Project description:We performed DNase-seq on root tissue, root epidermal cell types, seed coat epidermal cells at two developmental stages, and open and closed flowers. Root: We performed chromatin profiling (DNase-seq) on whole root (all cell types), or root epidermal cell types (hair cell, non-hair cell). Seed coat: We performed chromatin profiling on seed coat epidermal cells from siliques at two developmental stages (4 days past anthesis, 7 days past anthesis). We preformed chromatin profiling (DNase-seq) on flowers at two developmental time points (open and closed flowers). All plants were grown on plates (roots only) or in soild in LD conditions (16hr light 22°C, 8hr dark 20°C). The following processed data files are pooled short read data from 2 biological replicates (GSM1289379 [DS21306] and GSM1824051 [DS20134]): Col-0.Seed_Coat.Seed_Coat_7DPA.DNase.pooled.6.8M.signal.bw Col-0.Seed_Coat.Seed_Coat_7DPA.DNase.pooled.6.8M.peaks.bed Col-0.Seed_Coat.Seed_Coat_7DPA.DNase.pooled.6.65M.signal.bw Col-0.Seed_Coat.Seed_Coat_7DPA.DNase.pooled.6.65M.peaks.bed The following processed data files are pooled short read data from 2 biological replicates (GSM1824052 [DS20131] and GSM1824053 [DS20132]): Col-0.Seed_Coat.Seed_Coat_4DPA.DNase.pooled.6.8M.signal.bw Col-0.Seed_Coat.Seed_Coat_4DPA.DNase.pooled.6.8M.peaks.bed Col-0.Seed_Coat.Seed_Coat_4DPA.DNase.pooled.6.65M.signal.bw Col-0.Seed_Coat.Seed_Coat_4DPA.DNase.pooled.6.65M.peaks.bed The following processed data files are pooled pooled short read data from 2 biological replicates (GSM1824054 [DS19056] and GSM1824055 [DS21512]): Col-0.Root.Hair.DNase.pooled.6.8M.signal.bw Col-0.Root.Hair.DNase.pooled.6.8M.peaks.bed
Project description:In order to polish a long-read genome assembly, short-read illumina data was obtained from Heterodera schachtii cysts (Woensdrecht population from IRS, the Netherlands). Cysts where obtained from infected plant material. Nematodes were cleaned using a sucrose gradient centrifugation step. Thereafter DNA was extracted and used for library preparation and sequencing by Illumina NextSeq500.
