Presentation is loading. Please wait.

Presentation is loading. Please wait.

cloud-based platform: application for genomic epidemiology studies Rodrigo Jardim & Alberto M. R. Dávila (Computational and Systems Biology.

Published byElinor McLaughlin Modified over 8 years ago

Similar presentations

Presentation on theme: "cloud-based platform: application for genomic epidemiology studies Rodrigo Jardim & Alberto M. R. Dávila (Computational and Systems Biology."— Presentation transcript:

1 Stingray@Galaxy cloud-based platform: application for genomic epidemiology studies Rodrigo Jardim & Alberto M. R. Dávila (Computational and Systems Biology Lab, IOC, Fiocruz)

2 Stingray (original) workflow Genome visualization tool Cloud platform: OpenNebula, Debian image

3 “Human + Microbial DNA” Clinical Sample 1 Clinical Sample 2 Clinical Sample 3 Clinical Sample 4 Clinical Sample 5 Clinical Sample 6 Clinical Sample 7 Clinical Sample 8 … Genomic epidemiology for improved surveillance studies Potential new strains/variants detection Improved health system DNA Extraction DNA Extraction Human DNA Removal Human DNA Removal Metagenomic sequecing Metagenomic sequecing 600 Gb or 1 Tb 600 Gb or 1 Tb Stingray@Galaxy (http://galaxy.biowebdb.org)

4 http://www.globalmicrobialidentifier.org http://upload.wikimedia.org/wikipedia/commons/5/50/EARSS_MRSA_2008-en.svg

Download ppt "cloud-based platform: application for genomic epidemiology studies Rodrigo Jardim & Alberto M. R. Dávila (Computational and Systems Biology."

Similar presentations

Next-Generation Sequencing: Methodology and Application

Next-Generation Sequencing: Methodology and Application
What Is Genomics? Genomics is the study of how the entire genome of a species functions as a unit and evolves over time. It is the study of life’s blueprint,

What Is Genomics? Genomics is the study of how the entire genome of a species functions as a unit and evolves over time. It is the study of life’s blueprint,
The Golden Age of Biology DNA -> RNA -> Proteins -> Metabolites Genomics Technologies MECHANISMS OF LIFE Health Care Diagnostics Medicines Animal Products.

The Golden Age of Biology DNA -> RNA -> Proteins -> Metabolites Genomics Technologies MECHANISMS OF LIFE Health Care Diagnostics Medicines Animal Products.
Original image: 512 pixels by 512 pixels. Probe is the size of 1 pixel. Picture is sampled at every pixel (262144 samples taken)

Original image: 512 pixels by 512 pixels. Probe is the size of 1 pixel. Picture is sampled at every pixel ( samples taken)
Zachary Bendiks. Jonathan Eisen  UC Davis Genome Center  Lab focus: “Our work focuses on genomic basis for the origin of novelty in microorganisms (how.

Zachary Bendiks. Jonathan Eisen  UC Davis Genome Center  Lab focus: “Our work focuses on genomic basis for the origin of novelty in microorganisms (how.
Bioinformatics Core Facility Ernesto Lowy February 2012.

Bioinformatics Core Facility Ernesto Lowy February 2012.
Sage Bionetworks Mission Sage Bionetworks is a non-profit organization with a vision to create a “commons” where integrative bionetworks are evolved by.

Sage Bionetworks Mission Sage Bionetworks is a non-profit organization with a vision to create a “commons” where integrative bionetworks are evolved by.
H = -Σp i log 2 p i. SCOPI Each one of the many microbial communities has its own structure and ecosystem, depending on the body environment it exists.

H = -Σp i log 2 p i. SCOPI Each one of the many microbial communities has its own structure and ecosystem, depending on the body environment it exists.
Bioinformatics and medicine: Are we meeting the challenge?

Bioinformatics and medicine: Are we meeting the challenge?
IPlant Collaborative Tools and Services Workshop iPlant Collaborative Tools and Services Workshop Collaborating with iPlant.

IPlant Collaborative Tools and Services Workshop iPlant Collaborative Tools and Services Workshop Collaborating with iPlant.
Interoperability Showcase In collaboration with IHE Use Case 3 Care Theme: Leveraging National Healthcare Registries in Care Delivery Biosurveillance Monitoring.

Interoperability Showcase In collaboration with IHE Use Case 3 Care Theme: Leveraging National Healthcare Registries in Care Delivery Biosurveillance Monitoring.
The NIH Roadmap and the Human Microbiome Project Francis S. Collins, M.D., Ph.D. National Human Genome Research Institute April 22, 2007.

The NIH Roadmap and the Human Microbiome Project Francis S. Collins, M.D., Ph.D. National Human Genome Research Institute April 22, 2007.
computer

computer
The iPlant Collaborative Community Cyberinfrastructure for Life Science Tools and Services Workshop Objectives.

The iPlant Collaborative Community Cyberinfrastructure for Life Science Tools and Services Workshop Objectives.
IPlant cyberifrastructure to support ecological modeling Presented at the Species Distribution Modeling Group at the American Museum of Natural History.

IPlant cyberifrastructure to support ecological modeling Presented at the Species Distribution Modeling Group at the American Museum of Natural History.
DAN LAWSON BRC 2011 – ANNUAL MEETING UT SOUTHWESTERN MEDICAL CENTER DALLAS, TX 26-27 SEPTEMBER 2011 Challenges and opportunities of new sequencing technologies.

DAN LAWSON BRC 2011 – ANNUAL MEETING UT SOUTHWESTERN MEDICAL CENTER DALLAS, TX SEPTEMBER 2011 Challenges and opportunities of new sequencing technologies.
The iPlant Collaborative Community Cyberinfrastructure for Life Science Network for Integrating Bioinformatics into Life Sciences Education April, 2014.

The iPlant Collaborative Community Cyberinfrastructure for Life Science Network for Integrating Bioinformatics into Life Sciences Education April, 2014.
Current Challenges in Metagenomics: an Overview Chandan Pal 17 th December, GoBiG Meeting.

Current Challenges in Metagenomics: an Overview Chandan Pal 17 th December, GoBiG Meeting.
Sackler Medical School

Sackler Medical School
Molecular biology and evolution in genomics era Li Jun and Frederick C.C. Leung 5N01, School of Biological Science, The University.

Molecular biology and evolution in genomics era Li Jun and Frederick C.C. Leung 5N01, School of Biological Science, The University.

Similar presentations

Ads by Google