BioProject information

Required *
Conditionally required *

Submitter

Submitter

Contact information of submitter(s). Questions and notifications about a submission are contacted to the e-mail address(es) listed here. Personal contact information is considered confidential and is collected to be used by DDBJ BioProject staff should questions arise; the general information about the research center is used for public display.

First name

Submitter’s first name.

Last name*

Submitter’s last name.

E-mail *

E-mail address. Enter an address from the organizations domain.

Organization

Organization to which a contact person belongs.

Submitting organization*

full name of organization.

Submitting organization URL

The URL of submitter’s organization.

Data Release

Select “Hold” or “Release”. You cannot specify hold date. Please see Release of projects for detailed release mechanism.

Hold

Released concurrently when the DDBJ/DRA/GEA/MetaboBank data citing this ID are released.

Release

Release project data immediately. Private DDBJ/DRA/GEA/MetaboBank data citing this ID are not released.

General info

Project Description

An informative paragraph that describes the project and provides informative context for the displayed project record.

Project title*

Very short descriptive name of the project for caption, labels, etc for public display. For example: Chromosome Y sequencing, Global studies of microbial diversity on human skin.

Description*

Description (a paragraph) of the project goals and purposes. Provide enough information (more than 100 characters) in the description for other users to interpret the data.

Private comments to DDBJ staff

Use this field if you have questions for database support staff. The content is not made public. If you intend to submit an umbrella project, please inform us that “this is umbrella project”.

Relevance

Select the primary general relevance of the study.

Relevance description*

Describe the relevance when the Other is selected.

Umbrella BioProject

If you are registering a project that is part of an initiative which is already registered in the BioProject database, then please tell us the existing BioProject accession number and provide a general description of the larger initiative. This information is needed for project linking.

Initiative description*

Description of an initiative.

Umbrella BioProject accession*

A BioProject accession number of an initiative which is already registered in the BioProject database.

External Links

An URL may be provided, with a label for the resource, to reference a resource that is directly relevant to the submitted project.

Link description

Display name of web site that is related to this study.

URL

URL of web site that is related to this study.

Grants

Funding information for a project.

Agency

Name of funding agency. For example: Japan Society for the Promotion of Science.

Agency abbreviation

Abbreviation of funding agency. For example: JSPS.

Grant ID

Grant number is collected to support searches (e.g., publications often cite Grant numbers). For example: JSPS KAKENHI Grant Number 12345678.

Grant title

Grant title may also support searches.

Consortium

Consortium name

If study is carried out as part of a consortium, provide the consortium name.

Consortium URL

If the consortium maintains a web site, provide the URL.

Project type

Project data type

Project data type*

A general label indicating the primary study goal. Select appropriate types. News: A BioProject record can have multiple project data types

NCBI individually assigns the Project data type based on the experimental data linked to the project. This type is not used by EBI.

Project data type description*

Describe the project data type when the Other is selected.

Sample scope/Material/Capture/Methodology

Sample scope*

The scope and purity of the biological sample used for the study.

Material*

The type of material that is isolated from the sample for use in the experimental study.

Capture*

The scale, or type, of information that the study is designed to generate from the sample material.

Target description*

Describe the Sample scope/Material/Capture when the Other(s) is selected.

Methodology*

The core experimental approach used to obtain the data that is submitted to archival databases.

Methodology description*

Describe the methodology type when the Other is selected.

Objective

Project goals with respect to the type of data that will be generated and submitted to an INSDC-associated database. Select all relevant menu options.

Objective*

Project goals with respect to the type of data that will be generated and submitted to an INSDC-associated database. Select all relevant menu options.

Locus tag prefix

Locus tag prefix*

Locus tag prefix generation box will appear when [Project data type=”Genome Sequencing” or “Metagenome”] AND [Capture=”Whole”] AND [Objective=”Sequence” or “Annotation” or “Assembly”].
Registration of a unique locus tag prefix is required for studies that result in genome assemblies. Please leave the prefix box empty, when a prefix is not necessary for WGS only submission.
The locus_tag prefix can contain only alpha-numeric characters and it must be 3-12 characters long. It should start with a letter, but numerals can be in the 2nd position or later in the string. (ex. A1C). There should be no symbols, such as -_* in the prefix. The locus_tag prefix is to be separated from the tag value by an underscore ‘_’, eg A1C_00001.
DDBJ BioProject limits the maximum tag length to 12 characters. In the BioProject submission system, the locus tag is displayed in capital letters. However, the tag is reserved in case-insensitive manner.

Target

Organism information

Taxonomy and description of target organism.

Organism name*

Organism name in the Taxonomy database. Unclassified sequences including metagenome and environmental samples may be found at here.

In the project spanning multiple species, enter a taxonomic classification common to the species (e.g., genus name).

If you intend to submit un-registered novel organism, please provide us the detailed organism information in the Description of novel organism and proposed organism name in the Organism Name.

Taxonomy ID

NCBI Taxonomy ID

Strain, breed, cultivar

Microbial strain name, or eukaryotic breed or cultivar name. Please provide this or “Isolate name or label”

Isolate name or label

A label for an isolated sample, or name of an individual animal (e.g., Clint). Please provide this or “Strain, breed, cultivar”.

Description

A brief description, to elaborate upon the brief label.

Description of novel organism

Enter necessary information to register an organism to the taxonomy database.

Environmental sample information

This section appears instead of the Organism information when the Sample scope=”Environment” in the Target.

Environmental sample name*

Unclassified sequences including metagenome and environmental samples may be found at here. If an appropriate name was not found, describe a novel name you propose and details of sample information in the Environmental sample description.

Environmental sample description

Describe details of sample information.

General Properties

General properties of target organism.

Cellularity

Select a cellularity.

Reproduction

Select a Reproduction.

Haploid genome size

Haploid genome size in Kb, Mb or cM.

Ploidy

Select a Ploidy.

Organism Replicons

Describe how many replicons this organism has, how they are named (e.g., 1, 2, 3 vs. I, II, III), the replicon type (chromosome etc.), and the subcellular structure that the replicon is located in.

Name

The preferred standard for the replicon name.

Type

Select a replicon type.

Location

The replicon subcellular location. For instance, the nucleus, or a differentiated organella. Please select “Nuclear or Prokaryote” for the chromosomes of eularyotes, bacteria or archaea.

Size

The size and unit of measurement for the estimated genome size.

Description

A description of any unusual features of the replicon.

Phenotype

Phenotype of target organism.

Disease

Enter a disease name.

Biotic Relationship

Select a BioticRelationship.

Trophic Level

Select a TrophicLevel.

Prokaryote Morphology

When the target organism is prokaryote, please describe the general morphology if known.

Shape

Select all relevant menu options.

Gram

Choose gram positive or negative.

Motility

Choose a Motility.

Enveloped

Choose enveloped or not.

Endospores

Choose target bacteria forms endospores or not.

Ecological Environment

The general habitat for any organism. Please indicate additional extremophile parameters if known.

Habitat

Choose a Habitat.

Salinity

Choose a Salinity.

Oxygen requirement

Choose an Oxygen requirement.

Temperature range

Choose a temperature range.

Optimum Temperature

Optimum temperature in Celsius.

Publication

PubMed ID

The PubMed ID(s) will be used to populate the publication information.

<Publication id="15557739">
  <DbType>ePubmed</DbType>
</Publication>
<ProjectReleaseDate>

DOI

Provide a DOI if a PubMed ID is not available. Provide the additional reference information.

<Publication id="10.1093/nar/gku1120">
  <DbType>eDOI</DbType>
</Publication>
<ProjectReleaseDate>

Reference title*

A title of reference.

Journal title*

A title of journal.

Year*

Publication year.

Volume*

Journal volume.

Issue*

Journal issue.

Pages from*

Reference start page.

Pages to*

Reference end page.

First name*

First name of author.

MI

Middle initial.

Last name*

Last name of author.

Suffix

Suffix for author.

This publication has multiple authors

If this is checked, then “et al” is added to the author name provided above.

XML schema

BioProject XML schema