Identified - SERVICE:
NGIS Congenica Portal
SEVERITY:
3
GEL REF:
GEL-308530
DESCRIPTION:
Some tiered variants missing in the Congenica Portal
SUMMARY OF IMPACT:
Further to our communication to you yesterday, we are still working with Congenica to find the root cause of the issue where some cases do not show all tiered variants in the Congenica portal.
Congenica have found that the issue affects cases that were archived and then restored after the Congenica v4.0 release on Saturday, 15 November 2025. During the archiving process, a small number of variants (less than 1%) were not included in the archive file. When these cases are restored, the missing variants do not appear in the main Variant table.
Current understanding:
- Cases archived and restored before 15 November 2025: Unaffected
- Cases archived before 15 November 2025 and restored after the upgrade: Unaffected
- Cases archived after 15 November 2025: Affected. Any restored case of this type may have missing variants.
Congenica have disabled the archiving function while they investigate the issue further.
Recommended Actions:
- Do not start analysis in Congenica on any case archived after 15 November 2025 until further notice. A list of affected cases will be emailed to each GLH imminently. You can still review tiered variants using the Interpretation Browser (or the New Interpretation Browser).
- Any other cases that were archived before 14 November 2025 may proceed as usual.
Nov 25, 2025 - 16:22 GMT
NGIS Congenica Portal
SEVERITY:
3
GEL REF:
GEL-308530
DESCRIPTION:
Some tiered variants missing in the Congenica Portal
SUMMARY OF IMPACT:
Further to our communication to you yesterday, we are still working with Congenica to find the root cause of the issue where some cases do not show all tiered variants in the Congenica portal.
Congenica have found that the issue affects cases that were archived and then restored after the Congenica v4.0 release on Saturday, 15 November 2025. During the archiving process, a small number of variants (less than 1%) were not included in the archive file. When these cases are restored, the missing variants do not appear in the main Variant table.
Current understanding:
- Cases archived and restored before 15 November 2025: Unaffected
- Cases archived before 15 November 2025 and restored after the upgrade: Unaffected
- Cases archived after 15 November 2025: Affected. Any restored case of this type may have missing variants.
Congenica have disabled the archiving function while they investigate the issue further.
Recommended Actions:
- Do not start analysis in Congenica on any case archived after 15 November 2025 until further notice. A list of affected cases will be emailed to each GLH imminently. You can still review tiered variants using the Interpretation Browser (or the New Interpretation Browser).
- Any other cases that were archived before 14 November 2025 may proceed as usual.
Nov 25, 2025 - 16:22 GMT
Investigating - SERVICE:
NGIS Congenica Portal
SEVERITY:
3
GEL REF:
GEL-308530
DESCRIPTION:
Some tiered variants missing in the Congenica Portal
SUMMARY OF IMPACT:
We are aware of an issue in Congenica where it appears that in some referrals not all tiered variants are being displayed. We have raised the issue with Congenica and will update when we have more information.
In the meantime, you can assess tiered variants in either the Interpretation Browser or the New Interpretation Browser
These guides can help you with the workaround options:
Interpret your referral without a DSS
New Interpretation Portal Guide
We apologise for any inconvenience this may be causing you.
Nov 24, 2025 - 09:50 GMT
NGIS Congenica Portal
SEVERITY:
3
GEL REF:
GEL-308530
DESCRIPTION:
Some tiered variants missing in the Congenica Portal
SUMMARY OF IMPACT:
We are aware of an issue in Congenica where it appears that in some referrals not all tiered variants are being displayed. We have raised the issue with Congenica and will update when we have more information.
In the meantime, you can assess tiered variants in either the Interpretation Browser or the New Interpretation Browser
These guides can help you with the workaround options:
Interpret your referral without a DSS
New Interpretation Portal Guide
We apologise for any inconvenience this may be causing you.
Nov 24, 2025 - 09:50 GMT
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NGIS Production Environment: Congenica Case Deletion - 18 December 2025 Dec 18, 2025 09:00-17:00 GMT
Dear Congenica User,
This is a reminder that GEL will be deleting cases from Congenica on a regular basis. The cases that will be marked for deletion will be the ones that have been closed for 2 weeks in the Interpretation Portal, this is regardless of the amount of time that it has been in Congenica. Closed is defined as the report/summary of findings and exit questionnaire being completed by the user.
The next set of deletions will take place on the Thursday, 18 December 2025.
If you wish to keep a case in Congenica, we advise that you inform the Genomics England Service Desk at least 3 days in advance of the 2 week mark for your case.
Posted on Dec 04, 2025 - 14:04 GMT
This is a reminder that GEL will be deleting cases from Congenica on a regular basis. The cases that will be marked for deletion will be the ones that have been closed for 2 weeks in the Interpretation Portal, this is regardless of the amount of time that it has been in Congenica. Closed is defined as the report/summary of findings and exit questionnaire being completed by the user.
The next set of deletions will take place on the Thursday, 18 December 2025.
If you wish to keep a case in Congenica, we advise that you inform the Genomics England Service Desk at least 3 days in advance of the 2 week mark for your case.
Posted on Dec 04, 2025 - 14:04 GMT