sssc retreat.bioinfo resources.20110411
DESCRIPTION
Ten minute talk to the Staff Scientist and Staff Clinicians from NCI regarding bioinformatics resources.TRANSCRIPT
![Page 1: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/1.jpg)
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
![Page 2: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/2.jpg)
Normal Karyotype
Tumor Karyotype
![Page 3: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/3.jpg)
The Central Dogma
![Page 4: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/4.jpg)
phenotype
Gene Copy Number
Sequence Variation
Chromatin Structure
and Function
Gene Expression
Transcriptional Regulation
DNA Methylation
Patient and Population
Characteristics
![Page 5: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/5.jpg)
Overview
Hardware
Software
Online databases
Training and Education
Getting Answers
![Page 6: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/6.jpg)
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
![Page 7: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/7.jpg)
Software
Commercial
Open Source
![Page 8: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/8.jpg)
Software
![Page 9: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/9.jpg)
Software
Bioconductor
Bio-[Python, Java, Ruby, Perl]
BRB ArrayTools
GenePattern
And the list goes on….
![Page 10: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/10.jpg)
Software
![Page 11: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/11.jpg)
Online Databases
![Page 12: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/12.jpg)
Online Databases
![Page 13: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/13.jpg)
Training and Education
CIT/Helix training http://training.cit.nih.gov
NIH Library http://nihlibrary.nih.gov/ResearchTools/Pages/
Bioinformatics.aspx
Cold Spring Harbor, AACR, OpenHelix, BioConductor, ….
![Page 14: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/14.jpg)
Getting Answers
http://seqanswers.com/
http://biostar.stackexchange.com/
http://bioinformatics.nci.nih.gov/
CCR Bioinformatics Core http://ccrifx.cancer.gov/
![Page 15: Sssc retreat.bioinfo resources.20110411](https://reader035.vdocument.in/reader035/viewer/2022062320/5591b1fa1a28ab2d518b47bd/html5/thumbnails/15.jpg)
Contact and Acknowledgements