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To identity STAT6 binding sites, we generated a total of 19 099 520 and 18 981 052 36-bp sequence ChIP Seq tags in Ramos and BEAS2B cells, respectively (Tables 1– 3).
Example 2: Small but consistent base bias across Illumina lanes: Figure 3A and 3B show the A base percentage and the C base percentage for each tile within a lane on the Illumina sequence chip.
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ChIP sequencing (ChIP-seq), for A3B to define the global distribution of A3B on chromatin, identified 24,486 binding sites in MCF7 cells treated with estrogen.
We present a method to integrate information about sequence, ChIP-Chip experiment and histone modification.
Kato et al. [ 11] identified GRMs of yeast cell cycle by combining sequence, ChIP-chip and gene expression data.
The histone modification and TF chromatin immunoprecipitation sequence (ChIP-Seq) data sets for visualization and analysis were obtained from the UCSC data repository site (http://genome.ucsc.edu/, last accessed May 20 , 2015 Rosenbloom et al. 2013).
There are many other data sources which could be incorporated (sequence, ChIP-chip, knowledge from literature, etc), but in the case of A. thaliana other data and network related literature are limited.
The single-stranded molecules were attached to the Illumina sequencing chip for sequencing.
After denaturing, the single-chain molecules were fixed onto the Illumina Sequencing Chip (flowcell) for sequencing.
After denaturation, the single-chain molecules were fixed on to the Illumina Sequencing Chip.
The template spheres are loaded on a sequencing chip and run on the Proton instrument.
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