1. Loyola Marymount University
Exploring Comprehensive Gene Expression Analysis of Prostate Cancer Reveals Distinct Transcriptional Programs Associated With Metastatic Disease Through GenMAPP & MappFinder LaTulippe Eva, Satagopan Jaya, Smith Alex, Scher Howard, Scardino Peter, Reuter Victor, and William G. Cancer Research 2002 Aug 1; 62,
Kevin Paiz-Ramirez
Janelle N. Ruiz
Biology
Department of Biology
Loyola Marymount University
April 21, 2010

2. Outline

3. Previous Studies Explored Function of Unknown Genes May Identify Potential Therapeutic Targets
La Tullippe et at. used high-throughput gene expression analysis to study prostate cancer metastasis
Differentially expressed genes between metastatic and primary tumors were found in:
Cell Cycle Regulation
Mitosis
Signaling
DNA Replication
Metastatic tumors had higher proliferation index than primary tumors.
Took out resutls slide (can discuss with figures – this info not so relevant to presentation of reuslts)
Expression of genes corresponding to 5992 probe sets were reliably detected in all 23 primary prostate carcinomas
22665 did not detect expression in any of the samples
9 of 23 primary sample patients experienced a recurrence.
132 were over-expressed in primary tumors and 360 in metastasis 3

4. Genome Wide Expression Analysis of Primary and Metastatic Prostate Cancers
Tissues samples were taken from:
3 Non cancerous Patients
23 Primary Prostate Cancer Patients
9 Metastatic Prostate cancer Patients
Collected as biopsies from
Genes were considered to be differentially expressed if they differed by 3 fold between two groups

5. Running GenMAPP & MAPPfinder
The Log2 of the ratio of the means was calculated:
H vs PG fold
Met vs PG Fold
H vs Met Fold
AI vs PG Fold
Number of errors 1793/11977
Z score > 2
PermuteP <0.05
Number of genes not found in the database, ids based off of affymetric genes, control genes on the chips, not human genes.
A range of greater than or less that where we chose. The low and high for the comparisons.

6. Increased & Decreased Results of H vs. PG Fold
Cut off header and split to two slides
Decrease
Increase

7. Increased and Decreased Results of H vs.PG Fold
Decreases centered on:
Nucleosome activity
Chromatin activity
Chromosomal activity
DNA packaging
Increases centered on:
Activation of MAPK activity
Leukocyte chemotaxis
Metanephros development
Immune response

8. Increased & Decreased Results of Met vs. PG Fold

9. Increased and Decreased Results of Met vs.PG Fold
Increases centered on:
Mitosis
Spindle organization
Chromosome segregation
DNA replication
Decreases centered on:
Muscle contraction
Chromatin remodeling complex
Oxidoreductase activity