Document Type

Article

Publication Date

7-10-2019

Publication Title

Mobile DNA

Publisher

BMC

Volume

10

Issue

29

First page number:

1

Last page number:

11

Abstract

Though transposable elements make up around half of the human genome, the repetitive nature of their sequences makes it difficult to accurately align conventional sequencing reads. However, in light of new advances in sequencing technology, such as increased read length and paired-end libraries, these repetitive regions are now becoming easier to align to. This study investigates the mappability of transposable elements with 50 bp, 76 bp and 100 bp paired-end read libraries. With respect to those read lengths and allowing for 3 mismatches during alignment, over 68, 85, and 88% of all transposable elements in the RepeatMasker database are uniquely mappable, suggesting that accurate locus-specific mapping of older transposable elements is well within reach.

Keywords

Transposon; Mappability; L1HS; RNA-Seq; GEM

Disciplines

Genomics

File Format

pdf

File Size

3.960 KB

Language

English

Creative Commons License

Creative Commons Attribution 4.0 License
This work is licensed under a Creative Commons Attribution 4.0 License.

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