This thesis analyzes data on E. coli cell growth in a bioreactor to investigate the possibility of finding predictable correlations between the environmental parameters (sensor data) and the growth using machine learning. Discovering these correlations could be a first step toward optimizing the growth of cells to be used for cell therapy: an effective but very expensive treatment method for cancer. This could ultimately lead to decreased manufacturing costs and larger treatment availability. The data first underwent a thorough preprocessing to obtain useful features that were divided into batches. In addition, a few separate further processing methods were applied to the data for further analysis. Thereafter several different machine learning methods were implemented and evaluated on the data. All possible sensor combinations were then fed into the best-performing network and the mean absolute error was calculated for each combination. The results showed that the implemented machine learning models did not find predictable patterns between sensor inputs and growth, as the predictions did not follow the growth variations and the models mainly predicted the average yield. However, the possibility that the used approach would benefit from additional data should not be discarded. / Detta examensarbete analyserar data som beskriver celltillväxt av E. coli i en bioreaktor för att undersöka möjligheten att hitta samband mellan inputparametrar och tillväxt med hjälp av maskininlärning. Att upptäcka dessa samband kan vara ett första steg mot att optimera tillväxten av celler som används för cellterapi: en effektiv men väldigt dyr behandlingsmetod för cancer. Detta kan i slutändan leda till minskade tillverkningskostnader och en större tillgänglighet av behandlingen. All data genomgick först en ingående förberedande bearbetning för att erhålla användbara features som var uppdelade i batcher. Ett antal separata vidarebearbetningsmetoder tillämpades också för vidare analys. Därefter implementerades och evaluerades ett flertal olika maskininlärningsmetoder. Den bäst presterande modellen blev tränad på alla möjliga sensorkombinationer och medelabsolutfelet beräknades. Resul- taten visade att de implementerade maskininlärningsmodellerna inte hittade förutsägbara mönster mellan sensorinput och celltillväxt, då förutsägelserna inte följde tillväxtvariationerna och modellerna främst förutspådde den genomsnittliga celltillväxten. Trots resultatet bör möjligheten att ytterligare data kan gynna det använda tillvägagångssättet inte förkastas.

The use of chemotherapy in the treatment of cancer has stimulated the demand for better chemotherapeutic agents that are more potent at destroying tumor cell populations and more selective for the specific tumor versus normal host tissues. This project is directed at discovering new anti-tumor agents that are effective against breast cancer based on structures derived from marine organisms, specifically brominated pyrroles. We utilized an in vitro breast cancer model to study the effects of pyrroles on tumor proliferation and survival, as well as growth arrest and cell death. Our findings indicate that the substituted pyrrole JG-03-14 induces time dependent cell death in breast tumor cells where the cell death involves apoptosis and autophagy. Residual growth arrest in p53 wild type cells is characteristic of senescence. JG-03-14 also demonstrated substantial anti-proliferative effects in multi-drug resistant cells. These findings indicate JG-03-14 would potentially be developed for the treatment of breast cancer.

Bei der Wundheilung und fibrosierenden Prozessen sowie bei der Urtikaria ist eine Mastzellvermehrung bekannt. Mastzellen (MZ) üben bei der Urtikaria eine Schlüsselfunktion aus und scheinen auch zum Bindegewebsumbau beizutragen. In humanem Narbengewebe (5-369 Tage alt) wurden MZ-Zahlen und MZ-Subpopulationen mittels Enzym- und Immunhistochemie im Vergleich zu normaler Haut untersucht. Außerdem wurden in Gewebsextrakten Aktivität und mRNA-Expression der MZ-Proteasen und in vitro ihre mitogene Wirkung auf Fibroblasten und Keratinozyten bestimmt. Zur Klärung von Mechanismen, die zur MZ-Vermehrung beitragen könnten, analysierten wir die Expression von MZ-Chemoattraktoren und MZ-Wachstumsfaktoren sowie ihrer Rezeptoren in humanem Narbengewebe (a), läsionaler und nicht-läsionaler Urtikariahaut (b) und in normaler Haut (c): SCF, c-Kit, NGF-R TrkA, NGF-R p75, GM-CSF, GM-CSF-R (a, b, c); NGF, TGF-(, TGF-(-R I, TGF-(-R II (a,c) mittels Immunhistochemie (a, b, c) und RT-PCR (a, c). Zusätzlich wurde die Expression der proentzündlichen Zytokine IL-3, -8, TNF-( untersucht (b, c). Tryptase und Chymase enthaltende MZ waren in Narben gegenüber normaler Haut signifikant vermindert ebenso wie Chymaseaktivität und -mRNA-Expression in Narbengewebsextrakten. Die Anzahl Tryptase-haltiger MZ war unverändert, obwohl Tryptaseaktivität und -mRNA in Narben vermehrt waren. Beide Proteasen erhöhten in vitro die mitogene Antwort von Fibroblasten, jedoch nicht von Keratinozyten. c-Kit+-MZ fanden sich in der mittleren und tiefen Dermis von Narben signifikant vermehrt. SCF, TGF-(, TGF-(-R I und II, NGF-R p75 und TrkA zeigten sich sowohl immunhistochemisch als auch in der RT-PCR in Narbengewebe hochreguliert im Vergleich zu normaler Haut, wohingegen NGF, GM-CSF und GM-CSF-R nur schwach exprimiert waren ohne Unterschied zwischen beiden Geweben. Mittels FACS-Analyse wurde erstmalig die Expression von TGF-(-R I und II auf isolierten Haut-MZ nachgewiesen. Im Gegensatz zu diesen Befunden waren in Urtikariagewebe SCF- und NGF-R p75-exprimierende Zellen vermindert im Vergleich zu normaler Haut. Die Zahl von c-Kit+-, NGF-R TrkA+-, GM-CSF+- und GM-CSF-R+ -Zellen zeigte sich unverändert. Hingegen war die Expression von IL-3 und TNF-( auf Endothelzellen in läsionaler und nicht-läsionaler Urtikariahaut signifikant hochreguliert. Die dargestellten Ergebnisse mit signifikanter Verminderung von Chymase- und Tryptase-haltigen MZ in humanem kutanen Narbengewebe sprechen für MZ-Degranulation nach Trauma. Nachfolgend findet sich in Narbengewebe eine Chymase--, Avidin--, Tryptase+-, c-Kit+-MZ-Subpopulation, am ehesten Folge einer Einwanderung und Proliferation von unreifen MZ oder MZ-Vorläufern, die von den vermehrt exprimierten Wachstumsfaktoren SCF und TGF-(, eventuell auch von NGF über seine vermehrt exprimierten Rezeptoren, induziert werden könnten. Neben NGF und TGF-( scheint auch SCF eine Rolle bei der Wundheilung zu spielen. Bei entzündlichen Hautkrankheiten unterschiedlicher Prägung wie Wundheilung und Urtikaria liegen offenbar verschiedenartige Regulationsmuster der MZ-Proliferation und -Differenzierung vor. Unsere Ergebnisse legen nahe, dass bei Trauma Feedbackmechanismen über Wachstumsfaktoren wie SCF, TGF-( und NGF und ihre Rezeptoren auf MZ ablaufen, bei der Urtikaria unter Mitberücksichtigung bereits bekannter Daten aus der Literatur vorzugsweise über eine Interaktion von Mast- und Endothelzellen. / In wound healing and fibrosing processes as well as in urticaria an increase of mast cells (MC) has been observed. MC are key-players in urticaria, and might also contribute to tissue repair. In human cutaneous scar tissue (5-369 days old) and normal skin MC dynamics and MC subtypes were analysed by enzyme- and immunohistochemistry. Moreover, the activity of the MC proteases in extracts of both tissues and their in vitro effect on the mitogenesis of fibroblasts and keratinocytes were assessed. To elucidate mechanisms involved in mast cell accumulation, expression of MC chemotaxins, MC growth factors and their receptors was evaluated comparing cutaneous scar tissue (a), lesional and non-lesional skin of urticaria (b) and normal skin (c): SCF, c-Kit, NGF-R TrkA, NGF-R p75, GM-CSF, GM-CSF-R (a, b, c); NGF, TGF-(, TGF-(-R I, TGF-(-R II (a,c) by immunohistochemistry (a, b, c) and by RT-PCR (a, c). Additionally, expression of proinflammatory cytokines (IL-3, -8, TNF-() was studied (b, c). Tryptase and chymase containing MC were markedly decreased in scars as well as chymase activity and mRNA expression, whereas overall numbers of tryptase containing MC did not differ from those in normal skin, although tryptase activity and mRNA expression were increased in scar extracts. Both proteases induced a dose-dependent mitogenic response in 3T3-fibroblasts, but not in HaCaT-keratinocytes. Numbers of c-Kit+ MC were significantly increased in the mid and lower dermis of scars. Furthermore, SCF, TGF-(, its receptors I and II, the NGF-R p75 and TrkA were shown to be upregulated in scars both by immunohistochemistry and by RT-PCR, while NGF, GM-CSF and the GM-CSF-R were only weakly expressed without differences between scar and normal tissue. In addition, expression of TGF-(-R I and II could be shown on isolated human skin MC by FACS-analysis. In contrast to these findings, SCF- and NGF-R p75-expressing cells in urticaria tissue were downregulated compared to normal skin. Numbers of c-Kit+, NGF-R TrkA+, GM-CSF+ and GM-CSF-R+ cells remained unchanged. However, IL-3 and TNF-( expression was upregulated on endothelial cells in lesional and non-lesional skin of urticaria. These data show that numbers of resident MCTC are very low in human cutaneous scars suggesting massive mediator release from these cells after wounding. Instead, scar tissue is populated by a chymase-, avidin-, tryptase+, c-Kit+ MC subpopulation that is reflecting most probably an immigration and / or proliferation of immature MC and their precursors which might be promoted by SCF and TGF-beta, possibly also NGF via its receptors. Next to TGF-( and NGF, also SCF seems to play a role in wound healing. Our findings suggest different regulation patterns of MC increase in inflammatory conditions of the skin. After wounding, feedback mechanisms via growth factors (SCF, TGF-(, possibly NGF) and their receptors on MC could be operative, while in urticaria in accordance with data from the literature interactions between MC and endothelial cells appear to be essential.

O câncer cervical é uma neoplasia muito prevalente na população feminina e está associado à infecção pelo papilomavírus humano (HPV). As oncoproteínas E6 e E7 de HPV de alto risco são as principais responsáveis pelas alterações celulares que levam ao desenvolvimento deste tipo tumoral. A dipeptidil peptidase IV (DPPIV/CD26) é uma enzima que exerce importantes funções relacionadas à progressão tumoral. Diversos estudos demonstram alterações na expressão e atividade desta proteína em diferentes tipos de câncer. Tendo em vista a relação entre a DPPIV/CD26 e o câncer, e que ainda não existem estudos relacionando esta proteína ao câncer cervical, neste estudo inicialmente investigamos a expressão e atividade da DPPIV/CD26 em linhagens celulares de carcinoma cervical humano (SiHa, HeLa e C33A) e em queratinócitos imortalizados (HaCaT). Nossos resultados demonstram uma baixa expressão da DPPIV/CD26 nas linhagens celulares estudadas, sendo praticamente indetectável na linhagem HeLa. Foi verificada a atividade enzimática dipeptidilpeptidásica tanto ligada à membrana quanto solúvel em todas as linhagens. Na presença do inibidor de DPPIV/CD26 (fosfato de sitagliptina) observamos que a linhagem SiHa apresentou um aumento na migração celular, e assim sugerimos que ao menos em parte a migração nesta linhagem é regulada pela atividade enzimática da DPPIV/CD26. A fim de investigar a relação da expressão da DPPIV/CD26 com as oncoproteínas E6 e E7 do HPV, avaliamos sua expressão em queratinócitos normais e transduzidos com estas oncoproteínas. Verificamos que queratinócitos expressando E6 de HPV de alto risco apresentam uma redução na expressão da DPPIV/CD26, e esta regulação parece ser dependente da degradação da p53. Considerando que as linhagens celulares estudadas apresentam baixa expressão e atividade da DPPIV/CD26, para melhor compreender a importância da expressão desta proteína, nós induzimos a superexpressão da DPPIV/CD26 em linhagem de câncer cervical (HeLa) para posterior avaliação dos efeitos em diferentes mecanismos tumorais. Os resultados demonstram uma redução no crescimento de células expressando DPPIV/CD26, sendo este efeito independente da atividade enzimática. Além disso, foi demonstrado que a indução da expressão de DPPIV/CD26 não afeta os mecanismos de migração e adesão celular na linhagem HeLa. Sendo assim, acreditamos que o esclarecimento do papel da DPPIV/CD26 no contexto do câncer cervical possibilita que novas abordagens diagnósticas e terapêuticas sejam implementadas no futuro. / Cervical cancer is a very prevalent neoplasm in female population and is associated with human papillomavirus (HPV) infection. The high risk HPV E6 and E7 oncoproteins are responsible for cellular alterations that lead to the development of this tumor type. The dipeptidyl peptidase IV (DPPIV/CD26) is an enzyme that exerts important functions related to tumor progression. Several studies have shown changes in the expression and activity of this protein in different types of cancer. Considering the relationship between DPPIV/CD26 and cancer, and that there are still no studies relating this protein to cervical cancer, in the present study we first investigated the DPPIV/CD26 expression and activity in human cervical carcinoma cell lines (SiHa, HeLa and C33A) and in immortalized keratinocytes (HaCaT). Our results demonstrate a low DPPIV/CD26 expression in the studied cell lines, being almost undetectable in HeLa cell line. The dipeptidylpeptidasic enzymatic activity was verified both membrane bound and in the soluble form in all cell lines. In the presence of the DPPIV/CD26 inhibitor (sitagliptin phosphate) we observed that SiHa cell line showed an increase in cell migration, thus we suggest that at least in part cell migration in this cell line is regulated by DPPIV/CD26 enzymatic activity. In order to investigate the relationship between DPPIV/CD26 expression and HPV E6 and E7 oncoproteins, we evaluated the expression of this protein in normal keratinocytes or transduced with these oncoproteins. We have found that keratinocytes expressing high-risk HPV E6 present a reduction in DPPIV/CD26 expression, and this regulation appears to be dependent on p53 degradation. Considering that the cell lines studied have low DPPIV/CD26 expression and activity, in order to better understand the importance of the expression of this protein, we induced the DPPIV/CD26 overexpression in a cervical cancer cell line (HeLa) for further evaluation of the effects on different tumor mechanisms. The results demonstrate a reduction in cell growth of DPPIV/CD26 expressing cells, being this effect independent of the enzymatic activity. In addition, it has been demonstrated that the induction of DPPIV/CD26 expression does not affect the cell migration and adhesion mechanisms in the HeLa cell line. Thus, we believe that the elucidation of the DPPIV/CD26 role in the context of cervical cancer enables new diagnostic and therapeutic approaches to be implemented in the future.

Microfluidics has seen an explosion in growth in the past few years, providing researchers with new and exciting lab-on-chip platforms with which to perform a wide variety of biological and biochemical experiments. In this work, a volume quantification tool is developed, demonstrating the ability to measure the volume of individual cells at high resolution and while enabling microfluidic sample manipulations. Care is taken to maximise measurement sensitivity, range and accuracy, though novel use of buoyancy and dynamically tunable microchannels. This first demonstration of a microfluidic tunable volume sensor meant volume sensing over a much wider range, enabling the detection of ̴ 1 µm3 E.coli that would otherwise go undetected. Software was written that enables pressure-driven flow control on the scale of individual cells, which is used to great success in (a) sorting cells based on size measurement and (b) monitoring the growth of cells. While there are a number of macroscopic techniques capable of sorting cells, microscopic lab-on-chip equivalents have only recently started to emerge. In this work, a label-free, volume sensor operating at high resolution is used in conjunction with pressure-driven flow control to actively extract particle/cell subpopulations. Next, a microfluidic growth monitoring device is demonstrated, whereby a cell is flowed back and forth through a volume sensor. The integration of sieve valves allows cell media to be quickly exchanged. The combination of dynamic trapping and rapid media exchange is an important technological contribution to the field, one that opens the door to studies focusing on cell volumetric response to drugs and environmental stimuli. This technology was designed and fabricated in-house using soft lithography techniques readily available in most biotechnology labs. The main thesis body contains four scientific articles that detail this work (Chapters 2-5), all published in peer-reviewed scientific journals. These are preceded by an introductory chapter which provides an overview to the theory underlying this work, in particular the non-intuitive physics at the microscale and the Coulter principle.

O câncer cervical é uma neoplasia muito prevalente na população feminina e está associado à infecção pelo papilomavírus humano (HPV). As oncoproteínas E6 e E7 de HPV de alto risco são as principais responsáveis pelas alterações celulares que levam ao desenvolvimento deste tipo tumoral. A dipeptidil peptidase IV (DPPIV/CD26) é uma enzima que exerce importantes funções relacionadas à progressão tumoral. Diversos estudos demonstram alterações na expressão e atividade desta proteína em diferentes tipos de câncer. Tendo em vista a relação entre a DPPIV/CD26 e o câncer, e que ainda não existem estudos relacionando esta proteína ao câncer cervical, neste estudo inicialmente investigamos a expressão e atividade da DPPIV/CD26 em linhagens celulares de carcinoma cervical humano (SiHa, HeLa e C33A) e em queratinócitos imortalizados (HaCaT). Nossos resultados demonstram uma baixa expressão da DPPIV/CD26 nas linhagens celulares estudadas, sendo praticamente indetectável na linhagem HeLa. Foi verificada a atividade enzimática dipeptidilpeptidásica tanto ligada à membrana quanto solúvel em todas as linhagens. Na presença do inibidor de DPPIV/CD26 (fosfato de sitagliptina) observamos que a linhagem SiHa apresentou um aumento na migração celular, e assim sugerimos que ao menos em parte a migração nesta linhagem é regulada pela atividade enzimática da DPPIV/CD26. A fim de investigar a relação da expressão da DPPIV/CD26 com as oncoproteínas E6 e E7 do HPV, avaliamos sua expressão em queratinócitos normais e transduzidos com estas oncoproteínas. Verificamos que queratinócitos expressando E6 de HPV de alto risco apresentam uma redução na expressão da DPPIV/CD26, e esta regulação parece ser dependente da degradação da p53. Considerando que as linhagens celulares estudadas apresentam baixa expressão e atividade da DPPIV/CD26, para melhor compreender a importância da expressão desta proteína, nós induzimos a superexpressão da DPPIV/CD26 em linhagem de câncer cervical (HeLa) para posterior avaliação dos efeitos em diferentes mecanismos tumorais. Os resultados demonstram uma redução no crescimento de células expressando DPPIV/CD26, sendo este efeito independente da atividade enzimática. Além disso, foi demonstrado que a indução da expressão de DPPIV/CD26 não afeta os mecanismos de migração e adesão celular na linhagem HeLa. Sendo assim, acreditamos que o esclarecimento do papel da DPPIV/CD26 no contexto do câncer cervical possibilita que novas abordagens diagnósticas e terapêuticas sejam implementadas no futuro. / Cervical cancer is a very prevalent neoplasm in female population and is associated with human papillomavirus (HPV) infection. The high risk HPV E6 and E7 oncoproteins are responsible for cellular alterations that lead to the development of this tumor type. The dipeptidyl peptidase IV (DPPIV/CD26) is an enzyme that exerts important functions related to tumor progression. Several studies have shown changes in the expression and activity of this protein in different types of cancer. Considering the relationship between DPPIV/CD26 and cancer, and that there are still no studies relating this protein to cervical cancer, in the present study we first investigated the DPPIV/CD26 expression and activity in human cervical carcinoma cell lines (SiHa, HeLa and C33A) and in immortalized keratinocytes (HaCaT). Our results demonstrate a low DPPIV/CD26 expression in the studied cell lines, being almost undetectable in HeLa cell line. The dipeptidylpeptidasic enzymatic activity was verified both membrane bound and in the soluble form in all cell lines. In the presence of the DPPIV/CD26 inhibitor (sitagliptin phosphate) we observed that SiHa cell line showed an increase in cell migration, thus we suggest that at least in part cell migration in this cell line is regulated by DPPIV/CD26 enzymatic activity. In order to investigate the relationship between DPPIV/CD26 expression and HPV E6 and E7 oncoproteins, we evaluated the expression of this protein in normal keratinocytes or transduced with these oncoproteins. We have found that keratinocytes expressing high-risk HPV E6 present a reduction in DPPIV/CD26 expression, and this regulation appears to be dependent on p53 degradation. Considering that the cell lines studied have low DPPIV/CD26 expression and activity, in order to better understand the importance of the expression of this protein, we induced the DPPIV/CD26 overexpression in a cervical cancer cell line (HeLa) for further evaluation of the effects on different tumor mechanisms. The results demonstrate a reduction in cell growth of DPPIV/CD26 expressing cells, being this effect independent of the enzymatic activity. In addition, it has been demonstrated that the induction of DPPIV/CD26 expression does not affect the cell migration and adhesion mechanisms in the HeLa cell line. Thus, we believe that the elucidation of the DPPIV/CD26 role in the context of cervical cancer enables new diagnostic and therapeutic approaches to be implemented in the future.

O câncer cervical é uma neoplasia muito prevalente na população feminina e está associado à infecção pelo papilomavírus humano (HPV). As oncoproteínas E6 e E7 de HPV de alto risco são as principais responsáveis pelas alterações celulares que levam ao desenvolvimento deste tipo tumoral. A dipeptidil peptidase IV (DPPIV/CD26) é uma enzima que exerce importantes funções relacionadas à progressão tumoral. Diversos estudos demonstram alterações na expressão e atividade desta proteína em diferentes tipos de câncer. Tendo em vista a relação entre a DPPIV/CD26 e o câncer, e que ainda não existem estudos relacionando esta proteína ao câncer cervical, neste estudo inicialmente investigamos a expressão e atividade da DPPIV/CD26 em linhagens celulares de carcinoma cervical humano (SiHa, HeLa e C33A) e em queratinócitos imortalizados (HaCaT). Nossos resultados demonstram uma baixa expressão da DPPIV/CD26 nas linhagens celulares estudadas, sendo praticamente indetectável na linhagem HeLa. Foi verificada a atividade enzimática dipeptidilpeptidásica tanto ligada à membrana quanto solúvel em todas as linhagens. Na presença do inibidor de DPPIV/CD26 (fosfato de sitagliptina) observamos que a linhagem SiHa apresentou um aumento na migração celular, e assim sugerimos que ao menos em parte a migração nesta linhagem é regulada pela atividade enzimática da DPPIV/CD26. A fim de investigar a relação da expressão da DPPIV/CD26 com as oncoproteínas E6 e E7 do HPV, avaliamos sua expressão em queratinócitos normais e transduzidos com estas oncoproteínas. Verificamos que queratinócitos expressando E6 de HPV de alto risco apresentam uma redução na expressão da DPPIV/CD26, e esta regulação parece ser dependente da degradação da p53. Considerando que as linhagens celulares estudadas apresentam baixa expressão e atividade da DPPIV/CD26, para melhor compreender a importância da expressão desta proteína, nós induzimos a superexpressão da DPPIV/CD26 em linhagem de câncer cervical (HeLa) para posterior avaliação dos efeitos em diferentes mecanismos tumorais. Os resultados demonstram uma redução no crescimento de células expressando DPPIV/CD26, sendo este efeito independente da atividade enzimática. Além disso, foi demonstrado que a indução da expressão de DPPIV/CD26 não afeta os mecanismos de migração e adesão celular na linhagem HeLa. Sendo assim, acreditamos que o esclarecimento do papel da DPPIV/CD26 no contexto do câncer cervical possibilita que novas abordagens diagnósticas e terapêuticas sejam implementadas no futuro. / Cervical cancer is a very prevalent neoplasm in female population and is associated with human papillomavirus (HPV) infection. The high risk HPV E6 and E7 oncoproteins are responsible for cellular alterations that lead to the development of this tumor type. The dipeptidyl peptidase IV (DPPIV/CD26) is an enzyme that exerts important functions related to tumor progression. Several studies have shown changes in the expression and activity of this protein in different types of cancer. Considering the relationship between DPPIV/CD26 and cancer, and that there are still no studies relating this protein to cervical cancer, in the present study we first investigated the DPPIV/CD26 expression and activity in human cervical carcinoma cell lines (SiHa, HeLa and C33A) and in immortalized keratinocytes (HaCaT). Our results demonstrate a low DPPIV/CD26 expression in the studied cell lines, being almost undetectable in HeLa cell line. The dipeptidylpeptidasic enzymatic activity was verified both membrane bound and in the soluble form in all cell lines. In the presence of the DPPIV/CD26 inhibitor (sitagliptin phosphate) we observed that SiHa cell line showed an increase in cell migration, thus we suggest that at least in part cell migration in this cell line is regulated by DPPIV/CD26 enzymatic activity. In order to investigate the relationship between DPPIV/CD26 expression and HPV E6 and E7 oncoproteins, we evaluated the expression of this protein in normal keratinocytes or transduced with these oncoproteins. We have found that keratinocytes expressing high-risk HPV E6 present a reduction in DPPIV/CD26 expression, and this regulation appears to be dependent on p53 degradation. Considering that the cell lines studied have low DPPIV/CD26 expression and activity, in order to better understand the importance of the expression of this protein, we induced the DPPIV/CD26 overexpression in a cervical cancer cell line (HeLa) for further evaluation of the effects on different tumor mechanisms. The results demonstrate a reduction in cell growth of DPPIV/CD26 expressing cells, being this effect independent of the enzymatic activity. In addition, it has been demonstrated that the induction of DPPIV/CD26 expression does not affect the cell migration and adhesion mechanisms in the HeLa cell line. Thus, we believe that the elucidation of the DPPIV/CD26 role in the context of cervical cancer enables new diagnostic and therapeutic approaches to be implemented in the future.

Microfluidics has seen an explosion in growth in the past few years, providing researchers with new and exciting lab-on-chip platforms with which to perform a wide variety of biological and biochemical experiments. In this work, a volume quantification tool is developed, demonstrating the ability to measure the volume of individual cells at high resolution and while enabling microfluidic sample manipulations. Care is taken to maximise measurement sensitivity, range and accuracy, though novel use of buoyancy and dynamically tunable microchannels. This first demonstration of a microfluidic tunable volume sensor meant volume sensing over a much wider range, enabling the detection of ̴ 1 µm3 E.coli that would otherwise go undetected. Software was written that enables pressure-driven flow control on the scale of individual cells, which is used to great success in (a) sorting cells based on size measurement and (b) monitoring the growth of cells. While there are a number of macroscopic techniques capable of sorting cells, microscopic lab-on-chip equivalents have only recently started to emerge. In this work, a label-free, volume sensor operating at high resolution is used in conjunction with pressure-driven flow control to actively extract particle/cell subpopulations. Next, a microfluidic growth monitoring device is demonstrated, whereby a cell is flowed back and forth through a volume sensor. The integration of sieve valves allows cell media to be quickly exchanged. The combination of dynamic trapping and rapid media exchange is an important technological contribution to the field, one that opens the door to studies focusing on cell volumetric response to drugs and environmental stimuli. This technology was designed and fabricated in-house using soft lithography techniques readily available in most biotechnology labs. The main thesis body contains four scientific articles that detail this work (Chapters 2-5), all published in peer-reviewed scientific journals. These are preceded by an introductory chapter which provides an overview to the theory underlying this work, in particular the non-intuitive physics at the microscale and the Coulter principle.

Les protéines SR, qui constituent une famille conservée de facteurs liant l'ARN, jouent un rôle majeur dans l'épissage des ARN et en particulier dans la régulation de l'épissage alternatif. Certaines protéines SR peuvent également participer à l'élongation de la transcription, l'export, la stabilité ou la traduction des ARNm. Ces différents rôles soulignent l'importance des protéines SR en tant que régulateurs clés du métabolisme des ARNm et de l'expression des gènes. Des altérations de leur quantité ou de leur activité peuvent induire des défauts développementaux ou des pathologies telles que des tumeurs. Afin de mieux comprendre les fonctions et les mécanismes de régulation des protéines SR in vivo, je me suis intéressée à la protéine SR B52 chez D. melanogaster. En réalisant un crible génétique, nous avons identifié des protéines capables de sauver les phénotypes induits par la surexpression de B52 in vivo. L'une de ces protéines est l'ADN Topoisomérase I (Topo I). La Topo I possède à la fois une activité topoisomérase impliquée dans la relaxation de l'ADN, et une activité kinase capable de phosphoryler les protéines SR. Nous avons montré que B52 est impliquée dans le recrutement de la Topo I aux sites actifs de transcription, en particulier lors de l'induction des gènes heat shock, et que ces protéines jouent un rôle dans la libération de l'ARN hsp70 de son site de transcription et dans l'extinction de sa transcription. Une autre protéine capable de sauver les phénotypes induits par la surexpression de B52 est Brain tumor, un répresseur post-transcriptionnel de l'expression de myc. Myc est un régulateur clé de la croissance chez la drosophile. Nos résultats révèlent un effet positif de B52 sur la croissance cellulaire dans certains tissus, et sur l'expression de dmyc. Nous montrons également que le niveau de B52 affecte l'épissage alternatif de plusieurs gènes impliqués dans la croissance, dont le coactivateur transcriptionnel Yorkie et le facteur d'initiation de la traduction eIF4E. Ainsi, nos travaux suggèrent que la protéine SR B52 pourrait coordonner un ensemble d'évènements d'épissage dans des voies de signalisation impliquées dans la croissance cellulaire. / SR proteins, which constitute a conserved family of RNA-binding factors, play a key role in RNA splicing and particularly in alternative splicing regulation. In addition, some SR proteins have been shown to participate in transcription elongation, mRNA export, mRNA stability and mRNA translation. These wide-ranging roles of SR proteins highlight their importance as pivotal regulators of mRNA metabolism and gene expression. Alteration of their expression level or activity can induce developmental defects or pathologies such as tumors. To better understand SR proteins functions and how they are regulated in vivo, I studied a major SR protein in Drosophila melanogaster called B52. Using a genetic screen, we identified proteins that can rescue the phenotypes induced by B52 overexpression. Among them is the DNA Topoisomerase I (Topo I). Topo I carries two enzymatic activities: a topoisomerase activity that can relax DNA supercoiling generated by transcription or replication, and a kinase activity which phosphorylates SR proteins. We showed that B52 is required for Topo I recruitment to active transcription sites, especially at the heat shock genes upon their induction, and that these proteins play a role in hsp70 mRNA release from its transcription site and in its transcription shutdown. Another protein that can rescue the phenotypes induced by B52 overexpression is Brain tumor, a post-transcriptional repressor of myc expression. Myc is a major regulator of cell growth in Drosophila. Our results reveal a positive effect of B52 on cell growth in some tissues, and on myc expression. We also show that B52 level can affect the alternative splicing of several genes involved in cell growth, especially that of the transcriptional coactivator Yorkie and the translation initiation factor eIF4E. Thus, our work suggests that the SR protein B52 could coordinate a range of splicing events in signalling pathways involved in cell growth.

<p>The PRLs are a subfamily of dual specificity phosphatases that appear to play important roles in oncogenesis. Much of the current understanding of PRL function has been either correlative, and deduced from observed PRL overexpression in pathological conditions, or from in vitro analysis of signaling pathways following PRL deletion or overexpression. Such studies, necessitated by the general lack of synthetic inhibitors or compounds to probe the substrate specificity and biological interactions of the PRLs, are nonetheless now providing critical insight into potential biological substrates and roles of the PRL phosphatases. The recent identification of PTEN as a substrate for PRL2 provided the foundation for studies to further define the role of PRL2 in oncogenesis and, by analogy, the normal physiological function of PRL2. In the studies described herein, a novel PRL2 conditional knock-out animal was generated and used to validate the PRL2/PTEN interaction in a leukemic phenotype, and further demonstrated that PRL2 inhibition can restore dysregulated PTEN/AKT pathways to significantly attenuate disease progression. Inhibition of PRL2 therefore represents a novel potential therapeutic strategy in the management and treatment of AML. This thesis project also sought to further examine the role of the PRLs in oncogenesis through their regulation and interaction of targets within the TME. Functional analyses revealed that PRL3 was the only PRL to have a prominent role in host response to TME development, and that previously proposed roles for PRL3 in angiogenesis and immune cell recruitment is dependent upon PRL3 expression and activity in cells external to the TME. The study also revealed a previously unrecognized synergism between VEGF and PRL3 in the host in promoting TME angiogenesis. The studies of PRL3 in the TME suggest the potential physiological role of PRL3 in wound healing.</p>