Methods
The plot represents relative mononucleosome enrichment at each
position in the genome (on a log of 2 scale). The coverage metric is
given according to a formula [ (1+n)/N ] / [ (1+c)/C ] where n and c
are the numbers of putative 147 base pair cores covering each base pair from
nucleosome and control data, N and C are the total number of
nucleosome and control reads obtained by SOLiD sequencing with 25 base pairs
mapped to the reference genome.
Data download
The source data for this track can be fetched from our
ftp server
(nucleosomeAdjustedCoverage.wigAscii.gz; 450 Mb compressed,
1.6 Gb uncompressed).
This data is formatted into the two-column variableStep
wiggle format.
Credits
The data for this track is supplied by the
Sidow Lab
and the
Fire Lab
at the Stanford School of Medicine.
Track display advice provided by
Hiram Clawson,
UCSC Genome Browser Engineering.
References
Valouev A, Ichikawa J, Tonthat T, Stuart J, Ranade S, Peckham H, Zeng K, Malek JA, Costa G, McKernan
K et al.
A high-resolution, nucleosome position map of
C. elegans reveals a lack of universal
sequence-dictated positioning.
Genome Res. 2008 Jul;18(7):1051-63.
PMID: 18477713; PMC: PMC2493394
Supported oligo ligation detection (SOLiD) sequencing technology from
Applied Biosystems.
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