# Presentation: 186322

## caBIG Pathology and Tissue Banks Workspace – Adopter Site

** ****Bernard F. Cole, Ph.D.**
** ****Linda Titus-Ernstoff, Ph.D.**

## Cancer Center Overview

** ****Comprehensive cancer center**
** ****Over 130 investigators**
** ****6 research programs; 14 shared resources**
** ****Enhanced leadership structure**
** ****Enhanced translational research focus**
** ****Strong commitment to support collaborative research**

## Cancer Center Research Organization

- Office of the Director
**Mark A. Israel, MD                       *****Director***
**Burton L. Eisenberg, MD                  *****Deputy Director***

- Administration
**Ralph Czachowski                   *****Director, Financial Svcs. ***
**Sarah Meyers                                                 *****Director,  Admin.Svcs******.***

***Associate Director***
***Population Sci.***
**A Dietrich, MD**

***Associate Director***
***Basic Sciences***
**Nancy Speck, PhD**

***Chair, Clinical Cancer Care Committee              *****Richard Barth, MD**

- Research Programs
**Cancer Control****                      **
**Cancer**** ****Epidemiology & Chemoprevention****                      **
**Cancer Mechanisms****                  **
**Immunology & Cancer Immunotherapy****                            **
**Molecular Therapeutics****                                            **
**Radiobiology & Bioengineering**

**Susan Reeves                                     *****Vice President, DHMC***

***Associate Director for Shared Resources ***
**Alan Eastman, PhD**

- Shared Resources
**Behavioral Science**
**Biostatistics**
**Bioinformatics**
**Molecular & Clinical Pharmacology**
**Clinical Research Office**
**Flow Cytometry/Fluorescence Imaging**
**Glassware Washing**
**Hybridoma/MoAb Production**
**Immune Monitoring**
**Irradiation**
**Microarray**
** ****Molecular Biology Laboratory**
**Research Pathology Services**
**Transgenic Mouse Facility **

- Clinical Oncology Groups
**Breast**
**Endocrine**
**Gastrointestinal**
**Genitourinary/Prostate**
**Gynecologic**
**Head and Neck**
**Lymphoma/Leukemia**
**Melanoma**
**NeuroOncology**
**Pediatric**
**Thoracic/Lung**

## Data Examples for the Workspace

** ****Gene expression of NRK enzymes that control sensitivity to chemotherapy (tiazofurin).**
** ****Quantification of immunohistochemical staining of multiple antigens in breast cancer cases, including morphometric measures (vessel density, vessel area, vessel orientation, epithelium to stoma ratio and tissue type interfaces) and electromagnetic properties of the breast tissue.  **
** ****Study of fMRI and brain morphometry to identify the neural substrates of cognitive effects of chemotherapy in breast cancer.**

**Data Examples for the Workspace**

## Examples of Informatics Tools

** ****Image analysis and image registration across modalities.**
** ****Image segmentation to decompose an image set into different tissue types (normal/lesion).**
** ****Quantifying specific brain structures, such as volume and shape. **
** ****Moving more advanced analysis tools to a modular format amenable to pipeline processing. **

**Examples of Informatics Tools**

## Examples of Informatics Tools

** ****Polygenic analysis to evaluate multiple alleles in relation to cognition, neural structure and function.**
** ****Enhanced pharmacogenomic analysis to evaluate correlations between gene expression profiles and drug sensitivity in higher-dimensional settings. **
** ****Simulation tools to understand the interplay between metabolic pathways, gene expression,   drug levels and the levels of metabolites.**

**Examples of Informatics Tools**

## Examples of Informatics Tools

** ****Automated, motorized microscope stage to enable random measures on multiple tissue sections.**
** ****Automated image archiving.**
** ****Quantitative analysis of immunohistochemistry and in-situ hybridization.**
** ****Tissue microarray analysis..**

**Examples of Informatics Tools**

## Resources

** ****Biostatistics Shared Resource**
**	****5 Faculty statisticians**
**	****2 Masters level statisticians**
**	****1 Senior scientific programmer**
**Provides wide range of statistical service including design and analysis services, scientific programming related to statistical data analysis.**
**http://www.cancer.dartmouth.edu/shared/biostatistics.shtml**

**Resources**

## Resources

** ****Bioinformatics Shared Resource**
**	****2 Faculty consultants**
**	****1 Masters level consultant**
**Supports extensive set of software applications for the analysis of organism-scale datasets in the areas of DNA sequence (genome), gene expression (transcriptome), protein expression (proteome), protein structural analysis (emphasis on NMR and crystallographic techniques), and small molecules (metabolome). **
**http://www.cancer.dartmouth.edu/shared/bioinformatics.shtml**

**Resources**

## Resources

** ****Research Pathology Services Shared Resource**
**	****4 Faculty medical directors**
**	****7 Support Staff**
**Coordinates procurement, preservation and distribution of tissues and cells for basic and clinical research. Performs histologic and immunohistologic procedures, provides a cell processing lab for the isolation/purification, manipulation, expansion and/or storage of cells derived from peripheral blood and intended for reinfusion.**
**http://researchpath.hitchcock.org**

**Resources**

## Resources

** ****BioInformatics (research programming)**
**	****1 Faculty director**
**	****9 Programmers/Project Directors**
**	****1 Technical Writer**
**	****3 Support Staff**
**Computer programming, systems design, data management and technical support. Project planning, to design, to coding and implementation, to maintenance and support.  Areas of focus are Cancer Registries (research), Clinical Trials and Prevention Studies and Genomics and Proteomics Bioinformatics.**
**http://bioinformatics.dartmouth.edu**

**Resources**