BioSample Validation Rules
Appropriate organism and package
To help ensure that you select an appropriate sample type package, the organism you provide is checked against the package. For example, if you select the Microbe package, and enter Homo sapiens as the organism, you will receive error: "Organism is inappropriate for package. Please either specify a different sample type package or edit the organism according to the 'Appropriate organism and package' rules."
The rules for this check are as follows:
| Package | Organism rule |
|---|---|
| SARS-CoV-2: clinical or host-associated | must be Severe acute respiratory syndrome coronavirus 2 |
| SARS-CoV-2: wastewater surveillance | must be wastewater metagenome |
| Pathogen: clinical or host-associated | must have lineage Bacteria, Viruses or Fungi, to species-level |
| Pathogen: environmental/food/other | must have lineage Bacteria, Viruses or Fungi, to species-level |
| One Health Enteric | must have lineage Bacteria, Archaea, Viruses, Viroids or Fungi; or for unicellular eukaryotes, must not have lineage Metazoa, Embryophyta, unclassified sequences or other sequences |
| Microbe | must have lineage Bacteria, Archaea, Viruses, Viroids or Fungi; or for unicellular eukaryotes, must not have lineage Metazoa, Embryophyta, unclassified sequences or other sequences |
| Model organism or animal | must NOT be Homo sapiens; must NOT be a metagenome; must NOT have lineage Bacteria, Archaea, Viruses or Fungi |
| Metagenome or environmental | must be a metagenome, where lineage starts with unclassified sequences and scientific name ends with 'metagenome' |
| Invertebrate | no check |
| Human | must be Homo sapiens |
| Plant | must have lineage Viridiplantae, or be known to have plastids |
| Virus | must have lineage Viruses |
| MIGS Cultured Bacterial/Archaeal | must have lineage Bacteria or Archaea |
| MIGS Eukaryotic | must have lineage Eukaryota |
| MIMS Environmental/Metagenome | must be a metagenome, where lineage starts with unclassified sequences and scientific name ends with 'metagenome' |
| MIMAG | must NOT be Homo sapiens and scientific name cannot contain the term 'metagenome' |
| MISAG | must NOT be Homo sapiens and scientific name cannot contain the term 'metagenome' |
| MIMARKS Specimen | no check |
| MIMARKS Survey related | must be a metagenome, where lineage starts with unclassified sequences and scientific name ends with 'metagenome' |
| MIUVIG | must have lineage Viruses |
| MIGS Viral | must have lineage Viruses |
| Beta-lactamase | must have lineage Bacteria |
List of validation errors
This file contains a compilation of the BioSample validation errors that may be reported during a submission. Please contact biosamplehelp@ncbi.nlm.nih.gov if you need assistance interpreting an error report.