Single cell analysis is getting into the focus of many research fields as it demonstrates the individual contribution of every cell in a heterogeneous population without obscuring a biological response that may otherwise occur when cells are assessed in bulk. Although single-cell research is currently gaining momentum, yet it is challenged by the lack of affordable methods to precisely isolate a single cell from a heterogeneous cell population without causing high cellular stress. The QIAscout system is an effective and fast method to isolate viable single cells ensuring minimal manipulation of the cellular status. The QIAscout array is ideal for various cell types like adherent cells, suspension cells, cell lines, primary cells, and fluorescent cell lines providing an environment suitable for their growth and viability similar to any standard cell culture dish. The QIAscout array consists of 12,000 microrafts that can be selectively isolated containing the single cell of interest. This novel single cell isolation method is ideal to separate single cells for further downstream analysis or cultivation of clonal sub-populations. Single cell isolation with QIAscout is compatible with multiple downstream applications such as whole genome and transcriptome amplification methods, PCR and NGS.

1. Sample to Insight
Single Cell Isolation
Find out how you can isolate the single cell of your choice and get visual confirmation

2. Sample to Insight
QIAscout: single cell isolation
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High-density microraft array-based single
cell isolation – simple, easy, affordable.
You only require an inverted microscope to
start working with the device.
Single cell genomics by QIAGEN, 2016

3. Sample to Insight
Components of the QIAscout system
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Understand the elegant simplicity of the QIAscout on YouTube
Single cell genomics by QIAGEN, 2016

4. Sample to Insight
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Discover QIAscout: single cell isolation
• Access to single cells for every lab
• Number of single cells easily scalable
• Imaging-based cell selection
• Easy to use
◦ Choose the cell, release microraft to downstream reaction tube
◦ Repeat as often as you want
• Affordable
◦ Cost-effective device usable on multiple inverted microscopes present in labs
• Cells stay viable
◦ Array can be used as a standard cell culture dish
◦ Enables single cell clonal expansion
• Compatible with downstream NGS, WGA, WTA and PCR
Single cell genomics by QIAGEN, 2016

5. Sample to Insight
QIAscout: an easy start to your single cell analysis workflow
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Ideally suited for
• Single cell isolation from cell suspensions
• Low volume, precious samples
• Adherent or non-adherent eukaryotic cells from various sample types
• Downstream molecular analyses
◦ Aligned with QIAGEN’s single cell analysis portfolio
• Clonal expansion
“QIAscout turned out to be a very suitable system, allowing us to select and transfer
our cell of interest with nearly 100% efficiency and survival rate for further
downstream applications. The instrument has contributed greatly to our research. ”
Dr. Lajos Kemeny, University of Szeged, Hungary
Single cell genomics by QIAGEN, 2016

6. Sample to Insight
The QIAscout array
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• Can be used as standard cell culture dish
• Microrafts are magnetic, dislodgeable
and self-sealing
• Each array contains 12,000 microrafts
• Cells settle according to Poisson
distribution
• 6000 cells equals a 30% chance of
having a singe cell in a microraft
Single cell genomics by QIAGEN, 2016

7. Sample to Insight
CellTracker Green
Hoechst
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Image of cells on the QIAscout array

8. Sample to Insight
After isolation cells remain viable and continue to grow
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Pierced cluster of
HT-29 cells
The same cluster,
after several days
of cultivation
Pierced SW48 cell After severll days
of cultivation
5 h 24 h 45 h 90 h
MCF-7 cell culture, established
after transfer of pierced cell
HT-29 cells after 90 hours
Single cell genomics by QIAGEN, 2016
Read the application note

9. Sample to Insight
Single cell genomics by QIAGEN
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For in-depth, molecular analysis of single cells
Single cell
WGA or WTA
Single cell
isolation
Single cell
sequencing
• Easily access
single cells
• Affordable
• Gentle on cells
QIAscout
QIAseq
FX Single Cell
Library Kits
REPLI-g
Single Cell Kits
Single cell
miRNA analysis
• Create superior-
quality NGS
libraries directly
from single cells
• Provides best-in-
class amplification
of genomes or
transcriptomes from
single cells
• Profile miRNA
expression using
qPCR
miScript
Single Cell
qPCR Kit
Single cell genomics by QIAGEN, 2016
Visit the single cell resource center