Laser Captur e Microdissectio n

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1 Laser Captur e Microdissectio n Methods and Protocols Graeme I. Murray Stephanie Curran

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3 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 Multiplex Quantitative Real-Time PC R of Laser Microdissected Tissu e Patrick H. Rooney Comparative Genomic Hybridization Using DN A From Laser Capture Microdissected Tissu e Grace Callagy, Lucy Jackson, and Carlos Caldas Detection of Ki-ras and 1353 Mutation s by Laser Capture Microdissection/PCR/SSC P Deborah Dillon, Karl Zheng, Brina Negin, and Jose Costa Whole-Genome Allelotyping Using Laser Microdissected Tissu e Colleen M. Feltmate and Samuel C. Mok 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 Laser Microdissection for Microsatellite Analysi s in Colon and Breast Cance r Peter J. Wild, Robert Stoehr, Ruth Knuechel, Arndt Hartmann, and Wolfgang Dietmaier Assessment of RET/PTC Oncogene Activation in Thyroid Nodule s Utilizing Laser Microdissection Followed by Nested RT-PC R Giovanni Tallini and Guilherme Brandao 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

4 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 Laser-Assisted Microdissection of Membrane-Mounted Section s Following Immunohistochemistry and In Situ Hybridizatio n Lise Mette Gjerdrum and Stephen Hamilton-Dutoit Laser-Assisted Cell Microdissection Using the PALM Syste m Patrick Micke, Arne Östman, Joakim Lundeberg, and Fredrik Ponten Laser Microdissection and RNA Analysi s Ludger Fink and Rainer Maria Bohle 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 Quantification of Gene Expression in Mous e and Human Renal Proximal Tubule s Jun-ya Kaimori, Masaru Takenaka, and Kousaku Okubo Laser Capture Microdissection for Analysis of Macrophag e Gene Expression From Atherosclerotic Lesion s Eugene Trogan and Edward A. Fisher 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 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

5 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 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 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