Molecular CellGenomicsPeer-reviewed journal article
Nanopore sequencing enables comprehensive transposable element epigenomic profiling
Adam D. EwingiD, Nathan SmitsiD, Francisco Jose Sanchez-LuqueiD, Jamila FaivreiD, Paul Martin BrennaniD, Sandra R. RichardsoniD, Seth W. CheethamiD, Geoffrey J. FaulkneriD
Abstract
We apply long-read nanopore sequencing and a new tool, TLDR (Transposons from Long Dirty Reads), to directly infer CpG methylation of new and extant human transposable element (TE) insertions in hippocampus, heart, and liver, as well as paired tumour and non-tumour liver. Whole genome TLDR analysis greatly facilitates studies of TE biology as complete insertion sequences and their epigenetic modifications are readily obtainable.
- organism: human
- assay: long-read sequencing
- research focus: variant calling
- research focus: gene regulatory network inference
- approach: experimental assay
- Citations
- 193
- FWCI
- 8.51
- Field percentile
- top 1%
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