Tables

The Aminoacid Variant table contains subsequences of proteins (i.e., only of a subset of all annotations) that differ from the reference amino acid sequence of the virus species.

The Virus table describes the viruses to which sequences belong; they are described by a complex taxonomy.

The EpitopeFragment table contains the segments of non linear epitopes (each of which is contained within one comprehensive epitope).

The HostSpecie table represents the identification of the animal species both involved in the extraction of biological material to be sequenced and in the epitope design.

We annotate each variant with its predicted impact (using SnpEff).

The table holds string sequences related to the fulls sequence record.

The table holds sequences related to the specific annotation.

Sequences are derived from one experiment of a given type (described in the Experiment Type table) performed to analyse the biological material.

The Epitope table describes the epitopes extracted from IEDB.

Annotations include a number of subsequences representing segments (with their coordinates) of the original sequence with a particular type.

The Sequence table represents a viral sequence of either DNA or RNA. In both cases, sequences are composed of nucleotides (A, C, G, T).

The Nucleotide Variant table contains subsequences of the main sequence that differ from the reference sequence of the same virus species.

An assay is performed on a tissue extracted from an organism that has hosted the virus for an amount of time; this information is collected in the HostSample table.

The Sequencing Project table represents a project in which a particular sequencing activity is carried out.