ChIP-seq data:
| Filename | Description | Feature | GEO-ID | |
| 1 | H2AZ_dome30_epiboly_embryo.sga | H2A.Z from dome-30%-epiboly embryo | H2AZ | - |
| 2 | H3K4me3_512_cells_embryo.sga | H3K4me3 from 512-cell embryo | H3K4me3 | - |
| 3 | H3K4me3_oblong_embryo.sga | H3K4me3 from oblong embryo | H3K4me3 | - |
| 4 | H3K4me3_dome30_epiboly_embryo_run1.sga | H3K4me3 from dome-30%-epiboly embryo, rep1 | H3K4me3 | - |
| 5 | H3K4me3_dome30_epiboly_embryo_run2.sga | H3K4me3 from dome-30%-epiboly embryo, rep2 | H3K4me3 | - |
| 6 | H3K4me3_prim6_embryo.sga | H3K4me3 from prim-6 embryo, rep1 | H3K4me3 | - |
| 7 | H3K4me3_prim6_embryo_run1.sga | H3K4me3 from prim-6 embryo, rep2 | H3K4me3 | - |
| 8 | Control_dome30_epiboly_embryo.sga | Control from dome-30%-epiboly embryo | Control | - |
| 9 | Control_prim6_embryo.sga | Control from prim-6 embryo | Control | - |
:
| Filename | Description | Feature | GEO-ID | |
| 1 | unfertilized_egg.sga | CAGE from unfertilised egg | CAGE | - |
| 2 | fertilized_egg.sga | CAGE from fertilised egg | CAGE | - |
| 3 | 64_cells_embryo.sga | CAGE from 64-cell embryo | CAGE | - |
| 4 | 512_cells_embryo.sga | CAGE from 512-cell embryo | CAGE | - |
| 5 | high_embryo.sga | CAGE from high embryo | CAGE | - |
| 6 | oblong_embryo.sga | CAGE from oblong embryo | CAGE | - |
| 7 | sphere-dome_embryo.sga | CAGE from sphere-dome embryo | CAGE | - |
| 8 | dome30_epiboly_embryo.sga | CAGE from dome-30%-epiboly embryo | CAGE | - |
| 9 | shield_embryo.sga | CAGE from shield embryo | CAGE | - |
| 10 | 14somites_embryo.sga | CAGE from 14 somites embryo | CAGE | - |
| 11 | prim6_embryo.sga | CAGE from prim-6 embryo | CAGE | - |
| 12 | prim20_embryo.sga | CAGE from prim-20 embryo | CAGE | - |
FASTQ files were extracted from SRA files using fastq-dump (SRA toolkit v2.5.0) and mapped to the genome using Bowtie v0.12.8. SAM files were then converted into bam using samtools v0.1.14 and to bed using bamToBed v2.12.0 (bedtools). SGA conversion was carried out using bed2sga.pl (ChIP-Seq v. 1.5.3).