A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome

@article{citeulike:2890365, abstract = {Most nucleosomes are well-organized at the 5' ends of S. cerevisiae genes where "-1" and "+1" nucleosomes bracket a nucleosome-free promoter region (NFR). How nucleosomal organization is specified by the genome is less clear. Here we establish and inter-relate rules governing genomic nucleosome organization by sequencing DNA from more than one million immunopurified S. cerevisiae nucleosomes (displayed at http://atlas.bx.psu.edu/). Evidence is presented that the organization of nucleosomes throughout genes is largely a consequence of statistical packing principles. The genomic sequence specifies the location of the -1 and +1 nucleosomes. The +1 nucleosome forms a barrier against which nucleosomes are packed, resulting in uniform positioning, which decays at farther distances from the barrier. We present evidence for a novel 3' NFR that is present at >95\% of all genes. 3' NFRs may be important for transcription termination and anti-sense initiation. We present a high-resolution genome-wide map of TFIIB locations that implicates 3' NFRs in gene looping. 10.1101/gr.078261.108}, author = {Mavrich, Travis N. and Ioshikhes, Ilya P. and Venters, Bryan J. and Jiang, Cizhong and Tomsho, Lynn P. and Qi, Ji and Schuster, Stephan C. and Albert, Istvan and Pugh, Franklin B. }, citeulike-article-id = {2890365}, doi = {10.1101/gr.078261.108}, journal = {Genome Res.}, keywords = {nucleosome}, month = {June}, pages = {gr.078261.108+}, posted-at = {2008-06-17 13:11:55}, priority = {2}, title = {A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome}, url = {http://dx.doi.org/10.1101/gr.078261.108}, year = {2008} }

TY - JOUR ID - citeulike:2890365 L3 - citeulike-article-id:2890365 TI - A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome JF - Genome Res. SP - gr.078261.108 N2 - Most nucleosomes are well-organized at the 5' ends of S. cerevisiae genes where "-1" and "+1" nucleosomes bracket a nucleosome-free promoter region (NFR). How nucleosomal organization is specified by the genome is less clear. Here we establish and inter-relate rules governing genomic nucleosome organization by sequencing DNA from more than one million immunopurified S. cerevisiae nucleosomes (displayed at http://atlas.bx.psu.edu/). Evidence is presented that the organization of nucleosomes throughout genes is largely a consequence of statistical packing principles. The genomic sequence specifies the location of the -1 and +1 nucleosomes. The +1 nucleosome forms a barrier against which nucleosomes are packed, resulting in uniform positioning, which decays at farther distances from the barrier. We present evidence for a novel 3' NFR that is present at >95% of all genes. 3' NFRs may be important for transcription termination and anti-sense initiation. We present a high-resolution genome-wide map of TFIIB locations that implicates 3' NFRs in gene looping. 10.1101/gr.078261.108 KW - nucleosome AU - Mavrich, Travis AU - Ioshikhes, Ilya AU - Venters, Bryan AU - Jiang, Cizhong AU - Tomsho, Lynn AU - Qi, Ji AU - Schuster, Stephan AU - Albert, Istvan AU - Pugh, Franklin PY - 2008/06/12/ UR - http://dx.doi.org/10.1101/gr.078261.108 ER -