gebhart/patrepeval huggingface dataset:
Analysis of nondegradative protein ubiquitylation with a monoclonal antibody specific for lysine-63-linked polyubiquitin (2008)

Modification of proteins by the addition of lysine (K)-63-linked polyubiquitin (polyUb) chains is suggested to play important roles in a variety of cellular events, including DNA repair, signal transduction, and receptor endocytosis. However, identifying such modifications in living cells is complex and cumbersome. We have generated a monoclonal antibody (mAb) that specifically recognizes K63-linked polyUb, but not any other isopeptide-linked (K6, K11, K27, K29, K33, or K48) polyUb or monoubiquitin. We demonstrate the sensitivity and specificity of this K63Ub-specific mAb to detect K63Ub-modified proteins in cell lysates by Western blotting and in cells by immunofluorescence, and K63Ub-modified TRAF6 and MEKK1 in vitro and ex vivo. This unique mAb will facilitate the analysis of K63-linked polyubiquitylation ex vivo and presents a strategy for the generation of similar reagents against other forms of polyUb.
Sequences (1999)

Sequences Sonia Sanchez (bio) Cave Canem: A Special Section 1. today I am tired of sabbaths. I seek a river of sticks scratching the spine. O I have laughed the clown’s air now my breath dries in paint. 2. what is this profusion? the sun does not burn a cure, but hoards while I stretch upward. I hear, turning in my shrug a blaze of horns. O I had forgotten parades belabored with dreams. 3. in my father’s time I fished in ponds without fishes. arching my throat, I gargled amid nerves and sang of redeemers. (o where have you been sweet redeemer, sharp redeemer, (o where have you been baroque shimmer? i have been in coventry where ghosts danced in my veins i have heard you in all refrains.) [End Page 990] 4. ah the lull of a yellow voice that does not whine with roots. I have touched breasts and buildings answered. I have breathed moth-shaped men without seeds. (O indiscriminate sleeves) (once upon an afternoon i became still-life i carried a balloon and a long black knife.) 5 love comes with pink eyes with movements that run green then blue again. my thighs burn in crystal. Sonia Sanchez Sonia Sanchez is the Laura Carnell Professor of English at Temple University, where she serves as Director of Women’s Studies. She has published 13 books of poetry, the most recent being Does Your House Have Lions?, Like the Singing Coming Off the Drums, and Shake Loose My Skin. She has won several awards for her poetry, including the Lucretia Mott Award, a Pew Fellowship, and the Governor’s Award for Excellence in the Humanities (Pennsylvania). Does Your House Have Lions? was nominated for the National Book Critics Circle Award in 1998. Copyright © 2000 Charles H. Rowell
ChemInform Abstract: Chemical Vapor Deposition Precursor Chemistry. Part 2. Formation of Pure Aluminum, Alumina, and Aluminum Boride Thin Films from Boron‐ Containing Precursor Compounds by Chemical Vapor Deposition. (1992)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Sepsis and evolution of the innate immune response (2001)

Through the Toll-like receptors, macrophages and other defensive cells "see" endotoxin (TLR4), peptidoglycan (TLR2), and bacterial DNA (TLR9). Representatives of the family predated the divergence of plants and animals and, at that time, had already acquired a defensive function. The strengths and liabilities of the innate immune system, which defends against infection and which also may cause shock and death, are rooted in its ancient origins. In the current era of shock research, the nature of the signals that Toll-like receptors transduce and the effects of genetic variation on microbial sensing are two major challenges.
All-trans-Retinoic Acid Ameliorates Hepatic Steatosis in Mice by a Novel Transcriptional Cascade (2013)

Our study describes a novel transcriptional regulatory cascade controlling hepatic lipid metabolism that identifies retinoic acid signaling as a new therapeutic approach to nonalcoholic fatty liver diseases.
X-Diff: an effective change detection algorithm for XML documents (2004)

XML has become the de facto standard format for Web publishing and data transportation. Since online information changes frequently, being able to quickly detect changes in XML documents is important to Internet query systems, search engines, and continuous query systems. Previous work in change detection on XML, or other hierarchically structured documents, used an ordered tree model, in which left-to-right order among siblings is important and it can affect the change result. We argue that an unordered model (only ancestor relationships are significant) is more suitable for most database applications. Using an unordered model, change detection is substantially harder than using the ordered model, but the change result that it generates is more accurate. We propose X-Diff, an effective algorithm that integrates key XML structure characteristics with standard tree-to-tree correction techniques. The algorithm is analyzed and compared with XyDiff [CAM02], a published XML diff algorithm. An experimental evaluation on both algorithms is provided.
Characteristics of the cell surface antigen, p72, associated with a variety of human tumours and mitogen‐stimulated T‐lymphoblasts (1984)

The monoclonal antibody 791T /36, prepared against a human osteogenic sarcoma cell line, 791T , reacts with a variety of human tumours and also mitogen-stimulated PBMN cells. The target antigen as expressed upon 791T cells is a monomeric plasma membrane-associated glycoprotein with an apparent Mr of 72000. By quantitative flow cytofluorimetry, approx. 10(5) antibody molecules bound per cell to T-lymphoblasts induced with PHA or Con A, whereas only a few thousand antibody molecules bound per cell to unstimulated cells, so that the antigen may be classified as a lymphocyte activation antigen. On lymphoblasts, the 791T /36 again reacted with a protein with an apparent Mr of 72000. This antigen therefore has a dual role as a tumour marker and lymphocyte activation antigen which may be implicated in the regulation of cell proliferation.
An Electron Acceptor Challenging Fullerenes for Efficient Polymer Solar Cells (2015)

A novel non-fullerene electron acceptor (ITIC) that overcomes some of the shortcomings of fullerene acceptors, for example, weak absorption in the visible spectral region and limited energy-level variability, is designed and synthesized. Fullerene-free polymer solar cells (PSCs) based on the ITIC acceptor are demonstrated to exhibit power conversion efficiencies of up to 6.8%, a record for fullerene-free PSCs.
Therapeutic targets in age-related macular disease (2010)

Age-related macular disease (AMD) accounts for more than 50% of blind registration in Western society. Patients with AMD are classified as having early disease, in which visual function is well preserved, or late disease, in which central vision is lost. Until recently, there was no therapy available by which the course of the disorder could be modified. Now, the most common form of late-stage AMD - choroidal neovascularization - responds to treatment with anti-VEGF therapies; although visual loss is modified in a portion of these cases, no therapeutic approach exists that alters the evolution from early to late disease. However, as discussed in this Review, research over the last few years has demonstrated several features of AMD that are likely to be amenable to treatment. Potential targets for treatment are described, and possible therapeutic approaches are discussed.
Polyplex Micelles with Cyclic RGD Peptide Ligands and Disulfide Cross-Links Directing to the Enhanced Transfection via Controlled Intracellular Trafficking (2008)

Thiolated c(RGDfK)-poly(ethylene glycol)-block-poly(lysine) (PEG-PLys), a novel block polymer that has a cyclic RGD peptide in the PEG terminus and thiol groups in the PLys side chain, was prepared and applied to the preparation of targetable disulfide cross-linked polyplex micelles through ion complexation with plasmid DNA (pDNA). The obtained polyplex micelles achieved remarkably enhanced transfection efficiency against cultured HeLa cells possessing alpha(v)beta(3) integrin receptors, which are selectively recognized by cyclic RGD peptides, demonstrating the synergistic effect of cyclic RGD peptide ligands on the micelle surface and disulfide cross-links in the core to exert the smooth release of pDNA in the intracellular environment via reductive cleavage. This enhancement was not due to an increase in the uptake amount of polyplex micelles but to a change in their intracellular trafficking route. Detailed confocal laser scanning microscopic observation revealed that polyplex micelles with cyclic RGD peptide ligands were distributed in the perinuclear region in the early stages preferentially through caveolae-mediated endocytosis, which may be a desirable pathway for avoiding the lysosomal degradation of delivered genes. Hence, this approach to introducing ligands and cross-links into the polyplex micelles is promising for the construction of nonviral gene vectors that enhance transfection by controlling intracellular distribution.
Measurement and Analysis of Distortion-Induced Fatigue in Multigirder Steel Bridges (2003)

Fatigue damage to multigirder steel bridges on skew can result from distortion caused by differential deflection of adjacent girders that impose out-of-plane bending of girder web gaps. Existing design procedures give recommendations to mitigate the effects of distortional fatigue but do not directly address secondary, out-of-plane deformations, nor do they provide guidance in determining the magnitude of out-of-plane stresses in girder webs. An experimental study was conducted to (1) implement a field monitoring program for a typical multigirder steel bridge on skew supports; (2) assess the frequency and magnitude of distortional fatigue stresses at web-stiffener connections; and (3) evaluate the impact of these stresses on fatigue life. Measurements from twelve strain gauges were continuously monitored and recorded for a period exceeding three months on Minnesota Department of Transportation Bridge #27734. Web-gap stresses in negative-moment regions were found to be much larger than flange stresses. The results of a detailed finite-element study indicate that actual strains at the web gaps may be much larger than the values measured at the strain gauge locations. This study also revealed the mechanism of web-gap distortion, suggesting an approximate method for predicting web-gap stress based on known girder differential deflection.
Identification of Basal Promoter and Enhancer Elements in an Untranslated Region of the TT Virus Genome (2004)

The regulation of TT virus (TTV) gene expression was characterized. Transient-transfection assays using reporter constructs revealed that a 113-nucleotide (nt) sequence within the untranslated region, proximal to the transcription initiation site and containing a TATA box motif, has a basal promoter activity. This sequence is well conserved among different TTV genotypes. Upstream stimulating factor bound to a consensus binding motif within this region and positively regulates TTV transcription. Furthermore, a 488-nt region upstream of the basal promoter exhibited enhancer activity, presumably in a cell type-specific manner. This study illustrates some of the mechanisms involved in the transcriptional regulation of TTV.
Analytical methods for physicochemical characterization of antibody drug conjugates (2011)

Antibody-drug conjugates (ADCs), formed through the chemical linkage of a potent small molecule cytotoxin (drug) to a monoclonal antibody, have more complex and heterogeneous structures than the corresponding antibodies. This review describes the analytical methods that have been used in their physicochemical characterization. The selection of the most appropriate methods for a specific ADC is heavily dependent on the properties of the linker, the drug, and the choice of attachment sites (lysines, inter-chain cysteines, Fc glycans). Improvements in analytical techniques such as protein mass spectrometry and capillary electrophoresis have significantly increased the quality of information that can be obtained for use in product and process characterization, and for routine lot release and stability testing.
Vector system performance of the IBM 3090 (1986)

Performance of the Vector Facility of the IBM 3090 processor is discussed. The paper has two parts, the first presenting factors affecting performance measurement of the Vector Facility and the criteria for its design. In the second part, use of the 3090 storage hierarchy to support the vector processing implementation is the main aspect of the discussion.
A “Double Random” Strategy for the Preparation of Saponin Libraries (2001)

ADVERTISEMENT RETURN TO ISSUEPREVReportNEXTA "Double Random" Strategy for the Preparation of Saponin LibrariesBiao Yu, Bing Li, Guowen Xing, and Yongzheng HuiView Author Information State Key Laboratory of Bio-organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China Cite this: J. Comb. Chem. 2001, 3, 5, 404–406Publication Date (Web):August 17, 2001Publication History Received29 March 2001Published online17 August 2001Published inissue 1 September 2001https://pubs.acs.org/doi/10.1021/cc010014ghttps://doi.org/10.1021/cc010014gbrief-reportACS PublicationsCopyright © 2001 American Chemical SocietyRequest reuse permissionsArticle Views389Altmetric-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 optionsSupporting Info (1)»Supporting Information Supporting Information SUBJECTS:Carbohydrates,Hydroxyls,Organic reactions,Post-translational modification,Reactivity Get e-Alerts
Development and characterization of monoclonal antiplatelet autoantibodies from autoimmune thrombocytopenic purpura-prone (NZW x BXSB)F1 mice (1993)

Male (NZW x BXSB)F1 (W/BF1) mice develop systemic autoimmunity involving autoantibodies, progressive thrombocytopenia, lupus nephritis, and degenerative coronary vascular disease with myocardial infarction. Platelet-associated IgG (PAIgG) on the platelet surface mediates platelet destruction by the reticuloendothelial system in the autoimmune thrombocytopenic purpura (ATP) of W/BF1 mice. Because the epitopes targeted in ATP by PAIgG have not been identifiable using serum from thrombocytopenic W/BF1 mice, we developed seven hybridomas secreting antiplatelet monoclonal antibodies (MoAbs) using splenocytes of thrombocytopenic W/BF1 mice. Epitopes recognized by three MoAbs were similar to those recognized by PAIgG, because eluted IgG from platelets of thrombocytopenic W/BF1 mice inhibited platelet binding by MoAbs in competitive micro-enzyme-linked immunosorbent assay. Hybridoma cells or purified Ig from the ascites of two clones (2A12 and 6A6), when injected into nude mice produced acute thrombocytopenia, elevated the levels of PAIgG, purpura, and megakaryocytosis. MoAbs of two clones also reacted with single-stranded DNA or double-stranded DNA, and one of these clones (4–13) bound to cardiolipin (CL) but was nonpathogenic in nude mice, suggesting that anti-CL and antiplatelet autoantibodies can be distinct. On immunoblotting analysis, antiplatelet MoAbs frequently bound a 100-Kd platelet protein. These MoAbs contribute to an understanding of the etiopathogenesis of ATP and the several antigens and autoantibodies involved.
Euclidean reconstruction from image sequences with varying and unknown focal length and principal point (2002)

The special case of reconstruction from image sequences taken by cameras with skew equal to 0 and aspect ratio equal to 1 has been treated. These type of cameras, here called cameras with Euclidean image planes, represent rigid projections where neither the principal point nor the focal length is known, it is shown that it is possible to reconstruct an unknown object from images taken by a camera with Euclidean image plane up to similarity transformations, i.e., Euclidean transformations plus changes in the global scale. An algorithm, using bundle adjustment techniques, has been implemented. The performance of the algorithm is shown on simulated data.
Determination of the frequency of the common 657Del5 Nnijmegen breakage syndrome mutation in the German population: No association with risk of breast cancer (1999)

Nijmegen breakage syndrome (NBS) is an autosomal recessive chromosomal instability syndrome characterized by microcephaly, growth retardation, immunodeficiency, and cancer predisposition. It shares a number of features with the Ataxia telangiectasia (AT) syndrome: the most notable are high sensitivity to ionizing radiation and predisposition to cancer. Recently, the gene responsible for NBS has been identified on chromosome band 8q21. It encodes a DNA double-strand break repair protein, named Nibrin. A truncating 5-bp deletion (657Del5) has been identified in 90% of NBS patients and this is presumed to be of Slavic origin. There is evidence that heterozygous AT mutation carriers are predisposed to breast cancer. Since the NBS phenotype at the cellular level is very similar to AT, we have screened 477 German breast cancer patients, aged under 51 years, and 866 matched controls for the common NBS mutation. We have identified one carrier among the cases and one among the controls, indicating that the population frequency of this NBS mutation is 1 in 866 people (95% CI = 1 in 34,376 to 1 in 156) and the estimated prevalence of NBS is thus 1 in 3 million people. The proportion of breast cancer attributable to this mutation is less than 1%. Genes Chromosomes Cancer 25:393-395, 1999.
<title>Supercritical fluid processing: a new dry technique for photoresist developing</title> (1995)

Supercritical fluid (SCF) technology is investigated as a dry technique for photoresist developing. Because of their unique combination of gaseous and liquid-like properties, these fluids offer comparative or improved efficiencies over liquid developers and, particularly carbon dioxide, would have tremendous beneficial impact on the environment and on worker safety. Additionally, SCF technology offers the potential for processing advanced resist systems which are currently under investigation as well as those that may have been abandoned due to problems associated with conventional developers. An investigation of various negative and positive photoresist systems is ongoing. Initially, supercritical carbon dioxide (SC CO<SUB>2</SUB>) as a developer for polysilane resists was explored because the exposure products, polysiloxanes, are generally soluble in this fluid. These initial studies demonstrated the viability of the SCF technique with both single layer and bilayer systems. Subsequently, the investigation focused on using SC CO<SUB>2</SUB> to produce negative images with polymers that would typically be considered positive resists. Polymers such as styrenes and methacrylates were chemically modified by fluorination and/or copolymerization to render them soluble in SC CO<SUB>2</SUB>. Siloxane copolymers and siloxane-modified methacrylates were examined as well. The preliminary findings reported here indicate the feasibility of using SC CO<SUB>2</SUB> for photoresist developing.
Potential Clinical Significance of a Plasma-Based KRAS Mutation Analysis in Patients with Advanced Non–Small Cell Lung Cancer (2010)

KRAS mutation in plasma DNA correlates with the mutation status in the matched tumor tissues of patients with NSCLC. Plasma KRAS mutation status is associated with a poor tumor response to EGFR-TKIs in NSCLC patients and may be used as a predictive marker in selecting patients for such treatment.
Microglia as a Potential Bridge between the Amyloid β‐Peptide and Tau (2004)

Inflammation is a critical component of the pathogenesis of Alzheimer's disease (AD), consisting of the activation of both microglia and astrocytes. Activated microglia and reactive astrocytes are found in and around extraneuronal amyloid-beta plaques and are thought to facilitate the clearance of these deposits from the brain parenchyma. However, mounting evidence indicates that chronic activation of microglia, presumably via the secretion of cytokines and reactive molecules, may exacerbate plaque pathology as well as enhance the hyperphosphorylation of tau and the subsequent development of neurofibrillary tangles. Thus, suppression of microglial activity in AD brain has been considered as a potential treatment of AD and may slow the disease progression. Along these lines, anti-inflammatory drugs, particularly nonsteroidal anti-inflammatory drugs (NSAIDs), lessen the effects of AD pathology. In this review, we discuss the molecular mechanism of inflammatory responses in AD brain as well as animal models, and current therapies using NSAIDs, antioxidants, and immunotherapy as neuroprotective strategies for AD.
The Internet for Everyone: A Guide for Users and Providers (1994)

Explains what Internet is, how to get connected, how to communicate with others and how to navigate and mine it for information. This guide is a comprehensive introduction and overview, which covers all the basic concepts of Internet and its technologies. It describes how to find people on the network, communicate with others and connect to Internet resources, including a catalogue of Internet resources organized by subject and showing the access method and Internet address of each resource. This guide also includes step-by-step directions on choosing the right medium, organizing data and ensuring privacy and security; all the information necessary to set up Gopher protocol for service providers; details on how a LAN relates to Internet; technical information on how data moves over the Internet, including the underlying protocols and details on how to connect your workstation to Internet based on mode of access.