Sean Davis, M.D., Ph.D.Genetics Branch, Center for Cancer Research

National Cancer InstituteNational Institutes of Health

Bioinformatics ResourcesAn Incomplete List

April 11, 2011, SS/SC Retreat

Normal Karyotype

Tumor Karyotype

The Central Dogma

phenotype

Gene Copy Number

Sequence Variation

Chromatin Structure

and Function

Gene Expression

Transcriptional Regulation

DNA Methylation

Patient and Population

Characteristics

Overview

Hardware

Software

Online databases

Training and Education

Getting Answers

Hardware

Computers Current desktops quite capable High-performance resources

Helix/Biowulf (CIT) Advanced Biomedical Computing Center (ABCC) Amazon EC2

Storage Local storage Helix/Biowulf NCI group drives

Software

Commercial

Open Source

Software

Software

Bioconductor

Bio-[Python, Java, Ruby, Perl]

BRB ArrayTools

GenePattern

And the list goes on….

Software

Online Databases

Online Databases

Training and Education

Google

CIT/Helix training http://training.cit.nih.gov

NIH Library http://nihlibrary.nih.gov/ResearchTools/Pages/

Bioinformatics.aspx

Cold Spring Harbor, AACR, OpenHelix, BioConductor, ….

Getting Answers

Google

http://seqanswers.com/

http://biostar.stackexchange.com/

http://bioinformatics.nci.nih.gov/

CCR Bioinformatics Core http://ccrifx.cancer.gov/

Contact and Acknowledgements