People

• Eric Siggia,   Alexandre Morozov,   Yupu Liang.

References

• Morozov, A.V., Fortney, K., Gaykalova, D.A., Studitsky, V.M., Widom, J. & Siggia, E.D. (2008). Extrinsic and intrinsic nucleosome positioning signals. arXiv:0805.4017

Software for download (briefly described here): DNABEND (updated Oct. 2007) and DynaPro (July 2007).

GBrowse view of the S.cerevisiae nucleosome data (in the absence of other DNA-binding factors) is available here.

Supporting data (explained here); pre-computed nucleosome energies, probabilities and occupancies for the S.cerevisiae genome:

• data for chr01
• data for chr02
• data for chr03
• data for chr04
• data for chr05
• data for chr06
• data for chr07
• data for chr08
• data for chr09
• data for chr10
• data for chr11
• data for chr12
• data for chr13
• data for chr14
• data for chr15
• data for chr16

Locations of experimentally known S.cerevisiae nucleosomes (in the GBrowse GFF format, explained here):

• chrII.gff
• chrIII.gff
• chrIX.gff
• chrXI.gff
• chrXII.gff
• chrXIII.gff
• chrXVI.gff

DNA sequences for which in vitro nucleosome positions are known with high (1-2 bp) resolution:

• Nucleosome positioning sequences (FASTA format)

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