Genome binding/occupancy profiling by high throughput sequencing of MNase trated chromatin of several samples that include: nucleosome-bound DNA isolated from primary human CD4+ T-cells, nucleosome bound-DNA isolated from primary human CD8+ T-cells, nucleosome-bound DNA isolated from primary human granulocytes, nucleosome-bound DNA isoalted from in vitro reconstitution of nucleosomes with human genomic DNA, control DNA generated by micrococcal nuclease treatment of human genomic DNA,
Files downloaded from GEO: GSE25133
Input file format: SRA
ChIP-seq data:
| Filename | Description | Feature | GEO-ID | |
| 1 | cd4NucleosomeCores.sga | CD4+ T-cell nucleosome cores|All rep | MNase | - |
| 2 | cd8NucleosomeCores.sga | CD8+ T-cell nucleosome cores|All rep | MNase | - |
| 3 | granulocyteNucleosomeCores.sga | Granulocyte nucleosome cores|All rep | MNase | - |
| 4 | reconstitutedNucleosomeCores.sga | In vitro reconstituted nucleosome cores|All rep | MNase | - |
| 5 | GSM678037.sga | CD4+ T-cell nucleosome cores|rep 1 | MNase | GSM678037 |
| 6 | GSM678038.sga | CD4+ T-cell nucleosome cores|rep 2 | MNase | GSM678038 |
| 7 | GSM678039.sga | CD4+ T-cell nucleosome cores|rep 3 | MNase | GSM678039 |
| 8 | GSM678040.sga | CD4+ T-cell nucleosome cores|rep 4 | MNase | GSM678040 |
| 9 | GSM678041.sga | CD8+ T-cell nucleosome cores|rep 1 | MNase | GSM678041 |
| 10 | GSM678042.sga | CD8+ T-cell nucleosome cores|rep 2 | MNase | GSM678042 |
| 11 | GSM678043.sga | CD8+ T-cell nucleosome cores|rep 3 | MNase | GSM678043 |
| 12 | GSM678044.sga | CD8+ T-cell nucleosome cores|rep 4 | MNase | GSM678044 |
| 13 | GSM678045.sga | Granulocyte nucleosome cores|rep 1 | MNase | GSM678045 |
| 14 | GSM678046.sga | Granulocyte nucleosome cores|rep 2 | MNase | GSM678046 |
| 15 | GSM678047.sga | Granulocyte nucleosome cores|rep 3 | MNase | GSM678047 |
| 16 | GSM678048.sga | Granulocyte nucleosome cores|rep 4 | MNase | GSM678048 |
| 17 | GSM678049.sga | Granulocyte nucleosome cores|rep 5 | MNase | GSM678049 |
| 18 | GSM678050.sga | Granulocyte nucleosome cores|rep 6 | MNase | GSM678050 |
| 19 | GSM678051.sga | Granulocyte nucleosome cores|rep 7 | MNase | GSM678051 |
| 20 | GSM678052.sga | Granulocyte nucleosome cores|rep 8 | MNase | GSM678052 |
| 21 | GSM678053.sga | Granulocyte nucleosome cores|rep 9 | MNase | GSM678053 |
| 22 | GSM678054.sga | Granulocyte nucleosome cores|rep 10 | MNase | GSM678054 |
| 23 | GSM678055.sga | In vitro reconstituted nucleosome cores|rep 1 | MNase | GSM678055 |
| 24 | GSM678056.sga | In vitro reconstituted nucleosome cores|rep 2 | MNase | GSM678056 |
| 25 | GSM678057.sga | In vitro reconstituted nucleosome cores|rep 3 | MNase | GSM678057 |
| 26 | GSM678058.sga | In vitro reconstituted nucleosome cores|rep 4 | MNase | GSM678058 |
| 27 | GSM678059.sga | In vitro reconstituted nucleosome cores|rep 5 | MNase | GSM678059 |
| 28 | GSM678060.sga | In vitro reconstituted nucleosome cores|rep 6 | MNase | GSM678060 |
| 29 | GSM678061.sga | MNase treated control genomic DNA|rep 1 | MNase | GSM678061 |
| 30 | GSM678062.sga | MNase treated control genomic DNA|rep 2 | MNase | GSM678062 |
| 31 | GSM678063.sga | MNase treated control genomic DNA|rep 3 | MNase | GSM678063 |
Raw tag sequences were mapped to the genome using bowtie . SAM files were then transformed into SGA format using in-house software.