Frequently asked questions

FAQ: 7

Metadata*

Do I have to register a separate BioProject/BioSample for each genome I am sequencing?

If multiple cultured genomes are part of the same research effort, then they can belong to the same BioProject. However, each culture must be registered as a separate BioSample.

Metagenomic assemblies, where multiple genomes are assembled with high confidence from a single metagenomic sample, register a BioProject for metagenomic assembly project, and BioSamples for each sample of metagenomic assembly.

Created: February 12, 2015; Last updated: December 13, 2016

Do I need to make a separate BioProject for every type of data?

No, you do not. You should organize your BioProjects the most appropriate way for your research effort.

From 12 November 2014, multiple Project data types can be selected for a project in the submission system.

To merge genome sequencing and transcriptome analysis projects, select both 'Genome Sequencing' and 'Transcriptome or Gene Expression' for the Project data type. One material is allowed for the Material, so select 'Other'.

Another way is to register 'Genome Sequencing' and 'Transcriptome or Gene Expression' as separate projects and unite them by an Umbrella BioProject.

Created: November 20, 2014; Last updated: October 13, 2015

How do I import a BioProject or BioSample accession into the DRA?

BioProject and BioSample submissions must be made through the Submission Portal D-way. Once you begin a BioProject or BioSample submission, it will be assigned a temporary tracking ID (PSUB/SSUB[number], respectively) – this is not the final accession! Once a BioProject is complete, it is assigned an accession like PRJDB[number]. Once a BioSample submission is complete, each sample will receive an accession like SAMD[number]. When creating DRA experiments, please specify the PSUB ID or PRJDB[number] accession as your BioProject, and SSUB ID or SAMD[number] as your BioSample. Note that a given data file can be linked to a single BioSample only.

When sample preparation and sequencing are carried out by different research groups, submitting DRA Experiment can refer BioProject and BioSample IDs obtained in the other submission account. If you need to refer external BioProject and BioSample IDs, contact to the DRA team. When referencing external objects, please be aware of triggering of data release among BioProject, BioSample and DRA submissions.

Created: June 4, 2014; Last updated: December 13, 2016

Update*

How do I update my BioProject?

At this time, it is necessary for submitters to contact the BioProject team to request updates and withdrawals as necessary. Please note that when BioProjects are updated, the submission overview page in the D-way submission portal will not reflect this change. That page is only a record of the initial submission, and does not display changes made in the BioProject database.

Created: October 13, 2015

How do I add reference information?

DDBJ Sequence Database

See the relevant item in Data Updates/Corrections and contact us from this form with "Our paper was published" in [Subject].

DRA

Add publication information to the BioProject referenced by relevant DRA submission. Contact BioProject team to add publication.

BioProject

Contact BioProject team to add publication information. Basically, citation of the BioProject accession is not recommended.

BioSample

When sequencing data derived from relevant samples are deposited in DDBJ Sequence Database and DRA, please add publication information as described above.

For a publication about isolation and growth condition specifications of the organism/material, add pubmed id etc to isol_growth_condt. For a primary genome report, please add the relevant pubmed id etc to ref_biomaterial.

If you want to add publication of the other types, please contact BioSample team.

Created: January 23, 2014; Last updated: September 5, 2016

Accession number*

Should I cite BioProject accession numbers in my manuscript?

No, typically, you should cite the accession numbers that are assigned to your data submissions, e.g. the DDBJ, WGS or DRA accession numbers. If individual BioProjects do need to be referenced, state that "The data have been deposited with links to BioProject accession number PRJDBxxxxxx in the DDBJ BioProject database (http://trace.ddbj.nig.ac.jp/bioproject/index_e.html)."

Created: October 13, 2015

Data release*

How are linked BioProject/BioSample/sequence data released?

Linked BioProject, BioSample, DDBJ and DRA data are released as follows.

  • Release of the BioProject records DO NOT trigger release of the other linked data.
  • Release of the BioSample records DO NOT trigger release of the other linked data, however, DO trigger release of the referencing BioProject.
  • Release of the DDBJ and DRA nucleotide sequence data DO trigger release of the linked BioProject and BioSample records.

All metadata and sequencing data in a DRA submission are released at once.

Release of linked BioProject/BioSample/sequence records
Release of linked BioProject/BioSample/sequence records

DRA Handbook: Release of DRA
BioProject Handbook: Release of BioProject
BioSample Handbook: Release of BioSample

Created: December 15, 2014; Last updated: February 16, 2017