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Contents of BeeBiome Data Portal

BeeBiome Data Portal contains metadata of datasets from NCBI having a host which is a species under the NCBI taxonomic level ' Apoidea'. Only BioSamples linked to at least one SRA experiment are displayed.

Based on this set of metadata, you can find the following pages:

  • Browse table page where you can see and download all metadata with a basic text-search;

  • View map page where you can see all geographical collection points of datasets;

  • Advanced search page where you can see and download metadata from a request based on a text-based search on each field and combine them using a 'AND' boolean logic.

Definition of metadata fields

  • BioProject acc.: Accession from NCBI BioProject (a collection of biological data related to a single initiative).

  • BioSample acc.: Accession from NCBI BioSample (a database containing descriptions of biological source materials used in experimental assays).

  • SRA experiment entries: Count of entries from NCBI Sequence Read Archive (SRA) (a repository of high throughput sequencing data).

  • NCBI Nucleotide entries: Count of entries from NCBI Nucleotide (a collection of genome, gene and transcript sequence data).

  • Host: Scientific name of the natural (as opposed to laboratory) host to the organism from which the sample was obtained.

  • Organism: Scientific name of the organism that harbours the host.

  • Collection date: Date on which the sample was collected.

  • Geo. location name: Geographical origin where the sample was collected.

  • Library source: Type of source material that is being sequenced.

  • Library layout: Whether to expect SINGLE or PAIRED end reads.

  • Library strategy: Sequencing technique intended for the library.

  • Instrument: Sequencing instrument for library.

  • Center name: Organization involved into the project.

  • BioSample package acc.: Accession of a type of sample and specifies the list of attributes by which it should be described (more details).