Дисертації з теми "ITRAX"
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Jarvis, Stuart. "Optimising, understanding and quantifying Itrax XRF data." Thesis, University of Southampton, 2012. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.580571.
Повний текст джерелаLau, Edward, and 劉家明. "Combinatorial use of SCX and RP-RP separation for iTRAQ-based quantitative proteomics profiling." Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2010. http://hub.hku.hk/bib/B44923120.
Повний текст джерелаBurat, Bastien. "Apports de la protéomique quantitative différentielle haut-débit à l'étude des mécanismes de modification du cytosquelette de cellules tubulaires proximales induits par les Inhibiteurs de la Calcineurine." Thesis, Limoges, 2017. http://www.theses.fr/2017LIMO0104/document.
Повний текст джерелаIn solid organ transplantation, Calcineurin Inhibitors, Cyclosporin A and Tacrolimus, prevent allograft rejection and ensure short-term allograft survival. However, CNI elicit nephrotoxic side effects whose mechanisms remain widely unsolved and are thought to participate to the multifactorial development of chronic kidney disease, leading to renal failure. The aim of thiswork was to combine targeted and untargeted experimental strategies to better understand CNI-induced physiopathological mechanisms.The first approach was based on the untargeted monitoring of the proximal tubular proteome by the quantitative shotgun proteomic technique, iTRAQ (« isobaric Tags for Relative & Absolute Quantitation »). The second approach consisted in the study of the Actin cytoskeleton of proximal tubular cells by classical molecular biology techniques. In the light of results from both approaches, this work reported that the Actin cytoskeleton of proximal tubular cells may play a part in the pathophysiology of CsA thanks to a mechanism based on an original regulation of the intracellular dynamics of Actin
Rusilowicz, Emma Victoria. "Chemical biology approaches for the identification of novel p53 regulatory signalling pathways." Thesis, University of Edinburgh, 2013. http://hdl.handle.net/1842/11774.
Повний текст джерелаTalantikite, Maya. "Étude protéomique, cellulaire et moléculaire des fonctions de la métalloprotéase BMP-1 dans le contexte de la cicatrisation cornéenne." Thesis, Lyon, 2017. http://www.theses.fr/2017LYSE1148.
Повний текст джерелаWhen the cornea is injured, a complex multi-step healing process is triggered which aims at restoring corneal integrity, structure and transparency. However, in some cases, corneal healing results in the formation of a stable scar associated with a prolonged loss of corneal transparency and with functional blindness. The mechanisms involved in the formation of these persistent scars are still not fully understood but it is known that the composition and organization of the extracellular matrix significantly contributes to the maintenance of corneal transparency. This work focused on the extracellular metalloproteinase called BMP-1 (Bone Morphogenetic Protein 1), a major player in the control of extracellular matrix assembly and TGF-beta activation, which was previously shown to be up-regulated in corneal healing and scarring. In order to further probe BMP-1 functions in corneal healing, we first performed a systematic comparison of known or potential BMP-1 inhibitors from different origins to characterize their properties both in vitro and in cell cultures. We then carried out an in-depth study of the secretome of human corneal stromal cells (keratocytes) and of the consequences of the differentiation of these cells into myofibroblasts. Finally, we analyzed BMP-1-mediated proteolytic events in keratocyte secretomes, mainly using a quantitative proteomic approach based on iTRAQ labeling of proteins (TAILS technique). The comparison of BMP-1 available inhibitors revealed different profiles of efficacy, specificity and toxicity and led to the identification of one hydroxamate inhibitor and one protein inhibitor, which were very efficient, non-toxic and very specific of BMP-1. The keratocyte secretome was shown to be a suitable model for the study of BMP-1 activities in the corneal context. More than 2022 proteins were identified, including the BMP-1 metalloprotease and 16 of its 33 already known substrates. Finally, 76 proteins modified by BMP-1 activity were identified in the keratocyte secretome. These results confirm the strong links between BMP-1, extracellular matrix assembly and TGF-beta, but also suggest new roles for this protease in cell proliferation and inflammation. Some of the newly identified substrates (TGFBI, HSP47 and collagen VI) are highly relevant in the context of corneal healing and were validated at the biochemical standpoint. In conclusion, BMP-1 is confirmed as a potential target to treat or prevent the formation of corneal opacities and the characterization of available inhibitors opens up important perspectives for preclinical studies in animals
Jiang, Yanjie. "Approaches for Improved Positional Proteomics." ScholarWorks@UNO, 2013. http://scholarworks.uno.edu/td/1715.
Повний текст джерелаSchenck, Craig A. "Using Quantitative Proteomics to Study the Early Events of Gravitropism." Ohio University / OhioLINK, 2012. http://rave.ohiolink.edu/etdc/view?acc_num=ohiou1338380163.
Повний текст джерелаBurg, Dominic William Biotechnology & Biomolecular Sciences Faculty of Science UNSW. "Cold adaptation in the Antarctic archeaon Methanococcoides burtonii: the role of the hydrophobic proteome and variations in cellular morphology." Awarded by:University of New South Wales. Biotechnology & Biomolecular Sciences, 2009. http://handle.unsw.edu.au/1959.4/44761.
Повний текст джерелаPaula, Leonardo Barcelos de. "Análise proteômica das diversas fases de diferenciação osteoblástica de células-tronco mesenquimais de medula óssea." Universidade de São Paulo, 2010. http://www.teses.usp.br/teses/disponiveis/17/17136/tde-26012011-101120/.
Повний текст джерелаThe growth, development and maintenance of bone tissue are highly regulated processes. Several proteins such as hormones, growth factors and cytokines are actively involved in these processes and exert direct activity on osteoblastic and osteoclastic cells, acting in their differentiation and metabolic activation. The process of bone regeneration is initiated by local stimulating factors as bone morphogenetic proteins (BMP). BMPs are a product of the metabolism of osteoblasts, odontoblasts and various tumor cells and is stored in the form of concentrates in bone, dentin and neoplastic cells of osteosarcoma and certain odontogenic tumors such as fibroma cementifying, cementoblastoma benign dentinoma, odontogenic fibroma and odontoma. Clarify the mechanisms that control bone remodeling is a very relevant issue. Accordingly, the mesenchymal stem cells have attracted great interest because of its potential involvement in the process of tissue repair. Obtaining functional osteoblasts from mesenchymal stem cells has been used in tissue engineering and cell therapy. Thus, this present work performed a proteomic analysis of proteins involved in various stages of osteoblast differentiation of mesenchymal stem cells from bone marrow of Wistar rat and human, in order to obtain more information on the biology of cell differentiation and bone tissue. Mesenchymal stem cells obtained from bone marrow were cultured in osteogenic medium for different periods to obtain cells at different stages of osteoblast differentiation. For proteomics analysis tools were used as the strategy of shotgun proteomics and relative quantification (iTRAQ - isobaric Tag for Relative and Absolute quantitation) for protein separation and mass spectrometry to identify proteins. In this context, our results take us to conclude that the MSCs of Wistar rat bone marrow express genes that are involved in osteogenic differentiation in vitro when stimulated to form bone matrix during the 14 days, ie stimulating factor in the microenvironment is of fundamental importance, the MSCs from human bone marrow showed similar results with rat MSCs at the genomic level during osteogenic differentiation, however, when stimulated in vitro formed bone matrix within 21 days, using two proteomic approaches, we could identify proteins important that are involved in the process of differentiation. But it should be noted that although it has been identified genes that seem involved in the process of differentiation, it was not reflected in the proteome of these cells at 7 and 14 days after induction of the osteogenic differentiation, indicating that most of the functionality of these cells and other biological processes are preserved, such as cell proliferation remained without major changes. This indicates that manipulations of isolation, culture and induction of differentiation of these cells did not affect the proteome, with positive aspects to the use of mesenchymal stem cells in cell therapy. From the methodological point of view, this work opens up the use of proteomic strategies based on the score for isobars in combination with protein separation by electrophoresis, one-dimensional SDS-PAGE for the analysis of complex biological samples and limited quantities of production as mesenchymal stem cells. The study of protein expression during stages of osteoblast differentiation of mesenchymal stem cells from bone marrow should reflect their functional status and contribute to the understanding of pathways involved in the process of differentiation.
McQueen, Peter. "Alternative strategies for proteomic analysis and relative protein quantitation." Wiley-VCH, 2015. http://hdl.handle.net/1993/30850.
Повний текст джерелаFebruary 2016
Paulett, Christopher Lewis. "Comparison of Symptoms, Signs, Composition, and Tear Film Dynamics in Sjögrens vs. Non-Sjögrens Subjects." The Ohio State University, 2010. http://rave.ohiolink.edu/etdc/view?acc_num=osu1273854679.
Повний текст джерелаCarvalho, Luís Manuel Lopes. "Default correlation implied from portfolio credit derivatives." Master's thesis, Instituto Superior de Economia e Gestão, 2009. http://hdl.handle.net/10400.5/1652.
Повний текст джерелаDespite the absence of good theoretical models to cope with credit portfolio issues, the development of credit derivative markets and the popularity of portfolio credit derivatives have created the need of handling the issue of default correlations in some way. In that context the copula models emerged and became extremely popular within the industry. In recent studies copula models have been criticized for not being flexible enough and for being a static approach. The recent turmoil on the Asset Backed Security market and the failure of Lehman Brothers, Inc brought to discussion the accuracy of these models. Based on data provided by two banks, on default correlation implied from CDO tranche market quotes, we try to draw conclusions about: 1)The credibility of the HLPGC copula model; 2) The power that correlations between single name CDS spreads have to explain those implied by market data, specially during the current. For the empirical study we will use the most popular and liquid portfolio credit derivatives: Collateralized Debt Obligations (CDO based on the iTraxx credit index for 5 years maturity), and implied correlations of CDO tranches written on the same index. The data source will be Bloomberg for single name CDS spreads and Calyon and JP Morgan for implied correlations from a Copula model.
Apesar da inexistência de modelos teóricos robustos para lidar com carteiras de risco de crédito, o desenvolvimento e a popularidade dos mercados de derivados de crédito criaram a necessidade de lidar com a questão das correlações de probabilidades de incumprimento de uma forma simples. Foi neste contexto que surgiram os modelos de cópula associados à indústria do risco de crédito. Estudos recentes criticam os modelos de cópula pela sua falta de flexibilidade e por assumirem uma abordagem estática. A recente crise no mercado de titularizações de hipotecas bem como a falência do Lehman Brothers, Inc reacenderam a discussão sobre a eficácia destes modelos. Com base em informação cedida por dois bancos de investimento sobre correlações implícitas nas cotações de mercado de tranches de CDOs, procurar-se-á concluir acerca da: 1) Credibilidade do modelo de cópula HLPGC; 2) Capacidade que as correlações entre spreads dos CDS individuais têm, na actual crise, para explicar as correlações essas correlações implícitas. Para a análise empírica usamos a carteira mais líquida de derivados de crédito: o índice iTraxx com maturidade de 5 anos e as correlações implícitas para as tranches emitidas sobre esta carteira. As fontes de informação utilizadas são, a Bloomberg para os prémios de risco dos nomes que constituem o iTraxx e JP Morgan e Calyon para correlações implícitas geradas pelos seus modelos de cópula.
Richter, Verena [Verfasser], and Christian [Akademischer Betreuer] Betzel. "Untersuchung der Eignung des iTRAQ-basierten, proteomanalytischen Quantifizierungsverfahrens zur Identifizierung zellulärer Mechanismen des Einflusses von Proteasominhibitoren auf die Metastasierung / Verena Richter. Betreuer: Christian Betzel." Hamburg : Staats- und Universitätsbibliothek Hamburg, 2014. http://d-nb.info/1050239121/34.
Повний текст джерелаMartínez, Esteso María José. "Estudio del desarrollo de la baya de vid y producción de resveratrol en cultivos celulares mediante las técnicas de proteómica cuantitativa DIGE e iTRAQ." Doctoral thesis, Universidad de Alicante, 2011. http://hdl.handle.net/10045/24866.
Повний текст джерелаErnoult, Emilie. "Recherche de biomarqueurs de la neurotoxicité des traitements anticancéreux à base d'oxaliplatine: approche protéomique quantitative." Phd thesis, Université d'Angers, 2011. http://tel.archives-ouvertes.fr/tel-00668340.
Повний текст джерелаLaskay, Ünige A. "Dynamic Collision Induced Dissociation - A Novel Fragmentation Method in the Quadrupole Ion Trap." Ohio University / OhioLINK, 2009. http://rave.ohiolink.edu/etdc/view?acc_num=ohiou1230577624.
Повний текст джерелаRodríguez, Falcón Manuel. "Proteómica de expresión diferencial en Acinetobacter baumanii resistente a colistina." Doctoral thesis, Universitat Pompeu Fabra, 2010. http://hdl.handle.net/10803/31820.
Повний текст джерелаAcinetobacter baumannii, normalmente aislado en suelos y aguas (corrientes o residuales), se ha convertido en importante patógeno nosocomial, siendo agente causal de, entre otras complicaciones, neumonías, septicemias e infecciones del tracto urinario de pacientes comprometidos en unidades hospitalarias de cuidados intensivos. La más reciente de sus capacidades adquiridas es la resistencia a colistina (polimixina E), antibiótico peptídico considerado la última opción terapéutica en contextos clínicos. Esta tesis doctoral emplea la proteómica descriptiva y de expresión diferencial cuantitativa para investigar la resistencia adquirida por A. baumannii a dicho antibiótico. Los resultados han supuesto la identificación de 1.097 proteínas de Acinetobacter mediante el empleo combinado de electroforesis bidimensional convencional (2DE), 2DE diferencial (DIGE) y marcaje peptídico mediante isótopos isobáricos estables (iTRAQ). Los análisis se han realizado en el proteoma expresado por una cepa de referencia sensible a colistina (A. baumannii ATCC 19606), así como en una cepa derivada de ésta en la que se ha inducido, a efectos comparativos, resistencia a colistina in vitro. El fenotipo resistente manifestó reducida adaptabilidad biológica, encontrándose las principales diferencias en la estructura de la membrana externa, en la expresión de transportadores activos de membrana, en diversos enzimas metabólicos (ácidos grasos, citrato, fenilacetato, piruvato, nitrógeno) y de respuesta a condiciones de estrés, así como en la expresión de proteínas participantes en la formación de biopelículas y en el proceso de síntesis y plegamiento de proteínas. Además, el trabajo ha permitido evaluar los puntos fuertes y débiles de las técnicas empleadas actualmente en este tipo de análisis proteómicos.
Britse, Oscar, and Johan Jarnmo. "Greenhouse Gas Footprint Minimization of Credit Default Swap Baskets." Thesis, Umeå universitet, Institutionen för matematik och matematisk statistik, 2018. http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-149230.
Повний текст джерелаMelo, Pedro Ricardo Proença. "Credit dependencies : an analysis of European CDS and CDO contracts." Master's thesis, Instituto Superior de Economia e Gestão, 2012. http://hdl.handle.net/10400.5/10367.
Повний текст джерелаEste estudo tem como objetivo estudar o mercado europeu de CDS e CDO. Através de uma análise econométrica estimaremos a relevância de diversas variáveis para explicar o logaritmo das primeiras diferenças dos spreads das tranches do CDO baseado no iTraxx Europe 5-year. Assim, a nossa amostra é composta por dados diários desde Fevereiro de 2005 até Fevereiro de 2012 das tranches do iTraxx Main 5-year e de proxies para os riscos de crédito, taxa de juro, liquidez e para a volatilidade de mercado e rendibilidades do mercado acionista. Para aferir se houve alterações significativas no mercado Europeu de CDO depois da crise financeira, estimaremos duas regressões adicionais, onde na primeira utilizaremos uma dummy temporal para isolar os períodos antes e depois da crise e na segunda outra dummy temporal para isolar o período após a falência do Lehman Brothers. As nossas principais conclusões são que as proxies para os riscos de crédito e de taxa-de-juro, bem como a volatilidade de mercado são relevantes em todas as tranches para a totalidade do período da amostra. Além disso, as rendibilidades do mercado acionista e o declive da estrutura temporal parecem assumir uma maior relevância para explicar as tranches do CDO depois da crise financeira de 2007.
The focus of this study is the European CDS and CDO markets. Using a regression-based approach we estimated the relevance of market-based proxies for explaining the first differences of the logarithm of European CDS Index tranches premia (iTraxx Europe 5-year index). Therefore, our sample is comprised by daily data since February 2005 to February 2012, of iTraxx Main 5-year tranche premia and proxies for credit risk, interest rate risk, liquidity risk, equity returns and market volatility. In order to understand if there were significant changes in the CDO market after the financial crisis, we run two additional regressions, where first, we add a time dummy to isolate the periods before and after the turmoil and, after that we include a time dummy to isolate the period after the Lehman Brothers´ collapse. Our main findings are that proxies for credit risk, risk-free rate risk and market volatility are significant in all tranches when we consider the entire sample. Moreover, equity returns and the slope of the term structure seem to play a more important role in pricing tranche premia, since the start of the financial crisis of 2007.
Besson, Damien. "Étude du protéome de tumeurs colorectales." Phd thesis, Université d'Angers, 2013. http://tel.archives-ouvertes.fr/tel-00951752.
Повний текст джерелаBodnar, Edward. "Glycopeptide Enrichment Workflows for Downstream Mass Spectrometric Analysis." American Chemical Society, 2013. http://hdl.handle.net/1993/30649.
Повний текст джерелаOctober 2015
Griaud, François. "Proteomic analysis of leukaemogenic protein tyrosine kinase action." Thesis, University of Manchester, 2012. https://www.research.manchester.ac.uk/portal/en/theses/proteomic-analysis-of-leukaemogenic-protein-tyrosine-kinase-action(ff9d490b-5a94-45fc-a857-4f0826e4a11a).html.
Повний текст джерелаBotling, Taube Amelie. "Molecular and epidemiological studies on eyes with pseudoexfoliation syndrome." Doctoral thesis, Uppsala universitet, Oftalmiatrik, 2015. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-260714.
Повний текст джерелаVanarsa, Kamala. "Determination of the variation in the iTRAQ protein profiling technique /." 2008. http://proquest.umi.com/pqdweb?did=1597619991&sid=6&Fmt=2&clientId=10361&RQT=309&VName=PQD.
Повний текст джерелаLin, Chun Yao, and 林俊耀. "The long term relationship between itraxx index and stock index." Thesis, 2008. http://ndltd.ncl.edu.tw/handle/32161632137347451259.
Повний текст джерела國立暨南國際大學
財務金融學系
96
This paper examines the long-term relationships between iTraxx index and stock index. By using Engle-Granger test, we can find that there exist cointegration between iTraxx index and stock index in financial area, including Asia ex Japan, Europe and Australia. Only the market of Japan doesn’t have cointegration. In the result of causality test, we also find that there exist causality from stock index to iTraxx index in the financial markets of Australia, while in Asia ex Japan and Europe exist reciprocal causality.
Dao, Tung Thanh active 2013. "iTrak : a social mobile diary and web blogging utility for travelers." 2013. http://hdl.handle.net/2152/22776.
Повний текст джерелаtext
Naichun, Huang, and 黃乃純. "The determinants of CDS indexes– An empirical study of European iTraxx." Thesis, 2012. http://ndltd.ncl.edu.tw/handle/48862484315728740470.
Повний текст джерела國立暨南國際大學
財務金融學系
100
The purpose of this study is to explore effects between the credit default swap (CDS) market and other market. This paper examines the spillover effect between the changes in the iTraxx 5-year Europe Credit Default Swaps (CDS) index and its determinants by using the vector auto regression (VAR) model. We find that iTraxx could affect other indexes, but other indexes could not affect iTraxx. To test the explanatory power of subprime mortgage crisis, we study both of pre-crisis and crisis period. The result shows that no mater pre-crisis or crisis period, iTraxx a will affect S&P, SX5P and VSTOXX. In particular, we show that iTraxx CDS indexes have large effect during crisis period then pre-crisis. And then we examine European sovereign debt crisis, we found the same result. Our results show that credit default swaps have a significant effect on market, and it is an important factor on economics.
Theden-Ringl, Fenja. "Common cores in the high country. The archaeology and environmental history of the Namadgi Ranges." Phd thesis, 2018. http://hdl.handle.net/1885/149482.
Повний текст джерелаLin, Tsung Shih, and 林琮師. "Discovery of Bladder Cancer Biomarkers in Urine by Abundant Proteins Depletion and iTRAQ labeling." Thesis, 2009. http://ndltd.ncl.edu.tw/handle/67805400863017692503.
Повний текст джерела長庚大學
生物醫學研究所
97
Base on the Statistic of Department of Health, Executive Yuan, R.O.C., bladder cancer is the secondarily malignant cancer in urinary tract cancer. The body count is increasing in bygone years. As yet many biomarkers for detecting bladder cancer have been tested and reported, but none of them have shown sufficient sensitivity and specificity. During recent years, discovering new biomarkers of varied diseases in body fluid is prevalent. Urine is a non-invasive specimen and represents powerful potential in discovery of tumor-derived molecules released directly from urinary tract system. In our study, we combined the 14 abundant proteins depletion system, isobaric tagging for relative and absolute quantitation (iTRAQTM) approach and LC-MS/MS to discover new bladder cancer biomarkers in urine. The Multiple Affinity Removal System- Human 14 (MARS-Hu14) can specifically deplete the 14 abundant proteins in urine and decrease the masked effect of high abundant proteins in detection. It is expected to enrich the pool of low-abundant proteins for enhancement of detection by LC-MS/MS. In the preliminary results, the significance of 14 proteins depletion has been shown on urine specimens, particularly the urine of bladder cancer patients. Furthermore, the iTRAQTM approach coupling with the LC/MS/MS technique has been applied to study differential proteomics in urine specimens of control and bladder cancer patients for the elucidation of disease progression at the proteome level. We have identified total 644 proteins from the urine proteome. 152 proteins were up-expressed and 130 proteins were down-expressed in the urine of bladder cancer patients. We have selected several candidates from iTRAQTM results for validation by western blotting in large number of individual urine samples currently. The roles of the urine candidates in bladder cancer have not been reported. The results will provide new insights into the molecular nature of this disease. Moreover, the biomarker candidates discovered in this study will led to new opportunities for the understanding detection, treatment and prevention of bladder cancer.
Hsu, Yu-Wei, and 徐羽薇. "Differential Proteomic Analysis of Acute and Chronic Hepatitis C Virus Infections Using iTRAQ-based Technology." Thesis, 2014. http://ndltd.ncl.edu.tw/handle/48191560925145476259.
Повний текст джерела國立臺灣師範大學
化學系
102
Hepatocellular carcinoma (HCC) is one of the most prevalent and mortal cancer in the world, and 20% to 30% of patients with chronically hepatitis C virus lead to liver cirrhosis and liver cancer. Due to genetic variability of hepatitis C virus, the development of antiviral drugs and vaccines becomes a real challenge. In this study, naïve Huh7.5-SEAP cells were established and infected by hepatitis C virus, then isobaric tags for relative and absolute quantitation (iTRAQ) was applied to investigate protein profiles in both acute and chronic infections. The iTRAQ labeled peptides were fractionated by solution isoelectric focusing (sIEF) or hydrophilic interaction liquid chromatography (HILIC), followed by reversed phase nano-LC tandem mass spectrometry analysis. A total of 2615 proteins were identified, and 1816 of them were also quantified. Two-dimensional liquid chromatography technique that employed on iTRAQ labeled peptides provided results with excellent complementarity and orthogonality. Moreover, 78 and 140 differentially expressed proteins were selected in acute and chronic infection cases for GeneGo analysis. As a result, these proteins were found to be associated with cytoskeleton remodeling and cell adhesion. Besides, proteins correlated with insulin resistance, vesicular traffic, actin remodeling and secretory pathway, will be further validated by Western blot, and could serve as novel diagnostic biomarkers for hepatitis C virus infection.
Chiu, Chih-Wei, and 邱芷葳. "Differential Proteomics of Monosodium Urate Crystals-Induced Responsesin Dissected Murine Air Pouch Membranes by iTRAQ Technology." Thesis, 2015. http://ndltd.ncl.edu.tw/handle/60562232085479318058.
Повний текст джерела國立臺灣師範大學
化學系
103
Proteomics is a large-scale comprehensive study of a specific proteome, including information on the levels of different types of proteins, their modifications and variations, as well as their interactions and networks, in order to understand biological processes. Recent successes clearly show that mass spectrometry-based proteomics as an essential tool for molecular and cellular biology and for the rising field of systems biology. Two-dimensional fractionation is a useful tool to increase proteome coverage and the dynamic range than single-dimensional LC. In part I of this dissertation, various peptide fractionation strategies that are used for 2D (two-dimensional) separations were evaluated. The use of SCX x RPLC for desalted samples provided superior results in protein identification. These approaches are complementary and allowed 43% more peptides to be identified, when compared with a single fractionation strategy. In part II, LTQ-PQD parameters were optimized in order to used isobaric tags technology for quantitative proteomics. The number of microscans and the target value are the most critical factors in producing intense reporter ions for quantitation. The appropriate normalized collisional energy range for PQD could be very narrow and must be carefully determined. The optimized LTQ-PQD parameters were introduced to a murine air pouch membrane in part III. iTRAQ-based approach coupled with offline 2D LC-MS/MS proteomics technology was applied to analyze the protein expression profile using an inflamed murine air pouch membrane as a model. Statistical analyses revealed that 317 proteins are differentially expressed, at least at one time point, after the MSU treatment, that they are mainly involved in the complement system and activation of NALP3 inflammasome. Moreover, the TCA cycle was found to be down-regulated at both the translational and transcriptional levels. Lastly, pyruvate carboxylation was found to be a potential target for an anti-gout treatment. These results provide novel insights into the nature of gouty inflammation.
Lin, Tze-Yu, and 林子鈺. "Quantitative proteomics analysis from acute to chronic stages of hepatitis C virus infection by iTRAQ technology." Thesis, 2017. http://ndltd.ncl.edu.tw/handle/648cw3.
Повний текст джерела國立臺灣師範大學
化學系
105
Hepatocellular carcinoma (HCC) is one of the most prevalent and mortal cancer in the world, and 20% to 30% of patients with chronically hepatitis C virus (HCV) lead to liver cirrhosis and liver cancer. Most infected acute HCV people develop chronic HCV easily. Due to genetic variability of HCV, the development of antiviral drugs and vaccines becomes a real challenge. In this study, naïve Huh7.5-SEAP cells were established and infected by hepatitis C virus, then isobaric tags for relative and absolute quantitation (iTRAQ) was applied to investigate protein profiles in acute and chronic infections. The iTRAQ labeled peptides were fractionated by solution isoelectric focusing (sIEF), strong cationic exchange chromatography (SCX) and basic reverse phase chromatography (bRP) column, followed by nano-LC tandem mass spectrometric analysis. Two-dimensional liquid chromatography technique that employed on iTRAQ labeled peptides provided results with excellent complementarity and orthogonality. In the study, the differentially expressed proteins were found to be associated with RNA binding, extracellular exosome, melanosome and ribonucleoprotein complex binding. Besides, selected correlated proteins will be confirmed and validated by Western blot in the future, they could serve as novel diagnostic biomarkers for hepatitis C virus infection.
Lu, Yu Ting, and 呂昱葶. "Discovery of Serum Biomarkers for Pancreatic Cancer by Lectin Affinity Capture Coupled with iTRAQ-Based Quantitative Glycoproteomics Approach." Thesis, 2018. http://ndltd.ncl.edu.tw/handle/e4ewst.
Повний текст джерелаSimon, Philippe. "Proteomic host responses and growth properties of highly pathogenic H5N1 and novel H7N9 avian influenza strains." 2015. http://hdl.handle.net/1993/30719.
Повний текст джерелаOctober 2015
Sutton, Chris W., Nitin Rustogi, C. Gurkan, Andy J. Scally, M. A. Loizidou, A. Hadjisavvas, and K. Kyriacou. "Quantitative proteomic profiling of matched normal and tumor breast tissues." 2010. http://hdl.handle.net/10454/6374.
Повний текст джерелаHuang, Shih-Hua, and 黃思樺. "Differential proteomic analysis of PLC/PRF/5 cell lines treated with anti-cancer drugs by iTRAQ labeling and mass spectrometry." Thesis, 2015. http://ndltd.ncl.edu.tw/handle/29mjqv.
Повний текст джерелаLai, Ben-Heng, and 賴本航. "iTRAQ-Based Comparative Proteomic Analysis of Cancer Stem Cell and Rat Bronchoalveolar Lavage Fluid in Response to ZnO Nanoparticles Exposure." Thesis, 2011. http://ndltd.ncl.edu.tw/handle/88429414566009406116.
Повний текст джерелаEshghi, Azad. "Whole proteome approach to delineate leptospiral pathogenesis." Thesis, 2011. http://hdl.handle.net/1828/3732.
Повний текст джерелаGraduate
Rogers, Ronan. "Biomarkers of Optic Nerve Head Glial Cell Activation Following Biomechanical Insult." Thesis, 2012. http://hdl.handle.net/1807/32873.
Повний текст джерелаNewton, Billy Walker. "Proteomics of Oxidative Stress Using Inducible CYP2E1 Expressing HepG2 Cells and 3T3-L1 Adipocytes as Model Systems." Thesis, 2011. http://hdl.handle.net/1969.1/ETD-TAMU-2011-05-9392.
Повний текст джерелаShaheed, Sadr-ul, Nitin Rustogi, Andy J. Scally, J. Wilson, H. Thygesen, M. A. Loizidou, A. Hadjisavvas, et al. "Identification of Stage-Specific Breast Markers using Quantitative Proteomics." 2013. http://hdl.handle.net/10454/9889.
Повний текст джерелаMatched healthy and diseased tissues from breast cancer patients were analyzed by quantitative proteomics. By comparing proteomic profiles of fibroadenoma (benign tumors, three patients), DCIS (noninvasive cancer, three patients), and invasive ductal carcinoma (four patients), we identified protein alterations that correlated with breast cancer progression. Three 8-plex iTRAQ experiments generated an average of 826 protein identifications, of which 402 were common. After excluding those originating from blood, 59 proteins were significantly changed in tumor compared with normal tissues, with the majority associated with invasive carcinomas. Bioinformatics analysis identified relationships between proteins in this subset including roles in redox regulation, lipid transport, protein folding, and proteasomal degradation, with a substantial number increased in expression due to Myc oncogene activation. Three target proteins, cofilin-1 and p23 (increased in invasive carcinoma) and membrane copper amine oxidase 3 (decreased in invasive carcinoma), were subjected to further validation. All three were observed in phenotype-specific breast cancer cell lines, normal (nontransformed) breast cell lines, and primary breast epithelial cells by Western blotting, but only cofilin-1 and p23 were detected by multiple reaction monitoring mass spectrometry analysis. All three proteins were detected by both analytical approaches in matched tissue biopsies emulating the response observed with proteomics analysis. Tissue microarray analysis (361 patients) indicated cofilin-1 staining positively correlating with tumor grade and p23 staining with ER positive status; both therefore merit further investigation as potential biomarkers.
Cyprus Research Promotion Foundation, Yorkshire Cancer Research
Dokulil, Miloš. "Vývoj trhu kreditních derivátů v období krize a jeho možná predikce." Master's thesis, 2014. http://www.nusl.cz/ntk/nusl-180028.
Повний текст джерелаRodrigues, Laura Barbas. "Euribor evolution and risk on bank's assets." Master's thesis, 2016. http://hdl.handle.net/10400.14/21638.
Повний текст джерелаThis study investigates how Euribor rate affects the risk on banks’ assets. With the recent financial crisis, the effect of turbulence on interbank markets has created a need to explore forces that have caused multiple uncommon phenomena in markets. On the one hand, Euribor rate witnessed drastic values, specifically reached values below zero. On the other hand, the volatility of banks’ risk spreads soared. Considering the vast literature review, we use three-month Euribor dataset from Thomson Datastream between 2000 and 2015, and iTraxx dataset from Markit to construct an autoregressive model, addressing the possibility of structural breaks (Bai and Perron, 1998; 2003a). We concluded that (i) the Euribor is not the main instrument to explain the behavior of spreads in the financial markets; and (ii) with our econometric model we are unable to obtain statistical inference to draw conclusions about Euribor predictions based on iTraxx series. The co-breaking problem stands out in our analysis.
Santos, Fátima Raquel Milhano dos. "Human vitreous proteome in vitreoretinal diseases." Doctoral thesis, 2020. http://hdl.handle.net/10400.6/11130.
Повний текст джерелаO vítreo, também denominado por corpo vítreo ou humor vítreo, é um fluido transparente que preenche a cavidade posterior do olho entre a retina neurossensorial e o cristalino. Durante muitos anos, o papel do vítreo na saúde e na doença foi negligenciado, pensando-se que a sua função era meramente estrutural. No entanto, tem-se registado um crescente interesse pela análise do proteoma vítreo nos últimos anos. Estes estudos comprovaram que o vítreo é altamente complexo e biologicamente mais ativo do que se pensava inicialmente. De facto, alterações a nível do proteoma do vítreo refletem o estado fisiológico e patológico do olho e, portanto, esta é a matriz ideal para o estudo das doenças vitreorretinianas. Embora a procura de biomarcadores no vítreo, mais sensíveis e específicos para cada patologia ocular, não tenha sido bem-sucedida até o momento, a análise do proteoma vítreo mostrou-se promissora na elucidação de alguns dos mecanismos patológicos subjacentes a estas patologias. Neste projeto, diversas técnicas proteómicas baseadas na separação de proteínas em gel de poliacrilamida (gel-based proteomics) ou no fracionamento de péptidos por cromatografia líquida (gel-free proteomics) foram desenvolvidas e aplicadas para a análise do proteoma do vítreo no descolamento da retina (RD), na retinopatia diabética (DR) e na degeneração macular relacionada com a idade (AMD). Desde os primeiros estudos em proteómica, a eletroforese bidimensional do gel (2DE) foi o método preferencial para a separação e a identificação de proteínas do vítreo. A 2DE é uma ferramenta valiosa para a separação com elevada resolução e análise de rotina de proteoformas, principalmente se for combinada com técnicas de deteção mais sensíveis, com um processamento de imagem mais refinado e com uma preparação adequada das amostras. Portanto, na primeira parte deste trabalho, aplicou-se uma rede neural artificial (ANN) para a otimização da extração de proteínas do vítreo e da sua análise por 2DE, através da combinação de vários agentes solubilizantes (CHAPS, Genapol, DTT, tampão IPG) e parâmetros físicos (temperatura e voltagem total). Pela aplicação de um modelo matemático criado por ANN, a extração de proteínas e o número de spots detetados após a sua análise por 2DE melhoram significativamente. A resposta otimizada (580 spots detetados) representa um incremento melhoria de 2,4 vezes comparando com as condições padrão utilizadas no desenho experimental inicial. Os resultados alcançados indicam claramente que é crucial combinar as concentrações adequadas de agentes solubilizantes para melhorar a extração, solubilização e a deteção das proteínas do vítreo, assim como para obter géis bem resolvidos. Para além disso, os nossos resultados também indicam que os parâmetros físicos têm uma influência significativa na focagem isoelétrica e, por esta razão, devem ser ajustados e monitorizados neste tipo de análise. Quando se trabalha com fluidos biológicos também é importante reduzir a sua complexidade antes da análise por 2DE, de modo a facilitar a deteção de proteínas pouco abundantes e a aumentar a cobertura do proteoma. Após a remoção da albumina e da imunoglobulina G, o número de proteínas detetadas no gel aumentou 1,3 vezes quando comparado com o ponto ótimo do modelo proposto por ANN, com uma média de 761 spots detetados no vítreo em doenças vitreorretinianas, como, por exemplo, o descolamento regmatogénico da retina (RRD) ou a retinopatia diabética proliferativa (PDR). Na segunda tarefa deste projeto de doutoramento, testou-se a performance das técnicas de marcação isobárica, na análise de amostras de vítreo de RRD. O RRD é uma das causas de cegueira e é caracterizado por uma separação física entre a retina neurossensorial e o epitélio pigmentar da retina (RPE). O vítreo tem um papel central no aparecimento do RRD, que pode ser provocado pela liquefação do vítreo. Esta reduz a adesão vitreorretiniana, conduzindo assim à acumulação de líquido do vítreo no espaço subretinal, e, consequentemente, à separação física entre a retina e o RPE. Assim, a proteómica quantitativa pode contribuir para a compreensão das alterações que ocorrem no olho, providenciando uma informação complementar sobre os mecanismos moleculares subjacentes à patogénese do RRD. No presente estudo, o proteoma do vítreo recolhido de doentes com RRD foi analisado e comparado com amostras de vítreo de membranas epimaculares (MEM) usando reagentes iTRAQ (Isobaric tags for relative and absolute quantitation) em combinação com análise por Cromatografia Líquida Bidimensional acoplada à Espectrometria de Massa em Tandem (2D-LC-MS/MS). A análise destas amostras por LC-MS/MS resultou na identificação de 6078 péptidos relativos a 1030 proteínas, 2613 dos quais correspondem a péptidos únicos. Das proteínas identificadas, um total de 150 estava diferencialmente expressa no vítreo de doentes com RRD, incluindo 96 proteínas sobreexpressas e 54 subexpressas. Entre as sobreexpressas encontraram-se várias enzimas glicolíticas (frutose-bifosfato aldolase A, gama-enolase e fosfoglicerato cinase 1), transportadores de glicose (GLUT-1), e inibidores de proteases (inibidor da metaloproteinase 1, inibidor do ativador de plasminogénio 1) que são regulados pelo fator induzido por hipóxia (HIF-1), o que sugere que a via de sinalização HIF-1 pode ser activada em resposta à RRD. Além disso, a acumulação no vítreo de proteínas intracelulares dos fotorreceptores, incluindo fosducina, rodopsina e S-arrestina, ou da vimentina revela que a RRD leva a uma degeneração significativa das células fotorreceptoras. No entanto, a sobreexpressão de proteínas envolvidas no metabolismo do carbono ou chaperones moleculares, entre outras, indica que diversos mecanismos são ativados em resposta ao RRD de forma a promover a sobrevivência das células retinianas através de respostas celulares complexas, como por exemplo, a ativação da via de sinalização HIF-1. Na terceira tarefa, aplicou-se um método quantitativo label-free (LFQ) para analisar o proteoma do vítreo na PDR e na forma seca da AMD (dry AMD). DR e AMD são as principais causas de deficiência visual e cegueira em indivíduos com idade igual ou superior a 50 anos, em países industrializados ou de rendimento médio. Embora as terapias direcionadas à inibição do fator de crescimento vascular (VEGF) tenham melhorado o tratamento da forma neovascular da AMD (nAMD) e da PDR, neste momento não existem opções terapêuticas para a AMD seca. Portanto, a proteómica quantitativa pode contribuir para o conhecimento dos mecanismos biológicos subjacentes a estas patologias e a encontrar novos potenciais biomarcadores e/ou alvos terapêuticos. Com esta finalidade, o proteoma do vítreo recolhido de doentes com PDR (n=4) foi comparado com o de doentes com AMD seca (n=4) e com membranas epiretinianas (ERM) (n=4) utilizando um método LFQ, que combina o fracionamento “curto” por eletroforese desnaturante em gel de poliacrilamida e análise por LC-MS/MS. Foram identificadas 680 proteínas, das quais 586 foram identificadas com recurso ao software MASCOT e 580 com o software MaxQuant. Posteriormente, foram realizados testes post hoc, métodos hierárquicos para análise de agrupamento de dados e testes t múltiplos para diferenciar os três grupos de doenças em termos de expressão proteica com base na sua intensidade. Os testes post hoc revelaram que 96 proteínas são capazes de diferenciar entre os diferentes grupos, enquanto 118 proteínas (17 para sobreexpressas e 101 subexpressas) foram identificados como diferencialmente expressas na PDR em comparação com doentes com ERM e 95 proteínas (10 sobreexpressas e 85 subexpressas) em comparação com os doentes com AMD seca. A análise de enriquecimento funcional indica que estas proteínas subexpressas estão correlacionadas com vias/processos biológicos, como reorganização da matriz extracelular (ECM), desgranulação das plaquetas, digestão intracelular nos lisossomas, adesão celular e desenvolvimento do sistema nervoso central. Por sua vez, os resultados indicam que o vítreo de doentes com PDR é enriquecido em mediadores dos sistemas de complemento e coagulação e da fase aguda da inflamação, reforçando o papel destas vias na sua patogénese. Por último, alguns potenciais biomarcadores foram selecionados de acordo com os resultados obtidos na quantificação do proteoma do vítreo por iTRAQ e LFQ e validados pela monitorização de múltiplas reações (MRM) num maior número de amostras de vítreo. Assim, desenvolveu-se um método de MRM scheduled para a análise de 35 proteínas, em amostras de vítreo recolhidas de doentes com ERM (n=21), DR/PDR (n=20), AMD (n=11) e RRD (com e sem vitreorretinopatia proliferativa) (n=13). Desta forma, 26 proteínas demostraram potencial para discriminar entre os diferentes grupos de doenças de acordo com os resultados obtidos no MRM e as respectivas curvas ROC (receiver operating characteristic curve). Componentes das cascatas do complemento e coagulação (C6, C8B, protrombina), proteínas de fase aguda (alfa-1-antiquimotripsina), moléculas de adesão (proteína galectina-3), componentes da ECM (opticina) e biomarcadores de neurodegeneração (beta-amilóide, proteína tipo-precursora amilóide 2) destacam-se como os biomarcadores mais eficientes para discriminar entre os diferentes grupos de doenças. Em conclusão, foram desenvolvidas e implementadas diversas estratégias para a preparação e análise do proteoma do vítreo em diferentes doenças vitreorretinianas, baseadas na separação por 2DE ou por LC. Em relação ao método baseado na separação em gel, um modelo matemático criado por ANN permitiu o desenvolvimento de um protocolo altamente eficiente para a análise de elevada resolução do proteoma do vítreo por 2DE, o que pode ser vantajoso para a detecção de proteoformas específicas, incluindo diferentes isoformas e proteínas com modificações pós-traducionais. Por outro lado, métodos de alta produtividade, como iTRAQ e LFQ, proporcionaram uma análise mais aprofundada do proteoma do vítreo. Nestas técnicas, foram identificadas 1030 proteínas pela técnica de iTRAQ e 680 por LFQ, sendo que algumas não tinham sido identificadas anteriormente. Ainda mais relevante é o fato de que a análise do proteoma do vítreo, com base nestas técnicas, forneceu novos perspetivas sobre a patogénese do RRD, PDR e AMD. Além disso, estes estudos forneceram informações fundamentais sobre potenciais biomarcadores, o que permitiu a validação de 26 proteínas por MRM. No entanto, deve ter-se em consideração que os biomarcadores encontrados no vítreo não podem ser utilizados para um diagnóstico médico regular, devido ao modo de recolha invasivo deste tipo de amostras. Porém, estes podem ser candidatos a novos alvos farmacêuticos e, quando as amostras são obtidas como parte da rotina clínica, podem ser usados para o prognóstico da evolução da doença e/ou para prever a resposta adequada ao tratamento.