Sample Requirements
When you plan to ship samples for NGS sequencing to CeGaT we strongly recommend our following sample requirements in order to receive the best results. Do not hesitate to contact us when you have questions regarding the quantity or the quality of your sample material. We will find a solution also for your samples!
RNA Sequencing
CTS (mRNA)
Recommended Amount
≥ 1 µg RNA
Recommended Concentration
≥ 40 ng/µl
Recommended Volume
25 µl
Recommended Quality
RIN ≥ 8
WTS (total RNA)
Recommended Amount
≥ 1 µg RNA
Recommended Concentration
≥ 40 ng/µl
Recommended Volume
25 µl
Recommended Quality
RIN ≥ 3
TS Flex (small RNA)
Recommended Amount
≥ 1 µg RNA
Recommended Concentration
≥ 40 ng/µl
Recommended Volume
25 µl
Recommended Quality
RIN ≥ 8
Please quantify the concentration of your sample using a fluorometric based method (e.g. Qubit). The quality of your sample should be further assessed by Bioanalyzer or detecting the optical density., resulting in an OD 260/280 ~ 2.0. RNA samples need to be DNase treated.
SARS-CoV-2 Sequencing
WGS SARS-CoV-2
Recommended cycle threshold (CT)*
< 30
Recommended Volume
25 µl
Recommended Quality
High quality RNA
*The cycle threshold (CT) in reverse transcription polymerase chain reaction (RT-PCR). Assessment of viral RNA using a qPCR assay.
DNA Sequencing
WES
Recommended Amount
1 µg
Recommended Concentration
≥ 40 ng/µl
Recommended Volume
25 µl
WGS
Recommended Amount
≥ 1 µg
Recommended Concentration
≥ 40 ng/µl
Recommended Volume
25 µl
WGS PCR free
Recommended Amount
≥ 3 µg
Recommended Concentration
≥ 40 ng/µl
Recommended Volume
25 µl
Small WGS / Shotgun Metagenomics
Recommended Amount
≥ 500 ng
Recommended Concentration
≥ 20 ng/µl
Recommended Volume
25 µl
Full-Lenght 16S
Recommended Amount
≥ 250 ng
Recommended Concentration
≥ 10 ng/µl
Recommended Volume
25 µl
Please quantify the concentration of your sample using a fluorometric based method (e.g. Qubit). The quality of your sample should be further assessed by Fragment Analyzer or detecting the optical density. We recommend using DNA samples with high molecular weight DNA that were RNase treated resulting in an OD 260/280 of 1.8 – 2.0. Of course, also fragmented DNA can be sequenced when library is prepared according to our special protocols.
All isolated DNA samples should be delivered in molecular biology grade water, 10 mM Tris-HCl pH 8 or Elution Buffer, free of EDTA.
Ready to Load Sequencing
MiSeq
Recommended Concentration
10 nM
Recommended Volume
20 µl
NovaSeq 6000
Recommended Concentration
10 nM
Recommended Volume
120 µl
PacBio
Library insert size | Required library concentration | Required Volume |
≥ 10 kb | ≥ 20 ng/µl | 12µL |
3 kb – 9999 bp | ≥ 6 ng/µl | 12µL |
1.5 kb – 2999 bp | ≥ 3 ng/µl | 12µL |
500 bp – 1499 bp | ≥ 1 ng/µl | 12µL |
When we shall use your own custom read primer for the sequencing of your library please send 30 µl of 100 µM concentrated primer.
Samples for RNA isolation
PAXgene blood RNA tubes
Recommended Amount
3 – 5 ml blood
Cryo-conserved cell pellet
Recommended Amount
1×106 cells
Tissue
Recommended Amount
10 – 30 mg (2 mm x 2 mm x 2 mm)
FFPE-tissue (Tumor content > 30%)
Recommended Amount
10 sections (10 – 20 µm each)
FFPE-tissue (Tumor content > 30%) for Macrodissection
Recommended Amount
10 sections (20 – 30 µm each), 1 section 5 µm
Samples for DNA Isolation
EDTA/PAX blood tubes
Recommended Amount
1 – 2 ml
Dried blood spot card
Recommended Amount
5 spots (100 µl)
Tissue
Recommended Amount
10 – 30 mg (2 mm x 2 mm x 2 mm)
FFPE-tissue (Tumor content > 30%)
Recommended Amount
10 sections (10 – 20 µm each)
FFPE-tissue (Tumor content > 30%) for Macrodissection
Recommended Amount
10 sections (20 – 30 µm each), 1 section 5 µm
Cryo-conserved cell pellet
Recommended Amount
1×106 cells
Saliva
Recommended sample preparation
Oragene DNA collection tubes (DNA Genotek)
Buccal swab
Recommended sample preparation
Oragene DNA collection tubes (DNA Genotek)
Fecal samples
Recommended sample preparation
CeGaT’s sampling kit
General sample shipment recommendations:
- DNA samples should be shipped chilled at 4° C or frozen.
- RNA samples should be shipped frozen on dry ice.
- Sequencing libraries should be shipped frozen on dry ice.
Please inquire about submitting lower input amounts or degraded sample material