Methylation-free E.coli nanopore sequencing (ONT R9.4.1) data set
Description
The data set consists of fast5 files divided into 5 zip files (fast5_[1-5].zip), a genome record (Ecoli_K12_MG1655.fasta), an Illumina assembly genome (illumina_contigs.fasta) and a fastq file from Guppy 5 (guppy_basecalled.fastq.gz). We sequenced the Ecoli non-methylated genomic DNA (D5016, Zymo Research) with an ONT MinION device. The sequencing libraries were prepared by fragmenting the genomic DNA using Covaris g-TUBE and a Ligation sequencing kit (SQK-LSK109, Oxford Nanopore) with Flow Cell chemistry R9.4.1. We also performed short-read Illumina sequencing on the same sample using the TruSeq PCR-free library preparation on the MiSeq sequencing platform (Illumina, USA), and constructed a draft assembly from the Illumina sequencing results using SPAdes v3.6.0. We also upload a reference genome directly obtained from the E.coli sample producer website.
In addition, the data set contains two fastq files that produced by the Lokatt basecaller (lokatt_basecalled.fasta.gz) and local-trained Bonito basecaller (bonito_local_basecalled.fastq.gz ), respectively, which are used for benchmarking in the Lokatt basecaller paper.
Notes
Files
fast5_1.zip
Files
(188.6 GB)
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md5:dfdb53dd9af8dd04eae841d11733860d
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5.2 GB | Download |
md5:182c4c48740aa62f1b6ca3c03afd663a
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4.7 MB | Download |
md5:b4defd9449891a9edb46fb33ca4c2ceb
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33.0 GB | Preview Download |
md5:49b2bef1330aa2ab5a77561b87853a91
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31.4 GB | Preview Download |
md5:b278272c95c866195c435eec696d1bbf
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31.4 GB | Preview Download |
md5:c55b4acfd014b05f962f8df59eb8b460
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31.5 GB | Preview Download |
md5:48fda2360b0c1cedeb4a2b8d297d36a5
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30.8 GB | Preview Download |
md5:59a7a1a8803cca6da8daa8da72747397
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19.8 GB | Download |
md5:50901984297553943c8ff959c3a523bb
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4.6 MB | Download |
md5:6ea9b56355f1b02b975fb4c238fd97ff
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5.4 GB | Download |
md5:823a65031be457dd66734b00972bfd9d
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3.8 kB | Preview Download |
Additional details
Related works
- Is part of
- Preprint: 10.1101/2022.07.13.499873 (DOI)