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Sequence Read Archive User Reference

SRA Best practice

Table of contents

1. Sequence Read Archive: Overview
   1. NCBI SRA
   2. EMBL-EBI ENA SRA
   3. DDBJ DRA
   4. DBCLS SRA
2. Technical information
   1. Data submission
   2. Data browsing and download
      1. Metadata
      2. Archived data status
      3. File format and data transfer protocol
      4. Tips
3. Example workflow of data search
   1. Search by article information
   2. Search by metadata
4. Tips: data search
   1. ID based search
   2. Metadata based search
   3. Extra search features
5. Tips: data analysis
   1. Quality control
   2. Analysis pipeline
      1. DDBJ galaxy
      2. EBI galaxy
6. Online resources
   1. Other databases
   2. Forums
   3. Technical information
   4. Personal blogs, etc.

Lectures

• 4 Jul. 2013 DDBJing @ DDBJ, Mishima, Japan
• 30 Aug. 2013 AJACS @ Toyama, Japan

License

"THE BEER-WARE LICENSE" (Revision 42): inutano@google.com is contributing to this project. As long as you retain this notice you can do whatever you want with this stuff. If we meet some day, and you think this stuff is worth it, you can buy me a beer in return. Tazro Inutano Ohta