Mavrich_2008_PMID_18550805.README
Last modified: 2016-05-26

Mavrich TN, Ioshikhes IP, Venters BJ, Jiang C, Tomsho LP, Qi J,
Schuster SC, Albert I, Pugh BF (2008) A barrier nucleosome model for
statistical positioning of nucleosomes throughout the yeast
genome. Genome Res 18(7):1073-83
PMID: 18550805

Mavrich et al. examined nucleosome organization genome-wide in
S. cerevisiae by sequencing DNA from more than one million
immunopurified nucleosomes, obtaining long sequence reads of
 > 100bp.

A short summary of the contents of each data file compiled by SGD can
be found in the following section. More in depth details can be found
within the file header of each file.

Data files Last modified: February 27, 2014

Genome Version: V64
Strain: BY4741 
Tags: C-terminal TAP-H3, TAP-H4
Platform: Roche GS20, 454 Life Sciences
SRA Accession: SRA001003

SGD has compiled the following data files from this publication:

* Mavrich_2008_H3H4_nucleosome_positions_V64.gff3
* Mavrich_2008_H3H4_nucleosome_positions_WC_V64.gff3

* Mavrich_2008_H3H4_nucleosome_positions_WC_V56toV64_unmapped.txt
* Mavrich_2008_H3H4_nucleosome_positions_V56toV64_unmapped.txt

These data files were compiled from Supplementary table S1
accompanying the publication and represent mapped nucleosome positions
for each strand (nucleosome_positions_WC_V64.gff3) and combined
(nucleosome_positions_V64.gff3).  

The sequencing reads were originally mapped to the R56-1-1
(2006_11_10) build of the S. cerevisiae reference genome by the
authors and lifted over to the latest version (SGD R64-1-1, February
2011) by SGD. The original files are in the compressed archive:

* Mavrich_2008_PMID_18550805_V56_track_files.tgz

Additional supplementary information:

ArrayExpress database accession: E-MEXP-1584
http://www.ebi.ac.uk/arrayexpress/browse.html?keywords=E-MEXP-1584

http://h2az.atlas.bx.psu.edu/

http://atlas.bx.psu.edu/data/h3h4/