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Molecular Static and Dynamic Analyses reveal Flaw in Murine Model used by US FDA to Detect Drug Carcinogenicity Nature Precedings
Trevor Marshall.
The US FDA currently accepts carcinogenicity studies of pharmaceutical drugs based on murine models. In addition to 6 month studies with p53(+/-) and ras.H2 transgenic mice, lifetime studies (typically 2 years) in WT mice or rats are also considered as evidence that a drug lacks carcinogenic activity. This model is not always exhaustive. For example, during the acceptance testing of the ARB Olmesartan[1], possible carcinogenicity observed in hamsters was not able to be duplicated in rats, or in transgenic mice. We have previously used the static molecular modeling of AutoDock to demonstrate that Olmesartan has agonostic activity in the PDB:1DB1 model of the human VDR Nuclear Receptor[2], while it has antagonistic activity in the PDB:1RK3 model of the rat...
Tipo: Poster Palavras-chave: Biotechnology; Cancer; Immunology; Pharmacology; Bioinformatics.
Ano: 2007 URL: http://precedings.nature.com/documents/52/version/1
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Morphometric analysis of the thymus of puppies infected with the Snyder Hill Strain of canine distemper virus Arq. Bras. Med. Vet. Zootec.
Alves,C.M.; Vasconcelos,A.C.; Martins,A.S.; del Puerto,H.L.; Santos,F.G.A.; Nunes,J.E.S.; Campos,P.P.; Moro,L..
The thymic morphometry analysis was used for determining apoptosis and atrophy of the thymus of eight puppies inoculated with canine distemper virus (CDV). Three healthy dogs were used as negative controls. Sections, 5µm thick, were stained by HE and Shorr, and the latter were evaluated by morphometry. CDV nucleoprotein was detected by immunohistochemistry. Morphometric results confirmed lymphoid hypotrophy in CDV inoculated dog thymuses, more stroma, less parenchyma and higher apoptotic index/field than negative control (not inoculated) puppies. Apoptosis plays a role in the mechanism of thymus atrophy that develops in canine distemper.
Tipo: Info:eu-repo/semantics/article Palavras-chave: Puppy; Apoptosis; Thymus; Canine distemper; Immunology; Virus; Immunosuppression.
Ano: 2006 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0102-09352006000400004
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Multi-scale network biology model & the model library Nature Precedings
Jianghui Xiong.
Multi-scale network biology model & the model library
Tipo: Presentation Palavras-chave: Biotechnology; Cancer; Developmental Biology; Genetics & Genomics; Immunology; Molecular Cell Biology; Pharmacology; Bioinformatics.
Ano: 2011 URL: http://precedings.nature.com/documents/5778/version/1
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Multivalent ligands of CD22 for targeting of B cells Nature Precedings
James C. Paulson.
Multivalent ligands of CD22 for active targeting of B cells. Mary O’Reilly, Wei Hsu Chen, Gladys Completo, Ying Zeng, Satoshi Futakawa and Cory Rillahan and James C. Paulson, Departments of Chemical Physiology and Molecular Biology, The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, CA, 92037

The siglecs comprise 13 members of the immunoglobulin superfamily that recognize sialic acid containing glycans, and are differentially expressed on leukocytes and glial cells. The natural ligands of siglecs typically occur on the same cell (in cis) and/or on adjacent cells (in trans). Cis ligands mask the binding of multivalent synthetic sialoside ligands and are thought to regulate the activity of...
Tipo: Presentation Palavras-chave: Biotechnology; Cancer; Chemistry; Immunology; Molecular Cell Biology.
Ano: 2009 URL: http://precedings.nature.com/documents/3549/version/1
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Mutations in the _SC4MOL_ gene encoding a novel methyl sterol oxidase cause autosomal recessive psoriasisiform dermatitis, microcephaly and developmental delay Nature Precedings
Miao He; Lisa Kratz; Jushua Michel; Abbe Vallejo; Laura Ferris; Richard Kelley; Jacqueline Hoover; Michael Gibson; Gerard Vockley.
Disorders of cholesterol biosynthesis have clinical manifestations involving skeleton, eyes, neurologic development, and skin. We describe a patient with congenital cataracts, developmental delay, microcephaly, and low serum cholesterol who developed severe psoriasiform dermatitis and arthralgias beginning at age 3. Her brain MRI indicatedminor gliosis. Quantitative sterol analysis of patient plasma and skin showed marked elevation of 4alpha-methyl- and 4, 4'-dimethylsterols, indicating a deficiency in the first step of sterol C4 demethylation in cholesterol biosynthesis. Molecular studies showed mutations in _SC4MOL_, a gene predicted to encode a sterol C4 methyl oxidase. Thus, our patient has a previously undescribed inborn error of cholesterol...
Tipo: Manuscript Palavras-chave: Genetics & Genomics; Immunology.
Ano: 2008 URL: http://precedings.nature.com/documents/2163/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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Neural Networks, Cell Genome and Interactome Nonlinear Dynamic Models Nature Precedings
I. C. Baianu.
Operational logic and bioinformatics models of nonlinear dynamics in complex functional systems such as neural networks, genomes and cell interactomes are proposed. Łukasiewicz Algebraic Logic models of genetic networks and signaling pathways in cells are formulated in terms of nonlinear dynamic systems with n-state components that allow for the generalization of previous logical models of both genetic activities and neural networks. An algebraic formulation of variable 'next-state functions' is extended to a Łukasiewicz Topos with an n-valued Łukasiewicz Algebraic Logic subobject classifier description that represents non-random and nonlinear network activities as well as their transformations in...
Tipo: Manuscript Palavras-chave: Biotechnology; Cancer; Chemistry; Developmental Biology; Genetics & Genomics; Immunology; Molecular Cell Biology; Neuroscience; Pharmacology; Bioinformatics; Evolutionary Biology.
Ano: 2011 URL: http://precedings.nature.com/documents/6206/version/1
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New methods for analyzing serological data with applications to influenza surveillance Nature Precedings
Wilfred Ndifon.
Two important challenges to the use of serological assays for influenza surveillance include the substantial amount of experimental effort involved, and the inherent noisiness of serological data. Here, informed by the observation that log-transformed serological data (obtained from the hemagglutination-inhibition assay) exist in an effectively one-dimensional space, computational methods are developed for accurately and efficiently recovering unmeasured serological data from a sample of measured data, and systematically minimizing noise found in the measured data. Careful application of these methods would enable the collection of better-quality serological data on a greater number of circulating influenza viruses than is currently possible, and improve...
Tipo: Manuscript Palavras-chave: Immunology; Evolutionary Biology.
Ano: 2009 URL: http://precedings.nature.com/documents/3820/version/1
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Non-specific binding of antibodies in immunohistochemistry: Fakes and facts Nature Precedings
Igor Buchwalow; Vera Samoilova; Werner Boecker; Markus Tiemann.
Protocols for blocking non-specific antibody (Ab) binding in immunohistochemistry are based on rather contradictory and outdated reports. This prompted us to prove, whether non-specific Ab binding may really lead to unwanted background staining in routinely processed cell and tissue probes. In this study, the probes were fixed and processed according to routine protocols with and without a blocking step (goat serum or BSA). Surprisingly, all Ab in probes processed without a blocking step did not show any propensity towards non-specific binding that might lead to background staining, thus implying that endogenous Fc receptors do not retain their ability to bind Fc portion of Ab after standard fixation. Likewise in routinely fixed probes, we did not find...
Tipo: Manuscript Palavras-chave: Immunology.
Ano: 2011 URL: http://precedings.nature.com/documents/5892/version/1
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Novel approaches, including systems biology, to HIV vaccine research and development: Report from a Global HIV Vaccine Enterprise Working Group Nature Precedings
Bali Pulendran; Rino Rappuoli; Alan Aderem; the Working Group convened by the Global HIV Vaccine Enterprise.
The Global HIV Vaccine Enterprise convened a two-day workshop on August 10-11 2009, at the Fred Hutchison Cancer Research Center offices in Seattle, WA, to discuss the application of novel approaches,including systems biology, to HIV vaccine research and development. The goals of this Working Group were to identify key scientific issues and opportunities that have emerged since the Enterprise Scientific Strategic Plan1 was published in 2005, and to make recommendations to Enterprise stakeholders.
Tipo: Manuscript Palavras-chave: Biotechnology; Immunology; Microbiology; Bioinformatics.
Ano: 2010 URL: http://precedings.nature.com/documents/4798/version/2
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Novel approaches, including systems biology, to HIV vaccine research and development: Report from a Global HIV Vaccine Enterprise Working Group Nature Precedings
Bali Pulendran; Rino Rappuoli; Alan Aderem; the Working Group convened by the Global HIV Vaccine Enterprise.
The Global HIV Vaccine Enterprise convened a two-day workshop on August 10-11 2009, at the Fred Hutchison Cancer Research Center offices in Seattle, WA, to discuss the application of novel approaches,including systems biology, to HIV vaccine research and development. The goals of this Working Group were to identify key scientific issues and opportunities that have emerged since the Enterprise Scientific Strategic Plan1 was published in 2005, and to make recommendations to Enterprise stakeholders.
Tipo: Manuscript Palavras-chave: Biotechnology; Immunology; Microbiology; Bioinformatics.
Ano: 2010 URL: http://precedings.nature.com/documents/4798/version/1
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Novel mutations in the toll like receptor genes cause hyporesponsiveness to Mycobacterium avium subsp. paratuberculosis infection Nature Precedings
Mangesh Bhide; Rastislav Mucha; Ivan Mikula Jr.; Lucia Kisova; Rostislav Skrabana; Michal Novak; Ivan Mikula Sr..
Toll like receptors play a central role in the recognition of pathogen associated molecular patterns (PAMPs). Mutations in TLR1, TLR2 and TLR4 genes may change the PAMP reorganization ability which causes altered responsiveness to the bacterial pathogens. A case control study, performed to assess the association between TLR gene mutations and susceptibility to Mycobacterium avium subsp. paratuberculosis (MAP), revealed novel mutations (TLR1 - Ser150Gly and Val220Met; TLR2 - Phe670Leu) that hindered either PAMP recognition or further downstream TLR pathway activation. A cytokine expression experiments (IL-4, IL-8, IL-10, IL-12 and IFN-γ) in the challenged mutant and wild type moDCs (mocyte derived dendritic cells) confirmed the negative impact of...
Tipo: Manuscript Palavras-chave: Genetics & Genomics; Immunology; Microbiology.
Ano: 2008 URL: http://precedings.nature.com/documents/2637/version/1
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Novel network pharmacology methods for drug mechanism of action identification, pre-clinical drug screening and drug repositioning Nature Precedings
Jianghui Xiong.
The high rates of failure in oncology drug clinical trials highlight the problems of using pre-clinical data to predict the clinical effects of drugs. Here we present two methodology innovations on network pharmacology modeling. (1) We hypothesize that the gene network associated with cancer outcome in heterogeneous patient populations could serve as a reference for identifying drug effects. We proposed a novel in vivo genetic interaction between genes as ‘synergistic outcome determination’, in a similar way to ‘synthetic lethality’. We scanned above genetic interactions based on microarray profiling for cancer prognosis, and identified a cluster of important yet epigenetically regulated gene modules. By...
Tipo: Presentation Palavras-chave: Biotechnology; Cancer; Developmental Biology; Genetics & Genomics; Immunology; Molecular Cell Biology; Neuroscience; Pharmacology; Bioinformatics.
Ano: 2011 URL: http://precedings.nature.com/documents/6455/version/1
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Novel NIR Spectroscopy Correlation Approach to Amino Acid Analysis of Soybean Proteins for Composition Improvements. (v.3) Nature Precedings
Valentin Prisecaru; I. C. Baianu.
Amino acid NIR calibrations were developed in our Physical Chemistry of Foods Laboratory of the University of Illinois at Urbana for three selected amino acid groups that include essential amino acids for identified soybean accessions. Conventional “wet chemistry” analytical methods are time-consuming and costly. As a result, soybean breeders and researchers have an imperative need to utilize faster and less expensive methods. NIR Spectroscopy is a rapid and inexpensive method for composition analysis for academia and industry. Recent advancements in instrumentation design, such as the application of the Diode Array (DA) technique and the Fourier Transform (FT) IR and NIR techniques, have significantly improved overall instrument...
Tipo: Presentation Palavras-chave: Biotechnology; Chemistry; Developmental Biology; Genetics & Genomics; Immunology; Molecular Cell Biology; Bioinformatics; Earth & Environment; Plant Biology.
Ano: 2011 URL: http://precedings.nature.com/documents/6231/version/3
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Novel NIR Spectroscopy Correlation Approach to Amino Acid Analysis of Soybean Proteins for Composition Improvements. (Version 2.0) Nature Precedings
Valentin Prisecaru; I. C. Baianu.
Amino acid NIR calibrations were developed in our Physical Chemistry of Foods Laboratory of the University of Illinois at Urbana for three selected amino acid groups that include essential amino acids for identified soybean accessions. Conventional “wet chemistry” analytical methods are time-consuming and costly. As a result, soybean breeders and researchers have an imperative need to utilize faster and less expensive methods. NIR Spectroscopy is a rapid and inexpensive method for composition analysis for academia and industry. Recent advancements in instrumentation design, such as the application of the Diode Array (DA) technique and the Fourier Transform (FT) IR and NIR techniques, have significantly improved overall instrument...
Tipo: Presentation Palavras-chave: Biotechnology; Chemistry; Developmental Biology; Genetics & Genomics; Immunology; Molecular Cell Biology; Bioinformatics; Earth & Environment; Plant Biology.
Ano: 2011 URL: http://precedings.nature.com/documents/6231/version/2
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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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Novel Techniques for Microspectroscopy and Chemical Imaging Analysis of Soybean Seeds and Embryos Nature Precedings
I. C. Baianu; Tiefeng You; Doina M. Costescu.
Novel methodologies are currently being evaluated for the Chemical Analysis of soybean seeds as well as developing mature soybean embryos by FT-IR/NIR Microspectroscopy. This is the first report of FT-NIR Chemical Images obtained with 1 micron resolution. NIR spectra of Proteins, Oil and DNA fibers are obtained for regions as small as 1μ^2^.
Tipo: Poster Palavras-chave: Biotechnology; Cancer; Chemistry; Developmental Biology; Genetics & Genomics; Immunology; Molecular Cell Biology; Pharmacology; Bioinformatics; Plant Biology.
Ano: 2011 URL: http://precedings.nature.com/documents/6591/version/2
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Overexpression of the leukotriene C4 synthase gene in mice reproduces human aspirin-induced asthma Nature Precedings
Hirokuni Hirata; Kyoko Honda; Yasutsugu Fukushima; Masafumi Arima; Takeshi Tokuhisa; Takeshi Fukuda.
The pathogenesis of aspirin-induced asthma (AIA) is presumed to involve the aspirin /non-steroidal anti-inflammatory drug (NSAID)-induced abnormal metabolism of arachidonic acid, resulting in an increase in 5-lopoxygenase (5-LO) metabolites, particularly leukotriene C4 (LTC4) which is a highly potent bronchial constrictor. However, the role of LTC4 in the development of AIA has yet to be conclusively demonstrated. To elucidate the effect of LTC4 on the development of AIA, we generated LTC4 synthase (Ltc4s) gene transgenic (LTC4S-Tg) mice. In contrast to wild-type (WT) mice, LTC4S-Tg mice displayed NSAID-induced airway obstruction that was associated with increases of LTC4 and Th2 cytokines in lung tissue. This is the first study to demonstrate...
Tipo: Manuscript Palavras-chave: Immunology.
Ano: 2010 URL: http://precedings.nature.com/documents/4751/version/1
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Oxidative Stress and Mitochondrial Injury in Chronic Multisymptom Conditions: From Gulf War Illness to Autism Spectrum Disorder Nature Precedings
Beatrice A. Golomb.
Background: Overlapping chronic multisymptom illnesses (CMI) include Chronic Fatigue Syndrome (CFS), fibromyalgia, irritable bowel syndrome, multiple chemical sensitivity, and Gulf War illness (GWI), and subsets of autism spectrum disorder (ASD). GWI entails a more circumscribed set of experiences that may provide insights of relevance to overlapping conditions.
Objectives: To consolidate evidence regarding a role for oxidative stress and mitochondrial dysfunction (OSMD), as primary mediators in CMI, using GWI as a departure point.
Methods: Exposure relations, character, timecourse and multiplicity of symptoms, and objective correlates of GWI are compared to expectation for OSMD. Objective correlates of OSMD in GWI and...
Tipo: Manuscript Palavras-chave: Immunology; Molecular Cell Biology.
Ano: 2012 URL: http://precedings.nature.com/documents/6847/version/1
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Parkinson’s disease is a TH17 dominant autoimmune disorder against accumulated alpha-synuclein Nature Precedings
Wanchung(Wanjiung) Hu.
Parkinson’s disease is a very common neurodegenerative disorder. Patients usually undergo destruction of substantia nigra to develop typical symptoms such as resting tremor, hypokinesia, and rigidity. However, the exact mechanism of Parkinson’s disease is still unknown, so it is called idiopathic Parkinsonism. According to my microarray analysis of peripheral blood leukocytes and substantia nigra brain tissue, I propose that Parkinson’s disease is actually a TH17 dominant autoimmune disease. The autoantigen is mainly alpha-synuclein. After knowing the exact disease pathophysiology, we can develop better drugs to prevent or control the detrimental disorder.
Tipo: Manuscript Palavras-chave: Genetics & Genomics; Immunology; Neuroscience; Bioinformatics.
Ano: 2011 URL: http://precedings.nature.com/documents/6176/version/1
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