Strand-seq enables reliable separation of long reads by chromosome via expectation maximization.

ABSTRACT:

Motivation

Current sequencing technologies are able to produce reads orders of magnitude longer than ever possible before. Such long reads have sparked a new interest in de novo genome assembly, which removes reference biases inherent to re-sequencing approaches and allows for a direct characterization of complex genomic variants. However, even with latest algorithmic advances, assembling a mammalian genome from long error-prone reads incurs a significant computational burden and does not preclude occasional misassemblies. Both problems could potentially be mitigated if assembly could commence for each chromosome separately.

Results

To address this, we show how single-cell template strand sequencing (Strand-seq) data can be leveraged for this purpose. We introduce a novel la

SUBMITTER: Ghareghani M 

PROVIDER: S-EPMC6022540 | biostudies-literature | 2018 Jul

REPOSITORIES: biostudies-literature