Nanopore ONT long-read sequencing
Nanopore ONT long-read sequencing
DNA and RNA long read sequencing, methylation analysis, 5mC and 5hmC.
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To get the total price, add the DNA extraction, library prep and sequencing step prices.
High molecular weight DNA extraction: $135 per sample
Library prep types:
Ultra-long Genome (>50 kb) library prep: $500 per sample
gDNA (genomic DNA) library prep with shearing: $450 per sample ($150 for additional barcodes per reaction)
gDNA library prep without shearing and amplicons: $350 per sample ($100 per additional barcode per reaction)
cDNA-Seq PCR Library Prep: $500 per sample ($100 per additional barcode per reaction)
Direct RNA Sequencing library prep: $350 per sample (No barcoding available)
Sequencing step: $1500 per flow cell
A standard Nanopore sequencing run produces 6-letter DNA sequences A, G, C, T, M (5mC), and H (5hmc). We also offer bioinformatic support for 5hmc and 5mc analysis using gCore Methylation Explorer.
Sample submission
Sample submission
You would need to submit the tissue. We will extract HMW DNA. The recommended starting amount of DNA per sample is 1-2 ug of (min. 0.4 ug). For the brain tissue, you would need about 5mg (=5 ul). See the yields for other tissues in the table below.
HMW DNA extraction yields
Applications of Nanopore sequencing
Applications of Nanopore sequencing
In the context of organoid and regenerative medicine research at SCRM, Nanopore long-read sequencing is highly valuable for understanding tissue-specific genomic and transcriptomic intricacies. For biologists working with various tissues like brain, neurons, lungs, and heart, this technology facilitates a deeper insight into the complex genomic rearrangements and epigenetic modifications that occur during tissue development and differentiation from stem cells.
Specifically, when guiding stem cells to differentiate into specific tissue types, Nanopore sequencing can help identify and characterize novel or rare isoforms of RNA, which are often crucial in the differentiation process. This is particularly important in neuronal tissue, where alternative splicing plays a key role in functional diversification. Moreover, in complex tissues like the brain or heart, understanding the spatial and temporal expression patterns of genes, aided by long-read sequencing, can reveal critical insights into developmental processes and disease mechanisms.
Additionally, Nanopore sequencing's ability to span large genomic regions helps in accurately mapping structural variants and epigenetic changes across different stages of cell differentiation. This is essential for identifying key regulatory elements and pathways that drive tissue-specific development and for pinpointing potential targets for therapeutic intervention in regenerative medicine. In sum, Nanopore long-read sequencing provides a comprehensive tool for biologists at SCRM to explore the dynamic genomic and transcriptomic landscapes of tissue development and regeneration.
5 hydroxy methylcytosine (5hmC)
5 hydroxy methylcytosine (5hmC)
Recently, 5 hydroxy mC (5hmC) comprising about 10% of methylated cytosines was shown to play a distinct functional role in the brain and gene regulation.
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