Sample registration

In the STOmics sample template, the green fields are mandatory, and the yellow fields are optional.

  • sample name

User-defined name for the sample. It is unique for each sample. It cannot be modified if submitted, because it only used for objects association in the database.

  • sample title

The sample title is for public display as you want.

  • taxonomy ID and organism

Species information for your research subjects. The taxonomy ID and organism should be consistent with each other. For example, the taxonomy ID is 10090, and the organism is Mus musculus for the house mouse, which can be retrived here.

  • sex

It need to choose from the following list:
[‘male’, ‘female’, ‘pooled male and female’, ‘neuter’, ‘hermaphrodite’, ‘intersex’, ‘not determined’, ‘not applicable’, ‘not collected’, ‘not provided’, ‘restricted access’, ‘missing’]

  • age

It is restricted text. The value syntax is ‘{float} {unit}’.

  • geographic location

It is restricted text. It expected to fill in country or sea name (INSDC or GAZ):region(GAZ):specific location name. The value syntax is ‘{term}:{term}:{text}’, e.g. “China:Shenzhen” or “China:Hebei:Baoding”.

  • collection date

It is restricted text. It expected to fill in date and time, for example, 2008-01-23T19:23:10+00:00; 2008-01-23T19:23:10; 2008-01-23; 2008-01; 2008; 2017/2019.
The value can not be a future time.

  • latitude and longitude

It is restricted text. Specify as degrees latitude and longitude in format “d[d.dddd] N|S d[dd.dddd] W|E”, e.g., 38.98 N 77.11 W.

For more detailed explanation for the fields, please refer to the standard below:

Important

  • The number of the Sample filled in the template cannot be greater than 100, and the template file cannot be greater than 10MB.

  • sample name cannot be modified. sample title can be modified because it is for publication.

  • Each of your samples must have differentiating information (excluding sample name, sample title, and description). This check was implemented to encourage submitters to include distinguishing information in their samples. If it is necessary to represent true biological replicates as separate Samples, you might add an ‘aliquot’ or ‘replicate’ attribute, e.g., ‘replicate = biological replicate 1’, as appropriate.

  • The taxonomy ID and organism should be consistent with each other.

  • geographic location and latitude and longitude (if filled in) should be consistent with each other.

  • If need to modify Sample, the assigned sample accession numbers can not be modified.