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Finding Bicliques in Digraphs: Application into Viral-host Protein Interactome Nature Precedings
Malay Bhattacharyya; Sanghamitra Bandyopadhyay; Ujjwal Maulik.
We provide the first formalization true to the best of our knowledge to the problem of finding bicliques in a directed graph. The problem is addressed employing a two-stage approach based on an existing biclustering algorithm. This novel problem is useful in several biological applications of which we focus only on analyzing the viral-host protein interaction graphs. Strong and significant bicliques of HIV-1 and human proteins are derived using the proposed methodology, which provides insights into some novel regulatory functionalities in case of the acute immunodeficiency syndrome in human.
Tipo: Presentation Palavras-chave: Immunology; Bioinformatics.
Ano: 2012 URL: http://precedings.nature.com/documents/7148/version/1
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Fixation d''un anticorps anti-lysozyme dans des cellules de mollusques bivalves ArchiMer
Auffret, Mathieu; Diouris, M; Herry, A.
A polyclonal rabbit anti-human lysozyme (Dako) was applied on histological sections from bivalve mollusc and revealed with a mouse anti-rabbit IgG fluorescein conjugated antibody to localise cellular lysozyme in tissues where its activity had previously detected by enzymatic techniques. Labelling occurred in the cytoplasm of epithelial cells covering the body. This is in agreement with the intracellular distribution of this enzyme. In the Lucinid Lucinella divaricata gills, the cytoplasm of bacteriocytes was also labelled. This suggests that antibacterial activity occurred in these cells. Control sections indicate that fluorescence was a consequence of true primary antibody fixation. However, its specificity should be verified by electrophoretical...
Tipo: Text Palavras-chave: Bivalvia; Immunology; Antibodies; Electrophoresis; Histology.
Ano: 1991 URL: http://archimer.ifremer.fr/doc/1991/acte-1723.pdf
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Generation of a triple-fluorescent mouse strain allows a dynamic and spatial visualization of different liver phagocytes in vivo Anais da ABC (AABC)
NAKAGAKI,BRENDA N.; FREITAS-LOPES,MARIA A.; CARVALHO,ÉRIKA; CARVALHO-GONTIJO,RAQUEL; CASTRO-OLIVEIRA,HORTÊNCIA M.; REZENDE,RAFAEL M.; CARA,DENISE C.; SANTOS,MÔNICA M.; LOPES,RODRIGO PESTANA; DAVID,BRUNA A.; MENEZES,GUSTAVO B..
ABSTRACT Resident and circulating immune cells have been extensively studied due to their almost ubiquitous role in cell biology. Despite their classification under the “immune cell department”, it is becoming increasingly clear that these cells are involved in many different non-immune related phenomena, including fetus development, vascular formation, memory, social behavior and many other phenotypes. There is a huge potential in combining high-throughput assays - including flow cytometry and gene analysis - with in vivo imaging. This can improve our knowledge in both basic and clinical cell biology, and accessing the expression of markers that are relevant in the context of both homeostasis and disease conditions might be instrumental. Here we describe...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Intravital microscopy; Phagocytes; Liver immunology; Fluorescent markers; Hepatology; Gastroenterology; Immunology.
Ano: 2019 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0001-37652019000200601
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Genetic and Immune Predictors for Hypersensitivity Syndrome to Antiepileptic Drugs Nature Precedings
Manuela G. Neuman; Radu M. Nanau; Lawrence Cohen; Paul A. Hwang.
Hypersensitivity syndrome reactions (HSR) to antiepileptic drugs (AED) are associated with severe clinical cutaneous adverse reactions (SCAR).Our aims are: to assess HSRs to AEDs using the in vitro lymphocyte toxicity assay (LTA) in patients who manifested HSRs clinically, to correlate LTA results with the clinical syndrome, to correlate LTA results with the human leukocyte antigen (HLA) allele B*1502 (HLA-B*1502) positivity in a Han Chinese-Canadian population, and to determine the cytokine network in this population. HSR patients developed fever and cutaneous eruptions in the presence or absence of organ involvement within 8 weeks of exposure to carbamazepine (CBZ), phenytoin (PHY) or lamotrigine (LTG). Control patients received AEDs without presenting...
Tipo: Manuscript Palavras-chave: Biotechnology; Genetics & Genomics; Immunology; Pharmacology.
Ano: 2011 URL: http://precedings.nature.com/documents/6477/version/1
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Genome activity profiling of monomeric-IgE and Fc-epsilon-RI-aggregation on human mast cells reveals a complex network of genes involved in inflammatory responses. Nature Precedings
Jayapal J. Manikandan; Alirio Jose P. N. Melendez; Peter Natesan A. J. Pushparaj.
Mast cell activation, mediates type-1 allergic responses, one of the most powerful reactions of the immune system. However, mast cells activation is becoming increasingly linked to inflammatory, autoimmunity, and to adaptive immunity by regulating T-cell activation.
Here we analyzed the gene expression pattern in IgE-sensitized and FcεRI aggregation on human mast cells. Our data revealed coordinated changes in gene expression. We observed increased expression of gene-transcripts involved in allergic, innate and adaptive
immune responses. Among the most prominent findings is the increased expression of transcripts encoding for MIP3a, SPARCL1, AREG, IL18, CCL1, TNFRSF9, IL1b, CX3CR1, PTGER3, MIF, MMP12, ADORA3,...
Tipo: Poster Palavras-chave: Immunology; Molecular Cell Biology; Pharmacology; Bioinformatics.
Ano: 2007 URL: http://precedings.nature.com/documents/1150/version/1
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Genome Replikin Count Predicts Increased Infectivity/Lethality of Viruses Nature Precedings
Samuel Bogoch; Elenore S. Bogoch.
The genomes of all groups of viruses whose sequences are listed on Pubmed, specimens since 1918, analyzed by a software from Bioradar UK Ltd., contain Replikins which range in concentration from a Replikin Count (number of Replikins per 100 amino acids) of less than 1 to 30 (see accompanying communications for higher Counts in tuberculosis, malaria, and cancer, associated with higher lethality). Counts of less than 4.0 were found in ‘resting’ virus states; Counts greater than 4.0, found to be associated with rapid replication, were found invariably to accompany or to predict virus outbreaks, by as much as two years, in viral hosts examined from salmon, to birds, to livestock, to humans. X-ray diffraction showed Replikins to be on the...
Tipo: Manuscript Palavras-chave: Biotechnology; Chemistry; Genetics & Genomics; Immunology; Microbiology; Bioinformatics.
Ano: 2012 URL: http://precedings.nature.com/documents/7144/version/1
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Genome Replikin Count Predicts Increased Lethality of Cancer Nature Precedings
Samuel Bogoch; Elenore S. Bogoch.
Those cancers, like thyroid and pancreatic cancer, with the lowest 5-year mortality rates, have Replikin Counts of about 20; lung and brain cancers, with the highest 5-year mortality rates, have Replikin Counts of 275 and 325 respectively; the others fall in between with approximate linearity. This is the first quantitative relationship of a genomic structure, Replikins, to 5-year mortality rates.
Tipo: Manuscript Palavras-chave: Biotechnology; Cancer; Chemistry; Genetics & Genomics; Immunology; Bioinformatics.
Ano: 2012 URL: http://precedings.nature.com/documents/7143/version/1
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Genomic Replikin Count Predicts Increased Lethality of Malaria Nature Precedings
Samuel Bogoch; Elenore S. Bogoch.
Genomic Replikin Counts predict both the increase and the decrease of lethality of malaria
Tipo: Manuscript Palavras-chave: Biotechnology; Chemistry; Genetics & Genomics; Immunology; Microbiology; Molecular Cell Biology; Bioinformatics.
Ano: 2012 URL: http://precedings.nature.com/documents/7142/version/1
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Gut: Key Element on Immune System Regulation BABT
Delgobo,Murilo; Paludo,Katia Sabrina; Fernandes,Daniel; Oliveira,Junior Garcia de; Ortolan,Gilberto Luiz; Favero,Giovani Marino.
Abstract The gut is the main organ that mediates the contact between antigens with our organism, controlling the immune response against environmental factors, such as microbiota and food. Innate lymphoid cells participate in the gut-associated lymphoid tissue (GALT) maturation during the prenatal and early postnatal periods. After birth, breast milk provides the essential elements for the continuity of development of this tissue, leading to structural changes and healthy microbiota installation. The microbiota participates in the organogenesis of the GALT, as in the formation of intestinal villi, stimulating the proliferation of stem cells and maintaining the integrity of epithelial barrier. Foods are also involved in maturation of the GALT, where the...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Immunology; Gut; Peripheral Tolerance.
Ano: 2019 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132019000100901
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HBsAg-vectored DNA vaccines elicit concomitant protective responses to multiple CTL epitopes relevant in human disease. Nature Precedings
Dekun Chen; Allan Gould; Michael Mather; Oscar Haigh; Melanie Barnes; Jacqueline Kattenbelt; Scott Thomson; Robert R. Tindle.
Vaccines capable of controlling neoplastic and infectious diseases which depend on the cellular immune response for their resolution, have proven difficult to develop. We, and others, have previously demonstrated that the potent immunogenicity of hepatitis B surface antigen (HBsAg), the already- licensed human vaccine for hepatitis B infection, may be exploited to deliver foreign antigens for cytotoxic T-lymphocyte (CTL) induction. In this study we demonstrate that recombinant (r) HBsAg DNA delivering a CTL polyepitope appended at the C' terminus elicits concomitant responses to multiple epitopes restricted through a diversity of MHC class I haplotypes, which are relevant in a number of human diseases. We show that the rHBsAg DNA vaccine elicits...
Tipo: Manuscript Palavras-chave: Biotechnology; Cancer; Immunology.
Ano: 2008 URL: http://precedings.nature.com/documents/1910/version/1
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Hematopoietic Cell Types: Prototype for a Revised Cell Ontology Nature Precedings
Alexander D. Diehl; Alison D. Augustine; Judith A. Blake; Lindsay G. Cowell; Elizabeth S. Gold; Timothy A. Gondré-Lewis; Anna Maria Masci; Terrence F. Meehan; Penelope A. Morel; Anastasia Nijnik; Bjoern Peters; Bali Pulendran; Richard H. Scheuermann; Q. Alison Yao; Martin S. Zand; Christopher J. Mungall.
The Cell Ontology (CL) aims for the representation of in vivo and in vitro cell types from all of biology. Although the CL is a reference ontology of the OBO Foundry, it requires extensive revision to bring it up to current standards for biomedical ontologies, both in its structure and its coverage of various subfields of biology. A recent workshop sponsored by NIAID on hematopoietic cell types in the CL addressed both issues. The section of the ontology dealing with hematopoietic cells was extensively revised, and plans were set for structuring these cell type terms as cross-products with logical definitions built from relationships to external ontologies, such as the Protein Ontology and the Gene Ontology. The methods and improvement to the CL in...
Tipo: Manuscript Palavras-chave: Immunology; Bioinformatics; Data Standards.
Ano: 2009 URL: http://precedings.nature.com/documents/3635/version/1
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Hematopoietic Cell Types: Prototype for a Revised Cell Ontology Nature Precedings
Alexander D. Diehl.
The Cell Ontology (CL) is an OBO Foundry candidate ontology intended for the representation of cell types from all of biology. A recent workshop sponsored by NIAID on hematopoietic cell types in the CL addressed issues of both the content and structure of the CL. The section of the ontology dealing with hematopoietic cells was extensively revised, and plans were made for restructuring these cell type terms as cross-products with logical definitions based on relationships to external ontologies, such as the Protein Ontology and the Gene Ontology. The improvements to the CL in this area represent a paradigm for the future revision of the whole of the CL.
Tipo: Presentation Palavras-chave: Immunology; Bioinformatics.
Ano: 2009 URL: http://precedings.nature.com/documents/3543/version/1
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Hematopoietic Cell Types: Prototype for a Revised Cell Ontology Nature Precedings
Alexander D. Diehl; Alison D. Augustine; Judith A. Blake; Lindsay G. Cowell; Elizabeth S. Gold; Timothy A. Gondré-Lewis; Anna Maria Masci; Terrence F. Meehan; Penelope A. Morel; Anastasia Nijnik; Bjoern Peters; Bali Pulendran; Richard H. Scheuermann; Q. Alison Yao; Martin S. Zand; Christopher J. Mungall.
The Cell Ontology (CL) is an OBO Foundry candidate ontology intended for the representation of cell types from all of biology. A recent workshop sponsored by NIAID on hematopoietic cell types in the CL addressed issues of both the content and structure of the CL. The section of the ontology dealing with hematopoietic cells was extensively revised, and plans were made for restructuring these cell type terms as cross-products with logical definitions based on relationships to external ontologies, such as the Protein Ontology and the Gene Ontology. The improvements to the CL in this area represent a paradigm for the future revision of the whole of the CL.
Tipo: Presentation Palavras-chave: Immunology; Bioinformatics; Data Standards.
Ano: 2009 URL: http://precedings.nature.com/documents/3543/version/2
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Herd Immunity/Herd Infection: Cultural Artifacts of Marginalization and the Dynamics of AIDS Nature Precedings
Rodrick Wallace.
We examine conditions under which high prevalence of infectious disease can become endemic within a community, in effect constituting a state of 'herd infection' inverse to epidemiological herd immunity. For something like AIDS, under such circumstances, a single behavioral lapse or adverse accident will probably be a death sentence.
Tipo: Manuscript Palavras-chave: Immunology; Microbiology; Pharmacology; Evolutionary Biology.
Ano: 2011 URL: http://precedings.nature.com/documents/5864/version/1
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High efficiency transfection of thymic epithelial cell lines and primary thymic epithelial cells by Nucleofection Nature Precedings
Richard T. O'Neil; Qiaozhi Wei; Brian G. Condie.
Thymic epithelial cells (TECs) are required for the development and differentiation of T cells and are sufficient for the positive and negative selection of developing T cells. Although TECs play a critical role in T cell biology, simple, efficient and readily scalable methods for the transfection of TEC lines and primary TECs have not been described. We tested the efficiency of Nucleofection for the transfection of 4 different mouse thymic epithelial cell lines that had been derived from cortical or medullary epithelium. We also tested primary mouse thymic epithelial cells isolated from fetal and postnatal stages. We found that Nucleofection was highly efficient for the transfection of thymic epithelial cells, with transfection efficiencies of 30-70% for...
Tipo: Manuscript Palavras-chave: Biotechnology; Genetics & Genomics; Immunology; Molecular Cell Biology.
Ano: 2011 URL: http://precedings.nature.com/documents/6283/version/1
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High-Throughput Transcriptome Profiling Of Human Mesenchymal Stem Cells Reveals A Role For Wnt/GSK-3 Signaling In Their Hypoimmunomodulation Nature Precedings
Gurudutta Gangenahalli; Neeraj Satija; Farhat Afrin; Rajender Prasad Tripathi.
Mesenchymal stem cells (MSCs) are gaining importance among clinicians following recent demonstration of safe allogeneic transplantation due to their ability to modulate the immune response. However,the molecular machinery regulating the expression of immunomodulatory factors in MSCs is unknown. We, therefore, inhibited glycogen synthase kinase-3 (GSK-3),a Wnt signaling inhibitor, to elucidate the role of Wnt signaling in mediating immunoregulatory effects of human MSCs using gene expression profiling. Our results highlight enhanced ability of GSK-3 inhibitor (lithium) treated MSCs to evade immune response as a result of decreased expression of immune stimulatory cytokines and chemokines.
Tipo: Manuscript Palavras-chave: Biotechnology; Developmental Biology; Immunology; Molecular Cell Biology.
Ano: 2011 URL: http://precedings.nature.com/documents/5512/version/1
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HMGB1 release by C5a anaphylatoxin is an effective target for sepsis treatment Nature Precedings
Hidechika Okada; Noriko Okada; Masaki Imai; Alan Okada; Fumiko Ono.
Antibodies to C5a have proven to be effective in treating experimental septic primate models. A 17 amino acid peptide (ASGAPAPGPAGPLRPMF) named PepA binds to C5a and prevents complement-mediated lethal shock in rats. AcPepA harboring an acetyl group at the N-terminal alanine showed increased inhibitory activity against C5a. Cynomolgus monkeys destined to expire from a lethal dose of bacterial endotoxin (4mg/kg) were rescued by intravenous administration of AcPepA. AcPepA could have interfered with the ability of C5a to stimulate C5L2 which is responsible for HMGB1 release and stimulation of TLR4 as an endogeneous ligand with LPS behavior. The suppression of HMGB1 release by AcPepA administration to LPS-shock monkeys is likely responsible for rescuing the...
Tipo: Manuscript Palavras-chave: Biotechnology; Immunology; Pharmacology.
Ano: 2011 URL: http://precedings.nature.com/documents/5727/version/1
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Host Genetics and Viral Diversity: Report from a Global HIV Vaccine Enterprise Working Group Nature Precedings
Andrew McMichael; Francine McCutchan; the Working Group convened by the Global HIV Vaccine Enterprise.
The Global HIV Vaccine Enterprise convened a workshop in September 2009 to discuss human and viral genetic variation and its impact on future directions for HIV vaccine research and development. The formidable challenges presented by virus and host genetic variability are interrelated and complicate vaccine development. HIV vaccine researchers need to develop innovative approaches that will facilitate addressing these questions in novel ways.
Tipo: Manuscript Palavras-chave: Genetics & Genomics; Immunology; Microbiology.
Ano: 2010 URL: http://precedings.nature.com/documents/4797/version/1
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Host Genetics and Viral Diversity: Report from a Global HIV Vaccine Enterprise Working Group Nature Precedings
Andrew McMichael; Francine McCutchan; the Working Group convened by the Global HIV Vaccine Enterprise.
The Global HIV Vaccine Enterprise convened a workshop in September 2009 to discuss human and viral genetic variation and its impact on future directions for HIV vaccine research and development. The formidable challenges presented by virus and host genetic variability are interrelated and complicate vaccine development. HIV vaccine researchers need to develop innovative approaches that will facilitate addressing these questions in novel ways.
Tipo: Manuscript Palavras-chave: Genetics & Genomics; Immunology; Microbiology.
Ano: 2010 URL: http://precedings.nature.com/documents/4797/version/2
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How gut sampling and microbial invasiveness/noninvasiveness provides mucosal immunity with a nonmolecular pattern means to distinguish commensals from pathogens: A review Nature Precedings
John R. Skoyles.
Mucosal immunity distinguishes not only different microbial antigens but also separates those of pathogens from those of commensals. How this is done is unknown. The present view is that the pathogen/commensal determination of antigens depends upon as yet to be discovered molecular patterns. Here I review the biological feasibility that it also involves the detection of the invasive differences in their motility towards the gut wall when they are sampled by differently biased methods. 

By their nature, pathogens and commensals have different motility – invasive and noninvasive – in regard to the epithelium. The immune system is in a position to detect such motility differences. This biological...
Tipo: Manuscript Palavras-chave: Immunology; Microbiology.
Ano: 2008 URL: http://precedings.nature.com/documents/1895/version/1
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