Resources

Explore insightful resources that include videos, whitepapers, eBooks, application notes and more

Automating three-level combinatorial indexing for ultra-high-throughput single-cell sequencing on the SPT Labtech firefly plus

Single-cell combinatorial indexing enables transcriptomic profiling at a massive scale without the requirement for specialised microfluidic hardware (Cusanovich et al., 2015, Cao et al., 2017, Rosenberg et al., 2018). By utilising fixed cells or nuclei as reaction vessels, this approach allows for exponential scaling through iterative rounds of pooling and barcoding. While traditional two-level indexing provides a baseline for discovery, expanding to three-level indexing (here 384 x 384 x 384) increases the potential indexing space to over 56 million combinations, significantly lowering collision rates for high-throughput experiments.

Poster

Development of a 3D high-content imaging based explorative toxicology platform for tumor and healthy colorectal patient-derived organoids.

This study describes the development of an explorative toxicity screening platform using colorectal PDOs obtained from both tumor and matched healthy tissues. The latter is organized into distinct stem cell and differentiated cell compartments with differing proliferative and functional roles, where stem cells maintain homeostasis and self-renewal, and differentiated cells perform specialized functions including drug uptake and barrier maintenance.

Poster

Streamlined Library Preparation with Enzymatic Fragmentation: Automating KAPA EvoPlus Boost and KAPA EvoPlus V2 Kits on firefly+

OverviewRoche KAPA EvoPlus Boost Kits and KAPA EvoPlus V2 Kits are ideally suited for low- and high-throughput Next-Generation Sequencing (NGS) library construction workflows. The KAPA EvoPlus Boost kit uses KAPA EvoAmp ReadyMix powered by KAPA HiFi to construct libraries from input DNA amounts of 0.1 ng to 500 ng. The kits are available in an automation-friendly 96-well plated format. Full walkaway KAPA EvoPlus Boost (or KAPA EvoPlus V2) and KAPA EvoPlus Boost PCR-Free protocols have been developed for the SPT Labtech firefly+ using the 96-well plate format kits and the KAPA Unique Dual-Indexed (UDI) Adapter Kit. This poster provides supporting information for the firefly+ protocols listed below. These protocols are based on the Roche document - “Instructions for Use of KAPA DNA Library Prep Evolved Workflows with enzymatic fragmentation. For use with the KAPA EvoPlus V2 and KAPA EvoPlus Boost kits. Featuring KAPA EvoT4 DNA Ligase and KAPA EvoAmp ReadyMix. (October 2025, Version 5.0)” and are available to download from the firefly community.

Poster

firefly® application note - QIAseq miRNA Library Kit Automated on firefly® - Workflow overview

This application note provides supporting information for the firefly protocols listed below. These protocols are the Qiagen QIAseq miRNA Library Kit protocols and are available to download from the firefly community. Here, we outline protocol run times, parts required and provide details on the steps performed in each of the firefly protocols.

Application note

firefly® application note - QIAseq Targeted DNA Pro Automated on firefly® - Workflow overview

This application note provides supporting information for the firefly protocols listed below. These protocols are the Qiagen QIAseq Targeted DNA Pro protocols and are available to download from the firefly community. Here, we outline protocol run times, parts required and provide details on the steps performed in each of the firefly protocols.

Application note

firefly® application note - Automating QIAseq® FastSelectTM RNA Library kit on firefly®

This application note provides supporting information for the firefly protocols listed below. These protocols are the Qiagen QIAseq® FastSelectTM RNA Library kit protocols and are available to download from the firefly community. Here, we outline protocol run times, parts required and provide details on the steps performed in each of the firefly protocols.

Application note

firefly®+ technical note - Roche KAPA EvoPlus Boost Kit and KAPA EvoPlus V2 Kit

This technical note provides supporting information for the firefly+ protocols listed below. These protocols are Roche KAPA EvoPlus Boost Kit and KAPA EvoPlus V2 Kit protocols and are available to download from the firefly community. Here, we outline protocol run times, parts required and provide details on the steps performed in each of the firefly protocols.

Technical note

firefly®+ application note - Roche KAPA EvoPlus Boost Kit and KAPA EvoPlus V2 Kit

This application note provides supporting information for the firefly+ protocols listed below. These protocols are the Roche KAPA EvoPlus Boost Kit and KAPA EvoPlus V2 Kit protocols and are available to download from the firefly community. Here, we outline protocol run times, parts required and provide details on the steps performed in each of the firefly protocols.

Application note

A miniaturized, semi-automated RNA-seq workflow for rapid lead selection and prioritization to streamline early drug development - Application Note

This application Note describes a semi-automated, miniaturized platform for gene expression analysis that uses an off-the-shelf direct cell lysis RNA-seq assay and a nanoliter-scale liquid-handling device (Figure 1). This workflow can capture polyadenylated protein-coding RNA or both coding and non-coding RNA by simply changing the primer used during reverse transcription. The integrated QIAseq® FastSelect® ribosomal RNA blocking technology suppresses unwanted reads from both cytoplasmic and mitochondrial rRNAs. In addition, sample barcoding using UPXome technology during reverse transcription assigns a unique ID to each sample's cDNA, enabling cDNA pooling that simplifies and accelerates library construction.

Application note

Reimagining Adherent Cell Assays: Flexible Automation with firefly and SemaCyte Technologies

In this joint webinar, Semarion and SPT Labtech walk through the development of robust, automated protocols for dispensing and processing SemaCyte-loaded microwells with minimal manual intervention. Using the firefly, all-in-one liquid handler, the team demonstrates how end-to-end assay automation becomes practical and scalable.

Webinar

Lunch & Learn: Walkaway Automation for mRNA Library Prep: Real-World Implementation and Results

In this Lunch and learn webinar, scientists from the Whitehead Institute Genome Technology Core (GTC) showcased an end-to-end, walkaway automation of the Watchmaker mRNA Library Prep Kit on our firefly+ platform. The team walked through the complete automated workflow, demonstrating how firefly+ performs in real laboratory settings, displaying how complex library preparation processes can be streamlined with automation. Gain insight into how reliable, high-quality library generation can be achieved with minimal hands-on intervention, enabling greater consistency, efficiency, and scalability for transcriptomics workflows.

Webinar

Roche KAPA EvoPlus V2 and KAPA EvoPlus Boost

In this poster we demonstrate how these workflows have been automated on firefly+. We provide details on the steps performed in each protocol, together with data to demonstrate the performance of these protocols in generating high quality libraries for sequencing.

Poster

Page 1 of 29