Product Security Patches

Access critical security patches and updates for our products. Browse the latest patch releases, installation instructions, and best practices to ensure your software remains secure and up to date.

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

For MyIllumina login support, contact Customer Care.

Secure Communications - Cybersecurity Guidance

Thank you for visiting the customer support site for the UCS vulnerability.

The following table lists the impacted instruments and software versions. All instruments require actions outlined in the instruction guide. Illumina recommends that you read the instructions before downloading any software.

NOTE: For any software versions not specified in the table, your instrument is not impacted by this vulnerability and no actions are required. Please return the verification form attached to your notification confirming the action was not performed.

 

Impacted Software Versions Actions Required
iScan Control Software 4.0.0

Configure UCS account credentials.

NOTE: The instructions indicate that iScan Control Software v4.0.0 and above require a software update. Version 4.0.0 does not need a software update and only requires configuration of UCS account credentials.

iScan Control Software 4.0.5 Contact Illumina Technical Support to upgrade to v4.2.1.

 

Universal Copy Service Instructions

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

 

For MyIllumina login support, contact Customer Care.

 

Secure Communications - Cybersecurity Guidance

Important Notes

  • Windows automatic operating system security updates are disabled by default on your iSeq 100 instrument. If you enable automatic system updates, it is possible that you may install untested updates that could impact system integrity.
  • Installing the OS patches from the latest published PDF is sufficient to keep your instrument secure. Most patches in the PDF are cumulative, meaning the latest version includes all updates from previous patches. Any non-cumulative patches will be listed in future PDF releases, but you do not need to reinstall them if they are already installed. Refer to the installation guide for instructions on how to check the current patches installed on your instrument.

Instructions

  1. Download the following installation guide to install OS security patches on your iSeq 100 instrument.
    Illumina Security Maintenance for Instruments with Windows Operating Systems
  2. Use the links below to download the patches directly from the Microsoft Update Catalog website.
  3. Follow the instruction from the guide to install the patches.

Patches

Microsoft Release Period Date Posted by Illumina Next Scheduled Release by Illumina

Q1 2025

Q2 2025 Q3 2025

 

Install in the following order:

Thank you for visiting the customer support site for setting a BIOS password on your Illumina system (eg, instrument, server, computer) to keep it secure. Assigning a password to a system’s BIOS provides an added layer of security and is recommended by Illumina, per the Setting BIOS Password CCN2025-1703 sent on March 25, 2025.

Illumina highly recommends that customers assign an Administrator BIOS password on all Illumina systems, regardless of whether they are connected to an external internet or local network.

Refer to the following instructions to create and set an Administrator BIOS password to the following systems:

DRAGEN v3/v4 Server, iScan, iScan Dx, iSeq100, MiniSeq, MiSeq, MiSeqDx, NextSeq 1000/2000, NextSeq 500/550, NextSeq 550Dx, NovaSeq 6000, NovaSeq 6000Dx, NovaSeq X, VeriSeq NIPT Server, as well as any other computers associated with Illumina end-to-end workflow products.

MiSeq i100 comes with an Administrator user password set on the BIOS. As a result, the MiSeq i100 does not require additional steps be taken at this time.

Setting a BIOS Password on Illumina Products (doc # 200068356)

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

 

For MyIllumina login support, contact Customer Care.

 

Secure Communications - Cybersecurity Guidance

Thank you for visiting the customer support site for the UCS vulnerability.

The following table lists the impacted instruments and software versions. All instruments require actions outlined in the instruction guide. Illumina recommends that you read the instructions before downloading any software.

NOTE: For any software versions not specified in the table, your instrument is not impacted by this vulnerability and no actions are required. Please return the verification form attached to your notification confirming the action was not performed. 

 

Instrument Impacted Software Versions Actions Required
iSeq All Configure UCS Account Credentials

 

Universal Copy Service Instructions

This is the software correction for the Local Run Manager security vulnerability of which customers were informed and a temporary security patch was provided in May 2022.

The following table lists the impacted instruments and the required actions for each instrument. Note that all prior versions of control software which utilize Local Run Manager will no longer be available for distribution by Illumina once the software versions listed below are released.

Upon completion of the successful software upgrade, follow Illumina Cybersecurity best practices, including confirming that the firewall is enabled, and Universal Copy Service is running as a standard user.

PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability

 

Impacted Instruments and Actions to Take:

Instrument Action Release Date
iSeq User to update to iSeq Control Software v3.1 and available Local Run Manager modules (Refer to Additional Information below).         March 13, 2024

The new version of iSeq100 Control Software is user-installable; Illumina field service is not required. Install the iSeq100 Control Software v3.1 on your iSeq100 by browsing to the Illumina support site. The page contains the software installer and the document containing software release notes (pages 1-3) and upgrade installation instructions (pages 4-12).

NOTE: MyIllumina log-in is required. For MyIllumina log-in support, contact Illumina Customer Care.

For instruments under an Advanced Exchange Support Plan, onsite field service is not available.

 

Local Run Manager Modules Compatibility and Availability

iSeq Module Compatible Version with iSeq Control Software v3.1 Availability
16s Metagenomics
v2.1.0.33 Modules available on the Illumina Support Site.
Amplicon DS v3.0.0.56
Assembly v2.1.0.45
DNA Amplicon v3.0.1.1
DNA Enrichment v3.1.0.1090
GenerateFASTQ v3.1.1.56
Library QC v2.2.0.17
PCR Amplicon v2.1.0.30
Resequencing v3.1.0.27
RNA Amplicon v3.0.1.37
Small RNA v3.1.0.2505

 

Refer to the following editable PDFs of the recall verification forms. Return the completed form to techsupport@illumina.com to acknowledge receipt of the notification.

Form Description
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update- English Verification Form: English
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Arabic Verification Form: Arabic
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Bulgarian Verification Form: Bulgarian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Czech Verification Form: Czech
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Dutch Verification Form: Dutch
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Danish Verification Form: Danish
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Finnish Verification Form: Finnish
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – French Verification Form: French
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – German Verification Form: German
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Greek Verification Form: Greek
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Hungarian Verification Form: Hungarian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Italian Verification Form: Italian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Latvian Verification Form: Latvian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Lithuanian Verification Form: Lithuanian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Norwegian Verification Form: Norwegian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Polish Verification Form: Polish
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Portuguese Verification Form: Portuguese
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Romanian Verification Form: Romanian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Slovak Verification Form: Slovak
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Slovene Verification Form: Slovene
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Spanish Verification Form: Spanish
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Swedish Verification Form: Swedish
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Turkish Verification Form: Turkish

Thank you for visiting the customer support site for the UCS vulnerability.

The following table lists the impacted instruments and software versions. All instruments require actions outlined in the instruction guide. Illumina recommends that you read the instructions before downloading any software.

NOTE: For any software versions not specified in the table, your instrument is not impacted by this vulnerability and no actions are required. Please return the verification form attached to your notification confirming the action was not performed.

 

Instrument Impacted Software Versions Actions Required
MiniSeq MiniSeq Control Software 2.0 andnewer Configure UCS Account Credentials

 

Universal Copy Service Instructions

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

 

For MyIllumina login support, contact Customer Care.

 

Secure Communications - Cybersecurity Guidance

 

This is the software correction for the Local Run Manager security vulnerability of which customers were informed and a temporary security patch was provided in May 2022.

The following table lists the impacted instruments and the required actions for each instrument. Note that all prior versions of control software which utilize Local Run Manager will no longer be available for distribution by Illumina once the software versions listed below are released.

Upon completion of the successful software upgrade, follow Illumina Cybersecurity best practices, including confirming that the firewall is enabled, and Universal Copy Service is running as a standard user.

PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability

 

Impacted Instruments and Actions to Take:

Instrument Action Release Date
MiniSeq User to update to Miniseq Control Software v2.3 and available Local Run Manager modules (Refer to Additional Information below). March 13, 2024

 

The new version of Miniseq Control Software is user-installable; Illumina field service is not required. Install the Miniseq Control Software v2.3 on your Miniseq by browsing to the Illumina support site. The page contains the software installer and the document containing software release notes (pages 1-4) and upgrade installation instructions (pages 5-15).

MyIllumina log-in is required. For MyIllumina log-in support, contact Illumina Customer Care.

 

Local Run Manager Modules Compatibility and Availability

MiniSeq Module Compatible Version with MiniSeq Control Software v2.3 Availability
16s Metagenomics
v2.1.0.33 Modules available on the Illumina Support Site.
Amplicon DS v3.0.0.56
Assembly v2.1.0.45
DNA Amplicon v3.0.1.1
DNA Enrichment v3.1.0.1090
GenerateFASTQ v3.1.1.56
Library QC v2.2.0.17
PCR Amplicon v2.1.0.30
Resequencing v3.1.0.27
RNA Amplicon v3.0.1.37
RNA Fusion v3.0.0.25
Small RNA v3.1.0.2505
TruSight Tumor (TST15) TBD Planned for Q2 2024

 

Refer to the following editable PDFs of the recall verification forms. Return the completed form to techsupport@illumina.com to acknowledge receipt of the notification.

Form Description
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update- English Verification Form: English
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Arabic Verification Form: Arabic
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Bulgarian Verification Form: Bulgarian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Czech Verification Form: Czech
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Dutch Verification Form: Dutch
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Danish Verification Form: Danish
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Finnish Verification Form: Finnish
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – French Verification Form: French
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – German Verification Form: German
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Greek Verification Form: Greek
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Hungarian Verification Form: Hungarian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Italian Verification Form: Italian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Latvian Verification Form: Latvian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Lithuanian Verification Form: Lithuanian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Norwegian Verification Form: Norwegian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Polish Verification Form: Polish
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Portuguese Verification Form: Portuguese
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Romanian Verification Form: Romanian
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Slovak Verification Form: Slovak
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Slovene Verification Form: Slovene
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Spanish Verification Form: Spanish
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Swedish Verification Form: Swedish
PQN2024-1496 iSeq and MiniSeq Local Run Manager Cybersecurity Vulnerability Update – Turkish Verification Form: Turkish

Thank you for visiting the customer support site for setting a BIOS password on your Illumina system (eg, instrument, server, computer) to keep it secure. Assigning a password to a system’s BIOS provides an added layer of security and is recommended by Illumina, per the Setting BIOS Password CCN2025-1703 sent on March 25, 2025.

Illumina highly recommends that customers assign an Administrator BIOS password on all Illumina systems, regardless of whether they are connected to an external internet or local network.

Refer to the following instructions to create and set an Administrator BIOS password to the following systems:

DRAGEN v3/v4 Server, iScan, iScan Dx, iSeq100, MiniSeq, MiSeq, MiSeqDx, NextSeq 1000/2000, NextSeq 500/550, NextSeq 550Dx, NovaSeq 6000, NovaSeq 6000Dx, NovaSeq X, VeriSeq NIPT Server, as well as any other computers associated with Illumina end-to-end workflow products.

MiSeq i100 comes with an Administrator user password set on the BIOS. As a result, the MiSeq i100 does not require additional steps be taken at this time.

Setting a BIOS Password on Illumina Products (doc # 200068356)

Thank you for visiting the customer support site for the UCS vulnerability.

The following table lists the impacted instruments and software versions. All instruments require actions outlined in the instruction guide. Illumina recommends that you read the instructions before downloading any software.

NOTE: For any software versions not specified in the table, your instrument is not impacted by this vulnerability and no actions are required. Please return the verification form attached to your notification confirming the action was not performed. 

Instrument Impacted Software Versions Actions Required
MiSeq MiSeq Control Software 4.0 and newer Update software per the actions for this instrument listed in the Local Run Manager Vulnerability Correction patch.

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

 

For MyIllumina login support, contact Customer Care.

 

Secure Communications - Cybersecurity Guidance

This is the software correction for the Local Run Manager security vulnerability of which customers were informed and a temporary security patch was provided in May 2022.

The following table lists the impacted instruments and the required actions for each instrument. Note that all prior versions of control software which utilize Local Run Manager will no longer be available for distribution by Illumina once the software versions listed below are released.

Upon completion of the successful software upgrade, follow Illumina Cybersecurity best practices, including confirming that the firewall is enabled, and Universal Copy Service is running as a standard user.

 

Impacted Instruments and Actions to Take:

Instrument Action Release Date
MiSeq User to update to MiSeq Control Software v4.1 and available Local Run Manager modules. (Refer to Additional Informationbelow.) November 28, 2023

 

The new version of MiSeq Control Software is user-installable, Illumina Field Service is not required. Install the MiSeq Control Software v4.1 on your MiSeq by browsing to the Illumina support site and following the installation instructions provided. Release notes can also be found on the aforementioned Illumina support site. If your MiSeq instrument is on Windows 7, an Illumina Field Service visit is required to upgrade to Windows 10 and the new MiSeq Control Software.

 

NOTE: MyIllumina log-in is required. For MyIllumina log-in support, contact Illumina Customer Care.

 

Local Run Manager Modules Compatibility and Availability

MiSeq Module Compatible Version with MiSeq Control Software v4.1 Availability
16s Metagenomics
v2.1.0.33 Modules available on the Illumina Support Site.
Amplicon DS v3.0.0.56
Assembly v2.1.0.45
DNA Amplicon v3.0.1.1
DNA Enrichment v3.1.0.1090
GenerateFASTQ v3.1.1.56
Library QC v2.2.0.17
PCR Amplicon v2.1.0.30
Resequencing v3.1.0.27
RNA Amplicon v3.0.1.37
RNA Fusion v3.0.0.25
Small RNA v3.1.0.2505
TruSight Tumor (TST15)    TBD Planned for Q2 2024

 

Refer to the following editable PDFs of the recall verification forms. Return the completed form to techsupport@illumina.com to acknowledge receipt of the notification and completion of software update.

Form Description
PQN2023-1454 MiSeq Local Run Manager Update - English Verification Form: English
PQN2023-1454 MiSeq Local Run Manager Update – Arabic Verification Form: Arabic
PQN2023-1454 MiSeq Local Run Manager Update – Bulgarian Verification Form: Bulgarian
PQN2023-1454 MiSeq Local Run Manager Update – Czech Verification Form: Czech
PQN2023-1454 MiSeq Local Run Manager Update – Dutch Verification Form: Dutch
PQN2023-1454 MiSeq Local Run Manager Update – Danish Verification Form: Danish
PQN2023-1454 MiSeq Local Run Manager Update – Finnish Verification Form: Finnish
PQN2023-1454 MiSeq Local Run Manager Update – French Verification Form: French
PQN2023-1454 MiSeq Local Run Manager Update – German Verification Form: German
PQN2023-1454 MiSeq Local Run Manager Update – Greek Verification Form: Greek
PQN2023-1454 MiSeq Local Run Manager Update – Hungarian Verification Form: Hungarian
PQN2023-1454 MiSeq Local Run Manager Update – Italian Verification Form: Italian
PQN2023-1454 MiSeq Local Run Manager Update – Latvian Verification Form: Latvian
PQN2023-1454 MiSeq Local Run Manager Update – Lithuanian Verification Form: Lithuanian
PQN2023-1454 MiSeq Local Run Manager Update – Norwegian Verification Form: Norwegian
PQN2023-1454 MiSeq Local Run Manager Update – Polish Verification Form: Polish
PQN2023-1454 MiSeq Local Run Manager Update – Portuguese Verification Form: Portuguese
PQN2023-1454 MiSeq Local Run Manager Update – Romanian Verification Form: Romanian
PQN2023-1454 MiSeq Local Run Manager Update – Slovak Verification Form: Slovak
PQN2023-1454 MiSeq Local Run Manager Update – Slovene Verification Form: Slovene
PQN2023-1454 MiSeq Local Run Manager Update – Spanish Verification Form: Spanish
PQN2023-1454 MiSeq Local Run Manager Update – Swedish Verification Form: Swedish
PQN2023-1454 MiSeq Local Run Manager Update – Turkish Verification Form: Turkish

Important Notes

  • Windows automatic operating system security updates are disabled by default on your MiSeqDx instrument. If you enable automatic system updates, it is possible that you may install untested updates that could impact system integrity.
  • Installing the OS patches from the latest published PDF is sufficient to keep your instrument secure. Most patches in the PDF are cumulative, meaning the latest version includes all updates from previous patches. Any non-cumulative patches will be listed in future PDF releases, but you do not need to reinstall them if they are already installed. Refer to the installation guide for instructions on how to check the current patches installed on your instrument.

Instructions

  1. Download the following installation guide to install OS security patches on your MiSeqDx instrument.
    Illumina Security Maintenance for Instruments with Windows Operating Systems
  2. Use the links below to download the patches directly from the Microsoft Update Catalog website.
  3. Follow the instruction from the guide to install the patches.

Patches

Microsoft Release Period Date Posted by Illumina Next Scheduled Release by Illumina

Q1 2025

Q2 2025 Q2 2025

 

Install in the following order:

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

For MyIllumina login support, contact Customer Care.

Secure Communications - Cybersecurity Guidance

Thank you for visiting the customer support site for the UCS vulnerability.

The following table lists the impacted instruments and software versions. All instruments require actions outlined in the instruction guide. Illumina recommends that you read the instructions before downloading any software.

NOTE: For any software versions not specified in the table, your instrument is not impacted by this vulnerability and no actions are required. Please return the verification form attached to your notification confirming the action was not performed.

Instrument Impacted Software Versions Actions Required
MiSeqDx MiSeq Control Software 4.0 and newer (RUO Mode) Update software per the actions for this instrument listed in the Local Run Manager Vulnerability Correction patch.
  MiSeqDx Operating Software 4.0.1 and newer Update software per the actions for this instrument listed in the Local Run Manager Vulnerability Correction patch.

Thank you for visiting the customer support site for setting a BIOS password on your Illumina system (eg, instrument, server, computer) to keep it secure. Assigning a password to a system’s BIOS provides an added layer of security and is recommended by Illumina, per the Setting BIOS Password CCN2025-1703 sent on March 25, 2025.

Illumina highly recommends that customers assign an Administrator BIOS password on all Illumina systems, regardless of whether they are connected to an external internet or local network.

Refer to the following instructions to create and set an Administrator BIOS password to the following systems:

DRAGEN v3/v4 Server, iScan, iScan Dx, iSeq100, MiniSeq, MiSeq, MiSeqDx, NextSeq 1000/2000, NextSeq 500/550, NextSeq 550Dx, NovaSeq 6000, NovaSeq 6000Dx, NovaSeq X, VeriSeq NIPT Server, as well as any other computers associated with Illumina end-to-end workflow products.

MiSeq i100 comes with an Administrator user password set on the BIOS. As a result, the MiSeq i100 does not require additional steps be taken at this time.

Setting a BIOS Password on Illumina Products (doc # 200068356)

This is the software correction for the Local Run Manager security vulnerability of which customers were informed and a temporary security patch was provided in May 2022.

The following table lists the impacted instruments and the required actions for each instrument. Note that all prior versions of control software which utilize Local Run Manager will no longer be available for distribution by Illumina once the software versions listed below are released.

Upon completion of the successful software upgrade, follow Illumina Cybersecurity best practices, including confirming that the firewall is enabled, and Universal Copy Service is running as a standard user.

 

Impacted Instruments and Actions to Take:

Instrument Action Release Date
MiSeqDx Illumina Field Support to update to MiSeqDx Operating Software v4.1 and available Local Run Manager modules. (Refer to Additional Information below.) November 28, 2023

Software installation requires onsite Illumina support. An Illumina Field Representative will contact you to schedule an onsite visit to install the MiSeqDx Operating Software v4.1 (release notes) and the MiSeq Control Software v4.1 (release notes).

 

Local Run Manager Modules Compatibility and Availability

MiSeqDx Module Compatible Version with MiSeqDx Control Software v4.1 Availability
CF 139-Variant 2.0
v1.0.1.124 Installed by Illumina Field Representative.
CF 139-Variant 2.0 Micro v1.0.0.113
CF Clinical Seq 2.0 v1.0.1.96
CF Clinical Seq 2.0 Micro v1.0.0.70
DNA GenerateFASTQ Dx v1.0.0.299
Germline Variant v2.0.0.36
Somatic Variant v2.0.0.12

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

 

For MyIllumina login support, contact Customer Care.

 

Secure Communications - Cybersecurity Guidance

Thank you for visiting the customer support site for the UCS vulnerability.

The following table lists the impacted instruments and software versions. All instruments require actions outlined in the instruction guide. Illumina recommends that you read the instructions before downloading any software.

NOTE: For any software versions not specified in the table, your instrument is not impacted by this vulnerability and no actions are required. Please return the verification form attached to your notification confirming the action was not performed. 

Instrument Impacted Software Versions Actions Required
NextSeq 1000/2000 NextSeq Control Software 1.4.1 Update the system software with NextSeq 1000/2000 Control Software Suite v1.5.0 Installer.

Important Notes

  • Windows automatic operating system security updates are disabled by default on your NextSeq 500/550 instrument. If you enable automatic system updates, it is possible that you may install untested updates that could impact system integrity.
  • Installing the OS patches from the latest published PDF is sufficient to keep your instrument secure. Most patches in the PDF are cumulative, meaning the latest version includes all updates from previous patches. Any non-cumulative patches will be listed in future PDF releases, but you do not need to reinstall them if they are already installed. Refer to the installation guide for instructions on how to check the current patches installed on your instrument.

Instructions

  1. Download the following installation guide to install OS security patches on your NextSeq 500/550 instrument.
    Illumina Security Maintenance for Instruments with Windows Operating Systems
  2. Use the links below to download the patches directly from the Microsoft Update Catalog website.
  3. Follow the instruction from the guide to install the patches.

Patches

Microsoft Release Period Date Posted by Illumina Next Scheduled Release by Illumina

Q1 2025

Q2 2025 Q2 2025

 

Install in the following order:

Thank you for visiting the customer support site for setting a BIOS password on your Illumina system (eg, instrument, server, computer) to keep it secure. Assigning a password to a system’s BIOS provides an added layer of security and is recommended by Illumina, per the Setting BIOS Password CCN2025-1703 sent on March 25, 2025.

Illumina highly recommends that customers assign an Administrator BIOS password on all Illumina systems, regardless of whether they are connected to an external internet or local network.

Refer to the following instructions to create and set an Administrator BIOS password to the following systems:

DRAGEN v3/v4 Server, iScan, iScan Dx, iSeq100, MiniSeq, MiSeq, MiSeqDx, NextSeq 1000/2000, NextSeq 500/550, NextSeq 550Dx, NovaSeq 6000, NovaSeq 6000Dx, NovaSeq X, VeriSeq NIPT Server, as well as any other computers associated with Illumina end-to-end workflow products.

MiSeq i100 comes with an Administrator user password set on the BIOS. As a result, the MiSeq i100 does not require additional steps be taken at this time.

Setting a BIOS Password on Illumina Products (doc # 200068356)

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

 

For MyIllumina login support, contact Customer Care.

 

Secure Communications - Cybersecurity Guidance

Thank you for visiting the customer support site for the UCS vulnerability.

The following table lists the impacted instruments and software versions. All instruments require actions outlined in the instruction guide. Illumina recommends that you read the instructions before downloading any software.

NOTE: For any software versions not specified in the table, your instrument is not impacted by this vulnerability and no actions are required. Please return the verification form attached to your notification confirming the action was not performed.

Instrument Impacted Software Versions Actions Required
NextSeq 500/550 NextSeq Control Software 4.0 Update software per the actions for this instrument listed in the Local Run Manager Vulnerability Correction patch.

NextSeq Control Software 4.1

Update software per the actions for this instrument listed in the Local Run Manager Vulnerability Correction patch.

This is the software correction for the Local Run Manager security vulnerability of which customers were informed and a temporary security patch was provided in May 2022.

The following table lists the impacted instruments and the required actions for each instrument. Note that all prior versions of control software which utilizeLocal Run Manager will no longer be available for distribution by Illumina once the software versions listed below are released.

Upon completion of the successful software upgrade, follow Illumina Cybersecurity best practices, including confirming that the firewall is enabled, and Universal Copy Service is running as a standard user.

 

Impacted Instruments and Actions to Take:

Instrument Action Release Date
NextSeq 500/550 Illumina Field Support to update NextSeq Control Software v4.2 and available Local Run Manager modules. (Refer to Additional Information below.) May 31, 2023

 

Software Installation requires onsite Illumina support. An Illumina Field Representative will contact you to schedule an onsite visit to install NextSeq Control Software v4.2.0 (release notes).

Local Run Manager Modules Compatibility Availability

 

NextSeq 550 Module Description Compatible Version with NextSeq Control Software v4.2 Availability
16s Metagenomics
v2.1.0.33 Modules available on the Illumina Support Site.
Amplicon DS v3.0.0.56
Assembly v2.1.0.45
DNA Amplicon v3.0.1.1
DNA Enrichment v3.1.0.1090
GenerateFASTQ v3.1.1.56
Library QC v2.2.0.17
PCR Amplicon v2.1.0.30
Resequencing v3.1.0.27
RNA Amplicon v3.0.1.37
RNA Fusion v3.0.0.25
Small RNA v3.1.0.2505
TruSight Oncology 500 v2.3 Planned for Q3 2023
VeriSeq NIPT v1.0.4.3 Planned for Q4 2023

Thank you for visiting the customer support site for setting a BIOS password on your Illumina system (eg, instrument, server, computer) to keep it secure. Assigning a password to a system’s BIOS provides an added layer of security and is recommended by Illumina, per the Setting BIOS Password CCN2025-1703 sent on March 25, 2025.

Illumina highly recommends that customers assign an Administrator BIOS password on all Illumina systems, regardless of whether they are connected to an external internet or local network.

Refer to the following instructions to create and set an Administrator BIOS password to the following systems:

DRAGEN v3/v4 Server, iScan, iScan Dx, iSeq100, MiniSeq, MiSeq, MiSeqDx, NextSeq 1000/2000, NextSeq 500/550, NextSeq 550Dx, NovaSeq 6000, NovaSeq 6000Dx, NovaSeq X, VeriSeq NIPT Server, as well as any other computers associated with Illumina end-to-end workflow products.

MiSeq i100 comes with an Administrator user password set on the BIOS. As a result, the MiSeq i100 does not require additional steps be taken at this time.

Setting a BIOS Password on Illumina Products (doc # 200068356)

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

 

For MyIllumina login support, contact Customer Care.

 

Secure Communications - Cybersecurity Guidance

This is the software correction for the Local Run Manager security vulnerability of which customers were informed and a temporary security patch was provided in May 2022.

The following table lists the impacted instruments and the required actions for each instrument. Note that all prior versions of control software which utilize Local Run Manager will no longer be available for distribution by Illumina once the software versions listed below are released.

Upon completion of the successful software upgrade, follow Illumina Cybersecurity best practices, including confirming that the firewall is enabled, and Universal Copy Service is running as a standard user.

 

Impacted Instruments and Actions to Take:

Instrument Action Release Date
NextSeq 550Dx Illumina Field Support to update NextSeqDx Operating Software v1.7 and available Local Run Manager modules (Refer to Additional Information below.) October 25, 2023

 

Local Run Manager Modules Compatibility and Availability

NextSeq 550Dx Module  Compatible Version with NextSeq 550Dx Operating Software v1.7 Availability
DNA GenerateFASTQ Dx v1.0.0.299 Modules available on the Illumina Support Site.
Germline Variant v1.3.0.0
Somatic Variant v1.3.0.0
VeriSeq NIPT v1.1.2.601
TruSight Oncology Comp IVD v2.3.7 (IVDD) Planned for Q4 2023

 

Refer to the following editable PDFs of the recall verification forms. Return the completed form to techsupport@illumina.com to acknowledge receipt of the notification.

Thank you for visiting the customer support site for the UCS vulnerability.

The following table lists the impacted instruments and software versions. All instruments require actions outlined in the instruction guide. Illumina recommends that you read the instructions before downloading any software.

NOTE: For any software versions not specified in the table, your instrument is not impacted by this vulnerability and no actions are required. Please return the verification form attached to your notification confirming the action was not performed.

Instrument Impacted Software Versions Actions Required
NextSeq 550Dx NextSeq Control Software 4.0 (RUO Mode) Update software per the actions for this instrument listed in the Local Run Manager Vulnerability Correction patch.

NextSeq Control Software 4.1

Update software per the actions for this instrument listed in the Local Run Manager Vulnerability Correction patch.

NextSeq Operating Software 1.0.0-1.3.1

Update software per the actions for this instrument listed in the Local Run Manager Vulnerability Correction patch.

NextSeq Operating Software 1.3.3 and newer

Update software per the actions for this instrument listed in the Local Run Manager Vulnerability Correction patch.

Important Notes

  • Windows automatic operating system security updates are disabled by default on your NovaSeq 6000 instrument. If you enable automatic system updates, it is possible that you may install untested updates that could impact system integrity.
  • Installing the OS patches from the latest published PDF is sufficient to keep your instrument secure. Most patches in the PDF are cumulative, meaning the latest version includes all updates from previous patches. Any non-cumulative patches will be listed in future PDF releases, but you do not need to reinstall them if they are already installed. Refer to the installation guide for instructions on how to check the current patches installed on your instrument.

Instructions

  1. Download the following installation guide to install OS security patches on your NovaSeq 6000 instrument.
    Illumina Security Maintenance for Instruments with Windows Operating Systems
  2. Use the links below to download the patches directly from the Microsoft Update Catalog website.
  3. Follow the instruction from the guide to install the patches.

Patches

Microsoft Release Period Date Posted by Illumina Next Scheduled Release by Illumina

Q4 2024

Q4 2024 Q2 2025

Install in the following order:

Thank you for visiting the customer support site for setting a BIOS password on your Illumina system (eg, instrument, server, computer) to keep it secure. Assigning a password to a system’s BIOS provides an added layer of security and is recommended by Illumina, per the Setting BIOS Password CCN2025-1703 sent on March 25, 2025.

Illumina highly recommends that customers assign an Administrator BIOS password on all Illumina systems, regardless of whether they are connected to an external internet or local network.

Refer to the following instructions to create and set an Administrator BIOS password to the following systems:

DRAGEN v3/v4 Server, iScan, iScan Dx, iSeq100, MiniSeq, MiSeq, MiSeqDx, NextSeq 1000/2000, NextSeq 500/550, NextSeq 550Dx, NovaSeq 6000, NovaSeq 6000Dx, NovaSeq X, VeriSeq NIPT Server, as well as any other computers associated with Illumina end-to-end workflow products.

MiSeq i100 comes with an Administrator user password set on the BIOS. As a result, the MiSeq i100 does not require additional steps be taken at this time.

Setting a BIOS Password on Illumina Products (doc # 200068356)

Thank you for visiting the customer support site for the UCS vulnerability.

The following table lists the impacted instruments and software versions. All instruments require actions outlined in the instruction guide. Illumina recommends that you read the instructions before downloading any software.

NOTE: For any software versions not specified in the table, your instrument is not impacted by this vulnerability and no actions are required. Please return the verification form attached to your notification confirming the action was not performed.

Instrument Impacted Software Versions Actions Required
NovaSeq 6000 NovaSeq Control Software 1.7 and older

Configure UCS account credentials.

NOTE: The instructions state that the firewall port must be closed for these software versions. Closing the firewall port is not required.

  NovaSeq Control Software 1.8
  1. Update system software with NovaSeq Software Suite Installer v1.8.1.59.
  2. Configure UCS account credentials.
  3. Close firewall port.


Universal Copy Service Instructions

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

For MyIllumina login support, contact Customer Care.

Secure Communications - Cybersecurity Guidance

Thank you for visiting the customer support site for setting a BIOS password on your Illumina system (eg, instrument, server, computer) to keep it secure. Assigning a password to a system’s BIOS provides an added layer of security and is recommended by Illumina, per the Setting BIOS Password CCN2025-1703 sent on March 25, 2025.

Illumina highly recommends that customers assign an Administrator BIOS password on all Illumina systems, regardless of whether they are connected to an external internet or local network.

Refer to the following instructions to create and set an Administrator BIOS password to the following systems:

DRAGEN v3/v4 Server, iScan, iScan Dx, iSeq100, MiniSeq, MiSeq, MiSeqDx, NextSeq 1000/2000, NextSeq 500/550, NextSeq 550Dx, NovaSeq 6000, NovaSeq 6000Dx, NovaSeq X, VeriSeq NIPT Server, as well as any other computers associated with Illumina end-to-end workflow products.

MiSeq i100 comes with an Administrator user password set on the BIOS. As a result, the MiSeq i100 does not require additional steps be taken at this time.

Setting a BIOS Password on Illumina Products (doc # 200068356)

Important Notes

  • Windows automatic operating system security updates are disabled by default on your NovaSeq 6000Dx instrument. If you enable automatic system updates, it is possible that you may install untested updates that could impact system integrity.
  • Installing the OS patches from the latest published PDF is sufficient to keep your instrument secure. Most patches in the PDF are cumulative, meaning the latest version includes all updates from previous patches. Any non-cumulative patches will be listed in future PDF releases, but you do not need to reinstall them if they are already installed. Refer to the installation guide for instructions on how to check the current patches installed on your instrument.

Instructions

  1. Download the following installation guide to install OS security patches on your NovaSeq 6000Dx instrument.
    Illumina Security Maintenance for Instruments with Windows Operating Systems
  2. Use the links below to download the patches directly from the Microsoft Update Catalog website.
  3. Follow the instruction from the guide to install the patches.

Patches

Microsoft Release Period Date Posted by Illumina Next Scheduled Release by Illumina
Q1 2025 Q2 2025 Q2 2025

 

Install in the following order:

This Cybersecurity Guidance document contains security requirements which Illumina recommends following to avoid elevation of cybersecurity risks associated with your Illumina product.

Topics covered include:

  • Best practices for setting up and maintaining a secure posture on your Illumina product
  • Guidance for securely decommissioning or transfer of ownership of an Illumina product
  • Software patching guidance for Illumina products
  • Illumina security features configuration best practices
  • User management best practices

A MyIllumina account is required to download the listed files. You may be prompted to log in to your MyIllumina account and provide an instrument serial number OR a customer number when selecting a file from the list.

For MyIllumina login support, contact Customer Care.

Secure Communications - Cybersecurity Guidance

* For In Vitro Diagnostic Use
Contact an Illumina representative for regional availability.

Report a security concern

If you identify a potential vulnerability in an Illumina product, please contact us via email as soon as possible utilizing PGP (Pretty Good Privacy encryption program) as outlined below:

Key ID: B286E33E2CCD79B5 
PGP Location:  https://keys.openpgp.org/

vdp@illumina.com

Contact tech support

Reach out about technical product questions, service issues, or any other support-related questions:

techsupport@illumina.com

Get instructions for sharing your desktop while working with Technical Support.

Share Desktop