gebhart/patrepeval huggingface dataset:
Specificity of antibody-catalyzed transesterifications using enol esters: a comparison with lipase reactions (1992)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSpecificity of antibody-catalyzed transesterifications using enol esters: a comparison with lipase reactionsErhard Fernholz, Diane Schloeder, Kevin K. C. Liu, Curt W. Bradshaw, Hongmei Huang, Kim Janda, Richard A. Lerner, and Chi Huey WongCite this: J. Org. Chem. 1992, 57, 17, 4756–4761Publication Date (Print):August 1, 1992Publication History Published online1 May 2002Published inissue 1 August 1992https://pubs.acs.org/doi/10.1021/jo00043a042https://doi.org/10.1021/jo00043a042research-articleACS PublicationsRequest reuse permissionsArticle Views239Altmetric-Citations17LEARN 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
Epidermal growth factor receptor immunohistochemistry: new opportunities in metastatic colorectal cancer (2015)

The treatment of cancer is becoming more precise, targeting specific oncogenic drivers with targeted molecular therapies. The epidermal growth factor receptor has been found to be over-expressed in a multitude of solid tumours. Immunohistochemistry is widely used in the fields of diagnostic and personalised medicine to localise and visualise disease specific proteins. To date the clinical utility of epidermal growth factor receptor immunohistochemistry in determining monoclonal antibody efficacy has remained somewhat inconclusive. The lack of an agreed reproducible scoring criteria for epidermal growth factor receptor immunohistochemistry has, in various clinical trials yielded conflicting results as to the use of epidermal growth factor receptor immunohistochemistry assay as a companion diagnostic. This has resulted in this test being removed from the licence for the drug panitumumab and not performed in clinical practice for cetuximab. In this review we explore the reasons behind this with a particular emphasis on colorectal cancer, and to suggest a way of resolving the situation through improving the precision of epidermal growth factor receptor immunohistochemistry with quantitative image analysis of digitised images complemented with companion molecular morphological techniques such as in situ hybridisation and section based gene mutation analysis.
Digital in-line holography for biological applications (2001)

Digital in-line holography with numerical reconstruction has been developed into a new tool, specifically for biological applications, that routinely achieves both lateral and depth resolution, at least at the micron level, in three-dimensional imaging. The experimental and numerical procedures have been incorporated into a program package with a very fast reconstruction algorithm that is now capable of real-time reconstruction. This capability is demonstrated for diverse objects, such as suspension of microspheres and biological samples (diatom, the head of Drosophila melanogaster), and the advantages are discussed by comparing holographic reconstructions with images taken by using conventional compound light microscopy.
Architecture-aware low-density parity-check codes (2003)

A high-throughput memory-efficient decoder architecture for architecture-aware low-density parity-check (LDPC) codes is proposed based on a novel turbo-decoding algorithm. The architecture benefits from various optimizations at the code-design, decoding algorithm, and decoder architecture levels. The interconnect complexity and memory overhead problems of current decoder implementations are reduced by designing structured or architecture-aware LDPC codes and employing a new turbo-decoding algorithm. An efficient memory architecture coupled with a scalable and dynamic transport network for storing and routing messages are proposed. Simulations demonstrate that the proposed architecture attains a throughput of 1.92 Gbits/s for a frame length of 2304 bits, and achieves savings of 89.13 % and 62.80 % in power consumption and silicon area over state-of-the-art, with a reduction of 60.5 % in interconnect wires.
Sequence tags of provirus integration sites in DNAs of tumors induced by the murine retrovirus SL3-3 (1996)

The murine retrovirus SL3-3 is a potent inducer of T-cell lymphomas when inoculated into susceptible newborn mice. The proviral integration site sequences were surveyed in tumor DNAs by a simple two-step PCR method. From 20 SL3-3-induced tumors a total of 39 provirus-host junctions were amplified and sequenced. Seven showed homology to known sequences. These included the known common integration site c-myc as well as genes not previously identified as targets of provirus integration, namely N-ras and the genes coding for major histocompatibility complex class 11 E-beta, protein kinase C-eta, and T-cell receptor beta-chain. Among these genes, the integrations in c-myc as well as the one in N-ras were found to be clonal. One of the remaining 32 proviral integration site sequences that show no similarities to known sequences may represent a common integration site, as 2 of the 20 tumors demonstrated clonal provirus insertion into this region.
Ghrelin Stimulates, Whereas Des-Octanoyl Ghrelin Inhibits, Glucose Output by Primary Hepatocytes (2005)

Ghrelin exerts various metabolic activities, including regulation of glucose levels in humans. To verify whether the glucose response to ghrelin reflects a modulation of an insulin-independent hepatic phenomenon, we studied glucose output by primary porcine hepatocytes in suspension culture, after incubation with acylated ghrelin (AG), unacylated ghrelin (UAG), and hexarelin (HEX). AG induced glucose output dose dependently after 20 min of incubation (P < 0.001), whereas HEX, a GH secretagogue receptor type 1a (GHS-R1a) agonist, had no effect. UAG inhibited glucose release also dose dependently and after 20 min (P < 0.001). Moreover, UAG completely reversed AG-induced glucose output (P < 0.01). Using real-time PCR, GHS-R1a gene expression was undetectable in all the hepatocyte preparations studied. The lack of efficacy of HEX, the efficacy of UAG, and the absence of GHS-R1a expression indicate the involvement of a yet uncharacterized ghrelin receptor type. In conclusion, glucose output by primary hepatocytes is time- and dose-dependently stimulated by AG and inhibited by UAG. Moreover, UAG counteracts the stimulatory effect of AG on glucose release. These actions might be mediated by a different receptor than GHS-R1a, and apparently, we must consider AG and UAG as separate hormones that can modify each other's actions on glucose handling, at least in the liver.
Flock House Virus RNA Replicates on Outer Mitochondrial Membranes in Drosophila Cells (2001)

The identification and characterization of host cell membranes essential for positive-strand RNA virus replication should provide insight into the mechanisms of viral replication and potentially identify novel targets for broadly effective antiviral agents. The alphanodavirus flock house virus (FHV) is a positive-strand RNA virus with one of the smallest known genomes among animal RNA viruses, and it can replicate in insect, plant, mammalian, and yeast cells. To investigate the localization of FHV RNA replication, we generated polyclonal antisera against protein A, the FHV RNA-dependent RNA polymerase, which is the sole viral protein required for FHV RNA replication. We detected protein A within 4 h after infection of Drosophila DL-1 cells and, by differential and isopycnic gradient centrifugation, found that protein A was tightly membrane associated, similar to integral membrane replicase proteins from other positive-strand RNA viruses. Confocal immunofluorescence microscopy and virus-specific, actinomycin D-resistant bromo-UTP incorporation identified mitochondria as the intracellular site of protein A localization and viral RNA synthesis. Selective membrane permeabilization and immunoelectron microscopy further localized protein A to outer mitochondrial membranes. Electron microscopy revealed 40- to 60-nm membrane-bound spherical structures in the mitochondrial intermembrane space of FHV-infected cells, similar in ultrastructural appearance to tombusvirus- and togavirus-induced membrane structures. We concluded that FHV RNA replication occurs on outer mitochondrial membranes and shares fundamental biochemical and ultrastructural features with RNA replication of positive-strand RNA viruses from other families.
Scanning holographic microscopy with resolution exceeding the Rayleigh limit of the objective by superposition of off-axis holograms (2007)

We present what we believe to be a new application of scanning holographic microscopy to superresolution. Spatial resolution exceeding the Rayleigh limit of the objective is obtained by digital coherent addition of the reconstructions of several off-axis Fresnel holograms. Superresolution by holographic superposition and synthetic aperture has a long history, which is briefly reviewed. The method is demonstrated experimentally by combining three off-axis holograms of fluorescent beads showing a transverse resolution gain of nearly a factor of 2.
Monoclonal antibodies against DNA-binding tips of DNABII proteins disrupt biofilms in vitro and induce bacterial clearance in vivo (2016)

The vast majority of chronic and recurrent bacterial diseases are attributed to the presence of a recalcitrant biofilm that contributes significantly to pathogenesis. As such, these diseases will require an innovative therapeutic approach. We targeted DNABII proteins, an integral component of extracellular DNA (eDNA) which is universally found as part of the pathogenic biofilm matrix to develop a biofilm disrupting therapeutic. We show that a cocktail of monoclonal antibodies directed against specific epitopes of a DNABII protein is highly effective to disrupt diverse biofilms in vitro as well as resolve experimental infection in vivo, in both a chinchilla and murine model. Combining this monoclonal antibody cocktail with a traditional antibiotic to kill bacteria newly released from the biofilm due to the action of the antibody cocktail was highly effective. Our results strongly support these monoclonal antibodies as attractive candidates for lead optimization as a therapeutic for resolution of bacterial biofilm diseases.
Cross-Talk in Cell Death Signaling (2000)

Apoptotic cell suicide can be initiated by a plethora of stimuli that generally feed into one of two known cell death signaling pathways ([Fig. 1][1]; for review see references ([1][2]) and ([2][3])). Both pathways share many features, including molecular devices that spark caspase activation by
Piezoresistive Properties of Silicon Diffused Layers (1963)

The piezoresistive properties of n- and p-type layers formed by the diffusion of impurities into silicon have been investigated. The values of the three piezoresistance coefficients and the temperature dependence of the large coefficients have been measured on layers having surface concentration values from 1018 to 1021 cm−3. The piezoresistance effect in p-type diffused layers follows qualitatively the behavior expected in a degenerate semiconductor. n-type layers having high surface concentration values show a change in the symmetry of the piezoresistance effect at room temperature and a decrease in the coefficient π11 at lower temperatures. A discussion of the piezoresistance effect in diffused layers and its relation to the piezoresistance effect in uniformly doped material is also given.
Adoptive transfer of IL-4Rα+ macrophages is sufficient to enhance eosinophilic inflammation in a mouse model of allergic lung inflammation (2012)

These results demonstrate that transfer of IL-4Rα + macrophages is sufficient to enhance TH2-driven, allergic inflammation. They further show that stimulation of macrophages through IL-4Rα leads to their alternative activation and positive contribution to the TH2-driven allergic inflammatory response in the lung. Since an increase in AAM and their products has been observed in patients with asthma exacerbations, these results suggest that AAM may be targeted to alleviate exacerbations.
Two distinct outer membrane serotype subcomplexes of Neisseria meningitidis serogroup A (1990)

A 350-kilodalton serotype outer membrane complex containing the class 1, 3, and 4 outer membrane proteins was isolated from serogroup A Neisseria meningitidis. Partial denaturation yielded two serotype subcomplexes containing the class 3 and 1 proteins (85 kilodaltons) and the class 3 and 4 proteins (94 kilodaltons), respectively.
Amyloid-β peptide levels in brain are inversely correlated with insulysin activity levels in vivo (2003)

Factors that elevate amyloid-beta (Abeta) peptide levels are associated with an increased risk for Alzheimer's disease. Insulysin has been identified as one of several proteases potentially involved in Abeta degradation based on its hydrolysis of Abeta peptides in vitro. In this study, in vivo levels of brain Abeta40 and Abeta42 peptides were found to be increased significantly (1.6- and 1.4-fold, respectively) in an insulysin-deficient gene-trap mouse model. A 6-fold increase in the level of the gamma-secretase-generated C-terminal fragment of the Abeta precursor protein in the insulysin-deficient mouse also was found. In mice heterozygous for the insulysin gene trap, in which insulysin activity levels were decreased approximately 50%, brain Abeta peptides were increased to levels intermediate between those in wild-type mice and homozygous insulysin gene-trap mice that had no detectable insulysin activity. These findings indicate that there is an inverse correlation between in vivo insulysin activity levels and brain Abeta peptide levels and suggest that modulation of insulysin activity may alter the risk for Alzheimer's disease.
RGB-D camera-based parallel tracking and meshing (2011)

Compared to standard color cameras, RGB-D cameras are designed to additionally provide the depth of imaged pixels which in turn results in a dense colored 3D point cloud representing the environment from a certain viewpoint. We present a real-time tracking method that performs motion estimation of a consumer RGB-D camera with respect to an unknown environment while at the same time reconstructing this environment as a dense textured mesh. Unlike parallel tracking and mapping performed with a standard color or grey scale camera, tracking with an RGB-D camera allows a correctly scaled camera motion estimation. Therefore, there is no need for measuring the environment by any additional tool or equipping the environment by placing objects in it with known sizes. The tracking can be directly started and does not require any preliminary known and/or constrained camera motion. The colored point clouds obtained from every RGB-D image are used to create textured meshes representing the environment from a certain camera view and the real-time estimated camera motion is used to correctly align these meshes over time in order to combine them into a dense reconstruction of the environment. We quantitatively evaluated the proposed method using real image sequences of a challenging scenario and their corresponding ground truth motion obtained with a mechanical measurement arm. We also compared it to a commonly used state-of-the-art method where only the color information is used. We show the superiority of the proposed tracking in terms of accuracy, robustness and usability. We also demonstrate its usage in several Augmented Reality scenarios where the tracking allows a reliable camera motion estimation and the meshing increases the realism of the augmentations by correctly handling their occlusions.
Intrinsic regenerative potential of murine cochlear supporting cells (2011)

The lack of cochlear regenerative potential is the main cause for the permanence of hearing loss. Albeit quiescent in vivo, dissociated non-sensory cells from the neonatal cochlea proliferate and show ability to generate hair cell-like cells in vitro. Only a few non-sensory cell-derived colonies, however, give rise to hair cell-like cells, suggesting that sensory progenitor cells are a subpopulation of proliferating non-sensory cells. Here we purify from the neonatal mouse cochlea four different non-sensory cell populations by fluorescence-activated cell sorting (FACS). All four populations displayed proliferative potential, but only lesser epithelial ridge and supporting cells robustly gave rise to hair cell marker-positive cells. These results suggest that cochlear supporting cells and cells of the lesser epithelial ridge show robust potential to de-differentiate into prosensory cells that proliferate and undergo differentiation in similar fashion to native prosensory cells of the developing inner ear.
Epithelial Tissue Hyperplasia Induced by the RAF Inhibitor PF-04880594 Is Attenuated by a Clinically Well-Tolerated Dose of the MEK Inhibitor PD-0325901 (2012)

Clinical trials of selective RAF inhibitors in patients with melanoma tumors harboring activated BRAFV600E have produced very promising results, and a RAF inhibitor has been approved for treatment of advanced melanoma. However, about a third of patients developed resectable skin tumors during the course of trials. This is likely related to observations that RAF inhibitors activate extracellular signal-regulated kinase (ERK) signaling, stimulate proliferation, and induce epithelial hyperplasia in preclinical models. Because these findings raise safety concerns about RAF inhibitor development, we further investigated the underlying mechanisms. We showed that the RAF inhibitor PF-04880594 induces ERK phosphorylation and RAF dimerization in those epithelial tissues that undergo hyperplasia. Hyperplasia and ERK hyperphosphorylation are prevented by treatment with the mitogen-activated protein/extracellular signal-regulated kinase (MEK) inhibitor PD-0325901 at exposures that extrapolate to clinically well-tolerated doses. To facilitate mechanistic and toxicologic studies, we developed a three-dimensional cell culture model of epithelial layering that recapitulated the RAF inhibitor-induced hyperplasia and reversal by MEK inhibitor in vitro. We also showed that PF-04880594 stimulates production of the inflammatory cytokine interleukin 8 in HL-60 cells, suggesting a possible mechanism for the skin flushing observed in dogs. The complete inhibition of hyperplasia by MEK inhibitor in epithelial tissues does not seem to reduce RAF inhibitor efficacy and, in fact, allows doubling of the PF-04880594 dose without toxicity usually associated with such doses. These findings indicated that combination treatment with MEK inhibitors might greatly increase the safety and therapeutic index of RAF inhibitors for the treatment of melanoma and other cancers.
Octadecylsilylated Porous Silica Rods as Separation Media for Reversed-Phase Liquid Chromatography (1996)

Continuous porous silica rods consisting of a mesoporous (pore size, 14 or 25 nm) silica skeleton of ∼1 μm size and through-pores of ∼1.7 μm were prepared and derivatized to C(18) phase by on-column reaction with octadecyldimethyl-(N,N-diethylamino)silane. The C(18) silica rods gave plate heights of 10-20 μm for aromatic hydrocarbons in 80% methanol and 20-40 μm for insulin in acetonitrile-water mixtures in the presence of trifluoroacetic acid. The performance of the silica rods was much better at a high flow rate than that of conventional columns packed with 5 μm C(18) silica particles having 12 and 30 nm pores, especially for high molecular weight species.
An ultra-low-voltage all-digital PLL for energy harvesting applications (2014)

A 2 GHz all-digital phase locked loop (ADPLL) with core components operating from a 300-mV supply is presented. Ultra-low voltage frequency division and phase/frequency quantization are performed by a ring oscillator that is superharmonically injection-locked to the digitally-controlled oscillator (DCO). An injection-locking technique is proposed which facilitates locking with no additional active devices, minimizing capacitive loading and maximizing the oscillation frequency of the divider at low voltage. The ADPLL is fabricated in a 65-nm CMOS process, and consumes a total of 780 μW, 720μW from a 300-mV supply (V <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">DDL</sub> ) and 60μW from a 600-mV supply (V <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">DDH</sub> ).