Aggressive assembly of pyrosequencing reads with mates
J. Craig Venter Institute · University of Maryland, College Park
Abstract
MOTIVATION: DNA sequence reads from Sanger and pyrosequencing platforms differ in cost, accuracy, typical coverage, average read length and the variety of available paired-end protocols. Both read types can complement one another in a 'hybrid' approach to whole-genome shotgun sequencing projects, but assembly software must be modified to accommodate their different characteristics. This is true even of pyrosequencing mated and unmated read combinations. Without special modifications, assemblers tuned for homogeneous sequence data may perform poorly on hybrid data. RESULTS: Celera Assembler was modified for combinations of ABI 3730 and 454 FLX reads. The revised pipeline called CABOG (Celera Assembler with the…
Citation impact
- FWCI
- 21.34
- Percentile
- 100%
- References
- 30
Authors
10- JMJason MillerCorresponding
J. Craig Venter Institute, University of Maryland, College Park
- ALArthur L. Delcher
J. Craig Venter Institute, University of Maryland, College Park
- SKSergey Koren
J. Craig Venter Institute, University of Maryland, College Park
- EVEli Venter
J. Craig Venter Institute, University of Maryland, College Park
- BPBrian P. Walenz
J. Craig Venter Institute, University of Maryland, College Park
Topics & keywords
- Contig
- Pyrosequencing
- Sequence assembly
- Computer science
- Sanger sequencing
- Software
- Shotgun sequencing
- Hybrid genome assembly