gebhart/patrepeval huggingface dataset:
Versatile, Sensitive, and Robust Native LC–MS Platform for Intact Mass Analysis of Protein Drugs (2020)

Over the past several years, hyphenation of native (nondenaturing) liquid chromatography (nLC) methods, such as size exclusion chromatography (SEC), ion exchange chromatography (IEX), and hydrophobic interaction chromatography (HIC) with mass spectrometry (MS) have become increasingly popular to study the size, charge, and structural heterogeneity of protein drug products. Despite the availability of a wide variety of nLC-MS methods, an integrated platform that can accommodate different applications is still lacking. In this study, we described the development of a versatile, sensitive, and robust nLC-MS platform that can support various nLC-MS applications. In particular, the developed platform can tolerate a wide range of LC flow rates and high salt concentrations, which are critical for accommodating different nLC methods. In addition, a dopant-modified desolvation gas can be readily applied on this platform to achieve online charge-reduction native MS, which improves the characterization of both heterogeneous and labile biomolecules. Finally, we demonstrated that this nLC-MS platform is highly sensitive and robust and can be routinely applied in protein drug characterization.
Potential of Nanofiber Matrix as Tissue-Engineering Scaffolds (2005)

Tissue-engineering scaffolds should be analogous to native extracellular matrix (ECM) in terms of both chemical composition and physical structure. Polymeric nanofiber matrix is similar, with its nanoscaled nonwoven fibrous ECM proteins, and thus is a candidate ECM-mimetic material. Techniques such as electrospinning to produce polymeric nanofibers have stimulated researchers to explore the application of nanofiber matrix as a tissue-engineering scaffold. This review covers the preparation and modification of polymeric nanofiber matrix in the development of future tissue-engineering scaffolds. Major emphasis is also given to the development and applications of aligned, core shell-structured, or surface-functionalized polymer nanofibers. The potential application of polymer nanofibers extends far beyond tissue engineering. Owing to their high surface area, functionalized polymer nanofibers will find broad applications as drug delivery carriers, biosensors, and molecular filtration membranes in future.
Human Molecular Biology Laboratory (2003)

Human molecular biology laboratory , Human molecular biology laboratory , کتابخانه مرکزی دانشگاه علوم پزشکی تهران
THROMBOCYTOPENIA AFTER LIVER TRANSPLANTATION (1999)

Thrombocytopenia in the immediate posttransplant period is correlated with low preoperative PLT, massive platelet transfusions, and re-transplantation. These factors reflect a poor preoperative condition. There is also a correlation with allograft dysfunction, rejection, and poorer patient and graft survival. A rise in the mean PLT after the 2nd postoperative week reflects proper graft function.
Detecting anomalous and unknown intrusions against programs (2002)

The ubiquity of the Internet connection to desktops has been both a boon to business as well as a cause for concern for the security of digital assets that may be unknowingly exposed. Firewalls have been the most commonly deployed solution to secure corporate assets against intrusions, but firewalls are vulnerable to errors in configuration, ambiguous security policies, data-driven attacks through allowed services, and insider attacks. The failure of firewalls to adequately protect digital assets from computer-based attacks has been a boon to commercial intrusion detection tools. Two general approaches to detecting computer security intrusions in real time are misuse detection and anomaly detection. Misuse detection attempts to detect known attacks against computer systems. Anomaly detection uses knowledge of users' normal behavior to detect attempted attacks. The primary advantage of anomaly detection over misuse detection methods is the ability to detect novel and unknown intrusions. This paper presents a study in employing neural networks to detect the existence of anomalous and unknown intrusions against a software system using the anomaly detection approach.
Magnetite‐Loaded Polymeric Micelles as Ultrasensitive Magnetic‐Resonance Probes (2005)

Increased contrast in magnetic resonance imaging (MRI) is accomplished using polymeric micelles loaded with superparamagnetic iron oxide (SPIO) nanoparticles encapsulated in biocompatible, biodegradable poly(ϵ-caprolactone)-b-poly(ethylene glycol) (PCL-b-PEG) copolymers (see Figure). The loaded micelles show significantly improved T2 relaxivities and remarkable MRI detection sensitivity. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2089/2005/c1904_s.pdf or from the author. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Electrochemically Protected Copper(I)‐Catalyzed Azide–Alkyne Cycloaddition (2008)

The copper(I)-catalyzed azide-alkyne cycloaddition (CuAAC) reaction has found broad application in myriad fields. For the most demanding applications that require high yields at low substrate concentrations, highly active but air-sensitive copper complexes must be used. We describe here the use of an electrochemical potential to maintain catalysts in the active Cu(I) oxidation state in the presence of air. This simple procedure efficiently achieves excellent yields of CuAAC products from both small-molecule and protein substrates without the use of potentially damaging chemical reducing agents. A new water-soluble carboxylated version of the popular tris(benzyltriazolylmethyl)amine (TBTA) ligand is also described. Cyclic voltammetry revealed reversible or quasi-reversible electrochemical redox behavior of copper complexes of the TBTA derivative (2; E(1/2)=60 mV vs. Ag/AgCl), sulfonated bathophenanthroline (3; E(1/2)=-60 mV), and sulfonated tris(benzimidazoylmethyl)amine (4; E(1/2) approximately -70 mV), and showed catalytic turnover to be rapid relative to the voltammetry time scale. Under the influence of a -200 mV potential that was established by using a reticulated vitreous carbon working electrode, CuSO4 and 3 formed a superior catalyst. Electrochemically protected bioconjugations in air were performed by using bacteriophage Qbeta that was derivatized with azide moieties at surface lysine residues. Complete derivatization of more than 600 reactive sites per particle was demonstrated within 12 h of electrolysis with substoichiometric quantities of Cu3.
Surgical Treatment and Other Regional Treatments for Colorectal Cancer Liver Metastases (1999)

The liver is the most common site of distant metastasis from colorectal cancer. About one-fourth of patients with liver metastases from colorectal cancer have no other sites of metastasis and can be treated with regional therapies directed toward their liver tumors. Surgical resection of colorectal cancer liver metastases can result in a 24%-38% five-year survival, but only a minority of patients are candidates for resection. Other regional therapies such as cryosurgery, radiofrequency ablation, and hepatic intra-arterial chemotherapy may be offered to patients with unresectable but isolated liver metastases. The efficacy of these treatments is still being determined. For most patients with spread of metastatic colorectal cancer beyond the liver, systemic chemotherapy rather than regional therapy is a more appropriate option.
Brain to Plasma Amyloid-β Efflux: a Measure of Brain Amyloid Burden in a Mouse Model of Alzheimer's Disease (2002)

The deposition of amyloid-beta (Abeta) peptides into amyloid plaques precedes the cognitive dysfunction of Alzheimer's disease (AD) by years. Biomarkers indicative of brain amyloid burden could be useful for identifying individuals at high risk for developing AD. As in AD in humans, baseline plasma Abeta levels in a transgenic mouse model of AD did not correlate with brain amyloid burden. However, after peripheral administration of a monoclonal antibody to Abeta (m266), we observed a rapid increase in plasma Abeta and the magnitude of this increase was highly correlated with amyloid burden in the hippocampus and cortex. This method may be useful for quantifying brain amyloid burden in patients at risk for or those who have been diagnosed with AD.
D1/D5 receptor agonists induce a protein synthesis-dependent late potentiation in the CA1 region of the hippocampus. (1995)

Agonists of the dopamine D1/D5 receptors that are positively coupled to adenylyl cyclase specifically induce a slowly developing long-lasting potentiation of the field excitatory postsynaptic potential in the CA1 region of the hippocampus that lasts for > 6 hr. This potentiation is blocked by the specific D1/D5 receptor antagonist SCH 23390 and is occluded by the potentiation induced by cAMP agonists. An agonist of the D2 receptor, which is negatively coupled to adenylyl cyclase through G alpha i, did not induce potentiation. Although this slow D1/D5 agonist-induced potentiation is partially independent of N-methyl-D-aspartate receptors, it seems to share some steps with and is occluded by the late phase of long-term potentiation (LTP) produced by three repeated trains of nerve stimuli applied to the Schaffer collateral pathway. Similarly, the D1/D5 antagonist SCH 23390 attenuates the late phase of the LTP induced by repeated trains, and the D1/D5 agonist-induced potentiation is blocked by the protein synthesis inhibitor anisomycin. These results suggest that the D1/D5 receptor may be involved in the late, protein synthesis-dependent component of LTP in the hippocampal CA1 region, either as an ancillary component or as a mediator directly contributing to the late phase.
Vascular Smooth Muscle Cell Kinetics: a New Assay for Studying Patterns of Cellular Proliferation in Vivo (1979)

A new quantitative assay for studying the kinetics of vascular smooth muscle cells in vivo is reported. The assay was used to determine the specific activity of DNA from rabbit aortic smooth muscle cells stimulated to grow by removal of the endothelial layer. The specific activity of the DNA was correlated with the rate of tritiated thymidine incorporation as measured by autoradiography and with the rate of DNA synthesis as estimated by direct measurement of cellular proliferation. Smooth muscle cells exhibit a 24-hour latent period in vivo prior to DNA synthesis; the synthesis peaks at 48 hours and then rapidly declines. The decline in DNA synthesis is not related to endothelial regrowth, and may be of homeostatic significance in limiting luminal stenosis. The assay offers a rapid and reliable alternative to autoradiographic and morphometric techniques for evaluating growth kinetics and growth regulation in vivo.
Association of non-receptor protein tyrosine kinases with the Fc γ RI/γ-chain complex in monocytic cells (1997)

To characterize the functional macromolecular complex of the high affinity receptor for IgG (Fc gamma RI), we have undertaken the identification of the molecules associated with the ligand binding unit and its associated subunit, gamma-chain, in a monocyte cell line, U937. Comparison of the pattern of tyrosine-phosphorylated proteins that coprecipitate with anti-Fc gamma RI or anti-gamma-chain Abs after Fc gamma RI clustering suggests that, like other receptor systems, the different units of the receptor associate or recruit different elements of the signaling pathway. Syk associates preferentially with the gamma-chain subunit and not with Fc gamma RI itself. This association is dependent on receptor clustering and correlates with gamma-chain phosphorylation. The Src kinase Lyn is also part of the receptor complex. Lyn associates with both units of the receptor, and this association is independent of receptor engagement; however, the level of tyrosine phosphorylation of the kinase increases after Fc gamma RI clustering. Association of a 35-kDa phosphoprotein with the binding unit was also observed after receptor clustering. We further found that after Fc gamma RI clustering, tyrosine-phosphorylated Syk associates with Lyn. These data suggest that several levels of interaction occur between these molecules or that different pools of tyrosine kinases become activated after Fc gamma RI clustering.
Some Cardiovascular Effects of a Series of Aryloxyalkylamines. I (1965)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSome Cardiovascular Effects of a Series of Aryloxyalkylamines. IJ. Augstein, W. C. Austin, R. J. Boscott, S. M. Green, and C. R. WorthingCite this: J. Med. Chem. 1965, 8, 3, 356–367Publication Date (Print):May 1, 1965Publication History Published online1 May 2002Published inissue 1 May 1965https://pubs.acs.org/doi/10.1021/jm00327a017https://doi.org/10.1021/jm00327a017research-articleACS PublicationsRequest reuse permissionsArticle Views660Altmetric-Citations31LEARN 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
Relating TCR-peptide-MHC affinity to immunogenicity for the design of tumor vaccines (2006)

One approach to enhancing the T cell response to tumors is vaccination with mimotopes, mimics of tumor epitopes. While mimotopes can stimulate proliferation of T cells that recognize tumor-associated antigens (TAAs), this expansion does not always correlate with control of tumor growth. We hypothesized that vaccination with mimotopes of optimal affinity in this interaction will improve antitumor immunity. Using a combinatorial peptide library and a cytotoxic T lymphocyte clone that recognizes a TAA, we identified a panel of mimotopes that, when complexed with MHC, bound the TAA-specific TCR with a range of affinities. As expected, in vitro assays showed that the affinity of the TCR-peptide-MHC (TCR-pMHC) interaction correlated with activity of the T cell clone. However, only vaccination with mimotopes in the intermediate-affinity range elicited functional T cells and provided protection against tumor growth in vivo. Vaccination with mimotopes with the highest-affinity TCR-pMHC interactions elicited TAA-specific T cells to the tumor, but did not control tumor growth at any of the peptide concentrations tested. Further analysis of these T cells showed functional defects in response to the TAA. Thus, stimulation of an antitumor response by mimotopes may be optimal with peptides that increase but do not maximize the affinity of the TCR-pMHC interaction.
An introduction to molecular replacement (2007)

Molecular replacement is fundamentally a simple trial-and-error method of solving crystal structures when a suitable related model is available. The underlying simplicity of the method is often obscured by the mathematical trickery required to make the searches computationally tractable. This introduction sketches the essential issues in molecular replacement without going into technical details. General search strategies are discussed and the alternative Patterson and likelihood approaches are outlined.
Some remarks on the notion of competence (1980)

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Video-rate localization in multiple maps for wearable augmented reality (2008)

We show how a system for video-rate parallel camera tracking and 3D map-building can be readily extended to allow one or more cameras to work in several maps, separately or simultaneously. The ability to handle several thousand features per map at video-rate, and for the cameras to switch automatically between maps, allows spatially localized AR workcells to be constructed and used with very little intervention from the user of a wearable vision system. The user can explore an environment in a natural way, acquiring local maps in real-time. When revisiting those areas the camera will select the correct local map from store and continue tracking and structural acquisition, while the user views relevant AR constructs registered to that map.
On Broadmindedness (2009)

Research Article| March 01 2009 On Broadmindedness William Johnson William Johnson William Johnson is a former New York Editor of Film Quarterly. Search for other works by this author on: This Site PubMed Google Scholar Film Quarterly (2009) 62 (3): 10–12. https://doi.org/10.1525/fq.2009.62.3.10 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn MailTo Tools Icon Tools Get Permissions Cite Icon Cite Search Site Citation William Johnson; On Broadmindedness. Film Quarterly 1 March 2009; 62 (3): 10–12. doi: https://doi.org/10.1525/fq.2009.62.3.10 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentFilm Quarterly Search This content is only available via PDF. © 2009 by the Regents of the University of California.2009 Article PDF first page preview Close Modal You do not currently have access to this content.
Chameleon (2018)

Applying deep convolutional neural networks (NN) to video data at scale poses a substantial systems challenge, as improving inference accuracy often requires a prohibitive cost in computational resources. While it is promising to balance resource and accuracy by selecting a suitable NN configuration (e.g., the resolution and frame rate of the input video), one must also address the significant dynamics of the NN configuration's impact on video analytics accuracy. We present Chameleon, a controller that dynamically picks the best configurations for existing NN-based video analytics pipelines. The key challenge in Chameleon is that in theory, adapting configurations frequently can reduce resource consumption with little degradation in accuracy, but searching a large space of configurations periodically incurs an overwhelming resource overhead that negates the gains of adaptation. The insight behind Chameleon is that the underlying characteristics (e.g., the velocity and sizes of objects) that affect the best configuration have enough temporal and spatial correlation to allow the search cost to be amortized over time and across multiple video feeds. For example, using the video feeds of five traffic cameras, we demonstrate that compared to a baseline that picks a single optimal configuration offline, Chameleon can achieve 20-50% higher accuracy with the same amount of resources, or achieve the same accuracy with only 30--50% of the resources (a 2-3X speedup).
The synthetic oleanane triterpenoid, CDDO-methyl ester, is a potent antiangiogenic agent (2007)

We show that the synthetic oleanane triterpenoid, CDDO-methyl ester (CDDO-Me; methyl 2-cyano-3,12-dioxoolean-1,9-dien-28-oate) is an effective agent for suppressing angiogenesis, both in cell culture and in vivo. The potency of CDDO-Me is particularly striking when dosed in vivo to inhibit the angiogenic effects of vascular endothelial growth factor and tumor necrosis factor-alpha in Matrigel sponge assays; activity is seen at i.p. doses of CDDO-Me as low as 0.003 mg/kg of body weight. If the Matrigel sponges are impregnated with CDDO-Me just before implantation in the mice, picomolar doses of CDDO-Me will suppress angiogenesis. CDDO-Me also inhibits growth of endothelial cells in monolayer cultures and suppresses neovascular morphogenesis in three-dimensional cultures, but significantly higher doses (50-200 nmol/L) are required. We also show antiangiogenic effects of CDDO-Me on xenografts of Kaposi's sarcoma cells in immunocompromised mice, using CD31 as a marker. Several known individual molecular targets of CDDO-Me and related triterpenoids that are relevant to all of these findings include nuclear factor-kappaB signaling, signal transducers and activators of transcription signaling, and transforming growth factor-beta signaling, as well as Keap1, the endogenous inhibitor of the transcription factor Nrf2. However, the particularly potent antiangiogenic activity seen in vivo in the present experiments suggest that CDDO-Me, as an angioprevention agent, may be interacting with an entire network of molecular and cellular targets, rather than at a single molecular locus or in a single-cell type.
Influence of glucose antimetabolites on the Walker tumor. (1957)

1. The intraperitoneal, divided-dose administration of glucosamine hydrochloride, 400–600 mg/rat/day (approximates 2,000–3,000 mg/kg/day) or 2-deoxy-d-glucose 200 mg/rat/day (approximates 1,000 mg/kg/day) exerted an antitumor effect in rats bearing Walker 256 tumor, without seriously compromising the general well being of the host.

2. The antitumor effect of 2DG was somewhat greater than that of glucosamine at ½–⅓ the glucosamine dosage level.

3. Changes in rate of tumor growth between treatment and nontreatment periods were significant when 2DG was used.

4. The modified metabolic environment created by the presence of 2DG was rather quickly changed after cessation of administration, with resumption of tumor growth to a rate approaching that of controls.
T Cell Responses in Dengue Hemorrhagic Fever: Are Cross-Reactive T Cells Suboptimal? (2006)

Dengue virus infection poses a growing public health and economic burden in a number of tropical and subtropical countries. Dengue circulates as a number of quasispecies, which can be divided by serology into four groups or serotypes. An interesting feature of Dengue, recognized over five decades ago, is that most severe cases that show hemorrhagic fever are not suffering from a primary infection. Instead, they are reinfected with a virus of different serotype. This observation poses considerable problems in vaccine design, and it is therefore imperative to gain a full understanding of the mechanisms underlying this immunological enhancement of disease. In this study, we examined a T cell epitope restricted by HLA-A*24, a major MHC class I allele, in Southeast Asia in a cohort of children admitted to a hospital with acute Dengue infection. The cytokine profiles and the degranulation capacity of T cells generated to this epitope are defined and compared across different viral serotypes. Cross-reactive Dengue-specific T cells seem to show suboptimal degranulation but high cytokine production, which may contribute to the development of the vascular leak characteristic of Dengue hemorrhagic fever.
Strain and crystallographic tilt in uncoalesced GaN layers grown by maskless pendeoepitaxy (2002)

The strain in thin GaN layers grown by maskless pendeoepitaxy has been investigated using high-resolution x-ray diffraction and finite-element simulations. The crystallographic tilt of the free-hanging wings was determined to result from the strain relaxation of the seed stripes along [0001]. The impact of the dimensions of the pendeostructure and of the formation of crystal defects on the expected wing tilt is discussed.