Variants

The ‘Variant browser’ page at https://pgx-db.org/variant_lookup or https://pgxdb.org/varian_lookup is designed to showcase all variants occurring on collected proteins/genes, along with their effect prediction scores and association summary statistics. On this page, you will find:

A search box at the top that enables the search for a variant by its identifier (in the format: Chromosome_Coordinate_Reference/Alternative allele). Our autocomplete feature suggests possible matches as you type.

Each row in the results box provides fundamental information about the gene where the variant occurs, along with a link to a specific page for that gene. On this gene detail page, you will find:

1. Detailed annotations for all variants of this gene, which allows for the search of any variant.

2. A collection of 41 variant effect prediction scores, displayed in a color-coded manner to easily understand the magnitude of the effect.

3. A mean value of the 41 scores and a box plot that summarizes the range of these scores.

4. A link to the association summary statistics for the selected variant.