gebhart/patrepeval huggingface dataset:
Tissue Differences in the Concentration of Triiodothyronine Nuclear Binding Sites in the Rat: Liver, Kidney, Pituitary, Heart, Brain, Spleen and Testis (1974)

Using a previously reported in vivo isotopic displacement technique, we have demonstrated limited nuclear binding sites for L-triiodothyronine (T3) in the following rat tissues: liver, kidney, heart, anterior pituitary, brain, spleen and testis. The concentration of these sites expressed both per mg DNA and per g tissue (wet wt) varied widely. If liver is normalized to 1, the relative binding capacity per mg DNA is: pituitary, 1.3; liver, 1.0; kidney, 0.87; heart, 0.65; brain, 0.44; spleen, 0.03; testis, 0.004. The relative binding capacity per g tissue is: pituitary, 3.7; kidney, 1.5; liver, 1.0; heart, 0.45; brain, 0.24; spleen, 0.18; and testis, 0.01. Approximately 40–50% of available sites are saturated at endogenous levels of circulating T3 and the calculated association constants of nuclear binding appear similar in the various tissues studied. The relatively low concentration of binding sites in brain, spleen, and testis is of interest since these tissues do not respond to thyroid hormone with the expected increase in oxygen consumption and in the level of mitochondrial alphaglycerophosphate dehydrogenase. A high proportion (53%) of cellular T3 in the anterior pituitary is associated with specific nuclear sites and accounts for our previous demonstration of limited capacity sites in unfractionated pituitary. (Endocrinology95: 897, 1974)
New serological biomarkers of inflammatory bowel disease (2008)

Serological biomarkers in inflammatory bowel disease (IBD) are a rapidly expanding list of non-invasive tests for objective assessments of disease activity, early diagnosis, prognosis evaluation and surveillance. This review summarizes both old and new biomarkers in IBD, but focuses on the development and characterization of new serological biomarkers (identified since 2007). These include five new anti-glycan antibodies, anti-chitobioside IgA (ACCA), anti-laminaribioside IgG (ALCA), anti-manobioside IgG (AMCA), and antibodies against chemically synthesized (Sigma) two major oligomannose epitopes, Man alpha-1,3 Man alpha-1,2 Man (SigmaMan3) and Man alpha-1,3 Man alpha-1,2 Man alpha-1,2 Man (SigmaMan4). These new biomarkers serve as valuable complementary tools to existing biomarkers not only in differentiating Crohn's disease (CD), ulcerative colitis (UC), normal and other non-IBD gut diseases, but also in predicting disease involvement (ileum vs colon), IBD risk (as subclinical biomarkers), and disease course (risk of complication and surgery). Interestingly, the prevalence of the antiglycan antibodies, including anti-Saccharomyces cerevisiae antibodies (ASCA), ALCA and AMCA, was found to be associated with single nucleotide polymorphisms (SNPs) of IBD susceptible genes such as NOD2/CARD15, NOD1/CARD4, toll-like receptors (TLR) 2 and 4, and beta-defensin-1. Furthermore, a gene dosage effect was observed: anti-glycan positivity became more frequent as the number of NOD2/CARD15 SNPS increased. Other new serum/plasma IBD biomarkers reviewed include ubiquitination factor E4A (UBE4A), CXCL16 (a chemokine), resistin, and apolipoprotein A-IV. This review also discusses the most recent studies in IBD biomarker discovery by the application of new technologies such as proteomics, fourier transform near-infrared spectroscopy, and multiplex enzyme-linked immunosorbent assay (ELISA)'s (with an emphasis on cytokine/chemokine profiling). Finally, the prospects of developing more clinically useful novel diagnostic algorithms by incorporating new technologies in serological biomarker profiling and integrating multiple biomarkers with bioinformatics analysis/modeling are also discussed.
Students' Acceptance of Web-Based Course Offerings: An Empirical Assessment (1998)

Overall, studentsâacceptance of the Internet and the Web for course delivery was positive. Statistical analysis of the survey data reveals that the proportion of âStrongly Agreeâ or âAgreeâ responses on most assertions are significantly greater than 75% in both prior and posterior surveys. The proportion of agreements on all of the assertions, except the following two, was not significantly different between prior and posterior surveys. The proportion of agreement on assertion five which had to do with better class performance due to the posting of the assignments on the Web, at the end of class was significantly higher than the proportion of agreement at the beginning of the class. At the prior survey, the proportion of agreement on assertion four, which had to do with the use of e-mail to enhance and facilitate communications among students and faculty, was not significantly different between the traditional in-class and the on-line sections. But in the posterior survey, for the traditional group, it was significantly higher than the on-line group. Other findings are reviewed in the data analysis section of the paper.
Presence of Antibody to Human Herpesvirus 6 in Monkeys (1989)

SUMMARY A serological survey of monkeys was conducted to determine the prevalence of antibody to human herpesvirus 6 (HHV-6). Two-hundred and fifteen sera from 10 species of monkeys were examined by an immunofluorescent antibody (IF) assay. The antibody was found in monkeys from eight of the 10 species examined, but was not detected in silvered lutongs or cotton-top tamarins. The prevalence of antibody was highest in squirrel monkeys. Sera with high antibody titres were examined further by Western blot analysis and the neutralizing antibody test and the antibody levels were compared with that from a patient with exanthem subitum. On Western blotting, monkey and human sera that were antibody-positive to HHV-6 antigen gave similar reactions with antigen components of almost the same M r. Furthermore, sera that were antibody-positive by the IF test were also positive by the neutralizing antibody test and their titres in the two tests were comparable. These results suggest the existence of HHV-6 or an HHV-6-related virus in monkeys.
11 Serological antigen selection of phage displayed colorectal tumour cDNA libraries (1998)

Conference Article| February 01 1998 11 Serological antigen selection of phage displayed colorectal tumour cDNA libraries Simon. E. Hufton; Simon. E. Hufton 1CESAME at Dept of Pathology, University Hospital Maastricht, P.O. Box 5800, 6202 AZ Maastricht. Netherlands Search for other works by this author on: This Site PubMed Google Scholar Peter Moerkerk; Peter Moerkerk 1CESAME at Dept of Pathology, University Hospital Maastricht, P.O. Box 5800, 6202 AZ Maastricht. Netherlands Search for other works by this author on: This Site PubMed Google Scholar Adriaan de Bruine; Adriaan de Bruine 1CESAME at Dept of Pathology, University Hospital Maastricht, P.O. Box 5800, 6202 AZ Maastricht. Netherlands Search for other works by this author on: This Site PubMed Google Scholar Jan-Willem Arends; Jan-Willem Arends 1CESAME at Dept of Pathology, University Hospital Maastricht, P.O. Box 5800, 6202 AZ Maastricht. Netherlands Search for other works by this author on: This Site PubMed Google Scholar Hennie. R. Hoogenboom Hennie. R. Hoogenboom 1CESAME at Dept of Pathology, University Hospital Maastricht, P.O. Box 5800, 6202 AZ Maastricht. Netherlands Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1998) 26 (1): S5. https://doi.org/10.1042/bst026s005 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share MailTo Twitter LinkedIn Cite Icon Cite Get Permissions Citation Simon. E. Hufton, Peter Moerkerk, Adriaan de Bruine, Jan-Willem Arends, Hennie. R. Hoogenboom; 11 Serological antigen selection of phage displayed colorectal tumour cDNA libraries. Biochem Soc Trans 1 February 1998; 26 (1): S5. doi: https://doi.org/10.1042/bst026s005 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 ContentAll JournalsBiochemical Society Transactions Search Advanced Search This content is only available as a PDF. © 1998 Biochemical Society1998 Article PDF first page preview Close Modal You do not currently have access to this content.
Apolipoprotein E Modulates Clearance of Apoptotic Bodies In Vitro and In Vivo, Resulting in a Systemic Proinflammatory State in Apolipoprotein E-Deficient Mice (2004)

Apolipoprotein E (apoE) is a 34-kDa glycoprotein involved in lipoprotein transport through interaction with the low-density lipoprotein receptor and related receptors. Recently, it has become clear that apoE binding to its receptors plays a role both in development and in control of the immune system. In this study, we show that apoE modulates the rate of uptake of apoptotic cells by macrophages. In vitro, apoE-deficient macrophages ingest less apoptotic thymocytes (but not latex beads) than wild-type macrophages, and this defect can be corrected by addition of exogenous apoE protein. In vivo, the number of dying macrophages is increased in a range of tissues, including lung and brain. Possibly in response to the larger numbers of persistent apoptotic bodies, the number of live macrophages in these tissues are also increased compared with those of wild-type control mice. In addition to the significant changes in macrophage population dynamics we observed, levels of the proinflammatory cytokine TNF-alpha and the positive acute phase reactant fibrinogen are also elevated in the livers from apoE-deficient mice. In contrast, neither deletion of the gene encoding the LDL receptor nor cholesterol feeding of wild-type mice affected either the number of apoptotic bodies or the number of live macrophages. We conclude that apoE deficiency results in impaired clearance of apoptotic cell remnants and a functionally relevant systemic proinflammatory condition in mice, independent of its role in lipoprotein metabolism. Any similar reduction of apoE activity in humans may contribute to the pathogenesis of a wide range of chronic diseases including atherosclerosis, dementia, and osteoporosis.
Purification of feline lysosomal α-mannosidase, determination of its cDNA sequence and identification of a mutation causing α-mannosidosis in Persian cats (1997)

α-Mannosidosis is a lysosomal storage disorder that is caused by the deficiency of lysosomal α-mannosidase. Feline α-mannosidosis is a well-characterized animal model used for studying pathological and therapeutic aspects of lysosomal storage disorders. We here report the purification of feline liver lysosomal α-mannosidase and determination of its cDNA sequence. The active enzyme consisted of three polypeptides, with molecular masses of 72, 41 and 12 kDa, joined by non-covalent forces. The cDNA sequence of feline lysosomal α-mannosidase was determined from reverse transcriptase PCR products obtained from skin fibroblast mRNA. The deduced amino acid sequence contained the N-terminal sequences of the 72 and 41 kDa peptides. This indicated that the enzyme is synthesized as a single-chain precursor with a putative signal peptide of 50 amino acids followed by a polypeptide chain of 957 amino acids, which is cleaved into the three polypeptides of the mature enzyme. The deduced amino acid sequence was 81.1 and 83.2% identical with the human and bovine lysosomal α-mannosidases sequences respectively. A 4 bp deletion was identified in an α-mannosidosis-affected Persian cat by DNA sequencing of reverse transcriptase PCR products. The deletion resulted in a frame shift from codon 583 and premature termination at codon 645. No lysosomal α-mannosidase activity could be detected in the liver of this cat. A domestic long-haired cat expressing a milder α-mannosidosis phenotype than the Persian cat had a lysosomal α-mannosidase activity of 2% of normal. This domestic long-haired cat did not possess the 4 bp deletion, proving molecular heterogeneity for feline α-mannosidosis.
Inhibiting farnesylation of progerin prevents the characteristic nuclear blebbing of Hutchinson-Gilford progeria syndrome (2005)

Hutchinson-Gilford progeria syndrome (HGPS) is a rare genetic disorder that is characterized by dramatic premature aging and accelerated cardiovascular disease. HGPS is almost always caused by a de novo point mutation in the lamin A gene (LMNA) that activates a cryptic splice donor site, producing a truncated mutant protein termed "progerin." WT prelamin A is anchored to the nuclear envelope by a farnesyl isoprenoid lipid. Cleavage of the terminal 15 aa and the farnesyl group releases mature lamin A from this tether. In contrast, this cleavage site is deleted in progerin. We hypothesized that retention of the farnesyl group causes progerin to become permanently anchored in the nuclear membrane, disrupting proper nuclear scaffolding and causing the characteristic nuclear blebbing seen in HGPS cells. Also, we hypothesized that blocking farnesylation would decrease progerin toxicity. To test this hypothesis, the terminal CSIM sequence in progerin was mutated to SSIM, a sequence that cannot be farnesylated. SSIM progerin relocalized from the nuclear periphery into nucleoplasmic aggregates and produced no nuclear blebbing. Also, blocking farnesylation of authentic progerin in transiently transfected HeLa, HEK 293, and NIH 3T3 cells with farnesyltransferase inhibitors (FTIs) restored normal nuclear architecture. Last, treatment of both early- and late-passage human HGPS fibroblasts with FTIs resulted in significant reductions in nuclear blebbing. Our results suggest that treatment with FTIs represents a potential therapy for patients with HGPS.
Fabrication of nanostructures of polyethylene glycol for applications to protein adsorption and cell adhesion (2005)

A simple method was developed to fabricate polyethylene glycol (PEG) nanostructures using capillary lithography mediated by ultraviolet (UV) exposure. Acrylate-containing PEG monomers, such as PEG dimethacrylate (PEG-DMA, MW = 330), were photo-cross-linked under UV exposure to generate patterned structures. In comparison to unpatterned PEG films, hydrophobicity of PEG nanostructure modified surfaces was significantly enhanced. This could be attributed to trapped air in the nanostructures as supported by water contact angle measurements. Proteins (fibronectin, immunoglobulin, and albumin) and cells (fibroblasts and P19 EC cells) were examined on the modified surfaces to test for the level of protein adsorption and cell adhesion. It was found that proteins and cells preferred to adhere on nanostructured PEG surfaces in comparison to unpatterned PEG films; however, this level of adhesion was significantly lower than that of glass controls. These results suggest that capillary lithography can be used to fabricate PEG nanostructures capable of modifying protein and cell adhesive properties of surfaces.
A Monovalent Anti-Human CD28 Domain Antibody Antagonist: Preclinical Efficacy and Safety (2013)

Targeting the CD28-CD80/86 pathway with an anti-CD28 antagonist is a promising alternative to current therapies for autoimmunity. However, attempts at generating conventional anti-CD28 mAbs lacking stimulatory activity has been challenging. In this study, we describe anti-human CD28 receptor antagonist domain Abs (dAbs) that are specific for human CD28. These dAbs are potent inhibitors of T cell activation, with an EC50 of 35 ± 14 ng/ml for inhibition of proliferation. The EC50 of 53 ± 11 ng/ml in an ex vivo CD28 receptor occupancy assay corresponds with in vitro functional activity, suggesting a direct correlation. The anti-CD28 dAb is equipotent in the inhibition of CD80- and CD86-mediated T cell proliferation and does not interfere with CTLA-4-mediated downmodulation of CD86 expression on APCs. The anti-CD28 dAbs are monomeric and do not demonstrate any evidence of agonism or costimulatory activity. In cynomolgus monkeys, the anti-CD28 dAb demonstrated pharmacodynamic activity, as measured by the inhibition of a T cell-dependent Ab response, without evidence of T cell depletion or cytokine release. Furthermore, there was a strong correlation between systemic exposure, duration, and extent of CD28 receptor occupancy, and pharmacodynamic activity. Taken together, these data support clinical evaluation of this novel anti-CD28 dAb for the treatment of autoimmune diseases.
Foreign Bodies Associated With Peri‐Implantitis Human Biopsies (2014)

At present, the exact mechanism for introduction of these materials and their role in peri-implantitis is unknown. Further research is warranted to determine their etiology and potential role in pathogenesis.
Learning Shape Abstractions by Assembling Volumetric Primitives (2017)

We present a learning framework for abstracting complex shapes by learning to assemble objects using 3D volumetric primitives. In addition to generating simple and geometrically interpretable explanations of 3D objects, our framework also allows us to automatically discover and exploit consistent structure in the data. We demonstrate that using our method allows predicting shape representations which can be leveraged for obtaining a consistent parsing across the instances of a shape collection and constructing an interpretable shape similarity measure. We also examine applications for image-based prediction as well as shape manipulation.
Diversifying animal models: the use of hispid cotton rats (Sigmodon hispidus) in infectious diseases (2002)

The hispid cotton rat (Sigmodon hispidus) has been a longstanding laboratory animal model of infectious diseases. In this review, the most common usage of hispid cotton rats as models of infectious diseases is discussed in detail and all organisms, which have been shown to infect cotton rats, are listed. A state of the art overview is given on handling and maintenance of hispid cotton rats as well as experimental techniques such as narcosis and blood withdrawal. Most importantly, through the development of new reagents, the hispid cotton rat can be used to study immune responses against the respective pathogen. Hispid cotton rat cytokine and chemokine genes have been sequenced and cotton rat specific antibodies and cell lines have been produced which in connection with the establishment of immunological methods should facilitate the use of hispid cotton rats as animal models in the pathogenesis of infectious diseases.
The Band Model and the Etching Mechanism of Silicon in Aqueous  KOH (1995)

The energy band diagram of n‐Si in aqueous 2M is constructed by the measured open‐circuit potential and the flatband voltage. A photocurrent susceptivity method was proposed to determine the flatband voltage. A flatband voltage of −1.04 (saturated calomel electrode) for the n‐Si in 2M was determined by this new method. The energy band diagram of the p‐Si in the same electrolyte is also constructed. Accumulation of carriers at the interface is predicted by the band diagram and confirmed by the ohmic‐contact‐like I‐V curve. Depletion of carriers at interface is predicted by the band diagram and confirmed by the rectifying I‐V characteristics. The passivation of Si under anodic bias is attributed to the formation of an oxide film. The competition between the oxidation rate and the diffusion rate of oxidation product determines whether the anodic oxidation is an etching or passivation process. The etching oxidation is assumed to be dominated by the electrochemical reaction. The transport of these carriers which participate in the electrochemical reaction can be explained by the energy band diagram. All etching or passivation phenomena are consistent with the prediction from the band diagram viewpoint. The etch stop for heavily doped Si is attributed to the enhanced growth rate of oxide film under high carrier concentration.
DAML-S: A Semantic Markup Language For Web Services (2001)

The Semantic Web should enable greater access not only to content but also to services on the Web. Users and software agents should be able to discover, invoke, compose, and monitor Web resources offering particular services and having particular properties. As part of the DARPA Agent Markup Language program, we have begun to develop an ontology of services, called DAML- S, that will make these functionalities possible. In this paper we describe the overall structure of the ontology, the service profile for advertising services, and the process model for the detailed description of the operation of services. We also compare DAML-S with several industry efforts to define standards for characterizing services on the Web.
Educação inclusiva e sustentabilidade (2013)

O presente trabalho aborda a articulacao da Politica Nacional de Educacao Ambiental com a Politica Nacional de Educacao Especial na Perspectiva da Educacao Inclusiva, destacando diversos orgaos que realizam esse trabalho nessa vertente . Objetivamente, nosso trabalho buscou primeiro refletir sobre a necessidade de dialogo entre inclusao, acessibilidade, sustentabilidade e direitos humanos, e atuar na construcao de mecanismos que possibilitassem acoes praticas, tendo atendimento, capacitacao e pesquisa como eixos centrais. A partir disso, procurou-se analisar a relacao acessibilidade – sustentabilidade no contexto da garantia de direitos humanos, insercao no mundo do trabalho e educacao ambiental como ferramentas de construcao de politicas publicas inclusivas e tambem sustentaveis.
Analysis of the T-Cell Receptor Repertoires of Tumor-Infiltrating Conventional and Regulatory T Cells Reveals No Evidence for Conversion in Carcinogen-Induced Tumors (2010)

A significant enrichment of CD4(+)Foxp3(+) T cells (regulatory T cells, Treg) is frequently observed in murine and human carcinomas. As Tregs can limit effective antitumor immune responses, thereby promoting tumor progression, it is important that the mechanisms underpinning intratumoral accumulation of Tregs are identified. Because of evidence gathered mostly in vitro, the conversion of conventional T cells (Tconv) into Tregs has been proposed as one such mechanism. We assessed the contribution of conversion in vivo by analyzing the TCR (T-cell receptor) repertoires of Tconvs and Tregs in carcinogen-induced tumors in mice. Our results indicate that the TCR repertoires of Tregs and Tconvs within tumor-infiltrating lymphocytes (TIL) are largely distinct. Indeed, the cell population with the greatest degree of repertoire similarity with tumor-infiltrating Tregs was the Treg population from the tumor-draining lymph node. These findings demonstrate that conversion of Tconvs does not contribute significantly to the accumulation of tumor-infiltrating Tregs; rather, Tconvs and Tregs arise from different populations with unique TCR repertoires. Enrichment of Tregs within TILs most likely, therefore, reflects differences in the way that Tregs and Tconvs are influenced by the tumor microenvironment. Elucidating the nature of these influences may indicate how the balance between tumor-infiltrating Tregs and Tconvs can be manipulated for therapeutic purposes.