gebhart/patrepeval huggingface dataset:
Cloning of the gene encoding the delta subunit of the human T-cell receptor reveals its physical organization within the alpha-subunit locus and its involvement in chromosome translocations in T-cell malignancy. (1988)

By taking advantage of "chromosomal walking" techniques, we have obtained clones that encompass the T-cell receptor (TCR) delta-chain gene. We analyzed clones spanning the entire J alpha region extending 115 kilobases 5' of the TCR alpha-chain constant region and have shown that the TCR delta-chain gene is located over 80 kilobases 5' of C alpha. TCR delta-chain gene is rearranged in the gamma/delta-expressing T-cell line Peer and is deleted in alpha/beta-expressing T-cell lines. Sequence analysis of portions of this genomic region demonstrates its identity with previously described cDNA clones corresponding to the C delta and J delta segments. Furthermore, we have analyzed a t(8;14)-(q24;q11) chromosome translocation from a T-cell leukemia and have shown that the J delta segment is rearranged in cells deriving from this tumor and probably directly involved in the translocation. Thus, the newly cloned TCR delta chain is implicated in the genesis of chromosome translocations in T-cell malignancies carrying cytogenetic abnormalities of band 14q11.
Carboxyl-mediated Pictet-Spengler reaction. Improved synthesis of 2,3,5,6,11,11b-hexahydro-3-oxo-1H-indolizino[8,7-b]indoles from tryptamine-2-carboxylic acids (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCarboxyl-mediated Pictet-Spengler reaction. Improved synthesis of 2,3,5,6,11,11b-hexahydro-3-oxo-1H-indolizino[8,7-b]indoles from tryptamine-2-carboxylic acidsKrishnaswamy Narayanan and James M. CookCite this: J. Org. Chem. 1991, 56, 19, 5733–5736Publication Date (Print):September 1, 1991Publication History Published online1 May 2002Published inissue 1 September 1991https://pubs.acs.org/doi/10.1021/jo00019a056https://doi.org/10.1021/jo00019a056research-articleACS PublicationsRequest reuse permissionsArticle Views295Altmetric-Citations11LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Characterization of Inhibitor-Resistant Histone Deacetylase Activity in Plant-Pathogenic Fungi (2002)

HC-toxin, a cyclic peptide made by the filamentous fungus Cochliobolus carbonum, is an inhibitor of histone deacetylase (HDAC) from many organisms. It was shown earlier that the HDAC activity in crude extracts of C. carbonum is relatively insensitive to HC-toxin as well as to the chemically unrelated HDAC inhibitors trichostatin and D85, whereas the HDAC activity of Aspergillus nidulans is sensitive (G. Brosch et al., Biochemistry 40:12855-12863, 2001). Here we report that HC-toxin-resistant HDAC activity was present in other, but not all, plant-pathogenic Cochliobolus species but not in any of the saprophytic species tested. The HDAC activities of the fungi Alternaria brassicicola and Diheterospora chlamydosporia, which also make HDAC inhibitors, were resistant. The HDAC activities of all C. carbonum isolates tested, except one non-toxin-producing isolate, were resistant. In a cross between a sensitive isolate and a resistant isolate, resistance genetically cosegregated with HC-toxin production. When fractionated by anion-exchange chromatography, extracts of resistant and sensitive isolates and species had two peaks of HDAC activity, one that was fully HC-toxin resistant and a second that was larger and sensitive. The first peak was consistently smaller in extracts of sensitive fungi than in resistant fungi, but the difference appeared to be insufficiently large to explain the differential sensitivities of the crude extracts. Differences in mRNA expression levels of the four known HDAC genes of C. carbonum did not account for the observed differences in HDAC activity profiles. When mixed together, resistant extracts protected extracts of sensitive C. carbonum but did not protect other sensitive Cochlibolus species or Neurospora crassa. Production of this extrinsic protection factor was dependent on TOXE, the transcription factor that regulates the HC-toxin biosynthetic genes. The results suggest that C. carbonum has multiple mechanisms of self-protection against HC-toxin.
Affinity of Endothelial Cells to a Polyurethane Vascular Graft: A Preliminary Animal Study (2009)

Purpose: Autologous vessels remain the gold standard for vascular grafts in microanastomoses. However, they are sometimes unavailable and have a limited long-term patency. Synthetic vessels have high success rates in large-diameter reconstructions but failed when used as small-diameter grafts due to graft occlusion. It has been proven that endothelial cell seeding improves prosthesis performance and long-term patency. Among polyurethane, PET and ePTFE, polyurethane has the best affinity to endothelial cells and mechanical properties closest to human vessels. We examined the ability of endothelial cells to attach to a polyurethane graft manufactured by the electrospinning method. Methods: Endothelial cells, which were cultured from porcine internal jugular veins, were attached to polyurethane grafts with an internal diameter of 3mm. The same cells were attached to allogeneic decellularized porcine internal carotid artery grafts as controls. Both of the 10mm-long grafts were exposed to endothelial cells in a well for 1 hour. Each well contained 2 endothelial cells. The graft materials were rotated through 90 degrees every 15 minutes in order to minimize the effect of gravity. The extent of cell attachment was examined with the MTT assay. Results: The MTT assay showed good incorporation of endothelial cells into both grafts. For the evaluation of affinity, the number of attached cells was counted at 10 fields of microscopic examination with40 magnification. Endothelial cells adhered more to polyurethane grafts (mean, 127.46.2 cells) compared to porcine artery grafts (mean 45.85.1 cells)(p
Defect chemistry of polyfluorenes: identification of the origin of “interface defects” in polyfluorene based light-emitting devices (2008)

Deprotonation of hydroxy terminated polyfluorenes results in a greenish emission also providing a rational explanation for so called "interface defects" in polymeric light-emitting devices (PLEDs).
A six-month prospective, randomised, double-blinded, placebo-controlled, crossover, dietary trial design to investigate the potential of psychobiotics on seizure semiology and comorbidities in canine epilepsy: study protocol (2023)

The current study considers modern high-quality standards for epilepsy medication trials. Common biasing effects should be limited to a possible minimum (regression-to-the mean effect, placebo effect, observer effect), ensuring a high validity and accuracy of the acquired results, thus enabling a representative nature of the efficacy of Bifidobacterium longum as add-on supplement for dogs suffering from epilepsy and its comorbidities. This publication should provide a description of the study procedure and data acquisition methods, including prognosed statistical analysis.
Using F<inf>0</inf> to constrain the unit selection Viterbi network (2011)

The goal of the work described here is to limit the computation needed in unit selection Viterbi search for text-to-speech synthesis. The broader goal is to improve speech quality through the practical use of significantly larger databases. We focus in this paper on trying to reduce the number of concatenation cost calculations. By making certain weak assumptions about f <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0</sub> distributions we estimate that only a fraction of possible concatenations are relevant. A method for selecting the relevant concatenations by imposing an ordering constraint on candidate units is proposed. The ordering is based on unit f <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">0</sub> value(s). Strengths and weaknesses of this approach are discussed and data is presented about calculation complexity compared with naive Viterbi search. A listening test was conducted to investigate the effect on synthesis quality under various configurations of algorithm and database.
Neutrophil extracellular trap‐microparticle complexes trigger neutrophil recruitment via high‐mobility group protein 1 (HMGB1)‐toll‐like receptors(TLR2)/TLR4 signalling (2019)

These data show that NET-MP complexes are potent inducers of neutrophil recruitment, which is dependent on HMGB1 expressed on MPs and mediated via TLR2 and TLR4. Blocking MP binding to NETs or downstream inhibition of the HMGB1-TLR2/TLR4 axis might provide useful targets to attenuating NET-dependent tissue damage in acute inflammation.
Reconstitution of a chemical defense signaling pathway in a heterologous system (2008)

Chemical signaling plays an important role in ecological interactions, such as communication and predator-prey dynamics. Since sessile species cannot physically escape predators, many contain compounds that deter predation; however, it is largely unknown how predators physiologically detect deterrent chemicals. Few studies have investigated ecologically relevant aversive taste responses in any predator. Our objective was to determine if a signaling pathway for detecting marine sponge-derived deterrent compounds could be reconstituted in a heterologous expression system to ultimately facilitate investigation of the molecular mechanism of such an aversive behavioral response. Zebrafish (Danio rerio) rejected artificial diets laced with sponge chemical defense compounds that were previously shown to deter a generalist marine predator, Thalassoma bifasciatum, suggesting that zebrafish can recognize deterrent compounds relevant to coral reef systems. Transcripts made from a zebrafish cDNA library were expressed in a heterologous system, Xenopus laevis oocytes, and tested for chemoreceptor activation via electrophysiology, using the cystic fibrosis transmembrane conductance regulator (CFTR) as a reporter. Oocytes expressing gene sequences from the library and CFTR exhibited a CFTR-like electrophysiological response to formoside and ectyoplasides A and B, sponge defense compounds. Therefore, the chemical defense-activated signaling pathway can be reconstituted in Xenopus oocytes. Kinetics of the responses suggested that the responses to formoside and ectyoplasides A and B were receptor-mediated and capable of using the G(alphas) signaling pathway in this system. This bioassay has the potential to lead to the identification of genes that encode receptors capable of interacting with deterrent chemicals, which would enable understanding of predator detection of chemical defenses.
Lymphomatoid Granulomatosis (1982)

Fifteen patients with lymphomatoid granulomatosis were studied prospectively over a 10-year period. Thirteen of the patients received the therapeutic protocol of cyclophosphamide (2 mg per kilogram of body weight per day) and prednisone (1 mg per kilogram on alternate days). Previous reports had indicated that mortality from lymphomatoid granulomatosis was as high as 90 per cent. Of the 13 patients who received the cyclophosphamide and prednisone protocol, seven had complete remissions lasting for 5.2 +/- 0.6 years (mean +/- S.E.M.) Six of the seven with disease in remission have received no therapy for 28.3 +/- 5.7 months. Malignant lymphomas developed in seven of the eight who died, and only two of the eight had therapy for an adequate period. Since virtually all patients who did not have complete remission went on to have malignant lymphoma, early recognition and prompt treatment during the lymphomatoid-granulomatosis phase of disease may not only lead to complete remissions but also percent the development of a lymphoid neoplasm.
Fundamentals of Wireless Information and Power Transfer: From RF Energy\n Harvester Models to Signal and System Designs (2018)

Radio waves carry both energy and information simultaneously. Nevertheless,\nRadio-Frequency (RF) transmission of these quantities have traditionally been\ntreated separately. Currently, we are experiencing a paradigm shift in wireless\nnetwork design, namely unifying wireless transmission of information and power\nso as to make the best use of the RF spectrum and radiations as well as the\nnetwork infrastructure for the dual purpose of communicating and energizing. In\nthis paper, we review and discuss recent progress on laying the foundations of\nthe envisioned dual purpose networks by establishing a signal theory and design\nfor Wireless Information and Power Transmission (WIPT) and identifying the\nfundamental tradeoff between conveying information and power wirelessly. We\nstart with an overview of WIPT challenges and technologies, namely Simultaneous\nWireless Information and Power Transfer (SWIPT),Wirelessly Powered\nCommunication Network (WPCN), and Wirelessly Powered Backscatter Communication\n(WPBC). We then characterize energy harvesters and show how WIPT signal and\nsystem designs crucially revolve around the underlying energy harvester model.\nTo that end, we highlight three different energy harvester models, namely one\nlinear model and two nonlinear models, and show how WIPT designs differ for\neach of them in single-user and multi-user deployments. Topics discussed\ninclude rate-energy region characterization, transmitter and receiver\narchitecture, waveform design, modulation, beamforming and input distribution\noptimizations, resource allocation, and RF spectrum use. We discuss and check\nthe validity of the different energy harvester models and the resulting signal\ntheory and design based on circuit simulations, prototyping and\nexperimentation. We also point out numerous directions that are promising for\nfuture research.\n
Effect of proteasome inhibitor 1 on wound healing: a potential scar prevention therapy. (2013)

Results suggest dimethyl sulfoxide was not the ideal vehicle and additional improvement may be realized by optimizing the delivery method.
Supplemental figure S1A, S1B, S2A, S2B, S3 from Altered Expression and Splicing of <i>ESRP1</i> in Malignant Melanoma Correlates with Epithelial–Mesenchymal Status and Tumor-Associated Immune Cytolytic Activity (2023)

&lt;p&gt;Figure S1, The truncated ESRP1 is only detected in melanoma but not other tumor types. Figure S2, Estimation of keratinocyte contamination using KRT2 and LOR expression. Figure S3, Conservation of E-box motif in intron 12 of ESRP1 among mammals.&lt;/p&gt;
Doubly Robust Ecological Inference (2008)

The ecological inference problem is a famous longstanding puzzle that arises in many disciplines. The usual formulation in epidemiology is that we would like to quantify an exposure-disease association by obtaining disease rates among the exposed and unexposed, but only have access to exposure rates and disease rates for several regions. The problem is generally intractable, but can be attacked under the assumptions of King's (1997) extended technique if we can correctly specify a model for a certain conditional distribution. We introduce a procedure that it is a valid approach if either this original model is correct or if we can pose a correct model for a different conditional distribution. The new method is illustrated on data concerning risk factors for diabetes.
Interaction of the PA2G4 (EBP1) protein with ErbB-3 and regulation of this binding by heregulin (2000)

The processes by which ErbB-3, an inactive tyrosine kinase, exerts its biological effects are poorly understood. Using the yeast two-hybrid system, we have isolated an ErbB-3 binding protein (Ebp1) that interacts with the juxtamembrane domain of ErbB-3. This protein is identical to that predicted to be encoded for by the human PA2G4 gene. Ebp1 is the human homologue of a previously identified cell cycle-regulated mouse protein p38-2G4. Two transcripts of ebp1 mRNA (1.7 and 2.2 kb) were detected in several normal human organs. The interaction of Ebp1 with ErbB-3 was examined in vitro and in vivo. The first 15 amino acids of the juxtamembrane domain of ErbB-3 were essential for Ebp1 binding in vitro. Treatment of AU565 cells with the ErbB-3 ligand heregulin resulted in dissociation of Ebp1 from ErbB-3. Ebp1 translocated from the cytoplasm into the nucleus following heregulin stimulation. These findings suggest that Ebp1 may be a downstream member of an ErbB-3-regulated signal transduction pathway.
Luminescent conjugates between dinuclear rhenium(i) complexes and peptide nucleic acids (PNA) for cell imaging and DNA targeting (2010)

New luminescent dinuclear rhenium(I) tricarbonyl complex-PNA conjugates have been synthesized through a reliable solid-phase synthetic methodology. Their photophysical properties have been measured. The most luminescent Re-PNA conjugate 7 showed interesting two-photon absorption (TPA) properties, that were exploited for imaging experiments, to demonstrate its easy uptake into living cells.
Initial studies of a long-pulse relativistic backward-wave oscillator utilizing a disk cathode (2002)

One of the major issues in high-power microwave device operation is pulse shortening, which often limits microwave pulses to less than 100 ns. This has been the focus of many studies on the long-pulse backward-wave oscillator (BWO) at the University of New Mexico. Previous diagnostics have indicated that significant plasma is produced by a graphite knife-edge or "cookie cutter" geometry cathode. This plasma caused the beam to expand radially to match the dimensions of the cutoff neck upon entrance into the slow-wave structure. This effect led to an impedance collapse at which point the microwave production ceased. In recent studies by Loza and colleagues, they have produced intense annular relativistic electron beams that maintain a stable cross section for 1-/spl mu/s duration utilizing a disk cathode. Whereas the beams produced by Loza and colleagues were not used in microwave sources, we have incorporated such a disk cathode in a long-pulse relativistic BWO to study its effort on pulse shortening. This simple solution has led to an increase in pulselength and radiated microwave power up to a factor of two as compared to the "cookie cutter" cathode.
Interactions between Phytophthora infestans and Solanum (2008)

This chapter contains sections titled: Introduction Pathogenicity of P. infestans Plant Resistance to P. infestans P. infestans Proteins Required for Successful Infection Genomics Resources Future Prospects Acknowledgments References
Optimization Strategies for Responsivity Control of Microgel Assisted Lab-On-Fiber Optrodes (2018)

Integrating multi-responsive polymers such as microgels onto optical fiber tips, in a controlled fashion, enables unprecedented functionalities to Lab-on-fiber optrodes. The creation of a uniform microgel monolayer with a specific coverage factor is crucial for enhancing the probes responsivity to a pre-defined target parameter. Here we report a reliable fabrication strategy, based on the dip coating technique, for the controlled realization of microgel monolayer onto unconventional substrates, such as the optical fiber tip. The latter was previously covered by a plasmonic nanostructure to make it sensitive to superficial environment changes. Microgels have been prepared using specific Poly(<i>N</i>-isopropylacrylamide)-based monomers that enable bulky size changes in response to both temperature and pH variations. The formation of the microgel monolayer is efficiently controlled through the selection of suitable operating pH, temperature and concentration of particle dispersions used during the dipping procedure. The effect of each parameter has been evaluated, and the validity of our procedure is confirmed by means of both morphological and optical characterizations. We demonstrate that when the coverage factor exceeds 90%, the probe responsivity to microgels swelling/collapsing is significantly improved. Our study opens new paradigms for the development of engineered microgels assisted Lab-on-Fiber probes for biochemical applications.
The intelligent control for permanent magnet linear synchronous motor based on adaptive fuzzy direct torque control (2011)

In order to solve the torque ripple, a novel direct torque control (DTC) scheme for permanent magnet linear synchronous machine (PMLSM) based on adaptive fuzzy control is proposed in this paper. The proposed control method uses the long stator flux amplitude and the electromagnetic torque errors through an adaptive fuzzy inference system to act on both the amplitude and the angle of the desired reference voltage. Experiment results by using adaptive fuzzy control show that the flux and torque ripples are greatly reduced when compared with those of the conventional direct torque control (DTC), while the quick dynamic torque response of the basic DTC is still retained.
Enhanced intrinsic bioremediation of hydrocarbons using an oxygen‐releasing compound (1996)

Abstract An “oxygen barrier” was formed by depositing an oxygen‐releasing compound in a series of wells that were placed perpendicular to the direction of groundwater flow at a site in Belen, New Mexico. The objective was to enhance the intrinsic bioremediation of dissolved phase BTEX contamination in the aquifer and to quantify the results. The oxygen was supplied by a controlled release formulation of magnesium peroxide called Oxygen Release Compound (ORC®), a virtually insoluble powder that is packaged in polyester filter socks. The areal distributions of the initial concentrations of dissolved oxygen and BTEX were measured and compared to the concentration changes at various times in the first 93 days of system operation. The concomitant reduction in BTEX can be seen in a series of contour plots. In 93 days, dissolved oxygen had dispersed at least 20‐feet downgradient from the ORC source wells based on the pattern of decreasing BTEX concentrations.