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  • About
  • The Global ETD Search service is a free service for researchers to find electronic theses and dissertations. This service is provided by the Networked Digital Library of Theses and Dissertations.
    Our metadata is collected from universities around the world. If you manage a university/consortium/country archive and want to be added, details can be found on the NDLTD website.
31

Characterization of the Adaptor Protein XB130, a Tyrosine Kinase Substrate and a Novel Component of the Lamellipodia

Lodyga, Monika 10 January 2012 (has links)
Adaptor proteins play a vital role in the propagation of cellular signals. Although they lack endogenous catalytic activity, they contain a variety of protein binding modules, which enable them to promote specific and efficient interactions with their binding partners. They form integrative platforms for a variety of molecules (e.g. lipids, tyrosine kinases, cytoskeletal and signaling proteins), and thereby link and coordinate key functions such as cell growth, motility and shape determination. Our laboratory has recently cloned a novel, 130 kDa adaptor protein, named XB130, as a structural homolog of actin-filament-associated-protein (AFAP-110), a stress fiber-binding Src substrate. However, the molecular interactions and functions of this novel adaptor remained to be elucidated. To characterize the function of XB130 we asked two general questions: (1) Is XB130 involved in the signal transduction pathways of tyrosine kinases? And (2) Is XB130 capable of regulating the cytoskeleton and/or is it regulated by the cytoskeleton? To address these questions first we investigated the tissue distribution of XB130 and discovered that it is abundantly expressed in thyroid. Therefore we asked whether it is a target of the thyroid-specific tyrosine kinase, RET/PTC, a genetically rearranged, constitutively active enzyme that plays a pathogenic role in papillary thyroid cancer. We found that XB130 is a RET/PTC substrate that couples RET/PTC signaling to phosphatidylinositol 3-kinase (PI3K) activation through its phosphorylation dependent interaction with the regulatory subunit p85 of PI3K. XB130 plays an important role in PI3K signaling, as downregulation of XB130 in TPC1 papillary thyroid cancer cells, harboring the RET/PTC1 kinase, strongly reduced Akt activity and concomitantly inhibited cell cycle progression and survival in suspension. In the second part we demonstrate that XB130 is a novel Rac- and cytoskeleton-regulated protein that exhibits high affinity to lamellipodial (branched) F-actin and impacts motility and invasiveness of tumor cells. In conclusion, my work characterized a novel adaptor protein and assigned two well-defined pathophysiological functions to it in the context of thyroid cancer cells.
32

Identification of gene expression changes in human cancer using bioinformatic approaches

Griffith, Obi Lee 05 1900 (has links)
The human genome contains tens of thousands of gene loci which code for an even greater number of protein and RNA products. The highly complex temporal and spatial expression of these genes makes possible all the biological processes of life. Altered gene expression by mutation or deregulation is fundamental for the development of many human diseases. The ultimate aim of this thesis was to identify gene expression changes relevant to cancer. The advent of genome-wide expression profiling techniques, such as microarrays, has provided powerful new tools to identify such changes and researchers are now faced with an explosion of gene expression data. Processing, comparing and integrating these data present major challenges. I approached these challenges by developing and assessing novel methods for cross-platform analysis of expression data, scalable subspace clustering, and curation of experimental gene regulation data from the published literature. I found that combining results from different expression platforms increases reliability of coexpression predictions. However, I also observed that global correlation between platforms was generally low, and few gene pairs reached reasonable thresholds for high-confidence coexpression. Therefore, I developed a novel subspace clustering algorithm, able to identify coexpressed genes in experimental subsets of very large gene expression datasets. Biological assessment against several metrics indicates that this algorithm performs well. I also developed a novel meta-analysis method to identify consistently reported genes from differential expression studies when raw data are unavailable. This method was applied to thyroid cancer, producing a ranked list of significantly over-represented genes. Tissue microarray analysis of some of these candidates and others identified a number of promising biomarkers for diagnostic and prognostic classification of thyroid cancer. Finally, I present ORegAnno (www.oreganno.org), a resource for the community-driven curation of experimentally verified regulatory sequences. This resource has proven a great success with ~30,000 sequences entered from over 900 publications by ~50 contributing users. These data, methods and resources contribute to our overall understanding of gene regulation, gene expression, and the changes that occur in cancer. Such an understanding should help identify new cancer mechanisms, potential treatment targets, and have significant diagnostic and prognostic implications.
33

Avaliação dos efeitos dos inibidores tirosino-quinase no metabolismo dos hormônios tireoidianos

Krause, Carla Daiana Demkio Volasco January 2017 (has links)
Introdução: Os inibidores tirosino-quinase (ITQs) constituem uma nova terapia molecular para o carcinoma medular da tireoide (CMT). O vandetanibe, um ITQ que atua contra os receptores VEGFR, EGFR e RET, inibe a transformação e o crescimento do tumor no CMT. No entanto, os ITQs têm importantes efeitos adversos, incluindo o hipotireoidismo. O aumento da expressão da iodotironina desiodase do tipo 3 (D3/DIO3), uma enzima chave na inativação dos hormônios da tireoide, pode ser um possível mecanismo de indução do hipotireoidismo por estas drogas. Objetivo: Investigar os efeitos dos inibidores tirosino-quinase na expressão da D3 em células derivadas do CMT. Métodos: Estudo experimental in vitro, utilizando linhagem de células humanas oriundas de CMT (células TT). As células foram cultivadas em meio específico e tratadas com diferentes doses do ITQ vandetanibe (0,25; 0,5 e 1μM) ou com DMSO. A proliferação celular foi determinada por contagem em câmara de Neubauer. A expressão do mRNA foi avaliada por meio de PCR em tempo real, a expressão proteica por meio de Western Blot e a atividade da D3 foi avaliada por meio da técnica de cromatografia em colunas de Sephadex LH-20. Resultados: A adição do vandetanibe ao meio de cultura causou diminuição do número de células e seu efeito foi tempo e dose dependente, apresentando uma redução máxima (77%) após 6 dias de tratamento na dose de 1μM. Como esperado, o tratamento com vandetanibe inibiu a fosforilação do ERK. Não foram observadas alterações significativas dos níveis de mRNA da DIO3 após 3 (0,02 vs. 0,02 vs. 0,01 vs. 0,01; P = 0,34) ou 6 dias (0,02 vs. 0,02 vs. 0,03 vs. 0,02; P = 0,33) de tratamento. Consequentemente, a expressão proteica da D3 não aumentou nos grupos tratados. No entanto, observou-se um aumento de 2 a 5 vezes na atividade da D3 após 3 dias de tratamento e um aumento de 1,5 a 2,15 vezes em 6 dias de tratamento. Conclusões: O tratamento com vandetanibe não foi associado com níveis aumentados de expressão do mRNA e da proteína da D3 em células derivadas de CMT, embora tenha sido observado um aumento na sua atividade enzimática. / Background: Tyrosine kinase inhibitors (TKIs) constitute a novel molecular therapy for medullary thyroid carcinoma (MTC). Vandetanib, a TKI that acts against the VEGFR, EGFR and RET receptors, inhibits tumor transformation and growth in MTC. However, TKIs have important adverse effects, including hypothyroidism. Increases in the expression of type 3 iodothyronine deiodinase (D3/DIO3), a key enzyme in the inactivation of thyroid hormones, may be a possible mechanism of induction of hypothyroidism by these drugs. Objective: To investigate the effects of vandetanib on D3 expression in MTC-derived cells. Methods: In vitro experimental study using human MTC cell line (TT cells). Cells were cultured in specific medium and treated with different doses of vandetanib (0.25, 0.5 and 1μM) or DMSO. Cell proliferation was determined by counting in Neubauer's chamber. Expression of mRNA was evaluated by real-time PCR, protein expression by Western Blot and D3 activity was evaluated by Sephadex LH-20 column chromatography. Results: The addition of vandetanib to the culture medium caused a time and dose-dependent decrease in the number of cells, with a maximum reduction (77%) after 6 days of treatment at 1μM dose. As expected, vandetanib treatment inhibited ERK phosphorylation. No significant changes in DIO3 mRNA levels were observed after 3 (0.02 vs. 0.02 vs. 0.01 vs. 0.01; P = 0.34) or 6 days (0.02 vs. 0.02 vs. 0.03 vs. 0.02; P = 0.33) of treatment. Accordingly, D3 protein expression did not increase in treated groups. However, we observed a 2 to 5-fold increase in D3 activity after 3 days of treatment and a 1.5 to 2.15-fold increase in 6 days of treatment. Conclusions: Treatment with vandetanib was not associated with increased DIO3 mRNA and D3 protein expression levels in MTC-derived cells, although an increase in enzyme activity has been observed.
34

Avaliação dos efeitos dos inibidores tirosino-quinase no metabolismo dos hormônios tireoidianos

Krause, Carla Daiana Demkio Volasco January 2017 (has links)
Introdução: Os inibidores tirosino-quinase (ITQs) constituem uma nova terapia molecular para o carcinoma medular da tireoide (CMT). O vandetanibe, um ITQ que atua contra os receptores VEGFR, EGFR e RET, inibe a transformação e o crescimento do tumor no CMT. No entanto, os ITQs têm importantes efeitos adversos, incluindo o hipotireoidismo. O aumento da expressão da iodotironina desiodase do tipo 3 (D3/DIO3), uma enzima chave na inativação dos hormônios da tireoide, pode ser um possível mecanismo de indução do hipotireoidismo por estas drogas. Objetivo: Investigar os efeitos dos inibidores tirosino-quinase na expressão da D3 em células derivadas do CMT. Métodos: Estudo experimental in vitro, utilizando linhagem de células humanas oriundas de CMT (células TT). As células foram cultivadas em meio específico e tratadas com diferentes doses do ITQ vandetanibe (0,25; 0,5 e 1μM) ou com DMSO. A proliferação celular foi determinada por contagem em câmara de Neubauer. A expressão do mRNA foi avaliada por meio de PCR em tempo real, a expressão proteica por meio de Western Blot e a atividade da D3 foi avaliada por meio da técnica de cromatografia em colunas de Sephadex LH-20. Resultados: A adição do vandetanibe ao meio de cultura causou diminuição do número de células e seu efeito foi tempo e dose dependente, apresentando uma redução máxima (77%) após 6 dias de tratamento na dose de 1μM. Como esperado, o tratamento com vandetanibe inibiu a fosforilação do ERK. Não foram observadas alterações significativas dos níveis de mRNA da DIO3 após 3 (0,02 vs. 0,02 vs. 0,01 vs. 0,01; P = 0,34) ou 6 dias (0,02 vs. 0,02 vs. 0,03 vs. 0,02; P = 0,33) de tratamento. Consequentemente, a expressão proteica da D3 não aumentou nos grupos tratados. No entanto, observou-se um aumento de 2 a 5 vezes na atividade da D3 após 3 dias de tratamento e um aumento de 1,5 a 2,15 vezes em 6 dias de tratamento. Conclusões: O tratamento com vandetanibe não foi associado com níveis aumentados de expressão do mRNA e da proteína da D3 em células derivadas de CMT, embora tenha sido observado um aumento na sua atividade enzimática. / Background: Tyrosine kinase inhibitors (TKIs) constitute a novel molecular therapy for medullary thyroid carcinoma (MTC). Vandetanib, a TKI that acts against the VEGFR, EGFR and RET receptors, inhibits tumor transformation and growth in MTC. However, TKIs have important adverse effects, including hypothyroidism. Increases in the expression of type 3 iodothyronine deiodinase (D3/DIO3), a key enzyme in the inactivation of thyroid hormones, may be a possible mechanism of induction of hypothyroidism by these drugs. Objective: To investigate the effects of vandetanib on D3 expression in MTC-derived cells. Methods: In vitro experimental study using human MTC cell line (TT cells). Cells were cultured in specific medium and treated with different doses of vandetanib (0.25, 0.5 and 1μM) or DMSO. Cell proliferation was determined by counting in Neubauer's chamber. Expression of mRNA was evaluated by real-time PCR, protein expression by Western Blot and D3 activity was evaluated by Sephadex LH-20 column chromatography. Results: The addition of vandetanib to the culture medium caused a time and dose-dependent decrease in the number of cells, with a maximum reduction (77%) after 6 days of treatment at 1μM dose. As expected, vandetanib treatment inhibited ERK phosphorylation. No significant changes in DIO3 mRNA levels were observed after 3 (0.02 vs. 0.02 vs. 0.01 vs. 0.01; P = 0.34) or 6 days (0.02 vs. 0.02 vs. 0.03 vs. 0.02; P = 0.33) of treatment. Accordingly, D3 protein expression did not increase in treated groups. However, we observed a 2 to 5-fold increase in D3 activity after 3 days of treatment and a 1.5 to 2.15-fold increase in 6 days of treatment. Conclusions: Treatment with vandetanib was not associated with increased DIO3 mRNA and D3 protein expression levels in MTC-derived cells, although an increase in enzyme activity has been observed.
35

Estudo da relação entre o perfil genetico de diferentes sistemas de defesa contra xenobioticos nas doenças neoplasica e auto-imune da tiroide / Relationship study of the genetic profile of different xenobiotic systems in thyroid autoimmune and neoplastic diseases

Búfalo, Natássia Elena, 1981- 30 August 2007 (has links)
Orientador: Laura Sterian Ward / Dissertação (mestrado) - Universidade Estadual de Campinas, Faculdade de Ciencias Medicas / Made available in DSpace on 2018-08-10T20:51:35Z (GMT). No. of bitstreams: 1 Bufalo_NatassiaElena_M.pdf: 3282180 bytes, checksum: 0aa23171bc5ca7c18ed18eb22b3a23d2 (MD5) Previous issue date: 2007 / Resumo: Tanto a doença de Graves como o câncer da tiróide são doenças de etiologia multifatorial e envolvem uma interação entre meio ambiente e fatores genéticos de predisposição. O ábito e fumar é um fator de risco reconhecido para o desenvolvimento da doença de Graves, particularmente para a oftalmopatia de Graves. Ao contrário, estudos epidemiológicos têm freqüentemente demonstrado a redução no risco ao carcinoma diferenciado da tiróide entre tabagistas. A herança de polimorfismos de genes relacionados com a metabolização e com a detoxificação de xenobióticos, assim como a herança de genes relacionados com a vida e a morte celular, desempenham um importante papel na suscetibilidade a doenças. Os objetivos foram determinar a influência dos polimorfismos dos genes CYP1A1, GSTM1, GSTT1, GSTP1 e 72TP53 no risco para a doença de Graves e o papel do gene CYP1A1 na tumorigênese tiroidiana. Para avaliar o papel destes genes na doença de Graves foi estudado um total de 400 pacientes com doença de Graves, comparados com 574 indivíduos-controle. Para analisar o papel destes genes no câncer da tiróide foi estudado 248 pacientes com nódulos tiroidianos, comparados com 277 indivíduos-controle, todos pareados para sexo, idade e etnia. As análises genotípicas foram feitas em DNA extraído de sangue periférico, através de amplificação por PCR, seguido de restrição enzimática para os genes CYP1A1, GSTP1 e 72TP53 e PCR-duplex para os genes GSTM1 e GSTT1. Não se encontrou relação entre os genótipos de GSTM1 e GSTT1 e a suscetibilidade à doença de Graves. Contudo, as variantes de GSTP1 (p<0.0001), CYP1A1 m1 (p<0.0033) e Pro/ProTP53 (p<0.0035) foram mais freqüentes em pacientes com doença de Graves do que nos controles. A análise de regressão logística multivariada corrigida parasexo, idade e etnia indicou que o hábito de fumar e a herança das variantes dos genes GSTP1, CYP1A1 e Pro/ProTP53 são importantes fatores de risco para a doença de Graves. Em relação aos nódulos tiroidianos, o genótipo selvagem do gene CYP1A1 foi mais freqüente entre pacientes com carcinoma papilífero (74.26%) do que na população-controle (62.45%) (p= 0.0147), diminuindo o risco para o desenvolvimento deste câncer (OR=0.564; 95% IC= 0.357 - 0.894). A análise de regressão logística multivariada corrigida para sexo, idade e etnia mostrou uma correlação inversa entre o hábito de fumar e a herança do gene CYP1A1 e a suscetibilidade ao carcinoma papilífero. Conclui-se que os polimorfismos de GSTP1, CYP1A1 e TP53 podem estar associados à suscetibilidade relacionada com o tabagismo para a doença de Graves e que o genótipo de CYP1A1 pode estar associado à redução no risco para o carcinoma papilífero entre fumantes / Abstract: Graves's disease and differentiated thyroid cancer are multifactorial diseases with environmental and genetic interactions. Cigarette smoking is a well-recognized risk factor for Graves¿ disease and, particularly, for Graves¿ ophthalmopathy. Conversely, epidemiologic studies have consistently reported a reduced risk of differentiated thyroid cancer in tobacco consumers. Inheritance of germline polymorphisms genes related with metabolizing and detoxification of xenobioticos, besides genes involved in major DNA repair/apoptosis pathways, might have an important role in the susceptibility to these diseases. To assess the influence of the GST, CYP and TP53 gene polymorphisms in the risk of Graves' disease and the CYP1A1 role in thyroid tumorigenesis, we used a PCR strategy to genotype for GSTT1, GSTM1, GSTP1, CYP1A1 and codon 72 of TP53 a group of 400 Graves¿ disease patients compared to 574 control individuals with similar environmental exposure features and 248 patients with thyroid nodules and 277 controls with similar ethnic backgrounds. DNA was extracted from a blood sample and submitted to PCR-RFLP for CYP1A1, GSTP1 and 72TP53 genes and PCR-duplex GSTM1 and GSTT1 genes assays. GSTM1 and GSTT1 genotypes were equally distributed in Graves' disease and controls. However, GSTP1 variants (p<0.0001), CYP1A1 variants (p<0.0033), and Pro/ProTP53 (p<0.0035) appeared more frequently in Graves¿ disease than in controls. A multivariate analysis indicated that cigarette smoking and the inheritance of GSTP1 variants, CYP1A1 variants and Pro/ProTP53 were important risk factors of risk for Graves¿ disease. Among the thyroid nodules, the wild-type CYP1A1 m1 genotype was more frequent in papillary carcinomas patients (74.26%) than in the control population (62.45%) (p= 0.0147) indicating that the variants of these genes reduce the risk for this cancer (OR=0.564; 95% IC= 0.357 to 0.894). Multiple logistic regression analysis showed an inverse correlation between cigarette smoking and CYP1A1 germline inheritance and the susceptibility to papillary carcinomas. We concluded that GSTP1, CYP1A1 and TP53 germline polymorphisms may be associated with smoking-related Graves¿ disease susceptibility and CYP1A1 genotype might be associated to the reported reduced risk to papillary carcinomas among smokers / Mestrado / Clinica Medica / Mestre em Ciências Básicas
36

A study of apolipoprotein L1 patho-physiological functions

Chidiac, Mounia 11 September 2015 (has links)
Apolipoprotéines L est une famille nouvellement caractérisée en humain sans une fonction patho- physiologique définitive. Ces protéines sont classiquement considérées être impliquées dans le transport et métabolisme des lipides, principalement due à l'association de son premier membre de la famille sécrétée l’apolipoprotéine L1 aux particules des lipoprotéines de haute densité. Néanmoins, le reste des membres sont des protéines intracellulaires (absence de domaine de peptide signal). Apolipoprotéine L1 a été initialement identifiée comme l'élément clé du facteur trypanolytique dans le sérum humain. L'exploration de la séquence des différents apolipoprotéines L a révélé un domaine distinct «B cell lymphoma-2 homology domain 3» ayant des similitudes structurelles et fonctionnelles avec le domaine B cell lymphoma-2 homology domain 3 des protéines de la famille B cell lymphoma-2. Ainsi la découverte de ce domaine peut contribuer à la compréhension de la fonction et rôle des apoLs dans différents mécanismes et processus tels que la mort cellulaire programmée, la prolifération cellulaire, le métabolisme cellulaire .Notre étude visait à caractériser les fonctions de patho- physiologique du premier membre de la famille «apolipoprotéine L1 ». L’expression de l’apolipoprotéine L1 ARNm, à partir de 48 carcinomes papillaires de la thyroïde, a été évaluée par des études à haut débit et normalisée à un pool de tissus normal de la thyroïde. Une confirmation de PCR en temps réel valide ainsi la surexpression d’apoL1 dans 91,67 % des cas testés. Le niveau élevé de l’apolipoprotéine L1 ARNm est en corrélation avec une expression protéique élevée dans les échantillons histologiques (70%), et détermine que les cellules folliculaires de la thyroïde dans la zone de la tumeur sont les cellules principales responsables de l’expression spécifique de l’apolipoprotéine L1. Nous avons étudié l'expression apolipoprotéine L1 dans le modèle de cancer pour approfondir notre compréhension des relations reliant cette expression distincte dans le cancer papillaire de la thyroïde et son rôle et fonction concernant le métabolisme du cancer (de reprogrammation métabolique :effet Warburg).7En outre, la localisation de l’apolipoprotéine L1 dans la mitochondrie des cellules cancéreuses de la thyroïde ainsi que dans la mitochondrie de levure, a été le point de départ de la recherche dans ce nouveau modèle, il nous a permis de révéler et d'introduire de nouvelles hypothèses pour expliquer l'effet inhibiteur de l’apolipoprotéine L1 en fonction des conditions métabolique variantes et l’effet pléotropiques de l’apolipoprotéine L1 sur la levure (dommages des mitochondries et vacuoles). Dans ce manuscrit, nous avons décrit nos efforts à mettre en évidence la spécificité d'expression de l’apolipoprotéine L1 dans le cancer papillaire thyroïdien notamment au niveau de la transcription ainsi que la localisation mitochondriale et l'interférence probable avec les voies métaboliques. / Option Biologie moléculaire du Doctorat en Sciences / info:eu-repo/semantics/nonPublished
37

Thyroid Hormone Receptor SS (trß) Regulation Of Runt-Related Transcription Factor 2 (runx2) In Thyroid Tumorigenesis: Determination Of The Trß Nuclear Protein Complexes That Associate With The Runx2 Gene.

Taber, Thomas Howland 01 January 2017 (has links)
Thyroid Tumorigenesis is typically a well understood process, with well delineated oncogenic factors. Follicular and papillary thyroid cancers are typically survivable, with 5-year survival rates being >95% for Stage I-III of both cancer types. Anaplastic thyroid cancer, in contrast, lacks this prognosis, and is the most lethal of all endocrine-related cancers. The median survival time after a diagnosis is generally between 6-8 months, with a 5-year survival rate of <10%. Current treatment for anaplastic thyroid cancers routinely meet roadblocks, as resistance is quickly developed. Even non-discriminatory kinase inactivators, such as sorafenib, which are generally considered a drug of last resort, are unable to effect survival rates. As such, there is a clear need for further investigation of the causes of anaplastic thyroid cancer mechanisms. Previous work in the Carr lab revealed a novel regulatory pathway of an oncogene that is associated with several other endocrine-related cancers, as well as other non-endocrine-related cancers. Specifically, the Runt-related transcription factor 2 (Runx2) was found to be suppressed via direct binding of the thyroid hormone receptor beta 1 isoform (TRß1) to its proximal promotor. Runx2 was previously shown to be associated with increasing malignancy, with Runx2 occurring at low-levels in indolent cell lines, whilst occurring at high-levels in more malignant cell lines. TRß1, conversely, exhibited the opposite relationship. Endogenous levels of TRß1 were found to be high in indolent cell lines and were depleted in malignant cell lines. These findings were further confirmed via tissue microarrays. Restoration of TRß1 in malignant cell lines diminished Runx2 mRNA and protein levels, which was corroborated by evidence from electrophoretic mobility-shift assays, and chromatin immunoprecipitations that TRß1 was able to directly bind Runx2 promotor 1. Current studies have investigated the nuclear protein profile that associates with TRß1 to alter Runx2 transcription. Through EMSA-to-Mass Spectrometry methodologies, as well as novel DNA pulldown techniques, binding partners have been elucidated. Findings have also been confirmed via classical immunoprecipitations. Specifically, our findings show that TRß1 complexes with the brahma-related gene 1 (BRG1) protein, the nuclear co-repressor (NCOR), and BRG1-associated protein 60 (BAF60). BRG1 functions by preferentially recruiting histone deacetylases (HDAC), with BRG1 and the HDAC’s acting to alter chromatin, and thus transcription. Future studies aim at examining whether other proteins complex with TRß1 to alter Runx2 transcription, and whether these complexes are altered in aggressive cell lines.
38

Identification of gene expression changes in human cancer using bioinformatic approaches

Griffith, Obi Lee 05 1900 (has links)
The human genome contains tens of thousands of gene loci which code for an even greater number of protein and RNA products. The highly complex temporal and spatial expression of these genes makes possible all the biological processes of life. Altered gene expression by mutation or deregulation is fundamental for the development of many human diseases. The ultimate aim of this thesis was to identify gene expression changes relevant to cancer. The advent of genome-wide expression profiling techniques, such as microarrays, has provided powerful new tools to identify such changes and researchers are now faced with an explosion of gene expression data. Processing, comparing and integrating these data present major challenges. I approached these challenges by developing and assessing novel methods for cross-platform analysis of expression data, scalable subspace clustering, and curation of experimental gene regulation data from the published literature. I found that combining results from different expression platforms increases reliability of coexpression predictions. However, I also observed that global correlation between platforms was generally low, and few gene pairs reached reasonable thresholds for high-confidence coexpression. Therefore, I developed a novel subspace clustering algorithm, able to identify coexpressed genes in experimental subsets of very large gene expression datasets. Biological assessment against several metrics indicates that this algorithm performs well. I also developed a novel meta-analysis method to identify consistently reported genes from differential expression studies when raw data are unavailable. This method was applied to thyroid cancer, producing a ranked list of significantly over-represented genes. Tissue microarray analysis of some of these candidates and others identified a number of promising biomarkers for diagnostic and prognostic classification of thyroid cancer. Finally, I present ORegAnno (www.oreganno.org), a resource for the community-driven curation of experimentally verified regulatory sequences. This resource has proven a great success with ~30,000 sequences entered from over 900 publications by ~50 contributing users. These data, methods and resources contribute to our overall understanding of gene regulation, gene expression, and the changes that occur in cancer. Such an understanding should help identify new cancer mechanisms, potential treatment targets, and have significant diagnostic and prognostic implications. / Medicine, Faculty of / Medical Genetics, Department of / Graduate
39

Role of NADPH Oxidase 4 in the Redox Regulation of the Sodium (Na+)/ iodide (I-) Symporter in Papillary Thyroid Cancer / Rôle de la NADPH oxydase 4 dans la régulation redox du symporteur sodium (Na+)/ iodure (I-) dans le câncer papillaire de la thyroïde

Cazarin de Menezes, Juliana 20 March 2018 (has links)
Le symporteur Na+/I- (NIS) médie le captage de l'iode dans la glande thyroïde et cette propriété est exploitée depuis de nombreuses années en thérapeutique pour traiter les cancers différenciés de la thyroïde à l’iode radioactif 131 (Radiothérapie métabolique ou RAI). Cependant, 5 à 10% des patients deviennent réfractaires à la RAI, ce qui indique un mauvais pronostic. La réduction de l'expression NIS et son internalisation sont caractéristiques de ce processus. La mutation activatrice BRAFV600E est la plus fréquemment identifiée au sein des cancers différenciés de la thyroïde de type papillaires (CPT), qui est le type le plus répandu. Dans les thyrocytes de souris, BRAF muté induit la sécrétion de TGF qui active ensuite la voie Smad ce qui entraîne la répression du NIS. La NADPH oxydase 4 (NOX4), enzyme génératrice d’espèces réactives de l'oxygène (ROS), est un médiateur clé de la signalisation du TGFß dans de nombreux types cellulaires et sa surexpression a été détectée dans le cancer de la thyroïde. L'objectif de ce travail est d'évaluer si NOX4 est un médiateur de la répression NIS induite par BRAFV600E dans des lignées cellulaires thyroïdiennes. En utilisant une lignée cellulaire de thyroïde normal de rat (PC-BRAF), nous avons démontré que le TGF-β ou l'expression BRAFV600E promeut la diminution de l'ARNm NIS ainsi que celle du captage de l'iodure en revanche ils augmentent l’expression de l'ARNm NOX4. Le silençage de Nox4 par siRNA ou un traitement des cellules par SIS3, un inhibiteur de pSmad3, inhibe la répression du NIS médiée par BRAFV600E, indiquant l'implication de la voie Smad3 et de Nox4 dans cette répression. Dans la lignée tumorale BCPAP derivée d’un CPT humain et porteuse de la mutation BRAFV600E, nous avons également observé une augmentation de l'expression de l'ARNm NIS lorsque BRAFV600E ou NOX4 sont inhibés. Dans les cellules BCPAP, un traitement par H2O2 augmente l'expression de la protéine ADN méthyltransférase 1 (DNMT1) dans la fraction cellulaire enrichie en protéines liées à la chromatine. Un traitement par des antioxydants ou le silençage de NOX4 réduise ce recrutement. Le TGF augmente le niveaux de protéines DNMT1 dans la fraction cellulaire enrichie en chromatine, lequel qui est renversé par un traitement par un inhibiteur de NADPH oxydase : le Diphenyleneiodonium (DPI). La méthylation de l'ADN induite par le TGF et l'hypoacétylation de l'histone H3K9/K14, qui sont des marques de répression de la transcription, sont détectées au niveau du promoteur NIS. L’ensemble de ces données suggère que Nox4 est un acteur clé de la signalisation TGF-BRAFV600 et joue un rôle répressif sur l'expression du NIS, probablement par des mécanismes épigénétiques. Cette étude apporte des données fonctionnelles pour le développement de nouveaux outils thérapeutiques. / The co-transporter Na+/ I- (NIS) mediates iodide uptake in thyroid gland which is a key step in hormonal biosynthesis. Iodide accumulation by thyrocytes is the basis of radioiodine therapy (RAI) which is the standard post-surgery therapeutic approach to efficiently eliminate remaining cancer lesions and metastasis of differentiated thyroid cancer (DTC). However, 5-10% of DTC patients become RAI-refractory which is indicative of poor prognosis. Reduced NIS expression and NIS internalization are in this process. BRAFV600E mutation is the most common genetic event in papillary thyroid cancers (PTCs), the most prevalent type of DTC. In rat thyrocytes, BRAFV600E induces secretion of TGFβ that activates Smad pathway resulting in NIS downregulation and overexpression of TGFβ is associated with NIS repression in patients. NADPH oxidase NOX4, a professional reactive oxygen species (ROS) generating enzyme, is a key mediator of TGFβ signaling in many cell types and has been previously demonstrated to be overexpressed thyroid cancers. To better understand the molecular mechanisms involved in PTC loss of iodine avidity, the aim of this work is to evaluate whether NOX4 is a key player of BRAFV600E-mediated NIS repression in thyroid cell lines. Using a normal rat thyroid cell line (PC-BRAF) we demonstrated that TGF-β administration or expression of BRAFV600E resulted in reduced NIS mRNA, reduced iodine uptake and increased NOX4 mRNA expression. NOX4 silencing or treatment with SIS3 an inhibitor of Smad pathway partially inhibited NIS repression indicating the implication of both Smad pathway and NOX4. To confirm this results we used a human thyroid cancer cell lines that harbors BRAFV600E mutation (BCPAP and 8505c) and observed an increase in NIS expression followed by BRAFV600E or NOX4 downregulation. Exogenous H2O2 induced DNA methyl-transferase 1 (DNMT1) enrichment in tight-chromatin protein fraction which was decreased by antioxidants or NOX4 silencing in BCPAP cells. TGF increased DNMT1 protein levels in chromatin-enriched cell fraction which was reversed by NADPH oxidase inhibitor, Diphenyleneiodonium (DPI). TGF-mediated DNA methylation and histone H3K9/K14 hypoacetylation were detected in NIS promoter, which is a repressive transcriptional mark. The data obtained suggest that NOX4 is a mediator of BRAFV600-TGF signaling and has a repressive role over NIS expression probably through epigenetic mechanisms. These results should lead to a better understanding of NIS expression regulation in thyroid cancer, bringing functional data for the development of new therapeutic tools.
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Anaplastic Thyroid Carcinoma Arising in Long-Standing Multinodular Goiter Following Radioactive Iodine Therapy: Report of a Case Diagnosed by Fine Needle Aspiration

Maatouk, Jamal, Barklow, Thomas A., Zakaria, Wael, Al-Abbadi, Mousa A. 01 January 2009 (has links)
Background: Anaplastic thyroid carcinoma (ATC) is a highly aggressive, undifferentiated carcinoma that may arise on top of normal or abnormal thyroid. Making the diagnosis by fine needle aspiration (FNA) of the thyroid with a long-standing history of multinodular goiter (MNG) is not uncommon. We report a case discussing the cytopathologic findings and the relationship with long-standing goiter and thyroid exposure to radioactive iodine treatment. Case: A 90-year-old male patient presented with a > 45-year history of MNG that was associated with thyrotoxicosis and multiple courses of radioiodine (I-131) treatment. He developed recent symptoms of dyspnea, dysphagia, neck swelling and unintentional weight loss. Computed tomography of the neck was done revealing a large MNG with retrosternal extension and calcifications. FNA was performed revealing highly anaplastic cells with a colloid background and presence of neutrophils. The diagnosis of ATC was made. The patient refused any kind of management and was discharged upon his request. He died 2 days after the procedure, and no autopsy was performed. Conclusion: ATC is an aggressive, undifferentiated thyroid carcinoma that can be diagnosed by FNA and save the patient a surgical intervention. A background of MNG and history of radioactive iodine therapy is not uncommon.

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