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SC3: NGS Data and the Cloud

Tuesday, February 12 | 1:30 pm – 4:30 pm

This course will compare cloud computing to internal infrastructure as well as give a cost-benefit analysis of cloud computing by platform type and application type. Data management and integration will also be discussed.

Course Instructors

Adam Kraut, Scientific Consultant, BioTeam, Inc.

Jacob Glanville, Scientific Director, Distributed Bio


1:30 Intro to Cloud Computing

  • Definition
  • Architectures (VMs, charge model, etc)

Comparison of Cloud Computing to Internal Infrastructure

  • Grid environment
  • Bandwidth
  • Elastic infrastructure

Cost-Benefit Analysis of Cloud Computing by Platform Type

  • HiSeq
  • MiSeq
  • 454
  • Ion Torrent
  • Etc

2:50 Refreshment Break

3:00 Cost-Benefit Analysis of Cloud Computing by Application Type

  • Genomics
  • RNAseq
  • Antibody repertoire analysis
  • Variant calling
  • Bacterial genomics/metagenomics
  • Viral genome analysis
  • Cancer gene analysis
  • Protein engineering applications

Data Management & the Cloud

  • File management, S3 & iRODS
  • Security and VPC, SSH and anonymization
  • HIPAA compliance
  • Confidentiality, reliability, integrity

Integration Case Studies: NGS Applications, Local Architectures and Data Management

A diverse set of different case studies of AWS-enabled NGS sequencing, and the cloud architecture to required to support them:

  • Big pharma, medium internal architecture, lots of data, local data stored (repertoire sequencing & 454)
  • Big biotech, limited internal architecture, lots of data, local data stored (CNV & Illumina)
  • Small biotech, no internal architecture, lots of data, only analysis stored (RNAseq & computational oncology)
  • Academic, no internal architecture, medium data, only analysis stored (repertoire)
  • Computational biotech, medium internal architecture, lots of data, variable storage (flexible)
  • NGS webapps, completely cloud hosted, medium data, medium storage (repertoire, RNAseq, etc)

4:50 Close of Short Course