Fudenberg G, Getz G, Meyerson M, Mirny LA. High order chromatin architecture shapes the landscape of chromosomal alterations in cancer. Nat Biotechnol. 2011;29:1109–13. CentralFudenberg G, Getz G, Meyerson M, Mirny LA. High order chromatin architecture shapes the landscape of chromosomal ...
Although the CTCF/cohesin complex preferentially targets hypomethylated DNA, it remains unclear whether the CTCF/cohesin-mediated high-order chromatin structure is affected by DNA methylation during tumorigenesis. We found that DNA methylation downregulates the expression of prostaglandin-endoperoxide synthase ...
Bromodomain protein Brd4 associated with acetylated chromatin is important for maintenance of higher-order chromatin structure. J Biol Chem. 2012;287(14):10738–52. Article CAS PubMed PubMed Central Google Scholar Han X, Yu D, Gu R, Jia Y, Wang Q, Jaganathan A, et al. Roles of the ...
Characteristics of human sperm chromatin structure following an episode of influenza and high fever: a case study. J Androl 2000; 21: 739-46.Evenson DP, Jost LK, Corzett M, Balhorn R. Characteristics of human sperm chromatin structure following an episode of influenza and high fever: a case...
Nucleosome phasing was also lost surrounding CTCF binding motifs in the knockdown cells (Figure 6F), providing strong evidence that CTCF binding (rather than some aspect of DNA ”programming” of chromatin structure) is required for nucleosome positioning at these locations. Finally, we asked whether...
This result suggests that open chromatin structure maintained by the MLL family proteins and long-range chromatin organization by CTCF may contribute to chromosome breaks and may explain why certain translocations are found in the cancers of specific cell types. Prediction of Novel Transcription Units ...
For genome-wide screens, genetic crosses must be conducted in order to localize mutations, followed by traditional positional cloning efforts guided by candidate gene prioritization. Region-specific screens ameliorate the mapping part, and in one study the approach was taken to directly resequence all ...
However, we use MOV codes for the absolute locations as the positions are now in increasing order. 5. Huffman: We can use the start positions (or relative starts, denoted RHuffman) to compute a Huffman tree which we use to encode. The resulting size encoding with this method also ...
Micro-C uses micrococcal nuclease rather than restriction enzymes to partition the chromatin into fragments which enables chromosome folding maps at nucleosome resolution. Micro-C can also be seen as a variant of Hi-C method. More Importantly, we can analyze the chromatin structure in more detail ...
High-order three-dimensional (3D) interactions between more than two genomic loci are common in human chromatin, but their role in gene regulation is unclear. Previous high-order 3D chromatin assays either measure distant interactions across the genome or proximal interactions at selected targets. To...