gebhart/patrepeval huggingface dataset:
Anomalous RNA substrates for mammalian tRNA 3′ processing endoribonuclease (2000)

Mammalian tRNA 3' processing endoribonuclease (3' tRNase) is an enzyme responsible for the removal of a 3' trailer from pre-tRNA. The enzyme can also recognize and cleave any target RNA that forms a pre-tRNA-like complex with another RNA. To investigate the interaction between 3' tRNase and substrates, we tested various anomalous pre-tRNA-like complexes for cleavage by pig 3' tRNase. We examined how base mismatches in the acceptor stem affect 3' tRNase cleavage of RNA complexes, and found that even one base mismatch in the acceptor stem drastically reduces the cleavage efficiency. Mammalian 3' tRNase was able to recognize complexes between target RNAs and 5'-half tDNAs, and cleave the target RNAs, although inefficiently, whereas the enzyme had no activity to cleave phosphodiester bonds of DNA. A relatively long RNA target, the Escherichia coli chloramphenicol acetyltransferase (CAT) mRNA, was cleaved by 3' tRNase in the presence of appropriate 5'-half tRNAs. We also demonstrated that an RNA complex of lin-4 and lin-14 from Caenorhabditis elegans can be recognized and cleaved by pig 3' tRNase.
Programas para crianças e adolescentes em situação de risco: a complexidade do objeto e a dimensão institucional (1999)

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Effects of tamoxifen and imatinib on the radiosensitivity of breast carcinoma cells (2008)

14639 Background: Radiotherapy is commonly used in different stages of breast cancer. It is able to effect intracellular signal transduction leading to inhibition of cell proliferation. Impact of targeted agents on radiosensitivity is partially unknown. The selective estrogen receptor modulator Tamoxifen was the first targeted drug available to treat hormone receptor positive breast cancer. Tyrosine kinase inhibitors are a new family of targeted drugs for cancer treatment. One of them is Imatinib mesylate, a selective inhibitor of bcr-abl, PRGFR α and β and c-kit. First developed to cure chronic myeloid leukaemia it has now shown its anti-proliferative effects in a range of solid cancers. This study evaluates whether Tamoxifen or Imatinib have an influence on radiosensitivity in breast cancer cell lines. Methods: Colony-forming tests of MCF 7 (hormone-receptor positive) and MDA MB 231 (negative) were used to study differences in cell proliferation under incubation with Tamoxifen, Imatinib and radiation. Changes in expression and phosphorylation of target receptors were detected using western blot. Results: Tamoxifen sensitizes hormone receptor positive MCF 7 cells for irradiation while MDA MB 231 cells show no significant difference in cell growth. An increase of EGF-receptor expression could be detected in both cell lines. Estrogen-receptor α expression decreased in MCF-7. Independent of hormone receptor status, the combination of Imatinib and radiotherapy showed a significantly enhanced inhibition of cell proliferation in both cell lines compared to radiotherapy alone. Differences in PDGFR expression could not be detected but receptor phosphorylation was significantly inhibited when treated with Imatinib. Conclusions: Tamoxifen enhances anti- proliferative effects on hormone receptor positive cells caused by radiotherapy due to changes in EGFR and estrogen-receptor expression. Imatinib treatment combined with radiotherapy leads in both cell lines to a significant benefit which might be influenced through inhibition of PDGFR phosphorylation. Imatinib could function as a radio sensitizer in breast cancer patients undergoing radiotherapy. Further in vivo studies are needed to evaluate the benefit of Imatinib in combination with radiotherapy in the clinical setting. Author Disclosure Employment or Leadership Consultant or Advisory Role Stock Ownership Honoraria Research Expert Testimony Other Remuneration Novartis
Reviews (1995)

Fractals in Geography, edited by Nina Siu-Ngan Lam and Lee De Cola, ISBN 0- 13- 105867–3. Prentice-Hall, Englewood Cliffs, NJ, 1993. 308 p. Optical Mineralogy - Principles and Practice, C.D. Gribble and A.J. Hall, ISBN O-4 12–0408 l-6. Chapman and Hall, New York, 1992. 303 p, $109.95 (cloth), $46.95 (paper). Gravity Field and Dynamics of the Earth, Milan Bursa and Karel Pec, ISBN O-387–568 17–4. Springer Verlag, Berlin, New York, 1993. 333 p, $136. Crystal Identification with the Polarizing Microscope, R.E. Stoiber and S.A. Morse, ISBN o-412–04821–3. Chapman and Hall, New York, 1994. 288 p, $79.95. The Mass-extinction Debates: How Science Works in a Crisis, Edited by William Glen, ISBN 0–8047–2285–4. Stanford University Press, Stanford, CA, 1994. 370 p, $17.95.
Study of preparation techniques for a practical microbridge dc-SQUID structure fabricated from Nb&lt;inf&gt;3&lt;/inf&gt;Ge (1985)

Tests with a small area Nb <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</inf> Ge dc-SQUID structure revealed promising results: a wide operating temperature range extending up to 20.2 K was achieved with a best modulation depth of 15%. Here we describe development steps towards a more practical device: enlargement of the flux sensitive area and integration of a Nb <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</inf> Ge coupling coil For this purpose a Nb <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</inf> Ge multilayer technique was developed using SiO <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</inf> insulating layers. To optimize the behavior of the very small microbridges the influence of reactive ion etching parameters on the decrease of T <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">c</inf> during the preparation was studied.
Bone Marrow-Derived Mesenchymal Stromal Cells are Attracted by Multiple Myeloma Cell-Produced Chemokine CCL25 and Favor Myeloma Cell Growth in Vitro and In Vivo (2011)

Multiple myeloma (MM) is a malignancy of terminally differentiated plasma cells that are predominantly localized in the bone marrow (BM). Mesenchymal stromal cells (MSCs) give rise to most BM stromal cells that interact with MM cells. However, the direct involvement of MSCs in the pathophysiology of MM has not been well addressed. In this study, in vitro and in vivo migration assays revealed that MSCs have tropism toward MM cells, and CCL25 was identified as a major MM cell-produced chemoattractant for MSCs. By coculture experiments, we found that MSCs favor the proliferation of stroma-dependent MM cells through soluble factors and cell to cell contact, which was confirmed by intrafemoral coengraftment experiments. We also demonstrated that MSCs protected MM cells against spontaneous and Bortezomib-induced apoptosis. The tumor-promoting effect of MSCs correlated with their capacity to enhance AKT and ERK activities in MM cells, accompanied with increased expression of CyclinD2, CDK4, and Bcl-XL and decreased cleaved caspase-3 and poly(ADP-ribose) polymerase expression. In turn, MM cells upregulated interleukin-6 (IL-6), IL-10, insulin growth factor-1, vascular endothelial growth factor, and dickkopf homolog 1 expression in MSCs. Finally, infusion of in vitro-expanded murine MSCs in 5T33MM mice resulted in a significantly shorter survival. MSC infusion is a promising way to support hematopoietic recovery and to control graft versus host disease in patients after allogeneic hematopoietic stem cell transplantation. However, our data suggest that MSC-based cytotherapy has a potential risk for MM disease progression or relapse and should be considered with caution in MM patients.
Microarray Analysis of Global Gene Expression in Mucoid <i>Pseudomonas aeruginosa</i> (2003)

Pseudomonas aeruginosa is the dominant pathogen causing chronic respiratory infections in cystic fibrosis (CF). After an initial phase characterized by intermittent infections, a chronic colonization is established in CF upon the conversion of P. aeruginosa to the mucoid, exopolysaccharide alginate-overproducing phenotype. The emergence of mucoid P. aeruginosa in CF is associated with respiratory decline and poor prognosis. The switch to mucoidy in most CF isolates is caused by mutations in the mucA gene encoding an anti-sigma factor. The mutations in mucA result in the activation of the alternative sigma factor AlgU, the P. aeruginosa ortholog of Escherichia coli extreme stress sigma factor sigma(E). Because of the global nature of the regulators of mucoidy, we have hypothesized that other genes, in addition to those specific for alginate production, must be induced upon conversion to mucoidy, and their production may contribute to the pathogenesis in CF. Here we applied microarray analysis to identify on the whole-genome scale those genes that are coinduced with the AlgU sigmulon upon conversion to mucoidy. Gene expression profiles of AlgU-dependent conversion to mucoidy revealed coinduction of a specific subset of known virulence determinants (the major protease elastase gene, alkaline metalloproteinase gene aprA, and the protease secretion factor genes aprE and aprF) or toxic factors (cyanide synthase) that may have implications for disease in CF. Analysis of promoter regions of the most highly induced genes (>40-fold, P < or = 10(-4)) revealed a previously unrecognized, putative AlgU promoter upstream of the osmotically inducible gene osmE. This newly identified AlgU-dependent promoter of osmE was confirmed by mapping the mRNA 5' end by primer extension. The recognition of genes induced in mucoid P. aeruginosa, other than those associated with alginate biosynthesis, reported here revealed the identity of previously unappreciated factors potentially contributing to the morbidity and mortality caused by mucoid P. aeruginosa in CF.
Efficient large-area polymer solar cells on flexible substrates (2004)

Polymer solar cells based on poly[2-methoxy-5-(3′,7′-dimethyloctyloxy)-1,4-phenylene vinylene]:[6,6]-phenyl-C61-butyric acid methyl ester (1:3wt%) were fabricated using flexible 5×5cm2 polyester foils. These cells show a white-light power conversion efficiency of 3% comparable to smaller cells on glass published by other authors. Ten cells were arranged on one substrate with an active area of 25 and 175mm2 demonstrating a remarkably high reproducibility. It was found that the open-circuit voltage does not depend on the device area. An increase of the cell area caused a slightly lower short-circuit current, lower fill factor, and lower white-light power conversion efficiency.
Preoperative transcatheter arterial embolization of hypervascular metastatic tumors of long bones (2010)

Preoperative TAE is technically successful and clinically effective to minimize intraoperative and postoperative bleeding in patients with hypervascular metastasis to long bones.
Development of minimally invasive medical tools using laser processing on cylindrical substrates (2011)

Abstract This paper reports micro‐fabrication techniques using laser processing on cylindrical substrates for the realization of high‐performance multifunctional minimally invasive medical tools of small size. A spring‐shaped shape memory alloy (SMA) micro‐coil with a square cross‐section has been fabricated by spiral cutting of a Ti‐Ni SMA tube with a femtosecond laser. A small‐diameter active bending catheter actuated by a hydraulic suction mechanism for intravascular minimally invasive diagnostics and therapy has also been developed. The catheter is made of Ti‐Ni superelastic alloy (SEA), which is processed by laser micromachining, and a silicone rubber tube that covers the outside of the SEA tube. The active catheter is effective for insertion into branches of blood vessels that diverge at acute angles where it is difficult to proceed. Multilayer metallization and patterning have been performed on glass tubes with 2‐ and 3‐mm external diameters using maskless lithography techniques with a laser exposure system. Using the laser soldering technique, integrated circuit parts have been mounted on a multilayer circuit patterned on a glass tube. These fabrication techniques will be effective for the realization of high‐performance multifunctional catheters, endoscopic tools, and implanted small capsules. © 2011 Wiley Periodicals, Inc. Electr Eng Jpn, 176(1): 65–74, 2011; Published online in Wiley Online Library ( wileyonlinelibrary.com ). DOI 10.1002/eej.21030
Identification of a Human Papillomavirus Type 16-Specific Epitope on the C-Terminal Arm of the Major Capsid Protein L1 (2003)

To characterize epitopes on human papillomavirus (HPV) virus-like particles (VLPs), a panel of mutated HPV-16 VLPs was created. Each mutated VLP had residues substituted from HPV-31 or HPV-52 L1 sequences to the HPV-16 L1 backbone. Mutations were created on the HPV-31 and -52 L1 proteins to determine if HPV-16 type-specific recognition could be transferred. Correct folding of the mutated proteins was verified by resistance to trypsin digestion and by binding to one or more conformation-dependent monoclonal antibodies. Several of the antibodies tested were found to bind to regions already identified as being important for HPV VLP recognition (loops DE, EF, FG, and HI). Sequences at both ends of the long FG loop (amino acids 260 to 290) were required for both H16.V5 and H16.E70 reactivity. A new antibody-binding site was discovered on the C-terminal arm of L1 between positions 427 and 445. Recognition of these residues by the H16.U4 antibody suggests that this region is surface exposed and supports a recently proposed molecular model of HPV VLPs.
Model-order selection (2004)

The parametric (or model-based) methods of signal processing often require not only the estimation of a vector of real-valued parameters but also the selection of one or several integer-valued parameters that are equally important for the specification of a data model. Examples of these integer-valued parameters of the model include the orders of an autoregressive moving average model, the number of sinusoidal components in a sinusoids-in-noise signal, and the number of source signals impinging on a sensor array. In each of these cases, the integer-valued parameters determine the dimension of the parameter vector of the data model, and they must be estimated from the data.
Strategy for building initial trust in B2C electronic commerce (2010)

this paper analysis the trust building issues and trust information presence which Internet stores provide in order to increase consumer initial trust belief. Based on models of trust from academic literature, the paper develops a research framework that identifies key trust-related factors and organizes them into three categories: self assurance, easy of use and useful of website, and third party information. The framework is applied to six well-known web sites to demonstrate its applicability. The proposed framework will benefit both practitioners and researchers by identifying important issues regarding trust, which need to be accounted for in Internet stores.
Effects of Wnt Signaling on Brown Adipocyte Differentiation and Metabolism Mediated by PGC-1α (2005)

Activation of canonical Wnt signaling inhibits brown adipogenesis of cultured cells by impeding induction of PPARgamma and C/EBPalpha. Although enforced expression of these adipogenic transcription factors restores lipid accumulation and expression of FABP4 in Wnt-expressing cells, additional expression of PGC-1alpha is required for activation of uncoupling protein 1 (UCP1). Wnt10b blocks brown adipose tissue development and expression of UCP1 when expressed from the fatty acid binding protein 4 promoter, even when mice are administered a beta3-agonist. In differentiated brown adipocytes, activation of Wnt signaling suppresses expression of UCP1 through repression of PGC-1alpha. Consistent with these in vitro observations, UCP1-Wnt10b transgenic mice, which express Wnt10b in interscapular tissue, lack functional brown adipose tissue. While interscapular tissue of UCP1-Wnt10b mice lacks expression of PGC-1alpha and UCP1, the presence of unilocular lipid droplets and expression of white adipocyte genes suggest conversion of brown adipose tissue to white. Reciprocal expression of Wnt10b with UCP1 and PGC-1alpha in interscapular tissue from cold-challenged or genetically obese mice provides further evidence for regulation of brown adipocyte metabolism by Wnt signaling. Taken together, these data suggest that activation of canonical Wnt signaling early in differentiation blocks brown adipogenesis, whereas activating Wnt signaling in mature brown adipocytes stimulates their conversion to white adipocytes.
High dynamic range tone mapping based on Per-Pixel Exposure Mapping (2013)

The needs of a realtime vision aid require that it functions immediately, not merely for production of a picture or video record to be viewed later. Therefore the vision system must offer a high dynamic range (often hundreds of millions to one) that functions in real time. In compliment with the existing efficient and real-time HDR compositing algorithms, we propose a novel method for compressing High Dynamic Range (HDR) images by Per-Pixel Exposure Mapping (PPEM). Unlike any existing methods, PPEM only varies exposure to achieve tone mapping. It takes advantage of the camera response to enable exposure synthesis which we call Wyckoff set expansion. The method evaluates the synthetic exposures in a recursive pairwise process to generate a tone mapped HDR image. The results can be approximated using a look-up table, which can be used for real-time HDR applications.
Actions of ZD0947, a novel ATP‐sensitive K<sup>+</sup>channel opener, on membrane currents in human detrusor myocytes (2006)

These results suggest that ZD0947 caused a glibenclamide-sensitive detrusor relaxation through activation of glibenclamide-sensitive KATP channels in human urinary bladder.
People re-identification across multiple non-overlapping cameras system by appearance classification and silhouette part segmentation (2011)

In this paper, we present a new person re-identification method based on appearance classification and silhouette part segmentation. In crowded areas, heads are considered as most apparent parts, hence the typical advantage of using the skeleton graph for the head detection and location of people after partial occlusion. The appearance classification consists in characterizing the appearance of a person into two classes, the frontal and the back appearance, using head detector and the orthogonal iteration algorithm for head pose estimation. The silhouette part segmentation divides the silhouette into three horizontal parts, ideally corresponding to head, torso and legs using skeleton graph and head detector. Our approach is robust to real world situations, in particular to variations in scales, human pose, illumination and clothes appearance changes. It also allows to reduce the confusion cases among people appearance and the amount of falsely matches.
[Significant improved anthocyanins biosynthesis in suspension cultures of Vitis vinifera by process intensification]. (2006)

The low-production is a ubiquitous problem and has prevented the commercialization of secondary metabolite production in plant cell culture. In order to examine the effective approaches to improvement of secondary metabolite production in plant cell culture, the investigation of anthocyanins accumulation in suspension cultures of Vitis vinifera, as a model system, had been initiated in our laboratory. In this present research, various elicitors and the precursor of phenylalanine were used in combination to enhance the anthocyanins production in suspension cultures of Vitis vinifera. And an integrated process with the combination of elicitation, precursor feeding and light irradiation was reported for rational bioprocess design. Among the combination treatment of phenylalanine feeding and several elicitors (methyl-beta-cyclodextrin, dextran T-40, methyl jasmonate, extracts of Aspergillus niger and Fusarium orthoceras), the combination with methyl jasmonate gave the highest anthocyanins production in suspension cultures of Vitis vinifera. When compared to the controls, the anthocyanins content (CV/g, FCW) and production (CV/L) increased by 2.7-fold and 3.4-fold, respectively. The optimum time for the addition of phenylalanine and methyl jasmonate was 4 days after inoculation. Two cell lines with different anthocyanins-producing capacity responded differently to the optimum combination treatment of 30 micromol/L phenylalanine feeding, 218 micromol/L methyl jasmonate elicitation and 3000 to approximately 4000 1x light illumination. The high-and low-anthocyanins-producing cell lines of VV05 and VV06 produced the maximum of 2975 and 4090 CV/L of anthocyanins that were 2.5- and 5.2-fold of the controls, respectively.
Valley pair qubits in double quantum dots of gapped graphene (2011)

The rise of graphene opens a new door to qubit implementation, as discussed in the recent proposal of valley pair qubits in double quantum dots of gapped graphene (Wu et al., arXiv: 1104.0443 [cond-mat.mes-hall]). The work here presents the comprehensive theory underlying the proposal. It discusses the interaction of electrons with external magnetic and electric fields in such structures. Specifically, it examines a strong, unique mechanism, i.e., the analogue of the 1st-order relativistic effect in gapped graphene. This mechanism is state mixing free and allows, together with the electrically tunable exchange coupling, a fast, all-electric manipulation of qubits via electric gates, in the time scale of ns. The work also looks into the issue of fault tolerance in a typical case, yielding at 10oK a long qubit coherence time (~O(ms)).
Neutral lipids facilitate transfer of bone morphogenetic proteins and other noncollagenous proteins (1997)

In the process of separation of bone morphogenetic proteins from bone matrix, lipids were found in unexpected amounts closely associated with noncollagenous proteins soluble in guanidine hydrochloride. Lipids representing 33.7-49.9% by weight were recovered with various solvents. Composites of noncollagenous proteins and lipids soluble in either chloroform- methanol or acetone implanted in the hindquarter muscles of mice induced the formation of large deposits of heterotopic bone. The protein-lipid aggregates formed microspherules which were stained by Sudan Black B. Implants of bone morphogenetic proteins and noncollagenous proteins-lipid microspherules stained with Sudan Black B induced bone development in the same manner as unstained delipidized bone morphogenetic proteins associated with noncollagenous proteins. Lipid-free osteocalcein, osteonectin, albumin and other bone matrix proteins did not induce bone formation or bind Sudan Black B. The more highly purified the noncollagenous proteins, with or without activity of bone morphogenetic proteins, the lower the level of binding with Sudan Black B. Acetone-soluble bone matrix lipids consisted chiefly of triglycerides, cholesterol and saturated short chain fatty acids, and included little or no phospholipids or monounsaturated fatty acids. Composites of recombinant bone morphogenetic proteins-2 and acetone-soluble lipids induced larger deposits of bone than implants of recombinant bone morphogenetic proteins-2 without acetone-soluble lipids. The hypothesis that an association of bone lipids with protein facilitates the local transport of bone morphogenetic proteins warrants further investigation.