DOAJ Open Access 2018

Correcting palindromes in long reads after whole-genome amplification

Sven Warris Elio Schijlen Henri van de Geest Rahulsimham Vegesna Thamara Hesselink +5 lainnya

Abstrak

Abstract Background Next-generation sequencing requires sufficient DNA to be available. If limited, whole-genome amplification is applied to generate additional amounts of DNA. Such amplification often results in many chimeric DNA fragments, in particular artificial palindromic sequences, which limit the usefulness of long sequencing reads. Results Here, we present Pacasus, a tool for correcting such errors. Two datasets show that it markedly improves read mapping and de novo assembly, yielding results similar to these that would be obtained with non-amplified DNA. Conclusions With Pacasus long-read technologies become available for sequencing targets with very small amounts of DNA, such as single cells or even single chromosomes.

Topik & Kata Kunci

Biotechnology Genetics

Penulis (10)

Sven Warris

Elio Schijlen

Henri van de Geest

Rahulsimham Vegesna

Thamara Hesselink

Bas te Lintel Hekkert

Gabino Sanchez Perez

Paul Medvedev

Kateryna D. Makova

Dick de Ridder

Format Sitasi

APA MLA BibTeX

Warris, S., Schijlen, E., Geest, H.v.d., Vegesna, R., Hesselink, T., Hekkert, B.t.L. et al. (2018). Correcting palindromes in long reads after whole-genome amplification. https://doi.org/10.1186/s12864-018-5164-1

Akses Cepat

PDF tidak tersedia langsung

Cek di sumber asli →

Lihat di Sumber doi.org/10.1186/s12864-018-5164-1

Informasi Jurnal

Tahun Terbit: 2018
Sumber Database: DOAJ
DOI: 10.1186/s12864-018-5164-1
Akses: Open Access ✓