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The Symmetrical Immune Network Theory and a New HIV Vaccine Concept Nature Precedings
Geoffrey W. Hoffmann.
The symmetrical immune network theory is based on Jerne’s network hypothesis. An improved version of the theory is presented. The theory is characterized by symmetrical stimulatory, inhibitory and killing interactions between idiotypic and antiidiotypic immune system components. In this version killing is ascribed to IgM antibodies, while IgG antibodies are stimulatory. In the symmetrical immune network theory T cells make specific T cell factors, that have a single V region, and are cytophilic for non-specific accessory cells (A cells, including macrophages and monocytes) and play a role in the system switching between stable steady states. A recurring theme in the theory is the concept of co selection. Co-selection is the mutual positive...
Tipo: Manuscript Palavras-chave: Immunology; Neuroscience.
Ano: 2010 URL: http://precedings.nature.com/documents/4228/version/1
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The 'consciousness' of the living state: Extending the Baars global broadcast model across physiological subsystems Nature Precedings
Rodrick Wallace.
For the broad spectrum of cognitive biological phenomena having 'dual' information sources, isolation from crosstalk between them requires more metabolic free energy than permitting correlation. This allows an evolutionary exaptation leading to dynamic global broadcasts at multiple scales, similar to the well-studied exaptation of noise to trigger stochastic resonance amplification in physiological systems. Entropy gradient models adapted from nonequilibrium thermodynamics lead to an index theorem in which analytic solutions of empirical equations describe different possible topological modes. Not only is the living state characterized by cognition at every scale and level of organization, but by multiple, shifting, tunable, cooperative...
Tipo: Manuscript Palavras-chave: Biotechnology; Developmental Biology; Ecology; Immunology; Molecular Cell Biology; Neuroscience; Pharmacology; Evolutionary Biology.
Ano: 2012 URL: http://precedings.nature.com/documents/6898/version/2
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Role and immunomodulatory profile of histamine receptors by H1 and H2 antagonists Nature Precedings
Trivendra Tripathi; Mohd. Shahid; Mashiatullah Siddiqui; Rahat Khan.
The present study was designed to delineate the immunomodulatory role of histamine receptors (H1- and H2-) on induction of antibody response to sheep red blood cells (SRBC), as well as the antibody generation profile, in rabbit system, systemically. The rabbits in two groups received pheniramine (H1-receptor antagonist) and ranitidine (H2-receptor antagonist), respectively, via intramuscular route and were immunized with SRBC intravenously to evaluate suppression or enhancement of antibody responses in sem. A third, control group, received vehicle and were immunized in a similar manner. Histamine released from effector cells (mast cells and basophils) _in vivo_ during inflammatory reactions could influence a detectable antibody response to SRBC as early as...
Tipo: Manuscript Palavras-chave: Immunology; Microbiology; Pharmacology.
Ano: 2008 URL: http://precedings.nature.com/documents/1547/version/1
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Female Scent Signals Enhances Male Resistance to Influenza Nature Precedings
Ekaterina A. Litvinova; Elena P. Goncharova; Alla M. Zaidman; Marina A. Zenkova; Mikhail P. Moshkin.
Scent of receptive females as signal to reproduction stimulate male mice to olfactory search of a potential breeding partner^1, 2^. This searching behavior is coupled with infection risk due to bacterial contamination of the fecal and urine scent marks^4^. The theoretical consideration of host evolution under inevitable parasitic pressures, including helminthes, bacteria, virus etc., predicts adaptations that help protect against parasites associated with breeding^7^. In this study, we propose that acceptation of female signals by male mice leads to adaptive redistribution of immune defense directed to protection against respiratory infection risks. Our results reveal migration of macrophages and neutrophils to upper airways upon exposure to female odor...
Tipo: Manuscript Palavras-chave: Ecology; Immunology.
Ano: 2009 URL: http://precedings.nature.com/documents/3311/version/1
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Data Management Plan for Monogram BioSciences Nature Precedings
Christos J. Petropoulos.
This is the data plan for access to data underlying published reports by Monogram BioSciences.
Tipo: Marker Paper / Data Plan Palavras-chave: Genetics & Genomics; Immunology; Microbiology; Pharmacology; Bioinformatics; Evolutionary Biology; Data Standards.
Ano: 2011 URL: http://precedings.nature.com/documents/5668/version/1
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Defective FoxP3+ Treg cell differentiation in the gut of Type 1 Diabetic patients Nature Precedings
Ester Badami; Chiara Sorini; Margherita Coccia; Laura Molteni; Andrea Mario Bolla; Marina Scavini; Alberto Mariani; Emanuele Bosi; Marika Falcone.
Environmental factors that act at the intestinal level such as diet, drugs, and microflora have a high impact on the pathogenesis of autoimmune Type 1 Diabetes (T1D), but it is still unclear how the gut milieu affects autoimmunity outside the intestine. Here we show that peripheral FoxP3+ Treg cell differentiation, a mechanism that takes place in the gut and is crucial to maintain systemic immune tolerance, is impaired in T1D patients. These results provide the first evidence that gut mucosa alteration could predispose to autoimmune T1D by affecting systemic immune regulation.
Tipo: Manuscript Palavras-chave: Immunology.
Ano: 2010 URL: http://precedings.nature.com/documents/4417/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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Novel protein antigen (JHP940) from the genomic plasticity region of Helicobacter pylori induces TNF-alpha and Interleukin- 8 secretion by human macrophages Nature Precedings
Niyaz Ahmed; Ayesha Alvi; Mohammed Rizwan.
Plasticity region of the H. pylori genome comprises strain specific gene loci. We performed genotyping and functional biology of one such locus (jhp940) that was previously found to be functionally unknown but present in gastric cancer associated strains from many different countries. We found its geographic prevalence to be independent of cagA presence and disease status. Cloning, expression and purification of the JHP940 revealed a novel, ~36kDa protein in biologically active form. The same induced strong and significant levels of TNF-alpha and Interleukin-8 in human macrophages. Induction of these cytokines by JHP940 points to its putative role in chronic gastric inflammation and various other outcomes of H. pylori infection including gastric cancer.
Tipo: Poster Palavras-chave: Immunology; Microbiology; Molecular Cell Biology.
Ano: 2007 URL: http://precedings.nature.com/documents/864/version/1
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Microarray Analysis of PBMC after Plasmodium falciparum Infection: Molecular Insights into Disease Pathogenesis Nature Precedings
Wan-Chung(Wan-Jiung) Hu; Alan Scott; Nathan Wolfe; Sher Singh; Anne Jedlicka; August Louis Bourgeois.
Our laboratory’s previous microarray analysis of subjects with Plasmodium falciparum revealed up-regulation of Toll-like receptor, NF-kB, TNF-α, IFN-γ, IL-1β, p38 MAPK, and MHC molecules. We performed further time-course microarray analysis focusing on malaria pathogenesis by using peripheral leukocytes as a cellular model. We found up-regulation of coagulation-related genes (SERPINB2, thrombomodulin, thrombospondin), heat shock proteins, glycolytic enzymes, glucose transporters, and vacuolar H+-ATPases in acute febrile malaria. In early malaria, prior to detectable parasitemia, CD36 and ICAM1 were up-regulated. During acute malaria, a correlation was observed between IL-1ß and heat shock proteins,...
Tipo: Manuscript Palavras-chave: Genetics & Genomics; Immunology; Microbiology; Bioinformatics.
Ano: 2011 URL: http://precedings.nature.com/documents/5929/version/1
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Nationwide Study of Breast Cancer Risk Factors in Latinas Nature Precedings
Michael Dean; Latoya Silverton; Julie Sawitzke.
Breast cancer is the most common cancer among American women. Any woman can be affected by breast cancer, with risk for the disease increasing with age. Risk for breast cancer is also exacerbated in women who have certain genetic alterations. Mutations in the BRCA1 and BRCA2 genes predispose women to breast and ovarian cancer, and are increasingly recognized in prostate and pancreatic cancers (1-3). In Caucasian and Asian ethnicities BRCA mutations are associated with basal-type/triple-negative disease. However this association between BRCA gene mutations and basal/triple-negative disease has been understudied in other ethnicities (4-6). The incidence and mortality of breast cancer of Hispanics and Native Americans are lower than other ethnicities;...
Tipo: Marker Paper / Data Plan Palavras-chave: Cancer; Genetics & Genomics; Immunology; Bioinformatics.
Ano: 2011 URL: http://precedings.nature.com/documents/5691/version/1
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Differential Gene Expression of Human Mast cell Activation Reveals Gene profiles of Innate and Adaptive Immunity. Nature Precedings
Jayapal J. Manikandan; Reghunathan Renji; Peter Natesan Pushparaj; Alirio Jose Melendez.
High-density oligonucleotide microarray is a promising approach for high throughput analysis. It has been extensively used in many areas of biomedical research. Immunoglobulin E (IgE) mediated allergic response (type-1 hypersensitivity) is one of the most powerful reactions of the immune system. Tissue Mast Cells (MCs) and circulating basophils are the major effector cells in these reactions. By dissecting the regulatory circuitry of mast cells by analyzing the genome wide effects of antigen stimulation triggered by FcεRI, offers a potential for finding novel genes as ‘targets’ for therapeutic intervention. In this work, we tried to study the gene expression pattern in IgE sensitized and FcεRI cross linked cord...
Tipo: Poster Palavras-chave: Immunology; Molecular Cell Biology; Pharmacology; Bioinformatics.
Ano: 2007 URL: http://precedings.nature.com/documents/1148/version/1
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Proteins of the XMRV retrovirus implicated in chronic fatigue syndrome and prostate cancer are homologous to human proteins relevant to both diseases. Nature Precedings
Christopher Carter.
The XMRV retrovirus has been implicated in chronic fatigue syndrome and prostate cancer. A homology search comparing retroviral with human proteins revealed short contiguous amino acid strings (typically 5-8 aa) matching human proteins whose dysfunction might be expected to cause fatigue, including mitochondrial proteins related to oxidative phosphorylation, glutamate receptors and their synaptic scaffolds, muscular acetylcholine receptor scaffolds and structural proteins, components of the immune system, and phosphatidylinositol signalling inter alia. Viral proteins are also homologous to members of the oestrogen, peroxisome proliferator, and CREB activated receptor networks, all of which are implicated in prostate cancer, and to a protein, SRCAP, that...
Tipo: Manuscript Palavras-chave: Cancer; Immunology; Microbiology; Neuroscience.
Ano: 2010 URL: http://precedings.nature.com/documents/4669/version/1
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IMGT/Automat: the strategy for the annotation of human and mouse cDNA nucleotide sequences of IG and TR Nature Precedings
Géraldine Folch; Joumana Jabado-Michaloud; Fatena Bellahcene; Laetitia Regnier; Véronique Giudicelli; Marie-Paule Lefranc.
The cDNA sequences of immunoglobulins (IG) and T cell receptors (TR) represent more than one half of the sequences in the IMGT^®^ nucleotide database IMGT/LIGM-DB^1^ and 75% of them are from human and mouse. A few cDNA are germline but the great majority results from a V-D-J or V-J gene rearrangement, spliced to a C gene. The IG and TR genes have been studied extensively in IMGT^®^ ("http://www.imgt.org":http://www.imgt.org) ^2^, which allowed to set up their nomenclature and the corresponding germline reference sequences. These standardized reference directory sets (one for each group of each locus) and the IMGT-ONTOLOGY axioms and derived concepts^3^ are the key elements indispensable to perform the annotation of IG...
Tipo: Poster Palavras-chave: Genetics & Genomics; Immunology; Bioinformatics.
Ano: 2009 URL: http://precedings.nature.com/documents/3159/version/1
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Identification of MHC Class II Binders/ Non-binders using Negative Selection Algorithm Nature Precedings
S.S. Soam; Feroz Khan; Bharat Bhasker; B. N. Mishra.
The identification of major histocompatibility complex (MHC) class-II restricted peptides is an important goal in human immunological research leading to peptide based vaccine design. These MHC class–II peptides are predominantly recognized by CD4+ T-helper cells, which when turned on, have profound immune regulatory effects. Thus, prediction of such MHC class-II binding peptides is very helpful towards epitope-based vaccine design. HLA-DR proteins were found to be associated with autoimmune diseases e.g. HLA-DRB1*0401 with rheumatoid arthritis. It is important for the treatment of autoimmune diseases to determine which peptides bind to MHC class II molecules. The experimental methods for identification of these peptides are both time consuming...
Tipo: Manuscript Palavras-chave: Immunology; Bioinformatics.
Ano: 2011 URL: http://precedings.nature.com/documents/6608/version/1
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Digital BioCuration: A Question of Balance Nature Precedings
James Ostell.
Curation of biomedical data has come to encompass a broad range of activities and considerations, which include the building of digital archives, making decisions on the relative value and longevity of one dataset vs another, editing data records manually, performing or assessing computational processes over very large sets of data, and grappling with issues of web usability and data standards. People who consider themselves biological curators may range from a single domain expert, who develops a collection which reflects their personal judgments and priorities, to groups of people supporting large, long term public resources such as GenBank, RefSeq, or PubMed, and everything in between. Finding the right balance between objective measures of quality and...
Tipo: Presentation Palavras-chave: Genetics & Genomics; Immunology; Bioinformatics.
Ano: 2009 URL: http://precedings.nature.com/documents/3257/version/1
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Alzheimer's disease is TH17 related autoimmune disease against misfolded beta amyloid Nature Precedings
Wan-Jiung(Wan-Chung) Hu.
Alzheimer's disease is a common neurodegenerative disorder. However, its exact etiology is still unknown. There were several mechanisms proposed such as the tau hypothesis and amyloid hypothesis. However, there is evidence challenging the above two hypotheses. Here, I propose the immune-amyloid hypothesis as a mechanism for Alzheimer's disease. Th17 related autoimmunity contributes to the disease pathogenesis. Accumulation of misfolded beta amyloid can trigger heat shock protein which in turn induces TH17 immunity. By microarray analysis of peripheral blood mononuclear cells, there is up-regulation of many TH17 related molecules after Alzheimer's disease. After knowing the exact disease pathogenesis, we can develop new...
Tipo: Manuscript Palavras-chave: Genetics & Genomics; Immunology; Neuroscience; Bioinformatics.
Ano: 2011 URL: http://precedings.nature.com/documents/5934/version/2
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Bioinformatics analysis of homologies between pathogen antigens, autoantigens and the CFTR cystic fibrosis protein: A role for immunoadsorption therapy? Nature Precedings
Christopher Carter.
The cystic fibrosis CFTR chloride channel is involved in pathogen entry into epithelial cells, and provides the glutathione and hypochlorous acid necessary for bactericidal and viricidal actions. CFTR mutations block these effects, diminishing pathogen defence and allowing pathogen accumulation in the extracellular space, where antibody encounter is likely. The pathogen antigens observed in cystic fibrosis (including P. Aeruginosa, S.Aureus and S.Maltophilia proteins) are homologous to the autoantigens reported in cystic fibrosis and all are homologous to the CFTR protein itself. Antibodies to pathogens and autoantigens may also target the CFTR protein, acting as antagonists, further compromising its function. The tripartite relationship between pathogen...
Tipo: Manuscript Palavras-chave: Genetics & Genomics; Immunology; Microbiology; Bioinformatics.
Ano: 2010 URL: http://precedings.nature.com/documents/5352/version/1
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Evidence for gliadin antibodies as causative agents in schizophrenia. Nature Precedings
Chris J. Carter.
Antibodies to gliadin, a component of gluten, have frequently been reported in schizophrenia. Highly immunogenic B cell epitopes along its length are homologous to numerous proteins relevant to schizophrenia, including members of the DISC1 interactome, glutamate, dopamine and neuregulin signaling networks, and plasticity or myelination pathways. Antibodies to gliadin may cross react with these key proteins, as has already been observed with synapsin 1 and calreticulin. Gliadin may thus be a causative agent in schizophrenia, under certain genetic and immunological conditions, producing its effects via antibody mediated knockdown of multiple proteins relevant to the disease process. Because of such homology, an autoimmune response may be sustained by the...
Tipo: Manuscript Palavras-chave: Genetics & Genomics; Immunology; Neuroscience; Bioinformatics.
Ano: 2010 URL: http://precedings.nature.com/documents/5351/version/1
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Literature Triage and Indexing in the Mouse Genome Informatics (MGI) Group Nature Precedings
Randal P. Babiuk; Dale A. Begley; Susan M. Bello; Dirck W. Bradt; Donna L. Burkart; Howard Dene; Alexander D. Diehl; Harold J. Drabkin; Jacqueline H. Finger; Terry F. Hayamizu; David P. Hill; Michelle Knowlton; Debra M. Krupke; Ira Lu; Lois J. Maltais; Monica McAndrews-Hill; Terrence F. Meehan; Li Ni; Hiroaki Onda; Dmitry Sitnikov; Constance M. Smith; Cynthia L. Smith; Monika Tomczuk.
The Mouse Genome Informatics (MGI; "http://www.informatics.jax.org":http://www.informatics.jax.org) group is comprised of several collaborating projects including the Mouse Genome Database (MGD) Project, the Gene Expression Database (GXD) Project, the Mouse Tumor Biology (MTB) Database Project, and the Gene Ontology (GO) Project. Literature identification and collection is performed cooperatively amongst the groups.

In recent years many institutional libraries have transitioned from a focus largely on print holdings to one of electronic access to journals. This change has necessitated adaptation on the part of the MGI curatorial group. Whereas the majority of journals covered by the group used to be...
Tipo: Poster Palavras-chave: Cancer; Developmental Biology; Genetics & Genomics; Immunology; Molecular Cell Biology; Neuroscience; Bioinformatics.
Ano: 2009 URL: http://precedings.nature.com/documents/3246/version/1
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Immunogenic Modulations Induced by Prospective Anti-Malarial Herbal Extracts in Murine Model Nature Precedings
Sudipta Chakraborty; Swapna Chhetri; Sajal Ray; Shyamal Das Gupta; Suman Mukherjee; Niladri Sekhar Bhunia; Manoj Das; Sanat Biswas; Sreemayee Sarkar; Guruprasad Mandal; Dipankar Singha; Chinmoy Karjee.
Keeping in view the ever increasing problem of drug resistance and affordability of the antimalarial drugs by the poor mass, herbal medicines can become an important and alternative sustainable strategy for malaria treatment. Aqueous extracts of three Himalayan herbs― _Equisetum ravense_, _Artemisia vulgaris_ and _Centella asiatica_, with reported antimalarial property were screened for clinical efficacy against a local strain of _Plasmodium vivax_ antigen in murine model. _E. arvense_ extract was consistent in boosting phagocytic activity, nitric oxide generation, acid phosphatase and alkaline phosphatase activities in the peritoneal macrophages. The effectiveness of the rest herbals was discrete. A need for further detailed investigation to...
Tipo: Manuscript Palavras-chave: Immunology; Pharmacology.
Ano: 2010 URL: http://precedings.nature.com/documents/4157/version/1
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