gebhart/patrepeval huggingface dataset:
Distributed priority queues on hypercube architectures (2002)

We efficiently map a priority queue on the hypercube architecture in a load balanced manner, with no additional communication overhead. Two implementations for insert and deletemin operations are proposed on the single-port hypercube model. In a b-bandwidth, n-item priority queue in which every node contains b items in sorted order, the first implementation achieves optimal speed-up of O[min{log n, b(log n)/(log b+log log n)}] for inserting b pre-sorted items or deleting b smallest items, where b=O(n/sup 1/c/) with c>1. In particular, single insertion and deletion operations are cost-optimal and require O(log n/p+log p) time using O(log n/log log n) processors. The second implementation is more scalable since it uses a larger number of processors, and attains a 'nearly' optimal speed-up on the single-port hypercube. The insertion of log n pre-sorted items or the deletion of log n smallest items requires O(log log n)/sup 2/ time and O(log/sup 2/ n/log log n) processors. However, on the slightly more powerful pipelined hypercube model, we are able to reduce the time complexity to O(log log n) thus attaining optimal speed-up. To the best of our knowledge, our algorithms provide the first implementations of b-bandwidth distributed priority queues, which are load balanced and yet guarantee optimal speed-up.
Expression of the Bric-a-Brac Tramtrack Broad Complex Protein NAC-1 in Cervical Carcinomas Seems to Correlate with Poorer Prognosis (2008)

Our findings suggest that NAC-1 may play an important role in cervical carcinomas; moreover, these findings provide a rationale for future development of NAC-1-based therapy for cervical carcinomas that overexpress this candidate oncogene.
Cloning IL-1 and the Birth of a New Era in Cytokine Biology (2007)

In December of 1984, the sequence of the cDNA encoding for the human precursor of IL-1 was reported in a seminal paper by Charles Dinarello’s group ([1][1]). This work is the subject of this month’s selected paper for Pillars of Immunology based on its significant impact on the field of cytokine
Angular Dependence of the Emission from a Conjugated Polymer Light‐Emitting Diode: Implications for efficiency calculations (1994)

The ability to compare electroluminescence efficiencies is important now that light‐emitting diodes (LEDs) have been constructed using many different polymers and different device structures. Various ways of defining and measuring the efficiency of polymer LEDs are discussed, revealing the need to understand the nature and orgin of the angular dependence of the emission. A model for the angular distribution of the emitted light is proposed and measurements of the ligh output of a polymer LED described whose results are consitent with the model.
Differential expression of CXCR3 and CCR6 on CD4+ T-lymphocytes with distinct memory phenotypes characterizes tuberculosis-associated immune reconstitution inflammatory syndrome (2019)

A correction to this article has been published and is linked from the HTML and PDF versions of this paper. The error has been fixed in the paper.
Mutagenesis and kinetic analysis of the active site Glu177 of ricin A-chain (1993)

Ricin A-chain (RTA) is an N-glycosidase which removes a specific adenine residue from the large rRNA of eukaryotic ribosomes. As a consequence, the ribosome is inactivated and protein synthesis is inhibited leading to cell death. This report describes the effects on enzyme activity of specific mutations of the conserved active site Glu177. The activity of mutant proteins was initially screened using an in vitro translation system. It was found that mutagenesis of Glu177 to Lys led to an apparent total inactivation of the enzyme, Glu177 to Ala had a small effect on activity, whereas the conservative Glu177 to Asp mutation had a significant effect. The properties of Glu177 to Asp were investigated more closely. Mutant protein was purified from an Escherichia coli expression system and kinetic analysis of the depurination activity assessed using salt-washed yeast ribosomes. It was shown that the Km of the mutant protein was unchanged when compared to data of wild type RTA; however, the kcat was significantly decreased (49-fold compared to wild type RTA). This suggests that Glu177 plays a predominant role in the rate-limiting step of the enzymatic mechanism and not in substrate binding. These data are discussed in relation to other reports of ricin Glu177 substitutions.
Targeting p21-activated kinase 1 (PAK1) to induce apoptosis of tumor cells (2011)

p21-activated kinases (PAKs) are serine/threonine protein kinases that serve as important mediators of Rac and Cdc42 GTPase function as well as pathways required for Ras-driven tumorigenesis. PAK1 has been implicated in signaling by growth factor receptors and morphogenetic processes that control cell polarity, invasion, and actin cytoskeleton organization. To better understand the role of PAK1 in tumorigenesis, PAK1 genomic copy number and expression were determined for a large panel of breast, lung, and head and neck tumors. PAK1 genomic amplification at 11q13 was prevalent in luminal breast cancer, and PAK1 protein expression was associated with lymph node metastasis. Breast cancer cells with PAK1 genomic amplification rapidly underwent apoptosis after inhibition of this kinase. Strong nuclear and cytoplasmic PAK1 expression was also prevalent in squamous nonsmall cell lung carcinomas (NSCLCs), and selective PAK1 inhibition was associated with delayed cell-cycle progression in vitro and in vivo. NSCLC cells were profiled using a library of pathway-targeted small-molecule inhibitors, and several synergistic combination therapies, including combination with antagonists of inhibitor of apoptosis proteins, were revealed for PAK1. Dual inhibition of PAK1 and X chromosome-linked inhibitor of apoptosis efficiently increased effector caspase activation and apoptosis of NSCLC cells. Together, our results provide evidence for dysregulation of PAK1 in breast and squamous NSCLCs and a role for PAK1 in cellular survival and proliferation in these indications.
Intra‐ischemic hypothermia cardioprotection involves modulation of PTEN/Akt/ERK signaling and fatty acid oxidation (2023)

Therapeutic hypothermia (TH) provides cardioprotection from ischemia/reperfusion (I/R) injury. However, it remains unknown how TH regulates metabolic recovery. We tested the hypothesis that TH modulates PTEN, Akt, and ERK1/2, and improves metabolic recovery through mitigation of fatty acid oxidation and taurine release. Left ventricular function was monitored continuously in isolated rat hearts subjected to 20 min of global, no-flow ischemia. Moderate cooling (30°C) was applied at the start of ischemia and hearts were rewarmed after 10 min of reperfusion. The effect of TH on protein phosphorylation and expression at 0 and 30 min of reperfusion was investigated by western blot analysis. Post-ischemic cardiac metabolism was investigated by <sup>13</sup> C-NMR. TH enhanced recovery of cardiac function, reduced taurine release, and enhanced PTEN phosphorylation and expression. Phosphorylation of Akt and ERK1/2 was increased at the end of ischemia but decreased at the end of reperfusion. On NMR analysis, TH-treated hearts displayed decreased fatty acid oxidation. Direct cardioprotection by moderate intra-ischemic TH is associated with decreased fatty acid oxidation, reduced taurine release, enhanced PTEN phosphorylation and expression, and enhanced activation of both Akt and ERK1/2 prior to reperfusion.
Occupational Exposures and Subclinical Interstitial Lung Disease. The MESA (Multi-Ethnic Study of Atherosclerosis) Air and Lung Studies (2017)

JEM-assigned and self-reported exposures to VGDF were associated with measurements of subclinical ILD in community-dwelling adults.
Dephasing of strongly coupled exciton-photon systems (1998)

The coherent dynamics of cavity-polaritons are investigated using the four-wave-mixing technique. A series of experiments on four samples operating in both the weak and strong coupling regimes were performed to study the influence of strong coupling on the interaction of cavity-polaritons with other cavity-polaritons, free carriers and acoustic phonons. Due to Rabi splitting a larger number of free carriers are created in the strong coupling sample compared with the weak coupling sample. This has a significant impact on the total scattering efficiency. The temperature dependence of the four-wave mixing yields evidence of suppression of acoustic phonon scattering compared to bare quantum well behaviour and is a result of the modified two dimensional dispersion.
Site-specific initiation of a DNA fragment. (1978)

The first step in the replication cycle of the single-stranded DNA phages is the conversion of the infecting positive strand circle to a duplex ring. This event involves the de novo initiation of a negative strand, using the infecting positive strand cycle as a template. The synthesis of the negative strand is in many respects analogous to the formation of a fragment during cellular DNA replication. In this paper we describe the initiation of the negative strand of bacteriophage G4. The data establish that, in vivo, the synthesis of the G4 negative strand is initiated at a specific site, which we have mapped on the 5400-base viral chromosome.
Emergence of the Epidemic Methicillin-Resistant Staphylococcus aureus Strain USA300 Coincides with Horizontal Transfer of the Arginine Catabolic Mobile Element and speG -mediated Adaptations for Survival on Skin (2013)

Over the past 15 years, methicillin-resistant Staphylococcus aureus (MRSA) has become a major public health problem. It is likely that adaptations in specific MRSA lineages (e.g., USA300) drove the spread of MRSA across the United States and allowed it to replace other, less-virulent S. aureus strains. We suggest that one major factor in the evolutionary success of MRSA may have been the acquisition of a gene (speG) that allows S. aureus to evade the toxicity of polyamines (e.g., spermidine and spermine) that are produced in human skin. Polyamine tolerance likely gave MRSA multiple fitness advantages, including the formation of more-robust biofilms, increased adherence to host tissues, and resistance to antibiotics and killing by human skin cells.
Abstract LB-B09: Application of Fluorescence Correlation Spectroscopy as a novel tool to quantify target occupancy in cells and tumor tissue (2018)

Abstract The quantification of Target Occupancy (TO) in cells after application of an inhibitor is an important parameter to correlate the biochemical features of a drug with its in vivo efficacy. Experimental evidence of TO is a robust support of the target hypothesis and helps to identify optimal dosing of the drug. The sensitive correlation spectroscopy methods (FCS and FCCS) have been used successfully in the past to analyze drug- target interactions. The technology is fast, specific and allows detection of drug target interactions in smallest sample volumes. Here we adopted the FCCS method to quantify the occupancy of the XPO1 target in cells and tumors treated with the Selective Inhibitor of Nuclear Export (SINE) compound Selinexor (KPT-330), currently in advanced clinical trials in patients with hematological and solid cancers. We used a fluorescently labeled tracer (Leptomycin B -Cy5; LMB-Cy5) to quantify the loading of XPO1 with Selinexor and confirmed target specificity of the signal using a fluorescent labeled antibody detecting native XPO1 protein. The amount of Antibody-XPO1-tracer complex was determined by FCCS. Occupancy of XPO1 target with Selinexor decreases the amount of tracer-target complexes in a dose and time dependent manner. Target occupancy studies of XPO1 were carried out in different cancer relevant cell lines and xenograft tumors retrieved from treated animals. As such the approach can be applied to study target occupancy in vitro and in vivo. Citation Format: Frank Becker, Kerrin Hansen, Marsha Crochiere, Yosef Landesmann, Stefan Hannus. Application of Fluorescence Correlation Spectroscopy as a novel tool to quantify target occupancy in cells and tumor tissue [abstract]. In: Proceedings of the AACR-NCI-EORTC International Conference: Molecular Targets and Cancer Therapeutics; 2017 Oct 26-30; Philadelphia, PA. Philadelphia (PA): AACR; Mol Cancer Ther 2018;17(1 Suppl):Abstract nr LB-B09.
Solid state modulator for plasma channel drilling (2009)

In addition to conventional drilling and demolition techniques, drilling with pulsed electric power has been investigated intensively, and commercial applications have begun to emerge. The most efficient method, often called plasma channel drilling (PCD), uses electrical pulses to generate a plasma channel in the rock. The expansion of this channel within the rock performs the demolition. The technique relies on that fact that for fast pulse rise-times (50 ns - 500 ns) the breakdown field-strength of water is higher than that of rock, so that the discharge takes place in the rock. To date, in publications dealing with this topic, plasma dynamics, crack formation, and setup of the electrodes are the primary areas of investigation. In these investigations, the high voltage pulses have been generated using modulators based on spark gaps: either as single-switch or in a Marx-generator setup. These modulators are able to generate high voltages and high currents simultaneously, but the PCD method does not require high currents for igniting the discharge. Meanwhile, after ignition the voltage across the arc is relatively small. Thus these modulators are oversized. In this paper, a new concept, consisting of a solid state modulator which generates a high-voltage pulse for ignition, and a high output-current to expand the plasma, is presented. The solid state modulator consists of a single semiconductor switch, saturable inductors and a pulse transformer. In addition to being more compact, the solid state approach has improved lifetime and reliability compared to approaches using spark gap switches.
From Rice Bran to High Energy Density Supercapacitors: A New Route to Control Porous Structure of 3D Carbon (2014)

Controlled micro/mesopores interconnected structures of three-dimensional (3D) carbon with high specific surface areas (SSA) are successfully prepared by carbonization and activation of biomass (raw rice brans) through KOH. The highest SSA of 2475 m(2) g(-1) with optimized pore volume of 1.21 cm(3) g(-1) (40% for mesopores) is achieved for KOH/RBC = 4 mass ratio, than others. The as-prepared 3D porous carbon-based electrode materials for supercapacitors exhibit high specific capacitance specifically at large current densities of 10 A g(-1) and 100 A g(-1) i.e., 265 F g(-1) and 182 F g(-1) in 6 M KOH electrolyte, respectively. Moreover, a high power density ca. 1223 W kg(-1) (550 W L(-1)) and energy density 70 W h kg(-1) (32 W h L(-1)) are achieved on the base of active material loading (~10 mg cm(2)) in the ionic liquid. The findings can open a new avenue to use abundant agricultural by-products as ideal materials with promising applications in high-performance energy-storage devices.
Overview of Strategies for the CVD of Organic Films and Functional Polymer Layers (2009)

Abstract Vapor based polymer deposition methods have evolved to address the limitations of solution polymerization. However this field of vapor based polymerization suffers from varied nomenclature and would benefit from a review article that brought together the different approaches to vapor based polymerization with an effort to present existing nomenclature, clearly identify the various approaches within this field and summarize recent results. This review article is written with the purpose of compiling recent advances in vapor based deposition methods of polymers with a focus on applications that will continue to drive research in this field. We hope that this article encourages researchers engineering novel polymer applications to give vapor based polymerization a serious consideration apart from solution polymerization methods.
Analog-to-digital transition: selecting the optimal cellular radio mix (1999)

The capacity gains from the transition from analog-to-digital time-division multiple-access (TDMA) air-interface technology depend on the number of base-station radios (transceivers) changed from analog to digital. It is possible to have no capacity gains, and even losses, if too many radios are changed over. This paper addresses the problem of finding the optimal radio mix. An analytical model is developed to compute the blocking rate experienced by subscribers in a cell, given the cell's offered load, the mix of analog and dual-mode subscriber units, and the analog-to-digital split of the radio frequency (RF) channels available to the cell.
Abstract B51: Adaptation to oncogene-induced metabolic stress by MondoA (MLXIP) drives common acute lymphoblastic leukemia (cALL) malignancy (2020)

Abstract MondoA (also known as MLXIP, MAX-like protein X interacting protein) is a metabolic stress sensor and a proglycolytic transcription factor potentially involved in metabolic addiction features of leukemia and the Warburg effect. MondoA dimerizes with MLX within the MYC interactome and promotes longevity in C. elegans (Johnson et al., 2014). The MYC interactome comprises the MYC/MAX/MNT/MLX/MLXIP transcription factor network: Its key players MYC, MNT and MLXIP differentially mediate proliferation, differentiation, or metabolism by heterodimerization with MAX or MLX. We previously described MondoA to promote malignancy of common precursor B-cell acute lymphoblastic leukemia (cALL). MondoA knockdown (MKD) in cALL cell lines in xenografted mice reduced the number of leukemic blasts (Sipol, 2014). Here we report that MondoA high expression was observed in ALL subtypes with no MYC overexpression. RNA-sequencing data of 132 primary ALL bone marrow samples confirmed the inverse correlation of MYC and MondoA. Interestingly, in subgroups of ALL with low MYC expression and high MondoA (cALL with BCR-ABL, cALL with TCF3-PBX, cALL with ETV6-RUNX1, and cALL with hyperdiploid karyotype), metabolic gene sets did not appear as upregulated. In contrast, cALL samples with high MYC expression and low MondoA (proB-ALL with MLL rearrangements and B-ALL with IGH-MYC fusion gene) demonstrated upregulation of pathways for oxidative phosphorylation and fatty acid metabolism in addition to targets of E2F, G2M checkpoints, and MYC targets. Using CRISPR/CAS9-mediated knockout (MKO), we demonstrate that MondoA dials down MYC-induced metabolic stress and increases leukemia stress resistance. By limiting mitochondrial pyruvate dehydrogenase (PDH) activity in PDHK1 (pyruvate dehydrogenase kinase 1)-dependent manner, MondoA decreases oxidative phosphorylation. In line with limiting effect of MondoA on oxidative phosphorylation, we observed that MondoA decreases ROS generation in B cells. In conclusion, MondoA is restricting MYC-target gene expression to promote leukemia cell survival by facilitating glycolysis and adaption to oxidative stress. MondoA limits pyruvate availability for the TCA cycle by decreasing PDH activity, thus ensuring consistent glycolytic flux, mediating the Warburg effect, and insuring integrity of leukemia metabolism and ROS balancing in response to oncogene activation. Citation Format: Alexandra Sipol, Erik Hameister, Andreas Petry, Agnes Görlach, Jürgen Ruland, Guenther Richter, Stefan Burdach, Poul Sorensen. Adaptation to oncogene-induced metabolic stress by MondoA (MLXIP) drives common acute lymphoblastic leukemia (cALL) malignancy [abstract]. In: Proceedings of the AACR Special Conference on the Advances in Pediatric Cancer Research; 2019 Sep 17-20; Montreal, QC, Canada. Philadelphia (PA): AACR; Cancer Res 2020;80(14 Suppl):Abstract nr B51.
Blood Concentrations of Sevoflurane and Isoflurane on Recovery from Anaesthesia (1993)

Department of Anesthesiology and Critical Care Medicine, Hamamatsu University School of Medicine, 3600 Handa-cho, Hamamatsu, 431–31 Japan
1621: Microvessel Density is Signifiantly Associated with Pathologic Stage, Gleason Score and Biochemical Recurrence in Patients with Clinically Localized Prostate Cancer Undergoing Radical Retropubic Prostatectomy (2007)

You have accessJournal of UrologyModerated Poster 50, Tuesday, May 22, 2007, 3:30 - 5:30 pm1 Apr 20071621: Microvessel Density is Signifiantly Associated with Pathologic Stage, Gleason Score and Biochemical Recurrence in Patients with Clinically Localized Prostate Cancer Undergoing Radical Retropubic Prostatectomy Alexander Haese, Kira Dix, Andreas Erbersdobler, Thomas Steuber, Thorsten Schlomm, Jochen Walz, Guido Sauter, and Hartwig Huland Alexander HaeseAlexander Haese More articles by this author , Kira DixKira Dix More articles by this author , Andreas ErbersdoblerAndreas Erbersdobler More articles by this author , Thomas SteuberThomas Steuber More articles by this author , Thorsten SchlommThorsten Schlomm More articles by this author , Jochen WalzJochen Walz More articles by this author , Guido SauterGuido Sauter More articles by this author , and Hartwig HulandHartwig Huland More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(18)31809-3AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "1621: Microvessel Density is Signifiantly Associated with Pathologic Stage, Gleason Score and Biochemical Recurrence in Patients with Clinically Localized Prostate Cancer Undergoing Radical Retropubic Prostatectomy." The Journal of Urology, 177(4S), p. 537 © 2016 by American Urological AssociationFiguresReferencesRelatedDetails Volume 177Issue 4SApril 2007Page: 537 Advertisement Copyright & Permissions© 2016 by American Urological AssociationMetricsAuthor Information Alexander Haese More articles by this author Kira Dix More articles by this author Andreas Erbersdobler More articles by this author Thomas Steuber More articles by this author Thorsten Schlomm More articles by this author Jochen Walz More articles by this author Guido Sauter More articles by this author Hartwig Huland More articles by this author Expand All Advertisement PDF downloadLoading ...
Role of T‐bet, the master regulator of Th1 cells, in the cytotoxicity of murine CD4+ T cells (2018)

Although CD4<sup>+</sup> T cells are generally regarded as helper T cells, some activated CD4<sup>+</sup> T cells have cytotoxic properties. Given that CD4<sup>+</sup> cytotoxic T lymphocytes (CTLs) often secrete IFN-γ, CTL activity among CD4<sup>+</sup> T cells may be attributable to Th1 cells, where a T-box family molecule, T-bet serves as the "master regulator". However, although the essential contribution of T-bet to expression of IFN-γ has been well-documented, it remains unclear whether T-bet is involved in CD4<sup>+</sup> T cell-mediated cytotoxicity. In this study, to investigate the ability of T-bet to confer cytolytic activity on CD4<sup>+</sup> T cells, the T-bet gene (Tbx21) was introduced into non-cytocidal CD4<sup>+</sup> T cell lines and their cytolytic function analyzed. Up-regulation of FasL (CD178), which provided the transfectant with cytotoxicity, was observed in Tbx21transfected CD4<sup>+</sup> T cells but not in untransfected parental cells. In one cell line, T-bet transduction also induced perforin gene (Prf1) expression and Tbx21 transfectants efficiently killed Fas<sup>-</sup> target cells. Although T-bet was found to repress up-regulation of CD40L (CD154), which controls FasL-mediated cytolysis, the extent of CD40L up-regulation on in vitro-differentiated Th1 cells was similar to that on Th2 cells, suggesting the existence of a compensatory mechanism. These results collectively indicate that T-bet may be involved in the expression of genes, such as FasL and Prf1, which confer cytotoxicity on Th1 cells.