PacBio HiFi sequencing
When I joined Biohackathon Europe in Barcelona recently, I knew PacBio HiFi (High Fidelity) sequencing technology [1] that is highly accurate long read sequencing by circular consensus long-read [2]. For the long read sequencing, there is Nanopore sequencing by Oxfored Nanopore. So, how is the Nanopore sequencing vs PacBio HiFi sequencing? There are papers [3][4] about the topic.
The PacBio's blog says that the first complete human genome was done by the PacBio HiFi sequencing on their blog [5].
The hifiasm [6] is a software to assemble the PacBio HiFi reads, and it used the Hi-C chromatine interaction (data) [7] to produce a haplotype-resolved assembly without the sequencing of parents [8].
References
- [1] https://www.pacb.com/smrt-science/smrt-sequencing/hifi-reads-for-highly-accurate-long-read-sequencing/
- [2] Nature August 2019 https://www.nature.com/articles/s41587-019-0217-9
- [3] Comparison of the two up-to-date sequencing technologies for genome assembly: HiFi reads of Pacific Biosciences Sequel II system and ultralong reads of Oxford Nanopore, https://www.biorxiv.org/content/10.1101/2020.02.13.948489v1.full.pdf
- [4] https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5553090/
- [5] Reaching a Genomics Milestone – The First Complete Human Genome: https://www.pacb.com/blog/first-complete-human-genome/
- [6] https://github.com/chhylp123/hifiasm, https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7961889/
- [7] https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3874846/
- [8] https://arxiv.org/abs/2109.04785v1
