COBMAN is a network of FTP and web servers around the world that store identical, up-to-date, versions of anatomical experiments and data submitted to be displayed on openbrainmap.org.
COBMAN preferentially accepts experiments that have already been subjected to peer-review and only in rare occasions data will be considered before peer-review. In cases a user needs to share ongoing projects and data with reviewers or collaborators we refer to our pre-publication FTP.
When submitting anatomical data to COBMAN several standards need to be followed. The user needs to generate the following 3 content types for each individual brain:
- Specification of meta data:
- First authors and Principal Investigator contact details
- Short description or abstract of the data
- DOI or link to published article
- Mouse ID
- Age of mouse at experiment termination
- Line (if transgenic include link to source Jax/Gensat etc.)
- Expression system (fluorescent proteins, IHC, ISH).
- Vector or probe (if any).
- Target coordinates (if any)
- Microscope used (system and imaging sensor)
- Optics (magnification factor and numerical aperature).
- Theoretical pixel resolution.
- A scroll reel rendered in the coronal plane with all included sections.
- Raw 16 bit TIFF data (stitched).
- RosettaJSON files for each section.
- R list objects from segment(), registration(), and get.cell.ids() output saved as one .Rdata file per section.
- Statement of approval from ethical committee.
To submit a project start by filling out this form (link to be posted) and you'll get FTP login details in the email for uploading your data using WholeBrain R package.
WholeBrain R package include a set of commands that will greatly facilitate generation of data for submission.
More instructions to follow.