Laser Captur e Microdissectio n Methods and Protocols Graeme I. Murray Stephanie Curran
Preface Contributors v x i PART I. INTRODUCTIO N 1. An Introduction to Laser-Based Tissue Microdissection Technique s Stephanie Curran and Graeme I. Murray 3 PART II. MICRODISSECTION AND DNA ANALYSI S 2. Methacarn Fixation for Genomic DNA Analysi s in Microdissected Cell s Makoto Shibutani and Chikako Uneyama 1 1 3. Multiplex Quantitative Real-Time PC R of Laser Microdissected Tissu e Patrick H. Rooney 27 4. Comparative Genomic Hybridization Using DN A From Laser Capture Microdissected Tissu e Grace Callagy, Lucy Jackson, and Carlos Caldas 3 9 5. Detection of Ki-ras and 1353 Mutation s by Laser Capture Microdissection/PCR/SSC P Deborah Dillon, Karl Zheng, Brina Negin, and Jose Costa 57 6. Whole-Genome Allelotyping Using Laser Microdissected Tissu e Colleen M. Feltmate and Samuel C. Mok 69 7. Microdissection for Detecting Genetic Aberration s in Early and Advanced Human Urinary Bladder Cance r Arndt Hartmann, Robert Stoehr, Peter J. Wild, Wolfgang Dietmaier, and Ruth Knuechel 79 8. Laser Microdissection for Microsatellite Analysi s in Colon and Breast Cance r Peter J. Wild, Robert Stoehr, Ruth Knuechel, Arndt Hartmann, and Wolfgang Dietmaier 93 9. Assessment of RET/PTC Oncogene Activation in Thyroid Nodule s Utilizing Laser Microdissection Followed by Nested RT-PC R Giovanni Tallini and Guilherme Brandao 103 10. Combined Laser-Assisted Microdissection and Shor t Tandem Repeat Analysis for Detection of In Sit u Microchimerism After Solid Organ Transplantatio n Ulrich Lehmann, Anne Versmold, and Hans Kreipe 113
PART III. RNA AND GENE EXPRESSION STUDIE S USING MICRODISSECTED CELL S 11. Laser-Assisted Microdissection of Membrane-Mounte d Tissue Section s Lise Mette Gjerdrum and Stephen Hamilton-Dutoit 12 7 12. Laser-Assisted Microdissection of Membrane-Mounted Section s Following Immunohistochemistry and In Situ Hybridizatio n Lise Mette Gjerdrum and Stephen Hamilton-Dutoit 13 9 13. Laser-Assisted Cell Microdissection Using the PALM Syste m Patrick Micke, Arne Östman, Joakim Lundeberg, and Fredrik Ponten 15 1 14. Laser Microdissection and RNA Analysi s Ludger Fink and Rainer Maria Bohle 167 15. Gene Expression Profiling of Primary Tumor Cell Population s Using Laser Capture Microdissection, RNA Transcrip t Amplification, and GeneChip Microarray s Veronica I. Luzzi, Victoria Holtschlag, and Mark A. Watson 187 16. Quantification of Gene Expression in Mous e and Human Renal Proximal Tubule s Jun-ya Kaimori, Masaru Takenaka, and Kousaku Okubo 20 9 17. Laser Capture Microdissection for Analysis of Macrophag e Gene Expression From Atherosclerotic Lesion s Eugene Trogan and Edward A. Fisher 22 1 18. Analysis of Pituitary Cells by Laser Capture Microdissectio n Ricardo V. Lloyd, Xiang Qian, Long fin, Katharina Ruebel, Jill Bayliss, Shuya Zhang, and Ikuo Kobayaski 23 3 PART IV. MICRODISSECTION TECHNIQUE S AND APPLICATIONS IN PROTEOMIC S 19. Laser Capture Microdissection and Colorectal Cancer Proteomic s Laura C. Lawrie and Stephanie Curran 24 5 20. Proteomic Analysis of Human Bladder Tissu e Using SELD I Approach Following Microdissection Technique s Rene C. Krieg, Nadine T. Gaisa, Cloud P. Paweletz, and Ruth Knuechel 25 5 PART V. MICRODISSECTION AND MOLECULAR ANALYSI S OF MICROORGANISM S 21. Genetic Analysis of HIV by In Situ PCR-Directe d Laser Capture Microscopy of Infected Cell s Daniele Marras 271
22. Use of Laser Capture Microdissection Togethe r With In Situ Hybridization and Real-Time PC R to Study the Distribution of Latent Herpes Simple x Virus Genomes in Mouse Trigeminal Ganglio n Xiao-Ping Chen, Marina Mata, and David J. Fink 285 23. Laser Capture Microdissection and PC R for Analysis of Human Papilloma Virus Infectio n Kheng Chew, Patrick H. Rooney, Margaret E. Cruickshank, and Graeme I. Murray 295 24. Laser Capture Microdissection of Hepatic Stages of the Huma n Parasite Plasmodium falciparum for Molecular Analysi s Jean-Philippe Semblat, Olivier Silvie, Jean-Francois Franetich, and Dominique Mazier 30 1 Index 309