+This track is part of the DANIO-CODE track collection. ChIP-seq finds the places in the genome where a particular protein sits. Chromatin is crosslinked, sheared and pulled down with an antibody against the protein of interest, and the DNA that comes with it is sequenced. For histone modifications the result is a map of the chemical marks on the histones that DNA is wrapped around, and different marks tend to sit at different kinds of element: H3K4me3 at active promoters, H3K4me1 and H3K27ac at enhancers, H3K27me3 at genes that are silenced by Polycomb, and H3K36me3 across the bodies of transcribed genes. For a transcription factor the result is a map of its binding sites.
This track shows ChIP-seq data for 104 zebrafish samples across 17 developmental stages and 18 targets: the histone marks H3K4me3, H3K4me1, H3K27ac, H3K27me3, H3K36me3, H3K14ac and the histone variant H2AFV; RNA polymerase II with two antibodies (4H8 and 8WG16); and the transcription factors Pou5f3, Nanog, Sox10, Zic3, CTCF, Cdx4, Sall4, Mxtx2 and Gata1. These are the data the consortium used to segment the genome into chromatin states, which are shown in the DC Elements track.
--This track is part of the DANIO-CODE collection. -
-The track has two views that can be configured separately. Signal shows one auto-scaled coverage graph per sample. Peaks shows the enriched regions called from that signal, as blocks.
Nothing is displayed until samples are selected on the configuration page, where they can be filtered by ChIP-seq target, developmental stage and sample. There are more than 200 individual tracks, so select only the targets and stages you need.