Dear Customer,

We are writing to inform you that Illumina and Fluent Biosciences, an Illumina company, will soon be obsoleting the PIPseeker software. We are making this change as part of our ongoing effort to streamline our portfolio to ensure we offer the highest quality products.

What This Means for You

As a result of this obsolescence, we are recommending customers transition to the DRAGEN™ Single Cell RNA App v4.4 which has faster analysis time and supports secondary analysis for all Illumina Single Cell RNA Preps, formerly Fluent PIPseq™ V products.

There will be no further development, improvements or bug fixes to the existing PIPseeker software, which will be hosted on the Fluent BioSciences website until the last available download date.

PIPseeker information including support documentation, can be found here: https://www.fluentbio.com/products/pipseeker-software-for-data-analysis/

Illumina provides various options for secondary and tertiary analysis of Single Cell Library Prep data. The DRAGEN Single Cell RNA App is available in the cloud computing environments Illumina Connected Analytics (ICA) and BaseSpace™ Sequence Hub (BSSH) as well as on the DRAGEN server on-premises. It is not available for DRAGEN onboard NovaSeq™ X Series or NextSeq™ 1000/2000 instruments currently. Please see Table 1 for DRAGEN server and ICA and BSSH license options.

Table 1: Available Secondary Analysis Alternative products from Illumina

DRAGEN Secondary Analysis information can be found here: https://www.illumina.com/products/by-type/informatics-products/dragen-secondary-analysis.html

DRAGEN Single Cell RNA App information can be found here: https://www.illumina.com/products/by-type/informatics-products/basespace-sequence-hub/apps/dragen-single-cell-rna.html

DRAGEN Secondary Analysis Apps support documentation, including DRAGEN Single Cell RNA, can be found here: https://help.dragen.illumina.com/

We recommend that all current PIPseeker users transition to the DRAGEN Single Cell App before the last available download date for PIPseeker from the Fluent website.

For the tertiary analysis of Fluent, now Illumina Single Cell RNA Prep data, we recommend customers use Partek Flow. Partek Flow can utilize the sparse matrix output from the DRAGEN single Cell RNA App v4.4 and PIPseeker. Partek Flow offers multiple methods for differential expression, cell clustering, dimension reduction and cell typing. The solution is available as Illumina-hosted or customer-deployed configurations. As well, both named and concurrent licensing options are available. Fluent customers would need to purchase both the base solution and the Single cell and Spatial add-on toolkit to work with Illumina Single Cell RNA Prep data previously generated Fluent PIPseq prep data.

Table 2: Available Alternative Tertiary Analysis products from Illumina

Important dates for PIPseeker software being obsolesced:

· DRAGEN Single Cell RNA v4.4 App available in ICA and BSSH cloud: January 6, 2025

· DRAGEN 4.4 release for on-premises server including Single Cell RNA v4.4 pipeline planned availability: June 2025

· Last PIPseeker available download date from the Fluent website: June 15, 2025

· End of PIPseeker support date: August 30, 2025

We’re Here to Help

We recognize the impact that an obsolescence notice may have on your operation. We are committed to providing you with the highest quality service and support during this process. Please work with your Illumina Sales Account Manager or Sequencing Specialist to identify the best option to support your Single Cell analysis needs.

For questions or concerns, please contact Illumina Technical Support at techsupport@illumina.com.

We greatly appreciate your continued business.

Sincerely,

The Customer Notification Team

Illumina, Inc.

Website: www.illumina.com