Theses

Theses in which OIC equipment was used 

2023

  1. Autar A (2023) Atherothrombosis in cardiovascular disease (Erasmus University Rotterdam (EUR)).
  2. de Vries J (2023) Unraveling the fibrin network (Erasmus University Rotterdam (EUR), Rotterdam).
  3. Escudero Selma I (2023) The synchronisation of pluripotency transitions with morphogenesis during mouse peri-implantation development (Erasmus University Rotterdam (EUR)).
  4. Huang W (2023) Precision medicine for solid tumors (Erasmus University Rotterdam (EUR), Rotterdam).
  5. Koornneef L (2023) Loading and positioning of recombinases during meiotic prophase in mice (Erasmus University Rotterdam (EUR), Rotterdam).
  6. Li P (2023) Tackling emerging viral diseases with epidemic potential (Erasmus University Rotterdam (EUR), Rotterdam).
  7. Pascual Garcia M (2023) Unveiling myelination mechanisms in schizophrenia (Erasmus University Rotterdam (EUR), Rotterdam).
  8. Pisterzi P (2023) The making of the hematopoietic niche (Erasmus University Rotterdam (EUR), Rotterdam).
  9. Ruigrok E (2023) Preclinical studies to improve targeted radionuclide therapy for prostate cancer (Erasmus University Rotterdam (EUR), Rotterdam).
  10. Shankar A (2023) Renal rebirth (Erasmus University Rotterdam (EUR), Rotterdam).
  11. Stalmann U (2023) Intrinsic and extrinsic mechanisms of clonal expansion in Del(5q) MDS (Erasmus University Rotterdam (EUR), Rotterdam).
  12. Stockmann L (2023) Functional analysis of microtubule-associated proteins and their effect on microtubule dynamics using advanced microscopy techniques (Erasmus University Rotterdam (EUR), Rotterdam).
  13. van Tienderen G (2023) Converging organoids and extracellular matrix (Erasmus University Rotterdam (EUR), Rotterdam).
  14. van Toorn M (2023) Incision aftercare (Erasmus University Rotterdam (EUR), Rotterdam).
  15. Zhang R (2023) Exploring the contribution of AXIN1 mutation and tRNA biology to liver cancer (Erasmus University Rotterdam (EUR), Rotterdam).

2022

  1. Bouwen B (2022) Brain/Tumor Crosstalk in Cerebral Cortex. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  2. Braspenning S (2022) Molecular biology of lytic and latent Varicellovirus infections. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  3. Koyunlar C (2022) Gata2-Dependent Mechanisms in Hematopoietic Stem Cell Biology. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  4. Langeveld SAG (2022) Microstructures in Theranostic Microbubbles. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  5. Li Y (2022) Virus-Host Interplay. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  6. Li Y (2022) Drug Repurposing for Treating Hepatitis E Virus Infection. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  7. Lieshout R (2022) New applications of cholangiocarcinoma organoids. Doctoral Thesis (Erasmus University Rotterdam (EUR)).
  8. Perenthaler E (2022) Neurodevelopmental disorders. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  9. Quint W (2022) Genetic Drivers of Refractive Error. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  10. Roos F (2022) Studying the Biliary Tree using Organoid-Technology. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  11. Shi S (2022) Programmed cell death in cholangiopathies, liver cancer, and liver transplantation. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  12. Stroet M (2022) Detection of Cell Death with Cyanines: Dead or Alive? Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  13. Teeuwssen M (2022) Non-genetic mechanisms leading to local and distant metastasis. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  14. van Willigenburg H (2022) Renal Disease. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  15. Wang L (2022) Role of Intracellular Compartments in Liver Disease. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  16. Wang X (2022) Cerebellar Multimodular Control of Associative Behavior. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  17. Willemse J (2022) The Matrix Reloaded. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).
  18. Zhang S (2022) Versatility of Mesenchymal Stromal Cells in Bone. Doctoral Thesis (Erasmus University Rotterdam (EUR), Rotterdam).

2021

  1. Blot F (2021) Expansion of Cerebellar Neuron Diversity. Doctoral Thesis (Erasmus University, Rotterdam).
  2. dos Santos Moreira Pedrosa R (2021) Unraveling the Molecular Pathogenesis of Brain Metastatic Disease. Doctoral Thesis (Erasmus University, Rotterdam).
  3. Gioacchino E (2021) Consequences of Gata2 Deficiency. Doctoral Thesis (Erasmus University, Rotterdam).
  4. Lattwein K (2021) Sonobactericide. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  5. Olofsen P (2021) Molecular and Cellular Defects Driving the Leukemic Progression of Severe Congenital Neutropenia. Doctoral Thesis (Erasmus University, Rotterdam).
  6. Rijvers L (2021) Antibody-Independent Functions of B cells in Multiple Sclerosis. Doctoral Thesis (Erasmus University).
  7. Roobol S (2021) Ionizing Radiation Quality and Dose Effects on DNA Double Strand Break Repai. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  8. Schäfer C (2021) Neuronal Pathways for Cerebello-Cerebral Communication. Doctoral Thesis (Erasmus University, Rotterdam).
  9. Slot E (2021) Genetics and Epigenetics of Alveolar Capillary Dysplasia. Doctoral Thesis (Erasmus University, Rotterdam).
  10. Yu P (2021) Understanding Norovirus-Host Interactions. Doctoral Thesis (Erasmus University, Rotterdam).
  11. Zambito G (2021) New Tools for Multimodal Imaging of Immune Cells. Doctoral Thesis (Erasmus University, Rotterdam).

2020

  1. Burger J (2020) Molecular Mechanisms of Aortic Aneurysms. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  2. Chen n (2020) Facing the resurgence of rotavirus: Development of novel antiviral agents. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  3. Eenjes E (2020) Airway progenitor cell development and function : mimicking in vivo behavior in vitro. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  4. Kenswil K (2020) Niche Contributions to Bone Marrow (Re)generation. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  5. Legerstee K (2020) Multimodal Microscopy of Focal Adhesions. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  6. Li L (2020) Mitochondria, Inflammation and Stem Cells in Gastrointestinal and Hepatic Disease. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  7. Liu H (2020) Potential Determinants in Malignancy Growth, Angiogenesis and Metastasis. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  8. Meijer T (2020) Functional Tissue-based Therapy Response Prediction for Breast Cancer Patients. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  9. Ribeiro da Silva C (2020) Nucleotide Excision Repair Through the Looking Glass. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  10. Sierra Parraga J (2020) Mesenchymal Stromal Cells for Kidney Repair. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  11. Sonzogni M (2020) Temporal and Spatial Requirements of UBE3A in Angelman Syndrome Pathophysiology. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  12. Sousa Faria A (2020) The Crossroad of Phosphatase and Kinase Signaling in Cancer. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  13. Türkyilmaz Y (2020) A quest to reveal novel players in nucleotide excision repair: From proteomics to mechanistic insights. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  14. Verhoef E (2020) Prostate cancer in a new dimension. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).
  15. Zhang W (2020) Prostate Cancer and the DNA Damage Response: Models and Mechanisms. Doctoral Thesis (Erasmus Universiteit Rotterdam (EUR)).

2019

  1. Baar M (2019) DNA Damage Induced Cell Fates during Aging. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  2. Chrifi I (2019) Identification of Novel Molecular Pathways Involved in Angiogenesis. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  3. Enguita-Marruedo A (2019) Dynamics of Mouse and Human Gametogenesis : From microscopic analyses using immunohistochemical techniques to live cell imaging. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  4. Kenter A (2019) The Molecular Mechanisms of Polycystic Kidney Disease. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  5. Kuil L (2019) Genetics of Tissue Macrophage Development and Function : From zebrafish to human disease. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  6. Lu T (2019) Understanding and improving thermosensitive smart drug delivery systems. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  7. Ping Z (2019) The Hematopoietic Stem Cell Niche in Leukemia Predisposition. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  8. Riemslagh F (2019) Molecular Mechanisms of C9ORF72-linked Frontotemporal Dementia and Amyotrophic Lateral Sclerosis. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  9. Sabatella M (2019) When a cut makes the difference : DNA damage incision from human cells to C. elegans. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  10. Stedehouder J (2019) On the Myelination of GABAergic Interneurons. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  11. Steurer B (2019) DNA damage-induced transcription stress : a focus on RNA polymerase II. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  12. Wienholz F (2019) Focusing on the Versatile Transcription-Coupled DNA Repair Pathway. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  13. Wu B (2019) The neural basis of motor control and learning in the vestibulocerebellar system. Ph.D. thesis Thesis, Erasmus University Rotterdam.

2018

  1. Cao W (2018) Dynamics of Stem Cells in Liver Homeostasis, Injury and Carcinogenesis. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  2. Eelkman Rooda O (2018) Cerebellar Impact on Thalamocortical Networks in Epilepsy. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  3. Farshadi E (2018) The Circadian Clock-Cell Cycle Connection and its Implication for Cancer. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  4. Gornati S (2018) Cerebello-Thalamic Connection: a study of development, physiology and anatomy. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  5. Hoppenbrouwers T (2018) Trapped in the Matrix: Neutrophil Extracellular Traps (NETs) and Fibrin in Wound Healing. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  6. Kool H (2018) The Cellular Origin of Congenital Diaphragmatic Hernia and Potential Translational Approaches. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  7. Mandemaker I (2018) Unraveling the Chromatin in the DNA Damage Response. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  8. Oosterhof N (2018) Microglia in Health and Disease : Learning from the zebrafish. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  9. Schewe M (2018) Paneth Cells: tales of a gutsy cell. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  10. Sierksma M (2018) Neural Activity During The Formation Of A Giant Auditory Synapse. Ph.D. thesis Thesis, Erasmus University Rotterdam.
  11. van den Bosch T (2018) Monocytes and Macrophages in Solid Organ Transplantation. Ph.D. thesis Thesis, Erasmus University Rotterdam.

2017 

  1. Chen, S. (2017). The Mesenchymal Niche in Leukemia Predisposition Syndromes Ph.D. thesis, Erasmus University Rotterdam. 
  2. de Rooij, B. (2017). The Tumor Microenvironment as Therapeutic Target in Pediatric Acute Leukemia Ph.D. thesis, Erasmus University Rotterdam. 
  3. Guenoun, J. (2017). MRI-based stem cell imaging using Gd-nanocarriers Ph.D. thesis, Erasmus University Rotterdam. 
  4. Ikpa, P. (2017). Cystic fibrosis defects in intestinal bile acid and guanylin signaling Ph.D. thesis, Erasmus University Rotterdam. 
  5. Kauts, M.-L. (2017). Gata2 in Hematopoietic Cell Generation Ph.D. thesis, Erasmus University Rotterdam. 
  6. Magaraki, A. (2017). Epigenetic regulation in rodent primordial germ cells and preimplantation embryos Ph.D. thesis, Erasmus University Rotterdam. 
  7. Paul, M. (2017). Nanoscopic Analysis of DNA Double Strand Break Repair Foci Ph.D. thesis, Erasmus University Rotterdam. 
  8. Polak, R. (2017). Molecular Drivers of Pediatric Acute Lymphoblastic Leukemia : Toward targeted therapy for children with ALL Ph.D. thesis, Erasmus University Rotterdam. 
  9. Signorile, L. (2017). Linking Cellular and In Vitro Microtubule Behavior: Reconstitution Assays to the Rescue Ph.D. thesis, Erasmus University Rotterdam. 
  10. Stolarczyk, M. (2017). Studies on Airway Inflammation and Remodeling in Chronic Lung Disease Ph.D. thesis, Erasmus University Rotterdam. 
  11. van den Tempel, N. (2017). Hyperthermia-induced degradation of BRCA2 : from bedside to bench and back again Ph.D. thesis, Erasmus University Rotterdam. 
  12. van der Aa, E. (2017). BDCA3+ Dendritic Cells and Their Function in Chronic Hepatitis B Virus Infection Ph.D. thesis, Erasmus University Rotterdam. 
  13. van Rooij, T. (2017). Ultrasound Contrast Agents for Imaging and Therapy Ph.D. thesis, Erasmus University Rotterdam. 
  14. Vroman, H. (2017). Heterogeneity in Asthma : Implications for Dendritic Cell Activation? Ph.D. thesis, Erasmus University Rotterdam. 
  15. Xu, L. (2017). Interferon-stimulated Genes and Their Role in Controlling Hepatitis E Virus Ph.D. thesis, Erasmus University Rotterdam. 
  16. Yin, Y. (2017). Modeling infection and antiviral therapy of enteric viruses using primary intestinal organoids Ph.D. thesis, Erasmus University Rotterdam. 
  17. Zeidler, S. (2017). Fragile X Syndrome : the quest for targeted treatment Ph.D. thesis, Erasmus University Rotterdam. 
  18. Zhu, C. (2017). On the immune regulation of glioma angiogenesis Ph.D. thesis, Erasmus University Rotterdam. 

2016 

  1. Bax, H. I. (2016). Improving Treatment of Mycobacterial Infections Ph.D. thesis, Erasmus University Rotterdam. 
  2. Bolkestein, M. (2016). Novel Antibody-Targeted Liposomes for the Treatment of Solid Tumors Ph.D. thesis, Erasmus University Rotterdam. 
  3. Buijsen, R. (2016). Fragile X-associated Tremor/Ataxia Syndrome: RNA or RAN? Ph.D. thesis, Erasmus University Rotterdam. 
  4. Chen, K. (2016). Challenges in cancer therapy: molecular targets, signaling pathways and personalization? Ph.D. thesis, Erasmus University Rotterdam. 
  5. Federici, F. (2016). Life Cycle of the X Chromosome Ph.D. thesis, Erasmus University Rotterdam. 
  6. Halim, D. (2016). Congenital Diseases of the Intestine Ph.D. thesis, Erasmus University Rotterdam. 
  7. Hosseini, B. (2016). Neuronal Adaptations during Amygdala-Dependent Learning and Memory Ph.D. thesis, Erasmus University Rotterdam. 
  8. Maduro, C. (2016). Activation of X Chromosome Inactivation Ph.D. thesis, Erasmus University Rotterdam. 
  9. Morhayim, J. (2016). Extracellular Vesicles within the Bone Marrow Niche : A novel way of communication between osteoblasts and hematopoietic progenitor cells Ph.D. thesis, Erasmus University Rotterdam. 
  10. Onstenk, W. (2016). Turning over a New Leaf : precision medicine in oncology guided by circulating tumor cell counts and characteristics Ph.D. thesis, Erasmus University Rotterdam. 
  11. Skachkov, I. (2016). Microbubbles for Molecular Imaging and Drug Delivery Ph.D. thesis, Erasmus University Rotterdam. 
  12. Wang, Y. (2016). Development of Antiviral Therapy against Hepatitis E Virus Infection : on the Basis of Host Factors Ph.D. thesis, Erasmus University Rotterdam. 
  13. Zambetti, N. (2016). Deconstructing Niche Contributions to Leukemogenesis: Modeling Shwachman-Diamond Syndrome Ph.D. thesis, Erasmus University Rotterdam. 
  14. Zhou, X. (2016). Hepatitis E Virus Infection : Pathogenesis and Therapy Ph.D. thesis, Erasmus University Rotterdam. 

2015 

  1. Bommeljé, C. (2015). The Human SCCRO Gene Family: Characterization of its molecular function and role in carcinogenesis Ph.D. thesis, Erasmus University Rotterdam. 
  2. Dicheva, B. (2015). Targeted Thermosensitive Liposomes and Mild Hyperthermia for Local Drug Delivery to Tumors Ph.D. thesis, Erasmus University Rotterdam. 
  3. Gutierrez-Castellanos, N. (2015). Memory Formation and Suppression through AMPA Receptor Dependent Synaptic Plasticity Ph.D. thesis, Erasmus University Rotterdam. 
  4. Hoekstra, E. (2015). Phosphatases in Cancer Ph.D. thesis, Erasmus University Rotterdam. 
  5. Koopmans, A. (2015). Prognostic Implications of Acquired Genetic Changes in Uveal Melanoma Ph.D. thesis. 
  6. Loos, F. (2015). Dynamics of X Chromosome Inactivation Ph.D. thesis, Erasmus University Rotterdam. 
  7. Mooppilmadham Das, A. (2015). Angiogenic and Metastatic Determinants of Malignant Melanoma Ph.D. thesis, Erasmus University Rotterdam. 
  8. Pas, S. (2015). Hepatitis E in the Immune-Compromised Patient Ph.D. thesis, Erasmus University Rotterdam. 
  9. Rother, M. (2015). Formation of the Immunoglobulin Repertoire in Precursor-B-cell Development Ph.D. thesis, Erasmus University Rotterdam. 
  10. Siebelt, M. (2015). Osteoarthritis: pathogenesis and therapeutic interventions for a whole joint disease Ph.D. thesis, Erasmus University Rotterdam. 
  11. Tüysüz, N. (2015). Effects of Wnt Signaling Proteins on Maintenance and Expansion of Adult Stem Cells Ph.D. thesis. 
  12. van Belle, G. (2015). Differential pathway control in nucleotide excision repair Ph.D. thesis, Erasmus University Rotterdam. 
  13. van Cuijk, L. (2015). Ubiquitin-Mediated Regulation of Damage Recognition in Nucleotide Excision Repair Ph.D. thesis, Erasmus University Rotterdam. 
  14. van de Werken, C. (2015). Epigenetics and chromosome segregation in human pre-implantation embryos Ph.D. thesis, Erasmus University Rotterdam. 
  15. van den Heuvel, A. (2015). Transcriptional Control During Hematopoietic Development Ph.D. thesis, Erasmus University Rotterdam. 
  16. van Oppenraaij, R. H. F. (2015). Early Pregnancy Development and Obstetric Outcome Ph.D. thesis, Erasmus University Rotterdam. 
  17. van Soest, R. J. (2015). Taxanes and Novel Androgen Receptor Targeted Agents in the Management of Metastatic Castration-Resistant Prostate Cancer Ph.D. thesis, Erasmus University Rotterdam. 
  18. Wang, T. (2015). In Vivo Synaptic Transmission in Mouse Models for Neurological Disorders Ph.D. thesis. 

2014 

  1. Aydin, Ö. (2014). Chromatin remodeling in the UV-induced DNA damage response Ph.D. thesis, Erasmus University Rotterdam. 
  2. Carofiglio, F. (2014). Zooming-in on Chromosomes in Mouse Meiosis : DNA double-strand break repair proteins and meiotic chromosome dynamics Ph.D. thesis, Erasmus University Rotterdam. 
  3. Kokhuis, T. (2014). StemBells: A novel stem cell delivery platform using microbubbles and ultrasound Ph.D. thesis, Erasmus University Rotterdam. 
  4. Middelburg, T. (2014). Photodynamic Therapy of Skin using Porphyrin Precursors: Optical Monitoring, Vascular Effects and Personalized Medicine Ph.D. thesis, Erasmus University Rotterdam. 
  5. Pedrosa, L. R. C. (2014). Liposomal Nanomedicine with Short Chain Sphingolipids Modulate Tumor Cell Membrane Permeability Modulate Tumor Cell Membrane Permeability and Improve Chemotherapy Ph.D. thesis, Erasmus University Rotterdam. 
  6. Schwertman, P. (2014). Ubiquitination in the UV-induced DNA Damage Response: from proteomics to patient Ph.D. thesis, Erasmus University Rotterdam. 
  7. Shang, P. (2014). Testis-specific Protein Kinases TSSK1 and TSSK2 in Mouse Spermiogenesis Ph.D. thesis, Erasmus University Rotterdam. 
  8. Theil, A. (2014). Functional Analysis of TTDA: From Human to Mouse: Big impact of a small protein Ph.D. thesis, Erasmus University Rotterdam. 
  9. Zhou, H. (2014). Differential Simple Spike Activity in Alert Mice Ph.D. thesis, Erasmus University Rotterdam. 

2013 

  1. Bazzigaluppi, P. (2013). The Inferior Olive: coupling, oscillations and bursting activity Ph.D. thesis, Erasmus University Rotterdam. 
  2. Deuring, J. (2013). The role of intestinal epithelium in inflammatory bowel disease and inflammation related intestinal cancer Ph.D. thesis, Erasmus University Rotterdam. 
  3. Kaimakis, P. (2013). Gata2 in Embryonic Hematopoiesis Ph.D. thesis, Erasmus University Rotterdam. 
  4. Li, L. (2013). Mild Hyperthermia and Thermosensitive Liposomes for Chemotherapy Ph.D. thesis, Erasmus University Rotterdam. 
  5. Pop, A. (2013). Fragile X Syndrome: Steps towards Therapy Ph.D. thesis, Erasmus University Rotterdam. 
  6. Soochit, W. (2013). Fingers in action! Chromatin Organization and Transcriptional Regulation by CTCF and CTCFL Ph.D. thesis, Erasmus University Rotterdam. 
  7. Yu, X. (2013). Formation of transcription factor complexes during embryonic erythroid development Ph.D. thesis, Erasmus University Rotterdam. 
  8. Zuin, J. (2013). Keep in touch: The role of cohesin and CTCF in organizing the human genome Ph.D. thesis.