Nucleosome ctDNA
Nucleosome ctDNA (SID-000128) is nucleosome-bound cell-free DNA from the wild-type lymphoblastoid cell line BDXXP4, in TE buffer at pH 8.0, with a fragment size of 137 to 167 bp. Research use only. Because the DNA is still bound to nucleosomes, the fragmentation pattern matches that of patient cfDNA. Combined with a very low mutation background, this makes the material suitable for determining the limit of blank of a sensitive NGS assay.
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This kit in detail
- Nucleosome-bound cfDNA from the wild-type BDXXP4 cell line, catalogue SID-000128
- Fragment size 137 to 167 bp, matching patient cfDNA
- Supplied in TE buffer, pH 8.0
- Very low mutation background, for limit of blank determination
- For spike-in experiments and for benchmarking an NGS pipeline
- Store at 2 to 8 °C, do not freeze
Nucleosome ctDNA is a reference material for the most sensitive end of liquid biopsy, where the question is not whether a variant is found but how much background noise the method itself produces. Research use only.
Why nucleosome-bound
Cell-free DNA in plasma exists as nucleosome-bound fragments, which is what gives it its characteristic length distribution around 150 bp. This material retains that structure, with a fragment size of 137 to 167 bp, so it behaves like patient cfDNA in extraction and in library preparation, whereas sheared DNA does not.
Applications
The manufacturer names four: spike-in experiments; use as a control with a very low noise background in workflow verification and validation; validation and development of sequencing and PCR protocols with regard to determining the limit of blank; and assessing the performance of an NGS pipeline. The low error rate is what makes the last two possible: at the level of minimal residual disease testing, the background of the reference material sets the floor of what the assay can distinguish.
Composition and storage
The material derives from the BDXXP4 lymphoblastoid wild-type cell line and is supplied in TE buffer at pH 8.0. Store at 2 to 8 °C on arrival and do not freeze. Production from another cell line is possible on request.
Regulatory status
This material is for research use only.
- Nucleosome ctDNA (human, BDXXP4)
We recommend the use of our human DNA-free plasma products to produce complete workflow controls with this product. Blend the cfDNA as necessary with the DNA depleted plasma to receive plasma materials with the necessary DNA concentrations.
Datasheets and regulatory documentation
Everything your quality team needs for evaluation and procurement.
Instruction for Use
Frequently paired with this kit
Other assays and instruments lab teams add alongside the Nucleosome ctDNA.
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