gebhart/patrepeval huggingface dataset:
Development of a homogenous high-throughput assay for inositol hexakisphosphate kinase 1 activity (2017)

Inositol pyrophosphates have been implicated in a wide range of cellular processes. Inositol hexakisphosphate kinase 1 catalyzes the pyrophosphorylation of inositol hexakisphosphate into inositol 5-diphospho-1,2,3,4,6-pentakisphosphate which is important in numerous areas of cell physiology such as DNA repair and glucose homeostasis. Furthermore, inositol 5-diphospho-1,2,3,4,6-pentakisphosphate is implicated in the pathology of diabetes and other human diseases. As such there is a demonstrated need in the field for a robust chemical probe to better understand the role of inositol hexakisphosphate kinase 1 and inositol pyrophosphate in physiology and disease. To aid in this effort we developed a homogenous coupled bioluminescence assay for measuring inositol hexakisphosphate kinase 1 activity in a 384-well format (Z' = 0.62±0.05). Using this assay we were able to confirm the activity of a known inositol hexakisphosphate kinase 1 inhibitor N2-(m-trifluorobenzyl), N6-(p-nitrobenzyl)purine. We also screened the Sigma library of pharmacologically active compounds at 10μM concentration and found 24 hits. Two of the most potent compounds were found to have an IC50 less than 5μM. The use of this high-throughput assay will accelerate the field towards the discovery of a potent inositol hexakisphosphate kinase 1 inhibitor.
Physically flat but electromagnetic parabolic surface using EBG structure with stepped reflection phase (2009)

Physically flat but electromagnetic parabolic surface (EPS) is presented. By covering a metal ground plane with periodic metal-dielectric composite textures, the electromagnetic reflection properties can be altered. By tuning the individual lattice of a periodic mushroom-type texture to vary the surface impedance, an EBG surface with a stepped reflection phase as a function of position can be designed. Using a parabolic phase gradient in the reflection coefficient along the face, the surface can be a concave curve inwards in the middle and concentrate a reflected wave. With this technique, an electromagnetic gradient surface on a geometrically flat structure with novel reflection properties can be created. This paper introduces a one-dimensional EPS structure and discusses the reflected beam focusing.
Elucidating the molecular mechanisms underlying AIP dependent tumorigenesis (2017)

Searchable abstracts of presentations at key conferences in endocrinology ISSN 1470-3947 (print) | ISSN 1479-6848 (online)
Enhancing Pt(IV) Complexes' Anticancer Activity upon Encapsulation in Stimuli‐Responsive Nanocages (2023)

Platinum-based chemotherapy is the first-line treatment for different cancer types, and in particular, for malignant pleural mesothelioma patients (a tumor histotype with urgent medical needs). Herein, a strategy is presented to stabilize, transport, and intracellularly release a platinum<sup>IV</sup> (Pt<sup>IV</sup> ) prodrug using a breakable nanocarrier. Its reduction, and therefore activation as an anticancer drug, is promoted by the presence of glutathione in neoplastic cells that also causes the destruction of the carrier. The nanocage presents a single internal cavity in which the hydrophobic complex (Pt(dach)Cl<sub>2</sub> (OH)<sub>2</sub> ), (dach = R,R-diaminocyclohexane) is encapsulated. The in vitro uptake and the internalization kinetics in cancer model cells are evaluated and, using flow cytometry analysis, the successful release and activation of the Pt-based drug inside cancer cells are demonstrated. The in vitro findings are confirmed by the in vivo experiments on a mice model obtained by xenografting MPM487, a patient-derived malignant pleural mesothelioma. MPM487 confirms the well-known resistance of malignant pleural mesothelioma to cisplatin treatment while an interesting 50% reduction of tumor growth is observed when mice are treated with the Pt<sup>IV</sup> , entrapped in the nanocages, at an equivalent dose of the platinum complex.
Efficient separation of propane and propene by a hypercrosslinked polymer doped with Ag(i) (2019)

A hypercrosslinked polymer doped with Ag(<sc>i</sc>) shows high selectivity toward olefins over paraffins under flowing conditions.
Supplementary Legends for Figures 1-3 and Tables 1-5, Methods from The miR-17/92 Polycistron Is Up-regulated in Sonic Hedgehog–Driven Medulloblastomas and Induced by N-myc in Sonic Hedgehog–Treated Cerebellar Neural Precursors (2023)

Supplementary Legends for Figures 1-3 and Tables 1-5, Methods from The miR-17/92 Polycistron Is Up-regulated in Sonic Hedgehog–Driven Medulloblastomas and Induced by N-myc in Sonic Hedgehog–Treated Cerebellar Neural Precursors
PI3K activation allows immune evasion by promoting an inhibitory myeloid tumor microenvironment (2022)

PI3K activation enables tumor immune evasion by promoting an inhibitory myeloid microenvironment. Activating mutations in PI3K may be useful as a biomarker of poor response to immunotherapy. Our data suggest that some oncogenes promote tumorigenesis by enabling tumor cells to avoid clearance by the immune system. Identification of those mechanisms can advance rational combination strategies to increase the efficacy of immunotherapy.
Rose Bengal Dye on Thiol-Terminated Bilayer for Molecular Devices (2007)

Recently, it has become increasingly important to control molecular layers, especially with regard to the formation of bilayers, in order to avoid electrical shorts in molecular electronics. In this paper, we report on the characterization of an in situ thiol-terminated bilayer that is formed by hydrogen bonding between the amine group of an aminoalkanethiol monolayer on a gold surface and the free amine group of aminoalkanethiolates in a bulk solution. We also report on the use of a rose bengal (RB) monolayer on a thiol-terminated bilayer for the purpose of application in a molecular memory device. Using surface-sensitive techniques such as grazing angle Fourier transform infrared (FT-IR) spectroscopy, quartz crystal microbalance (QCM) measurement, ellipsometry, X-ray photoelectron spectroscopy (XPS), and cyclic voltammetry (CV), we characterized a thiol-terminated bilayer (TUA-AUT) and an RB functionalized monolayer on a bilayered surface (RB-TUA-AUT). For a control experiment, we prepared a single RB monolayer attached by an ethanethiol group to a gold surface. In order to assess the feasibility of the present approach with respect to application in molecular electronics, we tested the switching property of the self-assembled monolayers (SAMs) using conducting-probe atomic force microscopy (CP-AFM). The RB monolayer on the bilayered surface exhibited hysteresis, while a single RB monolayer gave an electrical short.
DNA damage and metabolic activity in the preimplantation embryo (2008)

Amino acid profiling of single embryos can provide a non-invasive marker of DNA damage at the blastocyst stage. The data are consistent with the quiet embryo hypothesis with viable embryos (lowest DNA damage) having the lowest amino acid turnover. Moreover, these data support the notion that metabolic profiling, in terms of amino acids, might be used to select single embryos for transfer in clinical IVF.
Venous Thromboembolism During Pregnancy and the Postpartum Period: Risk Factors, Diagnostic Testing, and Treatment (2022)

Venous thromboembolism is far more frequent in antepartum and postpartum women than age-matched controls, and clinical suspicion for VTE in this population should incorporate pregnancy-specific risks. Treatment of limb- or life-threatening antepartum or postpartum VTE requires multispecialty coordination to optimize maternal and fetal outcomes.
The global catalogue of microorganisms 10K type strain sequencing project: closing the genomic gaps for the validly published prokaryotic and fungi species (2018)

Genomic information is essential for taxonomic, phylogenetic, and functional studies to comprehensively decipher the characteristics of microorganisms, to explore microbiomes through metagenomics, and to answer fundamental questions of nature and human life. However, large gaps remain in the available genomic sequencing information published for bacterial and archaeal species, and the gaps are even larger for fungal type strains. The Global Catalogue of Microorganisms (GCM) leads an internationally coordinated effort to sequence type strains and close gaps in the genomic maps of microorganisms. Hence, the GCM aims to promote research by deep-mining genomic data.
The Centrosomal Kinase Plk1 Localizes to the Transition Zone of Primary Cilia and Induces Phosphorylation of Nephrocystin-1 (2012)

Polo-like kinase (Plk1) plays a central role in regulating the cell cycle. Plk1-mediated phosphorylation is essential for centrosome maturation, and for numerous mitotic events. Although Plk1 localizes to multiple subcellular sites, a major site of action is the centrosomes, which supports mitotic functions in control of bipolar spindle formation. In G0 or G1 untransformed cells, the centriolar core of the centrosome differentiates into the basal body of the primary cilium. Primary cilia are antenna-like sensory organelles dynamically regulated during the cell cycle. Whether Plk1 has a role in ciliary biology has never been studied. Nephrocystin-1 (NPHP1) is a ciliary protein; loss of NPHP1 in humans causes nephronophthisis (NPH), an autosomal-recessive cystic kidney disease. We here demonstrate that Plk1 colocalizes with nephrocystin-1 to the transition zone of primary cilia in epithelial cells. Plk1 co-immunoprecipitates with NPHP1, suggesting it is part of the nephrocystin protein complex. We identified a candidate Plk1 phosphorylation motif (D/E-X-S/T-φ-X-D/E) in nephrocystin-1, and demonstrated in vitro that Plk1 phosphorylates the nephrocystin N-terminus, which includes the specific PLK1 phosphorylation motif. Further, induced disassembly of primary cilia rapidly evoked Plk1 kinase activity, while small molecule inhibition of Plk1 activity or RNAi-mediated downregulation of Plk1 limited the first and second phase of ciliary disassembly. These data identify Plk1 as a novel transition zone signaling protein, suggest a function of Plk1 in cilia dynamics, and link Plk1 to the pathogenesis of NPH and potentially other cystic kidney diseases.
Reduced-Clad Fibers for High-Density Optical Connectivity (2022)

Smaller-diameter fibers are migrating into data center applications to increase connectivity density. Our modelling and measurements indicate that a cladding diameter of 100 m delivers better microbending and attenuation compared to 80 m diameter fibers.
Magnetoresistance of multiple electron gas wires at the AlGaAs/GaAs heterointerface (1988)

A parallel arrangement of thin wires has been fabricated in the AlxGa1−xAs/GaAs heterostructure with holographic lithography. The observed anisotropy of the conductivity parallel versus perpendicular to the wires proves the existence of isolated conduction paths. Transverse magnetoresistance is negative at 4 K and exhibits a shoulder at a magnetic field, where the diameter of the cyclotron orbit amounts to 90 nm, which is supposed to be the effective wire width.
Paired proteomics, transcriptomics and miRNomics in non-small cell lung cancers: known and novel signaling cascades (2016)

High-throughput omics analyses are applied to elucidate molecular pathogenic mechanisms in cancer. Given restricted cohort sizes and contrasting large feature sets paired multi-omics analysis supports discovery of true positive deregulated signaling cascades. For lung cancer patients we measured from the same tissue biopsies proteomic- (6,183 proteins), transcriptomic- (34,687 genes) and miRNomic data (2,549 miRNAs). To minimize inter-individual variations case and control lung biopsies have been gathered from the same individuals.Considering single omics entities, 15 of 2,549 miRNAs (0.6%), 752 of 34,687 genes (2.2%) and 141 of 6,183 proteins (2.3%) were significantly deregulated. Multivariate analysis also revealed that effects in miRNA were smaller compared to genes and proteins indicating that expression changes of miRNAs might also have limited impact of pathogenicity. However, a new algorithm for modeling the complex mutual interactions of miRNAs and their target genes facilitated precise prediction of deregulation in cancer genes (92.3% accuracy, p=0.007). Lastly, deregulation of genes in cancer matched deregulation of proteins coded by the genes in 80% of cases.The resulting interaction network, which is based on quantitative analysis of the abundance of miRNAs, mRNAs and proteins each taken from the same lung cancer tissue and from the same autologous normal lung tissue confirms molecular pathological changes and further contributes to the discovery of altered signaling cascades in lung cancer.
Treatment and Long-Term Risks for Patients With a Diagnosis of Ductal Carcinoma In Situ (2016)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA Oncology HomeNew OnlineCurrent IssueFor Authors Podcast Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA Oncology journal
The C-terminal Tail of CRTH2 Is a Key Molecular Determinant That Constrains Gαi and Downstream Signaling Cascade Activation (2008)

Prostaglandin D(2) activation of the seven-transmembrane receptor CRTH2 regulates numerous cell functions that are important in inflammatory diseases, such as asthma. Despite its disease implication, no studies to date aimed at identifying receptor domains governing signaling and surface expression of human CRTH2. We tested the hypothesis that CRTH2 may take advantage of its C-tail to silence its own signaling and that this mechanism may explain the poor functional responses observed with CRTH2 in heterologous expression systems. Although the C terminus is a critical determinant for retention of CRTH2 at the plasma membrane, the presence of this domain confers a signaling-compromised conformation onto the receptor. Indeed, a mutant receptor lacking the major portion of its C-terminal tail displays paradoxically enhanced Galpha(i) and ERK1/2 activation despite enhanced constitutive and agonist-mediated internalization. Enhanced activation of Galpha(i) proteins and downstream signaling cascades is probably due to the inability of the tail-truncated receptor to recruit beta-arrestin2 and undergo homologous desensitization. Unexpectedly, CRTH2 is not phosphorylated upon agonist-stimulation, a primary mechanism by which GPCR activity is regulated. Dynamic mass redistribution assays, which allow label-free monitoring of all major G protein pathways in real time, confirm that the C terminus inhibits Galpha(i) signaling of CRTH2 but does not encode G protein specificity determinants. We propose that intrinsic CRTH2 inhibition by its C terminus may represent a rather unappreciated strategy employed by a GPCR to specify the extent of G protein activation and that this mechanism may compensate for the absence of the classical phosphorylation-dependent signal attenuation.
Comment on “Self-Organized Periodic Photonic Structure in a Nonchiral Liquid Crystal” (2004)

A Comment on the Letter by L. Z. Ruan, J. R. Sambles, and I. W. Stewart, Phys. Rev. Lett. 91, 033901 (2003).Received 19 February 2004DOI:https://doi.org/10.1103/PhysRevLett.93.109401©2004 American Physical Society
ChemInform Abstract: SYNTHESIS AND STRUCTURAL STUDY OF PYRIDINE‐BORABENZENE AND PYRIDINE‐2‐BORANAPHTHALENE (1985)

Abstract Ausgehend von dem Boracyclohexadien (I) wurde durch Deprotonierung und Silylierung (III) erhalten, das mit Py durch Abspaltung von Meth oxyjtrimethylsilan zu der Titelverbindung (IV) reagiert, die gegeneinander verdrehte Ringe enthält und mit Z=4 in der RG P2l/ n kristallisiert.
TileGen: Tileable, Controllable Material Generation and Capture (2022)

Recent methods (e.g. MaterialGAN) have used unconditional GANs to generate per-pixel material maps, or as a prior to reconstruct materials from input photographs. These models can generate varied random material appearance, but do not have any mechanism to constrain the generated material to a specific category or to control the coarse structure of the generated material, such as the exact brick layout on a brick wall. Furthermore, materials reconstructed from a single input photo commonly have artifacts and are generally not tileable, which limits their use in practical content creation pipelines. We propose TileGen, a generative model for SVBRDFs that is specific to a material category, always tileable, and optionally conditional on a provided input structure pattern. TileGen is a variant of StyleGAN whose architecture is modified to always produce tileable (periodic) material maps. In addition to the standard "style" latent code, TileGen can optionally take a condition image, giving a user direct control over the dominant spatial (and optionally color) features of the material. For example, in brick materials, the user can specify a brick layout and the brick color, or in leather materials, the locations of wrinkles and folds. Our inverse rendering approach can find a material perceptually matching a single target photograph by optimization. This reconstruction can also be conditional on a user-provided pattern. The resulting materials are tileable, can be larger than the target image, and are editable by varying the condition.
Supplementary Table from <sup>89</sup>Zr-panitumumab Combined With <sup>18</sup>F-FDG PET Improves Detection and Staging of Head and Neck Squamous Cell Carcinoma (2023)

Supplementary Table from &lt;sup&gt;89&lt;/sup&gt;Zr-panitumumab Combined With &lt;sup&gt;18&lt;/sup&gt;F-FDG PET Improves Detection and Staging of Head and Neck Squamous Cell Carcinoma
High‐throughput Screening for Identification of Inhibitors of EpCAM‐Dependent Growth of Hepatocellular Carcinoma Cells (2013)

The cancer stem cell marker, EpCAM, is an important indicator of Wnt/β-catenin signaling activation and a functional component of hepatocellular tumor-initiating cells. A high-throughput screening assay was developed to identify inhibitors of EpCAM-dependent growth of hepatocellular carcinoma (HCC) cells. EpCAM(+) and EpCAM(-) HCC cell lines were assessed for differential sensitivity to a Wnt/β-catenin pathway inhibitor. Libraries comprising 22 668 pure compounds and 107 741 crude or partially purified natural product extracts were tested, and 12 pure compounds and 67 natural product extracts were identified for further study. Three active compounds and the positive control were further characterized in terms of effects on EpCAM expression. Treatment of EpCAM(+) Hep3B cells resulted in loss of EpCAM expression as assessed by flow cytometry. This reduction was incomplete (most cells continued to express EpCAM), but resulted in generation of cell populations expressing lower levels of EpCAM. Sublethal concentrations (~IC50 ) reduced median EpCAM expression to 28% of control after 1 day and 19% of control after 2 days. Reduction in EpCAM expression preceded growth inhibition suggesting that a threshold of EpCAM expression may be required for growth of EpCAM-dependent cells. The identification of compounds with a variety of possible molecular targets suggests a likelihood of multiple mechanisms for modulation of EpCAM-dependent cell growth.
Optimization of the transmission yield of the ion optics on a micro mass spectrometer: Simulations and experimental results (2016)

This work shows the optimization, both by simulations and experimentally of the ion source optics of a miniaturized time-of-flight mass spectrometer. The simulations are used to speed up the experiments and make them more efficient in finding optimal working points. The experimental points agree well with simulations. The ion source is used finally as a linear micro time-of-flight mass spectrometer. Simple gas mixtures are identified efficiently using this system.
Processing Properties (2006)

No AccessPolymer ProcessingApr 2006Processing PropertiesTim A. Osswald, Juan P. Hernández-OrtizTim A. OsswaldSearch for more papers by this author, Juan P. Hernández-OrtizSearch for more papers by this authorhttps://doi.org/10.3139/9783446412866.002SectionsAboutPDF ToolsAdd to FavoritesDownload CitationTrack CitationsCopy LTI LinkPDF key 'share (en)' returned an object instead of string.FacebookTwitterEmailLinkedIn previous chapternext chapter FiguresReferencesRelatedDetails 2006Pages: 37-110Print ISBN: 978-3-446-40381-9eISBN: 978-3-446-41286-6 Copyright & Permissions© 2006 Carl Hanser Verlag GmbH & Co. KGPDF DownloadLoading ...
Convergence analysis of the information matrix in Gaussian Belief Propagation (2017)

Gaussian belief propagation (BP) has been widely used for distributed estimation in large-scale networks such as the smart grid, communication networks, and social networks, where local meansurements/observations are scattered over a wide geographical area. However, the convergence of Gaussian BP is still an open issue. In this paper, we consider the convergence of Gaussian BP, focusing in particular on the convergence of the information matrix. We show analytically that the exchanged message information matrix converges for arbitrary positive semidefinite initial value, and its distance to the unique positive definite limit matrix decreases exponentially fast.
FDSOI to nanowires and single electron transistors (2014)

This paper reviews how the evolution of FDSOI planar architecture towards Trigate Nanowires leads to a natural Single Electron Transistor and Field Effect Transistor convergence at room temperature. On one hand, this convergence sets up technological specifications to preserve CMOS operation. On the other hand it opens the path to room temperature hybrid circuits based on single electron transistors and MOSFETs. Further on, single electron effects can be downscaled to the ultimate single atom transistors and we demonstrate the practical performance of electron pumps for metrologic applications.
Opportunities for Conformation-Selective Antibodies in Amyloid-Related Diseases (2015)

Assembly of misfolded proteins into fibrillar deposits is a common feature of many neurodegenerative diseases. Developing effective therapies to these complex, and not yet fully understood diseases is currently one of the greatest medical challenges facing society. Slow and initially asymptomatic onset of neurodegenerative disorders requires profound understanding of the processes occurring at early stages of the disease including identification and structural characterisation of initial toxic species underlying neurodegeneration. In this review, we chart the latest progress made towards understanding the multifactorial process leading to amyloid formation and highlight efforts made in the development of therapeutic antibodies for the treatment of amyloid-based disorders. The specificity and selectivity of conformational antibodies make them attractive research probes to differentiate between transient states preceding formation of mature fibrils and enable strategies for potential therapeutic intervention to be considered.