| Autor: |
de la Rubia, Ivan, Srivastava, Akanksha, Xue, Wenjing, Indi, Joel A., Carbonell-Sala, Silvia, Lagarde, Julien, Albà, M. Mar, Eyras, Eduardo |
| Zdroj: |
Genome Biology; December 2022, Vol. 23 Issue: 1 |
| Abstrakt: |
Nanopore sequencing enables the efficient and unbiased measurement of transcriptomes. Current methods for transcript identification and quantification rely on mapping reads to a reference genome, which precludes the study of species with a partial or missing reference or the identification of disease-specific transcripts not readily identifiable from a reference. We present RATTLE, a tool to perform reference-free reconstruction and quantification of transcripts using only Nanopore reads. Using simulated data and experimental data from isoform spike-ins, human tissues, and cell lines, we show that RATTLE accurately determines transcript sequences and their abundances, and shows good scalability with the number of transcripts. |
| Databáze: |
Supplemental Index |
| Externí odkaz: |
|
Full text from SpringerLink