gebhart/patrepeval huggingface dataset:
Human iPSC-Derived Immature Astroglia Promote Oligodendrogenesis by Increasing TIMP-1 Secretion (2016)

Astrocytes, once considered passive support cells, are increasingly appreciated as dynamic regulators of neuronal development and function, in part via secreted factors. The extent to which they similarly regulate oligodendrocytes or proliferation and differentiation of oligodendrocyte progenitor cells (OPCs) is less understood. Here, we generated astrocytes from human pluripotent stem cells (hiPSC-Astros) and demonstrated that immature astrocytes, as opposed to mature ones, promote oligodendrogenesis in vitro. In the PVL mouse model of neonatal hypoxic/ischemic encephalopathy, associated with cerebral palsy in humans, transplanted immature hiPSC-Astros promoted myelinogenesis and behavioral outcome. We further identified TIMP-1 as a selectively upregulated component secreted from immature hiPSC-Astros. Accordingly, in the rat PVL model, intranasal administration of conditioned medium from immature hiPSC-Astros promoted oligodendrocyte maturation in a TIMP-1-dependent manner. Our findings suggest stage-specific developmental interactions between astroglia and oligodendroglia and have important therapeutic implications for promoting myelinogenesis.
Electron backscatter diffraction and electron channeling contrast imaging of tilt and dislocations in nitride thin films (2007)

In this paper we describe the use of electron backscatter diffraction (EBSD) mapping and electron channeling contrast imaging---in the scanning electron microscope---to study tilt, atomic steps and dislocations in epitaxial $\mathrm{GaN}$ thin films. We show results from a series of $\mathrm{GaN}$ thin films of increasing thickness and from a just coalesced epitaxial laterally overgrown $\mathrm{GaN}$ thin film. From our results we deduce that EBSD may be used to measure orientation changes of the order of 0.02\ifmmode^\circ\else\textdegree\fi{}, in $\mathrm{GaN}$ thin films. As EBSD has a spatial resolution of $\ensuremath{\approx}20\phantom{\rule{0.3em}{0ex}}\mathrm{nm}$, this means we have a powerful technique with which to quantitatively map surface tilt. We also demonstrate that electron channeling contrast images may be used to image tilt, atomic steps, and threading dislocations in $\mathrm{GaN}$ thin films.
Genetic Variation of the Human Urinary Tract Innate Immune Response and Asymptomatic Bacteriuria in Women (2009)

TLR2 and CXCR1 polymorphisms were associated with ASB and a CXCR1 variant was associated with urine CXCL-8 levels. These results suggest that genetic factors are associated with early in vivo human bladder immune responses prior to the development of symptomatic UTIs.
Epstein–Barr virus nuclear antigen 3C regulated genes in lymphoblastoid cell lines (2010)

EBV nuclear antigen 3C (EBNA3C) is an essential transcription factor for EBV transformed lymphoblast cell line (LCL) growth. To identify EBNA3C-regulated genes in LCLs, microarrays were used to measure RNA abundances in each of three different LCLs that conditionally express EBNA3C fused to a 4-OH-Tamoxifen-dependent estrogen receptor hormone binding domain (EBNA3CHT). At least three RNAs were assayed for each EBNA3CHT LCL under nonpermissive conditions, permissive conditions, and nonpermissive conditions with wild-type EBNA3C transcomplementation. Using a two-way ANOVA model of EBNA3C levels, we identified 550 regulated genes that were at least 1.5-fold up- or down-regulated with false discovery rates < 0.01. EBNA3C-regulated genes overlapped significantly with genes regulated by EBNA2 and EBNA3A consistent with coordinated effects on cell gene transcription. Of the 550 EBNA3C-regulated genes, 106 could be placed in protein networks. A seeded Bayesian network analysis of the 80 most significant EBNA3C-regulated genes suggests that RAC1, LYN, and TNF are upstream of other EBNA3C-regulated genes. Gene set enrichment analysis found enrichment for MAP kinase signaling, cytokine-cytokine receptor interactions, JAK-STAT signaling, and cell adhesion molecules, implicating these pathways in EBNA3C effects on LCL growth or survival. EBNA3C significantly up-regulated the CXCL12 ligand and its CXCR4 receptor and increased LCL migration. CXCL12 up-regulation depended on EBNA3C's interaction with the cell transcription factor, RBPJ, which is essential for LCL growth. EBNA3C also up-regulated MYC 1.3-fold and down-regulated CDKN2A exons 2 and 3, shared by p16 and p14, 1.4-fold, with false discovery rates < 5 × 10(-4).
Novel Design Concepts of a Compressed Gas HVDC Transmission Line (1982)

Several coordinated novel design concepts are described for a HVDC CGI transmission line. Discussions are given on the basis on which these novel concepts are expected to result in enhanced economy and reliability. A project was initiated by the Department of Energy to implement and to test these concepts with models so as to assess realistically the technical and economical feasibility of a HVDC CGI transmission line. Initial test results are briefly described.
<title>SEM voltage contrast simulations</title> (1999)

High resolution inspection and metrology is an important part of current semiconductor technology and has an increasingly active role as miniaturization is pushed beyond 200 nm. Current and future semiconductor design rules require not only high resolution CD control and inspection but also the ability to image high aspect ratio structures patterned on complex layers. This goal is usually achieved by using e-beam based tools that exploit voltage contrast to form images of deep structures; although useful, such images are not obviously and uniquely determined by their topographical counterpart since other parameters may significantly affect image appearance. In this paper we present a simulation approach that explains the imaging properties of charged surfaces under different conditions. This approach shows that in order to get a physical description of an e-beam image formation process, the surface must be considered as an electrostatic optical element with its own properties.
Mutations in <i>PMR5</i> result in powdery mildew resistance and altered cell wall composition (2004)

Powdery mildews and other obligate biotrophic pathogens are highly adapted to their hosts and often show limited host ranges. One facet of such host specialization is likely to be penetration of the host cell wall, a major barrier to infection. A mutation in the pmr5 gene rendered Arabidopsis resistant to the powdery mildew species Erysiphe cichoracearum and Erysiphe orontii, but not to the unrelated pathogens Pseudomonas syringae or Peronospora parasitica. PMR5 belongs to a large family of plant-specific genes of unknown function. pmr5-mediated resistance did not require signaling through either the salicylic acid or jasmonic acid/ethylene defense pathways, suggesting resistance in this mutant may be due either to the loss of a susceptibility factor or to the activation of a novel form of defense. Based on Fourier transform infrared analysis, the pmr5 cell walls were enriched in pectin and exhibited a reduced degree of pectin modification relative to wild-type cell walls. In addition, the mutant had smaller cells, suggesting a defect in cell expansion. A double mutant with pmr6 (defective in a glycosylphosphatidylinositol-anchored pectate lyase-like gene) exhibited a strong increase in total uronic acid content and a more severe reduction in size, relative to the single mutants, suggesting that the two genes affect pectin composition, either directly or indirectly, via different mechanisms. These two mutants highlight the importance of the host cell wall in plant-microbe interactions.
Output Selection and Its Implications for MPC of EGR and VGT in Diesel Engines (2012)

Control of exhaust gas recirculation (EGR) and variable geometry turbine in diesel engines is a challenging problem and model predictive control (MPC) seems to be a promising method. In MPC the choice of output variables, and thereby the criterion, has a direct impact on the optimization problem to solve and the resulting control performance. Different selections of outputs are investigated and discussed, proposing that it is beneficial to include EGR-fraction and pumping losses in the criterion while having the oxygen/fuel ratio as a constraint. The rational for this constraint is that, in diesel engines, it is allowed to have the oxygen/fuel ratio larger than a set-point. The proposed design also includes integral action of the EGR-fraction to handle model errors and prediction of engine load and speed. A comparison is made between the proposed MPC, a proportional-integral-derivative (PID) controller, and an MPC with intake manifold pressure and compressor flow as outputs, which is the common choice in the literature. Comparisons are performed in simulation on the European transient cycle showing the following two points. First, the proposed design gives 9% lower oxygen/fuel ratio error, 80% lower EGR-error, and 12% lower pumping losses compared to an MPC design with intake manifold pressure and compressor flow as outputs. Second, the proposed design gives 9% lower EGR-error and 6% lower pumping losses compared to a control structure with PID controllers with oxygen/fuel ratio and EGR-fraction as the main outputs.
Functional synaptic connections made by regenerated retinal ganglion cell axons in the superior colliculus of adult hamsters (1995)

Regenerated synaptic connections in the damaged mammalian visual system were studied in adult hamsters in which retinal ganglion cells (RGCs) regrew their axons through autologous peripheral nerve grafts directed from the stump of the transected optic nerve to the superior colliculus (SC). Unitary responses to illumination of small areas of the visual field were recorded within the superficial laminae of the reinnervated SC 23 to 60 weeks after grafting. Each element of a typical bursting response to light consisted of a terminal potential (TP) (half width 164 +/- 25 microseconds, amplitude up to 171 microV) arising from a regenerated RGC axon terminal arborization, followed at a latency of 268 +/- 63 microseconds by a longer duration negative focal synaptic potential (FSP) (half width 938 +/- 396 msec, amplitude up to 188 microV) reflecting EPSPs in neurons within the terminal field of the regenerated RGC axon. The FSP but not the TP was attenuated in a dose-dependent manner by iontophoretic application of GABA. In some cases spikes arose from FSPs after the first two or three impulses of a train, presumably reflecting summation of EPSPs to threshold for excitation in SC neurons contacted by the regenerated RGC axon terminals. Up to one-third of the area of the SC can be infiltrated by arborizations of the regenerated RGC axons that enter the SC through a nerve graft inserted in the lateral aspect of the SC. These experiments indicate that terminal arborizations of individual regenerated RGC axons can synapse with multiple neurons in the SC and that convergence of inputs from regenerated RGC axons is not required for activation of SC neurons in response to light.
ac conductivity of emeraldine polymer (1989)

An experimental study of the temperature- (T-) dependent dc and audio-frequency conductivity (\ensuremath{\sigma}) as a function of protonation level (0.0\ensuremath{\le}x\ensuremath{\equiv}[${\mathrm{H}}^{+}$]/[N]\ensuremath{\le}0.08) of emeraldine polymer is presented. The dc conductivity varies from ${10}^{\mathrm{\ensuremath{-}}10}$ S/cm for x=0 to ${10}^{\mathrm{\ensuremath{-}}6}$ S/cm for x=0.08 and is proportional to exp[-(${T}_{0}$/T${)}^{1/4}$] with ${T}_{0}$ decreasing with increasing x. The temperature-dependent audiofrequency f (${10}^{1}$--${10}^{5}$ Hz) conductivity varies as ${f}^{s}$ with s\ensuremath{\sim}0.9 for x=0, decreasing with increasing x. For frequencies greater than ${10}^{3}$ Hz the dielectric constant agrees with the T-independent dielectric constant measured by microwave techniques. At lower frequencies and high temperatures the dielectric constant increases. A Cole-Cole analysis shows the presence of primarily a single thermally activated relaxation process in these materials with a dispersion in relaxation rates. These results are discussed in the context of models for dc and ac transport in polymers, with results supporting hopping of charge among positively charged polaron and bipolaron or neutral defect (polaron) states in the emeraldine polymer. A simple analysis yields estimates of 3.7\ifmmode\times\else\texttimes\fi{}${10}^{\mathrm{\ensuremath{-}}3}$ bipolarons per polaron in the x=0 system, increasing with protonation to 7.9\ifmmode\times\else\texttimes\fi{}${10}^{\mathrm{\ensuremath{-}}2}$ for x=0.08.
Cyclopentanoid analogs of phosphatidylcholine: susceptibility to phospholipase A2 (1988)

Six isomers of dipalmitoylcyclopentanetriol phosphocholine (cyclopentano-lecithin) were tested as potential substrates for phospholipase A2. Since each of these analogs possesses a configuration that mimics a narrow range of conformations of a glycerophospholipid molecule, the analogs were used to assess the enzyme's conformational requirements. Studies showed that all of the analogs containing the phosphocholine at the C-1 (or C-3) position could be hydrolyzed, while only one of the three analogs that contains the polar head group at the C-2 position was susceptible. Kinetic studies, however, revealed that only the all-trans-(1,3/2-1P)-cyclopentano-lecithin gave initial rates of hydrolysis that were measurable by pH-stat. Acyl group specificity of the enzyme towards the all-trans isomer was determined with an analog was acyl groups were distinguishable. The synthesis of this mixed-acid-cyclopentano-PC is described herein. When this analog was enzymatically assayed, results unequivocally showed the enzyme to be specific for C-2 acyl hydrolysis. This specificity, and data showing that the all-trans analog is stereospecifically hydrolyzed, indicate that it is acted on in an analogous manner to dipalmitoylphosphatidylcholine. These studies indicate that although the configuration of the analog is not necessarily a prerequisite for hydrolysis, there does appear to be an optimal spatial orientation for enzymatic activity. The analogy between the susceptibilities of all-trans-(1,3/2-1P)-cyclopentano-lecithin and glycero-lecithin suggests that the conformation of the glycero-lecithin during phospholipase A2-mediated hydrolysis may be best simulated by the all-trans orientation of C-O bonds in the artificial substrate.
Rac1 and Cdc42 but Not RhoA or Rho Kinase Activities Are Required for Neurite Outgrowth Induced by the Netrin-1 Receptor DCC (Deleted in Colorectal Cancer) in N1E-115 Neuroblastoma Cells (2002)

Netrins are chemotropic guidance cues that attract or repel growing axons during development. DCC (deleted in colorectal cancer), a transmembrane protein that is a receptor for netrin-1, is implicated in mediating both responses. However, the mechanism by which this is achieved remains unclear. Here we report that Rho GTPases are required for embryonic spinal commissural axon outgrowth induced by netrin-1. Using N1E-115 neuroblastoma cells, we found that both Rac1 and Cdc42 activities are required for DCC-induced neurite outgrowth. In contrast, down-regulation of RhoA and its effector Rho kinase stimulates the ability of DCC to induce neurite outgrowth. In Swiss 3T3 fibroblasts, DCC was found to trigger actin reorganization through activation of Rac1 but not Cdc42 or RhoA. We detected that stimulation of DCC receptors with netrin-1 resulted in a 4-fold increase in Rac1 activation. These results implicate the small GTPases Rac1, Cdc42, and RhoA as essential components that participate in signaling the response of axons to netrin-1 during neural development.
Efficacy, Safety, and Correlative Biomarkers of Toripalimab in Previously Treated Recurrent or Metastatic Nasopharyngeal Carcinoma: A Phase II Clinical Trial (POLARIS-02) (2021)

The POLARIS-02 study demonstrated a manageable safety profile and durable clinical response of toripalimab in patients with chemorefractory metastatic NPC. An early decrease in plasma EBV DNA copy number correlated with favorable response.
Experience with an automated point-of-use unit-dose drug distribution system. (1995)

Two years' experience with an automated, point-of-use unit-dose system at the University of California, San Diego Medical Center (UCSDMC) is described. Growing concerns about the efficiency and cost-effectiveness of the traditional unit-dose drug distribution system at UCSDMC, and the corresponding diversion of professional staff time from pharmaceutical care responsibilities, led us to investigate alternative systems. Criteria for a new system were developed and used in evaluating alternatives. Consideration was given to three possibilities: 1) improving the existing system, 2) automating the unit-dose cassette fill process, or 3) automating the final step in medication delivery at the nursing station. Based on the realization that our traditional unit-dose system was largely inefficient in today's hospital environment, it was concluded that the drug distribution system needed to be re-engineered in a way that simplified delivery and reduced waiting time. The Medstation Rx system marketed by the Pyxis Corporation (San Diego, CA) seemed to meet the need. During a 2-year period a Medstation Rx system was implemented in most of the hospital (in all but three specialty units) and evaluated. This system has resulted in several benefits, including a net savings in labor costs, a significant reduction in waiting time for first doses, and a reduction in dispensing errors. In the process, it was possible to minimize the disruption of pharmacists engaged in the direct provision of pharmaceutical care, thereby increasing their efficiency.
Divalent Cations Modulate α2β1 Integrin-Mediated Malignancy in a Novel 3-Dimensional In Vitro Model of Pancreatic Cancer (2010)

Divalent cation shifts could activate alpha2beta1 integrin-mediated malignancy in the type I collagen-rich 3D tumor microenvironment of pancreatic cancer.
The multi-differentiation potential of peripheral blood mononuclear cells (2012)

Peripheral blood is a large accessible source of adult stem cells for both basic research and clinical applications. Peripheral blood mononuclear cells (PBMCs) have been reported to contain a multitude of distinct multipotent progenitor cell populations and possess the potential to differentiate into blood cells, endothelial cells, hepatocytes, cardiomyogenic cells, smooth muscle cells, osteoblasts, osteoclasts, epithelial cells, neural cells, or myofibroblasts under appropriate conditions. Furthermore, transplantation of these PBMC-derived cells can regenerate tissues and restore function after injury. This mini-review summarizes the multi-differentiation potential of PBMCs reported in the past years, discusses the possible mechanisms for this multi-differentiation potential, and describes recent techniques for efficient PBMC isolation and purification.
One‐Step Synthesis of Bismuth Telluride Nanosheets of a Few Quintuple Layers in Thickness (2011)

Bi2Te3 nanosheets have been synthesized on Si substrates by surface-assisted chemical vapor transport. The crumpled Bi2Te3 sheets grow in the basal plane of the hexagonal structure and are typically ≤3 nm in thickness (see picture; Te purple, Bi green). Raman studies found that modes involving atom displacement along the c axis that are inactive in the bulk material become Raman-active in the Bi2Te3 nanosheets.
Pre-Alignment Guided Attention for Improving Training Efficiency and Model Stability in End-to-End Speech Synthesis (2019)

Recently, end-to-end (E2E) neural text-to-speech systems, such as Tacotron2, have begun to surpass the traditional multi-stage hand-engineered systems, with both simplified system building pipelines and high-quality speech. With a unique encoder-decoder neural structure, the Tacotron2 system no longer needs separately learned text analysis front-end, duration model, acoustic model, and audio synthesis module. The key of such a system lies in the attention mechanism, which learns an alignment between the encoder and the decoder, serving as an implicit duration model bridging the text sequence and the acoustic sequence. However, attention learning suffers from low training efficiency and model instability problems, which hinder the E2E approaches from wide deployment. In this paper, we address the problems and propose a novel pre-alignment guided attention learning approach. Specifically, we inject handy prior knowledge-accurate phoneme durations-in the neural network loss function to bias the attention learning to the desired direction more accurately. The explicit time alignment between an audio recording and its corresponding phoneme sequence can be achieved by forced-alignment from an automatic speech recognizer (ASR). The experiments show that the proposed pre-alignment guided (PAG) attention approach can significantly improve training efficiency and model stability. More specifically, the PAG updated version of Tacotron2 can quickly obtain the attention alignment using only 500 (text, audio) pairs, which is apparently not possible for the original Tacotron2. A series of subjective experiments also show that the PAG-Tacotron2 approach can synthesize more stable and natural speech.
Mechanical and in Vitro Investigation of a Porous PEEK Foam for Medical Device Implants (2012)

Previous observations of cytocompatibility and calcification on the PEEK biomaterial could be carried through to this new porous form of the PEEK biomaterial. This helps porous PEEK to potentially offer more design options for implant devices requiring reduced modulus and/or increased tissue ingrowth aspects at the surface.
Intra-articular absorption and distribution of ketoprofen after topical plaster application and oral intake in 100 patients undergoing knee arthroscopy (1999)

Topical applications of ketoprofen allow the attainment of high intra-articular tissue concentrations.
Bad subsequences of well-known linear congruential pseudorandom number generators (1998)

We present a spectral test analysis of full-period subsequences with small step sizes generated by well-known linear congruential pseudorandom number generators. Subsequences may occur in certain simulation problems or as a method to get parallel streams of pseudorandom numbers. Applying the spectral test, it is possible to find bad subsequences with small step sizes for almost all linear pseudorandom number generators currently in use.
Towards a formally verified functional quantum programming language (2010)

This thesis looks at the development of a framework for a functional quantum programming language. The framework is first developed in Haskell, looking at how a monadic structure can be used to explicitly deal with the side-effects inherent in the measurement of quantum systems, and goes on to look at how a dependently-typed reimplementation in Agda gives us the basis for a formally\nverified quantum programming language. The two implementations are not in themselves fully developed quantum programming languages, as they are embedded in their respective parent languages, but are a major step towards the development of a full formally verified, functional quantum programming language. Dubbed the “Quantum IO Monad”, this framework is designed following a structural approach as given by a categorical model of quantum computation.