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Due to annotation changes, the results presented here may slightly differ over the time.

Description of the

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Data Set

The data for this tutorial comes from Johnson et al. (Science 2007), which first described the ChIP-Seq technique. This study mapped genomic binding sites for neuron-restrictive silencer factor (NRSF) transcription factor across the genome. There are two samples: an NRSF-enriched ChIP sample (chip.bam) and a control sample of input DNA without antibody immunoenrichment (mock.bam). The chip.bam file contains ~1.7 million mapped reads and the mock.bam file contains ~2.3 million mapped reads. These .bam files contain the aligned genomic locations and sequences of all mapped reads. This data set contains reads from a single-end (SE) library; the differences in processing paired-end (PE) reads will be discussed when applicable. 

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