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Sci Data. 2014 Nov 25;1:140045. doi: 10.1038/sdata.2014.45. eCollection 2014.

Long-read, whole-genome shotgun sequence data for five model organisms.

Author information

Pacific Biosciences of California Inc. , 1380 Willow Road, Menlo Park, California 94025, USA.
Flinders University, School of Biological Sciences , PO Box 2100, Adelaide, South Australia 5001, Australia.
Department of Genome Dynamics, Lawrence Berkeley National Laboratory, 1 Cyclotron Road , Berkeley, California 94720, USA.
Department of Microbiology and Immunology, UCSF , San Francisco, California 94158, USA.
National Biodefense Analysis and Countermeasures Center , 110 Thomas Johnson Drive, Frederick, Maryland 21702, USA.
Faculty of Life Sciences, University of Manchester , Oxford Road, Manchester M13 9PT, UK.


Single molecule, real-time (SMRT) sequencing from Pacific Biosciences is increasingly used in many areas of biological research including de novo genome assembly, structural-variant identification, haplotype phasing, mRNA isoform discovery, and base-modification analyses. High-quality, public datasets of SMRT sequences can spur development of analytic tools that can accommodate unique characteristics of SMRT data (long read lengths, lack of GC or amplification bias, and a random error profile leading to high consensus accuracy). In this paper, we describe eight high-coverage SMRT sequence datasets from five organisms (Escherichia coli, Saccharomyces cerevisiae, Neurospora crassa, Arabidopsis thaliana, and Drosophila melanogaster) that have been publicly released to the general scientific community (NCBI Sequence Read Archive ID SRP040522). Data were generated using two sequencing chemistries (P4C2 and P5C3) on the PacBio RS II instrument. The datasets reported here can be used without restriction by the research community to generate whole-genome assemblies, test new algorithms, investigate genome structure and evolution, and identify base modifications in some of the most widely-studied model systems in biological research.

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