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Ffpe dna restore kit

Manufactured by Illumina
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The FFPE DNA Restore kit is a laboratory tool designed to help extract and purify DNA from formalin-fixed, paraffin-embedded (FFPE) tissue samples. The kit provides a solution for recovering DNA from these challenging sample types, which are commonly used in various research and diagnostic applications.

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Lab products found in correlation

Zymo ez dna methylation kit, by Zymo Research (2 mentions) Infinium human methylationepic beadchip array, by Illumina (2 mentions) Genomestudio version 2, by Illumina (2 mentions) Dna clean and concentrator 5, by Zymo Research (2 mentions) Maxwell 16 ffpe tissue lev dna purification kit, by Promega (1 mentions) Humanmethylationepic beadchip platform, by Illumina (1 mentions) Maxwell 16 research instrument, by Promega (1 mentions) Zymo ez dna methylation gold kit, by Zymo Research (1 mentions)

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FFPE restore kit (3 citations)

3 protocols using ffpe dna restore kit

1

Methylation Analysis of FFPE Samples

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DNA was extracted from FFPE tissue using the Maxwell 16 FFPE Tissue LEV DNA Purification Kit on a Maxwell 16 Research Instrument (Promega, USA) according to manufacturer's instructions. Two hundred fifty nanograms of eluted DNA was subjected to bisulphite conversion using the Zymo EZ DNA Methylation‐Gold Kit (Zymo Research, USA). Bisulphite converted DNA was additionally treated using the Infinium FFPE DNA restore Kit prior to assay on the Illumina HumanMethylationEPIC BeadChip platform (Illumina, USA).
Stone T.J., Mankad K., Tan A.P., Jan W., Pickles J.C., Gogou M., Chalker J., Slodkowska I., Pang E., Kristiansen M., Madhan G.K., Forrest L., Hughes D., Koutroumanidou E., Mistry T., Ogunbiyi O., Ahmed S.W., Cross J.H., Hubank M., Hargrave D, & Jacques T.S. (2023). DNA methylation‐based classification of glioneuronal tumours synergises with histology and radiology to refine accurate molecular stratification. Neuropathology and Applied Neurobiology, 49(2), e12894.
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2

DNA Methylation Profiling of Samples

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Samples containing at least 250 ng DNA were selected for DNA-methylation profiling (n = 23). DNA bisulfite conversion was undertaken using the ZymoEZ DNA methylation kit (Zymo research, USA), then treated with FFPE DNA Restore kit (Illumina, San Diego, CA, USA) and DNA clean and concentrator-5 (Zymo research, USA). Standard quality controls confirmed DNA quantity/quality and bisulfite conversion. The DNA was then processed using the Illumina Infinium HumanMethylation EPIC Bead-Chip array (Illumina, San Diego, CA, USA) according to the manufacturer’s instructions. The iScan control software was used to generate raw data files from the BeadChip in .idat format, analysed using GenomeStudio version 2.0 (Illumina, San Diego, CA, USA) and were checked for quality measures according to the manufacturer’s instructions.
Métais A., Tauziède-Espariat A., Garcia J., Appay R., Uro-Coste E., Meyronet D., Maurage C.A., Vandenbos F., Rigau V., Chiforeanu D.C., Pallud J., Senova S., Saffroy R., Colin C., Edjlali M., Varlet P, & Figarella-Branger D. (2023). Clinico-pathological and epigenetic heterogeneity of diffuse gliomas with FGFR3::TACC3 fusion. Acta Neuropathologica Communications, 11, 14.
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3

Profiling DNA Methylation in CNS Tumors

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DNA bisulfite conversion was performed using the ZymoEZ DNA methylation kit (Zymo research, USA), then treated with FFPE DNA Restore kit (Illumina, San Diego, CA, USA) and DNA clean and concentrator-5 (Zymo research, USA). Standard quality controls confirmed DNA quantity/quality and bisulfite conversion. The DNA was then processed using the Illumina Infinium HumanMethylation EPIC Bead-Chip array (Illumina, San Diego, CA, USA) according to the manufacturer's instructions. The iScan control software was used to generate raw data files from the BeadChip in .idat format and analysed using GenomeStudio version 2.0 (Illumina, San Diego, CA, USA) with regard to quality measures according to the manufacturer's instructions. The .idat files were uploaded to the online CNS tumor methylation classifier platform https://www.molecularneuropathology.org and a report was generated, providing prediction scores (calibrated score) for DNA methylation classes according to the version 12.5 of the classifier 27 (link) .
Appay R., Sarri B., Heuke S., Boissonneau S., Liu C., Dougy E., Daniel L., Scavarda D., Dufour H., Figarella-Branger D, & Rigneault H. (2023). Live Stimulated Raman Histology for the Near-Instant Assessment of Central Nervous System Samples. The journal of physical chemistry. B, 127(16).
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