Part I: Evaluation of Genomic Alteration

1. Ovarian Cancer Genome

Evgeny N. Imyanitov

2. Identifying Associations Between Genomic Alterations in Tumours

Joshy George, Kylie L Gorringe, Gordon K. Smyth, and David DL Bowtell

3. Analysis of Genome-wide DNA Methylation Profiles by BeadChip Technology

Qiong Lin, Wolfgang Wagner, and Martin Zenke

4. Integrative Prediction of Gene Function and Platinum Free Survival from Genomic and Epigenetic Features in Ovarian Cancer

Kazimierz O. Wrzeszczynski, Vinay Varadan, Sitharthan Kamalakaran, Douglas A. Levine, Nevenka Dimitrova, and Robert Lucito

5. Survival Prediction Based on Inherited Gene Variation Analysis

Mine S. Cicek, Matthew J. Maurer, and Ellen L. Goode

Part II: Targeted Analysis of DNA Methylation

6. Main Principles and Outcomes of DNA Methylation Analysis

Susan K. Murphy, Christopher F. Bassil, and Zhiqing Huang

7. Methylation-specific PCR

Zhiqing Huang, Christopher F. Bassil, and Susan K. Murphy

8. Bisulfite Sequencing of Cloned Alleles

Zhiqing Huang, Christopher F. Bassil, and Susan K. Murphy

9. Bisulfite Pyrosequencing

Christopher F. Bassil, Zhiqing Huang, and Susan K. Murphy

Part III: Gene/Genome Expression Assessing

10. RNA Networks in Ovarian Cancer

Anastasia Malek

11. Microarray-based Transcriptome Profiling of Ovarian Cancer Cells

Juan Cui, Ying Xu and David Puett

12. Deep Transcriptome Profiling of Ovarian Cancer Cells using Next Generation Sequencing Approach

Lisha Li, Jie Liu, Wei Yu, Xiaoyan Lou, Bingding Huang, and Biaoyang Lin

13. Assessment of mRNA Splice Variants by qRT-PCR

Ileabett M. Echevarria Vargas and Pablo E. Vivas-Mejía

14. Micro-RNA Profiling in Ovarian Cancer

Marilena V. Iorio and Carlo M. Croce

15. Detailed Analysis of Promoter-associated RNA

Sara Napoli

16. Integrating Multiple Types of Data to Identify MicroRNA-gene Co-modules

Shihua Zhang

Part IV: Cellular Structure and Metabolism Analysis

17. Energy Metabolism and Changes in Cellular Composition in Ovarian Cancer

Anastasia Malek

18. Metabolomic Profiling of Ovarian Carcinomas using Mass Spectrometry

Miranda Y. Fong, Jonathan McDunn, and Sham S. Kakar

19. Choline Metabolic Profiling by Magnetic Resonance Spectroscopy

Egidio Iorio, Alessandro Ricci, Maria Elena Pisanu, Marina Bagnoli, Franca Podo, and Silvana Canevari

20. Proteomic Profiling of Ovarian Cancer Models using TMT-LC-MS/MS

John Sinclair and John F. Timms

21. Characterization of Signalling Pathways by Reverse Phase Protein Arrays

Katharina Malinowsky, Claudia Wolff, Christina Schot, t and Karl-Friedrich Becker

22. N-Glycosylation Analysis by HPAEC-PAD and Mass Spectrometry

Sebastian Kandzia and Júlia Costa

Part V: In Vitro Assays in Ovarian Cancer Research

23. In vivo and in vitro Properties of Ovarian Cancer Cells

Anastasia Malek

24. Establishement of Primary Cultures from Ovarian Tumour Tissue and Ascites Fluid

Brigitte L. Thériault, Lise Portelance, Anne-Marie Mes-Masson, and Mark W. Nachtigal

25. Ovarian Cancer Stem Cells Enrichment

Lijuan Yang and Dongmei Lai

26. Assessment of Resistance to Anoikis in Ovarian Cancer

Xiaoping He, Jeremy Chien, and Viji Shridhar

27. Analysis of EMT by Flow Cytometry and Immunohistochemistry

Robert Strauss, Jiri Bartek, and André Lieber

Part IV: Models of Ovarian Carcinogenesis

28. Challenges in Experimental Modeling of Ovarian Cancerogenesis

Jim