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. 2018 May 29;115(8):2087–2100. doi: 10.1002/bit.26722

Figure 2.

Figure 2

Importance of correct assembly of genes and noncoding regions. (a) Chromatin states defined by histone marks: Left: histone marks for CSA assembly (Brinkrolf et al., 2013; Feichtinger et al., 2016); center: histone marks for PICR assembly; right: histone marks from the Human Epigenome Project (Kundaje et al., 2015). (b) A total of 1,538 genes associated with mitochondria were blasted from TSS to TES against the CSA and RefSeq assemblies. The number of hits completely found on a single scaffold is displayed for each assembly. (c) Mouse coding sequences were blasted against Chinese hamster assemblies from the start of translation to the end. (d) The 1,011 complete genes found in PICR were extended 5 kb upstream and 1.5 kb downstream to include promoters and other regulatory noncoding regions and blasted against existing assemblies. (e) Chromatin states around three genes, as found in the previously published CSA‐based chromatin state model (Feichtinger et al., 2016; top for each gene) and the PICR assembly (bottom for each gene), showing promoter and regulatory elements in addition to active transcription. CSA, chromosome‐sorted assembly; TES, transcription end site; TSS, transcription start site [Color figure can be viewed at wileyonlinelibrary.com]