Les cellules tumorales circulantes (CTC) représentent un large champ de recherche susceptible de fournir des informations tant cliniques que fondamentales. Les CTC proviennent de tumeurs primitives ou métastatiques et représentent une population hétérogène de cellules très rares dans le flux sanguin. Leur caractérisation moléculaire est un défi technologique qui requiert des méthodes très sensibles et spécifiques. Dans les cancers bronchiques non à petites cellules (CBNPC), les CTC ont un véritable intérêt car les biopsies tumorales ne permettent pas toujours de réaliser les analyses moléculaires nécessaires au choix du traitement. De plus, elles ne sont probablement pas représentatives de l’hétérogénéité tumorale.L’objectif de ma thèse a été de rechercher dans les CTC de patients atteints de CBNPC porteurs du remaniement de gène ALK, des anomalies génomiques connues pour être des biomarqueurs de sensibilité et de résistance aux thérapies ciblant cet oncogéne, ainsi qu’à caractériser les CTC porteuses de ces anomalies. La première partie du projet a consisté au développement d’une méthode d’hybridation in situ de l’ADN (fluorescent in situ hybridization, FISH) adaptée à un système d’enrichissement des CTC par filtration, la FA-FISH (filter adapted FISH) (brevet PCT/FR2011/052688). Nous avons ensuite développé une approche de microscopie semi-automatisée permettant la digitalisation et l’analyse de ces CTC enrichies par filtration (Pailler, BMC Cancer, 2016). Dans la seconde partie du projet, nous avons mis en œuvre cette méthode et montré pour la première fois qu’il est possible d’identifier le remaniement de gène ALK dans les CTC de patients porteurs de ce réarrangement dans la tumeur (Pailler, J Clin Oncol, 2013). Les CTC remaniées présentent un unique réarrangement de type break-apart, y compris chez des patients présentant exclusivement une autre forme de réarrangement dans la tumeur, et un phénotype mésenchymateux. Cette observation nous a amené à émettre l’hypothèse que ces CTC ont acquis des propriétés migratoires et d’invasivité, et pourraient résulter d’une forte sélection clonale. Nous avons ensuite étendu cette observation aux patients porteurs du remaniement ROS1 et rapporté pour la première fois la détection de ce remaniement dans des CTC (Pailler, Ann Oncol, 2015). Dans la troisième partie du projet, nous avons émis l’hypothèse que certaines sous-populations de CTC anormales pour le gène ALK, mesurées avant et à deux mois de traitement par le crizotinib, pourraient prédire l’évolution clinique des patients traités. Dans une cohorte élargie de patients, nous avons montré que l’évolution sous crizotinib du nombre de CTC présentant exclusivement des gains de copies natives du gène ALK est un biomarqueur « surrogate » d’efficacité du traitement pouvant permettre d’identifier les patients qui ont un risque élevé de progresser rapidement (Pailler, soumis). Finalement, dans la quatrième partie du projet, nous avons recherché dans des CTC des mutations de résistance aux inhibiteurs de ALK. Nous avons mis au point des technologies permettant de caractériser phénotypiquement, isoler et analyser moléculairement (séquençages ciblés et d’exomes) des CTC à l’échelle de cellule unique. Les expériences sur lignées cellulaires ont permis de valider les approches et les analyses d’échantillons de patients sont en cours.Dans ce travail, nous montrons qu’il est possible de caractériser des anomalies génomiques dans les CTC de patients porteurs du remaniement ALK à différentes étapes de leur maladie, et ainsi d’identifier des biomarqueurs de sensibilité et d’efficacité à une thérapie ciblée. Ce travail ouvre des perspectives sur la personnalisation des traitements qui pourraient reposer sur l’analyse génomique non invasive des CTC. Il apporte en outre des éléments nouveaux sur les caractéristiques biologiques des CTC chez ces patients, certaines étapes du processus métastatique et la diversité génomique de ces cancers. / Circulating tumor cells (CTCs) are a broad field of research which may provide both clinical and basic information. CTCs migrate from primitive or metastatic tumors and represent a heterogeneous population of very rare cells in the blood stream. The molecular characterization of CTCs is a technical challenge requiring highly sensitive and specific methods. Because tumor biopsies are invasive and in some cases associated with risk in non-small-cell lung cancer (NSCLC), CTCs may offer an attractive option to analyze tumor genomic alterations and detect molecular biomarkers. CTCs could provide a more comprehensive picture of the tumor content than single tumor biopsies.The aim of my thesis was to characterize genomic abnormalities in CTCs from ALK-rearranged NSCLC patients and identified biomarkers of sensitivity and resistance to targeted therapies. The first part of the project consisted in the development of a fluorescent in situ hybridization (FISH) method adapted to CTCs enriched by filtration, the FA-FISH (filter-adapted-FISH) (patent PCT/FR2011/052688). Then, we developed a method for the semi-automated microscopy of filtration enriched CTCs (Pailler, BMC Cancer, 2016). In the second part of my project, using this method, we provided the first proof-of-concept that ALK-rearrangement can be detected in CTCs of patients with ALK-rearranged NSCLC (Pailler, J Clin Oncol, 2013). We showed that CTCs from these patients harbor a unique ALK break-apart rearrangement, including patients presenting another form of rearrangement in the biopsy, and a mesenchymal phenotype. This suggests that these CTCs may arise from a clonal selection of tumor cells that have acquired invasive and migratory properties and possibly the potential to drive metastatic progression. Then, we characterized CTCs from patients with ROS1-rearranged NSCLC and reported for the first time the detection of ROS1-rearrangement in CTCs (Pailler, Ann Oncol, 2015). In the third part of the project, we evaluated whether CTCs with abnormal ALK-FISH patterns monitored under crizotinib (baseline and early sampling at 2 months) may inform on treatment benefit in a cohort of ALK-rearranged patients treated by crizotinib. In an extended cohort of patients, the dynamic change in the numbers of CTCs with a gain of ALK-native copies was associated with the progression-free survival and thus may be a surrogate biomarker for crizotinib efficacy (Pailler, submitted). These results show that the molecular analysis of CTCs performed under treatment could help to stratify patients at risk of early resistance to crizotinib. Finally, in the last part of my project, we sought to evaluate whether CTCs could be used for identifying resistance mutations to ALK inhibitors. We developed technologies to characterize, isolate and molecularly (targeted sequencing and exome sequencing) analyze CTCs at the single cell level. Experiments on cell lines allowed to validate these technical processes; Experiments on patient samples are ongoing.In this work, we characterize genomic abnormalities present in CTCs from ALK-rearranged patients at different stages of the disease and identify biomarkers of sensitivity and efficacy to targeted therapies. Our results provide new perspectives on the potential of CTCs for personalizing treatments in NSCLC patients. Furthermore, our findings may offer new insights on the biological characteristics of CTCs in ALK-rearranged patients, their overall role in the metastatic progression and the genomic diversity of these cancers.

京都大学 / 0048 / 新制・課程博士 / 博士(医学) / 甲第21447号 / 医博第4414号 / 新制||医||1032(附属図書館) / 京都大学大学院医学研究科医学専攻 / (主査)教授 武藤 学, 教授 平井 豊博, 教授 岩田 想 / 学位規則第4条第1項該当 / Doctor of Medical Science / Kyoto University / DFAM

No description available.

Introduction: As the number of minimally invasive technologies increases in the field of thoracic surgery, so have the number of learning curve analyses performed for these innovations. Variation in learning curve methodology makes between-study comparisons and evidence syntheses difficult. Furthermore, poorly described and reported learning curve analyses make the results difficult to apply to different clinical settings. The objective of this systematic review is to characterize the variability in the methods used to construct and describe learning curves, with the goal of identifying shortcomings and potential areas for improvement in this line of research. Methods: A search of Ovid Medline, Ovid Embase, EBSCO CINAHL, and Web of Science was performed. Studies of learning curves of anatomical lung resection operations in adult patients published in the English language were eligible for inclusion. Two reviewers independently assessed studies for eligibility, and extracted relevant data. Results: The search yielded 56 articles eligible for inclusion in the present review. A variety of methods were used to construct the learning curve, with chronological grouping of cases being the most commonly used technique in 22 (39.29%) studies, followed by the cumulative sum method, employed in 21 (37.50%) studies. A total of 15 unique metrics were used for learning curve analyses; operative time was the most common metric, used in 39 (69.64%) studies. A large proportion of studies failed to provide details on learning curve parameters such as competency thresholds, surgeon’s prior experience, case complexity, and learning curve definition. Considerable heterogeneity was found in the methods and reporting standards of learning curve evaluations in minimally invasive thoracic surgery. Conflicts of Interest: None. Funding Source: Boris Family Centre for Robotic Surgery. / Thesis / Master of Science (MSc)

京都大学 / 新制・課程博士 / 博士(医学) / 甲第24508号 / 医博第4950号 / 新制||医||1064(附属図書館) / 京都大学大学院医学研究科医学専攻 / (主査)教授 平井 豊博, 教授 武藤 学, 教授 中島 貴子 / 学位規則第4条第1項該当 / Doctor of Medical Science / Kyoto University / DFAM

No description available.

京都大学 / 新制・課程博士 / 博士(医学) / 甲第24879号 / 医博第5013号 / 新制||医||1068(附属図書館) / 京都大学大学院医学研究科医学専攻 / (主査)教授 後藤 慎平, 教授 渡邊 直樹, 教授 平井 豊博 / 学位規則第4条第1項該当 / Doctor of Medical Science / Kyoto University / DFAM

No description available.

京都大学 / 新制・課程博士 / 博士(人間健康科学) / 甲第23826号 / 人健博第97号 / 新制||人健||7(附属図書館) / 京都大学大学院医学研究科人間健康科学系専攻 / (主査)教授 精山 明敏, 教授 椎名 毅, 教授 平井 豊博 / 学位規則第4条第1項該当 / Doctor of Human Health Sciences / Kyoto University / DFAM

Background: The standard of care for mediastinal staging during endobronchial ultrasound (EBUS) is Systematic Sampling (SS) where a minimum of 3 lymph node (LN) stations are biopsied, even if they appear normal on imaging. When LNs appear normal on PET and CT, the Canada Lymph Node Score can also identify if they appear normal on EBUS. For these Triple Normal LNs, the pretest probability of malignancy is < 6%, and routine biopsy may not be required. This preliminary study introduced Selective Targeted Sampling (STS), which omits biopsy of Triple Normal LNs and compared it firsthand to SS. Methods: A prospective, feasibility RCT was conducted to determine whether the progression of a definitive trial was warranted. Primary outcomes and their progression criterium were recruitment rate (70% acceptable minimum); procedure length (no overlap between sampling methods’ 95%CIs); and missed nodal metastasis (overlap between sampling methods’ diagnostic accuracy 95%CIs and crossing of the null for the percent difference in diagnosis). cN0-N1 NSCLC patients undergoing EBUS were randomized to the STS or SS arm. Patients in the STS arm were then crossed over to the SS arm to receive standard of care. Wilson’s CI method and McNemar’s test of paired proportions were used for statistical comparison. Surgical pathology was the reference standard. Results: Thirty-eight patients met the eligibility criteria, and all were recruited (100%; 95%CI: 90.82 to 100.00%). The median procedure lengths, in minutes, for STS and SS were 3.07 (95%CI: 2.33 to 5.52) and 19.07 (95%CI: 15.34 to 20.05) respectively. STS had a diagnostic accuracy of 100% (95%CI: 74.65% to 100.00%), whereas SS was 93.75% (95%CI: 67.71% to 99.67%) with the inclusion of inconclusive results. Percent difference in diagnosis between sampling method was 5.35% (95%CI: -0.54% to 11.25%). Conclusion: With the progression criteria successfully met, a subsequent multicentered, non-inferiority crossover trial comparing STS to SS is warranted. / Thesis / Master of Science (MSc) / Before deciding on treatment for patients with lung cancer, a critical step in the investigations is finding out whether the lymph nodes in the chest contain cancer. This is best done with a needle that biopsies those lymph nodes through the walls of the airway, known as endobronchial ultrasound transbronchial needle aspiration. Guidelines require that every lymph node in the chest be biopsied through a process called Systematic Sampling. However, new research has suggested that some lymph nodes may not need a biopsy. These lymph nodes are ones with a very low chance of cancer, based on their imaging tests. In this study, Selective Targeted Sampling was introduced whereby lymph nodes that appeared normal were not initially biopsied. The study followed a feasibility design, which proved sufficient patient interest, adequate safety and possible benefits in pursuing a larger trial comparing Selective Targeted Sampling to Systematic Sampling.