Optical Map Analysis: Alignments

Description

Optical Mapping (OM) is a system that produces ordered restriction maps from individual molecules of genomic DNA. Each single-molecule restriction map (rMap) is a direct measurement of the source genome, free from biases introduced by cloning, amplification, or hybridization. This track presents the alignment of consensus maps generated from individual rMaps. It is complemented by the 'Optical Map Analysis: Deletions' track displaying unaligned parts of the consensus.

Display Conventions and Configuration

OM produces ordered restriction maps. Each track corresponds to an analysis of OM data from a single cell line. Each contig is presented as a horizontal line, with restriction cut-sites dividing fragments being displayed as vertical lines along that contig. Where there is a space between the placement of successive restriction fragments according to this analysis, this is represented as a thicker vertical bar spanning the gap between the fragments.

Methods

Optical Mapping. See References section below for further details.

Credits

OM data, analysis and alignments generated by the Schwartz lab, University of Wisconsin and used by the Genome Reference Consortium to improve reference assemblies. Contact us via genomereference.org or by emailing grc-help@sanger.ac.uk.

References

• High-resolution human genome structure by single-molecule analysis. (2010) PNAS 107(24):10848-53.
• Lineage-specific biology revealed by a finished genome assembly of the mouse. (2009) PLos Biol 7(5):e1000112.
• Modernizing Reference Genome Assemblies. (2011) PLoS Biol 9(7): e1001091.