Benefits
Ideal for degraded RNA samples
Compatible with FFPE RNA and samples with RIN values as low as 1.
Bulk RNA sequencing at scale
Massively multiplexed RNA-seq offers unparalleled cost and throughput scalability.
Fast turnaround times
From samples to data in as little as one month.
Experimental workflow at a glance
What we do
MERCURIUS™
FFPE-seq service
The MERCURIUS™ FFPE-seq service is designed to cope with degraded RNA samples, such as FFPE samples, offering a convenient and streamlined solution for transcriptomics projects. Clients can send us directly purified RNA samples. During the process, we always keep clients informed at defined checkpoints so that we can decide together how to best proceed to the next steps.
Next generation sequencing and data pre-processing (including alignment to the genome of choice) are part of our standard service as well. As a result, we provide our clients raw data, sequencing and alignment reports, and gene count matrices which can be used for downstream gene expression analysis.
How does it work
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Client ships samples to Alithea
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2 days
MERCURIUS™ FFPE-seq library preparation
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1 week
Library QC - Client Checkpoint
(Qubit, Fragment analyzer, shallow sequencing) -
1 week
Deep sequencing
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1 week
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Data
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Optional: Alithea performs Differential Gene Expression analysis
Performance
Read more about the FFPE-seq on our blog.
FFPE-seq provides full-length gene coverage
Genome browser view of the RNA-seq reads mapped to...
Gene body coverage of FFPE-seq
Gene body coverage from FFPE-seq, BRB-seq, and NEB...
FFPE-seq provides full-length gene coverage
Genome browser view of the RNA-seq reads mapped to several human genes, using different library preparation protocols. The FFPE-seq shows comparable coverage as the NEB Ultra II, while the BRB-seq protocol is limited only to the 3' end genomic region.
Gene body coverage of FFPE-seq
Gene body coverage from FFPE-seq, BRB-seq, and NEB Ultra II. The FFPE-seq shows a similar coverage profile as the NEB Ultra II. By contrast, BRB-seq reads preferentially mapped to the 3'end.
FAQs
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We recommend that each sample contains 500ng of total RNA to guarantee high-quality data.
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The service is validated with the purified RNA samples from various source and RIN values ranging from 1 to 10.
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We normally recommend sequencing between 10-20 million reads for each sample.
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As part of our standard service pipeline, we align the generated data to the genome of choice, provide a detailed report on the alignment and gene counting statistics and, finally, provide ready-to-use gene count matrices for downstream analysis.
Optionally, we can include differential gene expression analysis.
Dr. Nuno Miguel Luis, CNRS Researcher
Dr. Hirokazu Okada, ETH Zurich
Prof. Dr. Marc Robinson-Rechavi, University of Lausanne
Prof. Dr. Martin Klingenspor, TUM Munich
Speak with our RNA sequencing experts
Need guidance or have questions about FFPE-seq and our service?
Easily book a call with our RNA-seq experts.