On 5 September 2025 we will be releasing the Q3 API changes for the VarSome API (stable-api.varsome.com).
The Stable API will update version 13.4.0 to version 13.8.0 with data frozen as of the 1 August 2025. This version has been successfully used in production for over a month.
The most recent version, used by VarSome itself, is always available at api.varsome.com.
Database Updates
The following databases have been updated:
|
Source
|
Data Type
|
Current version
(Staging, Q2 '25)
|
Next release
(Staging, Q3 '25)
|
|
AACT
|
gene
|
07-Apr-2025 |
07-Jul-2025 |
|
ACMG classifier
|
variant
|
13.4.0 |
13.8.0 |
|
AMP classifier
|
variant
|
13.4.0 |
13.8.0 |
|
ClinVar
|
variant
|
07-Apr-2025 |
07-Jul-2025 |
|
ClinVar
|
region / CNV
|
07-Apr-2025 |
07-Jul-2025 |
|
GWAS
|
variant
|
07-Apr-2025 |
07-Jul-2025 |
|
LOVD
|
variant
|
14-Apr-2025 |
16-Jul-2025 |
|
LOVD
|
gene
|
14-Apr-2025 |
16-Jul-2025 |
|
ClinGen
|
Disease Validity
|
07-Apr-2025 |
07-Jul-2025 |
|
ClinGen
|
variant
|
07-Apr-2025 |
07-Jul-2025 |
|
ClinGen
|
gene
|
07-Apr-2025 |
07-Jul-2025 |
|
ClinGen
|
region / CNV
|
07-Apr-2025 |
07-Jul-2025 |
|
OMIM®
|
gene
|
14-Apr-2025 |
16-Jul-2025 |
|
OMIM®
|
variant
|
14-Apr-2025 |
16-Jul-2025 |
|
PharmGKB
|
gene
|
07-Apr-2025 |
07-Jun-2025 |
|
PharmGKB
|
variant
|
07-Apr-2025 |
07-Jun-2025 |
|
PanelApp
|
gene
|
17-Feb-2025 |
07-May-2025 |
|
Splice Vault
|
variant
|
- |
10-Jun-2025 |
|
HPO
|
phenotype
|
07-Apr-2025 |
07-May-2025 |
|
DECIPHER
|
region / CNV
|
07-Apr-2025 |
07-Jul-2025 |
|
MitImpact
|
variant
|
13-Dec-2022 |
07-Jun-2025 |
|
KnownPathogenicVarsomeApi
|
gene
|
- |
12-Jun-2025 |
|
KnownPathogenicVarsomeApi
|
variant
|
- |
12-Jun-2025 |
|
Uniprot Variants
|
variant
|
07-Feb-2025 |
07-Jul-2025 |
|
Uniprot Regions
|
Region/ CNV
|
07-Feb-2025 |
07-Jul-2025 |
|
GDC
|
gene
|
08-Dec-2023 |
07-Jun-2025 |
|
GHR
|
gene
|
07-Apr-2025 |
07-Jul-2025 |
|
gnomAD Structural Variants
|
Region/CNV
|
30-Jun-2021 |
4.1 |
|
Cosmic
|
variant
|
v101 |
v102 |
|
CGC
|
gene
|
v101 |
v102 |
|
dbVar
|
Region/CNV
|
03-Jul-2024 |
07-Jun-2025 |
|
dbNSFP-c
|
variant
|
4.9 |
5.2 |
|
dbNSFP gene
|
gene
|
4.9 |
5.2 |
JSON Schema Changes
Variants
POST /lookup/batch/{ref_genome}
Updated
- removed the optional property 'regions/gnomad_sv/items' from the response with the '201' status
- removed the optional property 'regions/gnomad_sv/version' from the response with the '201' status
- added the optional property 'dbnsfp/items/clinpred_pred' to the response with the '201' status
- added the optional property 'dbnsfp/items/clinpred_rankscore' to the response with the '201' status
- added the optional property 'dbnsfp/items/clinpred_score' to the response with the '201' status
- added the optional property 'dbnsfp/items/esm1b_converted_rankscore' to the response with the '201' status
- added the optional property 'dbnsfp/items/esm1b_pred' to the response with the '201' status
- added the optional property 'dbnsfp/items/esm1b_score' to the response with the '201' status
- added the optional property 'dbnsfp/items/gmvp_rankscore' to the response with the '201' status
- added the optional property 'dbnsfp/items/gmvp_score' to the response with the '201' status
- added the optional property 'dbnsfp/items/mutpred2_pred' to the response with the '201' status
- added the optional property 'dbnsfp/items/mutpred2_rankscore' to the response with the '201' status
- added the optional property 'dbnsfp/items/mutpred2_score' to the response with the '201' status
- added the optional property 'dbnsfp/items/phactboost_rankscore' to the response with the '201' status
- added the optional property 'dbnsfp/items/phactboost_score' to the response with the '201' status
- added the optional property 'dbnsfp/items/varity_er_loo_rankscore' to the response with the '201' status
- added the optional property 'dbnsfp/items/varity_er_loo_score' to the response with the '201' status
- added the optional property 'dbnsfp/items/varity_er_rankscore' to the response with the '201' status
- added the optional property 'dbnsfp/items/varity_er_score' to the response with the '201' status
- added the optional property 'dbnsfp/items/varity_r_loo_rankscore' to the response with the '201' status
- added the optional property 'dbnsfp/items/varity_r_loo_score' to the response with the '201' status
- added the optional property 'dbnsfp/items/varity_r_rankscore' to the response with the '201' status
- added the optional property 'dbnsfp/items/varity_r_score' to the response with the '201' status
- added the optional property 'knc_splice_vault' to the response with the '201' status
GET /lookup/{spec_query}/{ref_genome}
Updated
- removed the optional property 'regions/gnomad_sv/items' from the response with the '200' status
- removed the optional property 'regions/gnomad_sv/version' from the response with the '200' status
- added the new enum value 'knc-splice-vault' to the 'query' request parameter 'add-source-databases'
- added the new enum value 'knc-splice-vault' to the 'query' request parameter 'exclude-source-databases'
- added the optional property 'dbnsfp/items/clinpred_pred' to the response with the '200' status
- added the optional property 'dbnsfp/items/clinpred_rankscore' to the response with the '200' status
- added the optional property 'dbnsfp/items/clinpred_score' to the response with the '200' status
- added the optional property 'dbnsfp/items/esm1b_converted_rankscore' to the response with the '200' status
- added the optional property 'dbnsfp/items/esm1b_pred' to the response with the '200' status
- added the optional property 'dbnsfp/items/esm1b_score' to the response with the '200' status
- added the optional property 'dbnsfp/items/gmvp_rankscore' to the response with the '200' status
- added the optional property 'dbnsfp/items/gmvp_score' to the response with the '200' status
- added the optional property 'dbnsfp/items/mutpred2_pred' to the response with the '200' status
- added the optional property 'dbnsfp/items/mutpred2_rankscore' to the response with the '200' status
- added the optional property 'dbnsfp/items/mutpred2_score' to the response with the '200' status
- added the optional property 'dbnsfp/items/phactboost_rankscore' to the response with the '200' status
- added the optional property 'dbnsfp/items/phactboost_score' to the response with the '200' status
- added the optional property 'dbnsfp/items/varity_er_loo_rankscore' to the response with the '200' status
- added the optional property 'dbnsfp/items/varity_er_loo_score' to the response with the '200' status
- added the optional property 'dbnsfp/items/varity_er_rankscore' to the response with the '200' status
- added the optional property 'dbnsfp/items/varity_er_score' to the response with the '200' status
- added the optional property 'dbnsfp/items/varity_r_loo_rankscore' to the response with the '200' status
- added the optional property 'dbnsfp/items/varity_r_loo_score' to the response with the '200' status
- added the optional property 'dbnsfp/items/varity_r_rankscore' to the response with the '200' status
- added the optional property 'dbnsfp/items/varity_r_score' to the response with the '200' status
- added the optional property 'knc_splice_vault' to the response with the '200' status
Genes
No changes.
CNVs
# API Changelog 11.22.1 vs. 11.24.0
## GET /cnv/{query}/{ref_genome}
- :warning: removed the optional property 'regions/gnomad_sv/items' from the response with the '200' status
- :warning: removed the optional property 'regions/gnomad_sv/version' from the response with the '200' status
Please contact us if you need any further assistance with this release.