4D Nucleome Network Wiki

DCIC presentation about meta data (Powerpoint file available on WG wiki here)

• Basic Experiment Metadata
  • Lab
  • Name, PI, Institute, …
  • User
  • Name
  • Grant
  • Number, Title, …
  • Publication
  • Document
  • Biosource
  • Individual / Organism, Modification, Treatment, …
  • Description
  • Data
  • Status
  • Alias
  • Accession
  • Type
  • Related Biosample
  • Biosample protocol variants
• Cell-type related fields
• Experiment Type Specific Fields
  • e.g. Hi-C related fields (crosslinking method, enzyme lot number, …)
• Metadata on Raw Files
  • Name, Data, Status, Md5sum, …
• How to define replicates (biological / technical)
• Update schemas and submission worksheets on Google Docs
  • Schema: https://docs.google.com/document/d/15tuYHENH_xOvtlvToFJZMzm5BgYFjjKJ0-vSP7ODOG0/edit?usp=sharing
  • Submission worksheets: https://drive.google.com/open?id=0BzWrm37_zZHvanNLeE45TWZNdEk

DATA FORMAT

• Contacted ~17 investigators to survey different formats. They will perform the analysis in the next few weeks. Bill Noble Lab will present
• We will focus in two formats: HiC and Cooler, Butler format will be mainly used in visualization only.