Table 2.
ChIP-Enrich analysis of FUS and EWS ChIP-seq peaks
| FUS ChIP-seq gene set enrichment analysis (FDR value < 0.01) | ||||
|---|---|---|---|---|
| GO/KEGG ID | GO/KEGG category | Gene Set Description | P value | FDR |
| GO:0006414 | Gene Ontology Biological Process | translational elongation | 1.27E-08 | 5.13E-05 |
| GO:2000602 | Gene Ontology Biological Process | regulation of interphase of mitotic cell cycle | 2.64E-07 | 5.34E-04 |
| GO:0006415 | Gene Ontology Biological Process | translational termination | 2.55E-06 | 0.0027 |
| GO:0007346 | Gene Ontology Biological Process | regulation of mitotic cell cycle | 2.67E-06 | 0.0027 |
| GO:0006614 | Gene Ontology Biological Process | SRP-dependent cotranslational protein targeting to membrane | 6.51E-06 | 0.00404 |
| GO:0030530 | Gene Ontology Cellular Component | heterogeneous nuclear ribonucleoprotein complex | 7.58E-08 | 3.74E-05 |
| GO:0022626 | Gene Ontology Cellular Component | cytosolic ribosome | 1.56E-06 | 3.85E-04 |
| GO:0030529 | Gene Ontology Cellular Component | ribonucleoprotein complex | 2.20E-05 | 0.00347 |
| GO:0044391 | Gene Ontology Cellular Component | ribosomal subunit | 2.81E-05 | 0.00347 |
| GO:0022625 | Gene Ontology Cellular Component | cytosolic large ribosomal subunit | 3.54E-05 | 0.00349 |
| GO:0043566 | Gene Ontology Molecular Function | structure-specific DNA binding | 8.88E-06 | 0.0077 |
| path:hsa03010 | KEGG Pathway | Ribosome | 5.79E-06 | 0.00108 |
| EWS ChIP-seq gene set enrichment analysis (FDR value < 0.01) | ||||
| GO/ KEGG ID | GO/KEGG category | Gene Set Description | P value | FDR |
| GO:0006414 | Gene Ontology Biological Process | translational elongation | 7.86E-13 | 3.18E-09 |
| GO:0006613 | Gene Ontology Biological Process | cotranslational protein targeting to membrane | 1.58E-12 | 3.19E-09 |
| GO:0006415 | Gene Ontology Biological Process | translational termination | 4.60E-11 | 6.20E-08 |
| GO:0006614 | Gene Ontology Biological Process | SRP-dependent cotranslational protein targeting to membrane | 4.17E-10 | 3.91E-07 |
| GO:0045047 | Gene Ontology Biological Process | protein targeting to ER | 4.83E-10 | 3.91E-07 |
| GO:0022626 | Gene Ontology Cellular Component | cytosolic ribosome | 1.92E-11 | 9.49E-09 |
| GO:0044391 | Gene Ontology Cellular Component | ribosomal subunit | 4.70E-09 | 8.13E-07 |
| GO:0030530 | Gene Ontology Cellular Component | heterogeneous nuclear ribonucleoprotein complex | 4.95E-09 | 8.13E-07 |
| GO:0030529 | Gene Ontology Cellular Component | ribonucleoprotein complex | 1.67E-07 | 2.06E-05 |
| GO:0005730 | Gene Ontology Cellular Component | nucleolus | 2.95E-07 | 2.69E-05 |
| GO:0003735 | Gene Ontology Molecular Function | structural constituent of ribosome | 5.34E-08 | 2.70E-05 |
| path:hsa03010 | KEGG Pathway | Ribosome | 2.32E-07 | 4.33E-05 |
The presented ChIP-Enrich results represents for FUS the 5 most significant GO signatures for Biological Process and for Cellular Component, as well as the single present GO signature for Molecular Function and KEGG pathway. For comparison the same set-up for ChIP-Enrich results were presented for EWS. The entire ChIP-Enrich analyze list is included in Additional file 4