of local geometry. The analysis permits precise statements to be made about the minimum set of distances that specify a unique structure without recourse to energy minimization. We then discuss the complementary situation, i.e., structure prediction with energy minimization based only on sequence information. Finally, we show how distance constraints can be incorporated into energy minimization methods.
["Intracrinology". Autonomy and freedom of peripheral tissues]. (1995)

Hormone-sensitive cancers, namely those of the prostate, breast and uterus, constitute one third of all cancers. In addition to the classical steroidogenic tissues, namely the ovaries, testes, adrenals and placenta, a large series of peripheral tissues possess all the enzymatic systems required for the formation of active androgens and estrogens from a relatively large supply of precursor steroids namely, dehydroepiandrosterone (DHEA) and its sulfate (DHEA-S) provided by the adrenals. This report describes the structure, function and tissue-specific expression and regulation of the 3 beta-hydroxysteroid dehydrogenase/delta 5-delta 4 isomerase, 17 beta-hydroxysteroid dehydrogenase, 5 alpha-reductase gene families as well as some information about the aromatase gene. While, so far, most therapeutical approaches have been aimed and limited at controlling steroid formation by the classical steroidogenic tissues, it is clear that major efforts should now be turned towards intracrinology in order to better understand the physiological mechanisms controlling local steroid formation in peripheral target tissues and to develop improved therapy for hormono-sensitive diseases, especially breast, prostate, and uterine cancers.
Innovative transparent electrode for flexible displays (2006)

This paper presents a new transparent electrode (TE) for flexible displays and energy saving windows. The TE is a room temperature vacuum-deposited multi-layer thin-film system. Both highly transparent rigid materials including glass and ceramics as well as flexible polymeric materials such as polyethylene terephthalate (PET) and polypropylene can serve as substrates for the TE. The TE is deposited as a flexible coating that can be rolled around a 0.5cm diameter cylinder with little or no reduction in electrical conductivity and that can assume pre-extension states after an applied stress is relieved. The TE exhibits high visible transmittance without color. The transmission spectrum of the TE, which matches the eye sensitivity curve, allows the viewing of true background colors through the coating. The photopic transmittance of the TE is 88% and it is a UV inhibiter. The new transparent conductor has 3-5 Ohm/sq of sheet resistance. The environmental stability of the TE was evaluated in a wedeometer with the coating on a PET substrate withstanding 150 hours at 50<sup>o</sup>C, 95% humidity, and ultraviolet (UV), without changing its original performance. The coating can be patterned using standard etching procedures.. In this paper, the properties of the TE are compared with those of common transparent conductive oxides (TCO) including ITO, ZnO: Al and SnO2:F. In addition to the technical description, the paper analyzes potential markets and applications of the TE with emphasis on the replacing current TCO coatings, specifically ITO for flexible display electrode and energy saving window applications.
COMMITTEE ON THE REVIEW OF OMICS-BASED TESTS FOR PREDICTING PATIENT OUTCOMES IN CLINICAL TRIALS (2012)

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State-of-the-Art Utilization of Aquatic Plants in Water Pollution Control (1987)

Research, pilot-scale and operational studies conducted within the past 15 years have shown that aquatic macrophyte-based treatment systems offer a promising, low-cost method for removing contaminants from wastewaters and polluted natural waters. The vascular plants cultured in such treatment systems perform several functions, including assimilating and storing contaminants, transporting O2 to the root zone, and providing a substrate for microbial activity. Among the various types of aquatic treatment systems, pond systems containing floating macrophytes such as the water hyacinth are most commonly utilized for wastewater treatment in tropical and sub-tropical regions, whereas in temperate regions, emergent plants cultured in artificial wetlands (e.g., root zone method, nutrient film techniques) appear to be more appropriate. However, due to concerns about system management and reliability, aquatic plant treatment systems are currently used only on a limited basis throughout the world. This review discusses the general performance, contaminant removal processes and criteria for plant selection in aquatic macrophyte wastewater treatment systems. Case studies on the use of floating plants for domestic wastewater treatment and the renovation of eutrophic lake water are presented, and future research needs for aquatic macrophyte-based wastewater treatment systems are discussed.
Sparsity-based channel state information acquisition and feedback scheme for MIMO-OFDMA systems (2009)

In MIMO-OFDMA (multiple-in multiple-out orthogonal frequency multiple access) based systems, the downlink channel state information (CSI) acquired at the basestation is an important factor to impact the system capacity, since both scheduling and precoding cannot work efficiently without accurate and enough CSI. On the other hand, the CSI feedback overhead should be as small as possible to improve the system efficiency. Obviously, there is a tradeoff between the accuracy and the feedback overhead. In this paper, a CSI acquisition and feedback scheme based on the delay-domain sparsity of channel impulse response is proposed. Analysis and simulation results show that the proposed scheme will guarantee the throughput performance with greatly reduced feedback overhead by comparing with the CQI(channel quality indicator) feedback scheme used in 3GPP LTE(the third generation partner project long term evolution).
Peripheral blood lymphocyte immunocompetence in wild African green monkeys (Cercopithecus aethiops) and the effects of capture and confinement. (1999)

Capture and prolonged confinement of wild African green monkeys (AGM, C. aethiops) in single housing have been shown to result in high morbidity and mortality. The present study was designed to analyse immune modulation associated with these procedures in AGMs. Four wild resting AGMs were stunned with a rifle shot as controls (group I). Seven newly captured monkeys (group II) and seven laboratory conditioned monkeys (group III) housed singly were anaesthetised with ketamine hydrochloride on day 18 and 45, and 180 and 210 post-capture, respectively. Heparinized blood (10 ml) was drawn from each animal and lymphocytes were cultured in six wells per sample. A triplicate subset was stimulated with 10 microliters Concanavalin A for 48 hours. The cells were pulsed with tritiated thymidine and harvested on filter discs 18 hours later. Lymphocyte stimulation indices (stimulated cell count-unstimulated cell count) were 3598 in group I. 3843 and 4395 in group II and 2809 and 2196 in group III, respectively. This indicates that AGMs confined to single housing for a prolonged period exhibit immune suppression. The results confirm our previous findings that the AGM is more susceptible to stress associated with immune suppression and subsequent high frequency of infectious diseases than other East African nonhuman primates confined to laboratory housing.
Orchestrating the unfolded protein response in health and disease (2002)

Nonstandard abbreviations used: endoplasmic reticulum (ER); unfolded protein response (UPR); basic leucine zipper (bZIP); UPR element (UPRE); endoplasmic reticulum stress response element (ERSE); site-1 protease (S1P); site-2 protease (S2P); sterol-response element-binding protein (SREBP); eukaryotic translation initiation factor 2 (eIF2); endoplasmic reticulum-associated degradation (ERAD); α1-proteinase
Metalloproteinase Inhibitors for the Disintegrin-Like Metalloproteinases ADAM10 and ADAM17 that Differentially Block Constitutive and Phorbol Ester-Inducible Shedding of Cell Surface Molecules (2005)

The transmembrane metzinkin-proteases of the ADAM (a disintegrin and a metalloproteinase)-family ADAM10 and ADAM 17 are both implicated in the ectodomain shedding of various cell surface molecules including the IL6-receptor and the transmembrane chemokines CX3CL1 and CXCL16. These molecules are constitutively released from cultured cells, a process that can be rapidly enhanced by cell stimulation with phorbol esters such as PMA. Recent research supports the view that the constitutive cleavage predominantly involves ADAM10 while the inducible one is mediated to a large extent by ADAM17. We here describe the discovery of hydroxamate compounds with different potency against ADAM10 and ADAM17 and different ability to block constitutive and inducible cleavage of IL6R, CX3CL1 and CXCL16 by the two proteases. By screening a number of hydroxamate inhibitors for the inhibition of recombinant metalloproteinases, a compound was found inhibiting ADAM10 with more than 100-fold higher potency than ADAM17, which may be explained by an improved fit of the compound to the S1' specificity pocket of ADAM10 as compared to that of ADAM17. In cell-based cleavage experiments this compound (GI254023X) potently blocked the constitutive release of IL6R, CX3CL1 and CXCL16, which was in line with the reported involvement of ADAM10 but not ADAM17 in this process. By contrast, the compound did not affect the PMA-induced shedding, which was only blocked by GW280264X, a potent inhibitor of ADAM17. As expected, GI254023X did not further decrease the residual release of CX3CL1 and CXCL16 in ADAM10-deficient cells verifying that the compound's effect on the constitutive shedding of these molecules was exclusively due to the inhibition of ADAM10. Thus, GI254023X may by of use as a preferential inhibitor of constitutive shedding events without effecting the inducible shedding in response to agonists acting similar to PMA.
Fine structure and immunocytochemistry of monotreme hairs, with emphasis on the inner root sheath and trichohyalin‐based cornification during hair evolution (2004)

The fine structure of hairs in the most ancient extant mammals, the monotremes, is not known. The present study analyzes the ultrastructure and immunocytochemistry for keratins, trichohyalin, and transglutaminase in monotreme hairs and compares their distribution with that present in hairs of the other mammals. The overall ultrastructure of the hair and the distribution of keratins is similar to that of marsupial and placental hairs. Acidic and basic keratins mostly localize in the outer root sheath. The inner root sheath (IRS) comprises 4-8 cell layers in most hairs and forms a tile-like sheath around the hair shaft. No cytological distinction between the Henle and Huxley layers is seen as cells become cornified about at the same time. Externally to the last cornified IRS cells (homologous to the Henle layer), the companion layer contains numerous bundles of keratin. Occasionally, some granules in the companion layer show immunoreactivity for the trichohyalin antibody. This further suggests that the IRS in monotremes is ill-defined, as the companion layer of placental hairs studied so far does not express trichohyalin. A cross-reactivity with an antibody against sheep trichohyalin is present in the IRS of monotremes, suggesting conserved epitopes across mammalian trichohyalin. Trichohyalin granules in the IRS consist of a framework of immunolabeled coarse filaments of 10-12 nm. The latter assume a parallel orientation and lose the immunoreactivity in fully cornified cells. Transglutaminase immunolabeling is diffuse among trichohyalin granules and among the parallel 10-12 nm filaments of maturing inner root cells. Transglutaminase is present where its substrate, trichohyalin, is modified as matrix protein. Cornification of IRS is different from that of hair fiber cuticle and from that of the cornified layer of the epidermis above the follicle. The different consistency among cuticle, IRS, and corneous layer of the epidermis determines separation between hair fiber, IRS, and epidermis. This allows the hair to exit on the epidermal surface after shedding from the IRS and epidermis. Based on comparative studies of reptilian and mammalian skin, a speculative hypothesis on the evolution of the IRS and hairs from the skin of synapsid reptiles is presented.
Unique features revealed by the genome sequence of Acinetobacter sp. ADP1, a versatile and naturally transformation competent bacterium (2004)

Acinetobacter sp. strain ADP1 is a nutritionally versatile soil bacterium closely related to representatives of the well-characterized Pseudomonas aeruginosa and Pseudomonas putida. Unlike these bacteria, the Acinetobacter ADP1 is highly competent for natural transformation which affords extraordinary convenience for genetic manipulation. The circular chromosome of the Acinetobacter ADP1, presented here, encodes 3325 predicted coding sequences, of which 60% have been classified based on sequence similarity to other documented proteins. The close evolutionary proximity of Acinetobacter and Pseudomonas species, as judged by the sequences of their 16S RNA genes and by the highest level of bidirectional best hits, contrasts with the extensive divergence in the GC content of their DNA (40 versus 62%). The chromosomes also differ significantly in size, with the Acinetobacter ADP1 chromosome <60% of the length of the Pseudomonas counterparts. Genome analysis of the Acinetobacter ADP1 revealed genes for metabolic pathways involved in utilization of a large variety of compounds. Almost all of these genes, with orthologs that are scattered in other species, are located in five major 'islands of catabolic diversity', now an apparent 'archipelago of catabolic diversity', within one-quarter of the overall genome. Acinetobacter ADP1 displays many features of other aerobic soil bacteria with metabolism oriented toward the degradation of organic compounds found in their natural habitat. A distinguishing feature of this genome is the absence of a gene corresponding to pyruvate kinase, the enzyme that generally catalyzes the terminal step in conversion of carbohydrates to pyruvate for respiration by the citric acid cycle. This finding supports the view that the cycle itself is centrally geared to the catabolic capabilities of this exceptionally versatile organism.
Segmentation of point clouds using smoothness constraints (2006)

For automatic processing of point clouds their segmentation is one of the most important processes. The methods based on curvature and other higher level derivatives often lead to over segmentation, which later needs a lot of manual editing. We present a method for segmentation of point clouds using smoothness constraint, which finds smoothly connected areas in point clouds. It uses only local surface normals and point connectivity which can be enforced using either k-nearest or fixed distance neighbours. The presented method requires a small number of intuitive parameters, which provide a tradeoff between underand over-segmentation. The application of the presented algorithm on industrial point clouds shows its effectiveness compared to curvature based approaches.