Table 2.
The list of transcription factors removed by standard NCA algorithm but retained by ISNCA in the EGF data set and its involvement in previous breast cancer studies
| TF symbol | Description | Breast cancer related? | % removed | PMIDs |
|---|---|---|---|---|
| ATF2 | Activating transcription factor 2 | Yes | 92 | 19331149, 18677098, |
| 17079470, 17258390 | ||||
| FOXA1 | Forkhead box A1 | Yes | 84 | 19261198, 24528009, |
| 25155268, 17373880 | ||||
| SMAD5 | SMAD family member 5 | Yes | 91 | 23334326, 19096363 |
| 17786313 | ||||
| RARG | Retinoic acid receptor-gamma | Yes | 91 | 21482774, 15375546 |
| 10928067 | ||||
| REL | v-rel avian reticuloendotheliosis viral oncogene | Yes | 13 | 21482774, 15375546 |
| ATF3 | Activating transcription factor 3 | Yes | 91 | 23921126, 24494067, |
| 20930144, 17952119 | ||||
| ETV4 | ETS translocation variant 4 | Yes | 89 | 17467662, 22075993 |
| FOS | FBJ murine osteosarcoma viral | Yes | 84 | 15319566, 19925682 |
| oncogene homolog | ||||
| FOSL1 | Fos-related antigen 1 | Yes | 93 | 19925682, 21570421 |
| JUNB | jun B proto-oncogene | Yes | 94 | 24073962, 8417822 |
| MYBL2 | Myb-related protein B | Yes | 83 | 25337223, 25502082, |
| 22037783 | ||||
| NFIA | Nuclear factor 1 A-type | Yes | 90 | 24393253, 20525248 |
| NOTCH1 | Notch homolog 1, | Yes | 81 | 25287362, 25544568, |
| translocation associated | 24970818 | |||
| PAX3 | Paired box 3 | Yes | 89 | 24438019, 20525248 |
| SMAD7 | SMAD family member 7 | Yes | 82 | 22841502, 22033246 |
| FLI1 | Fli-1 proto-oncogene, | Yes | 79 | 25379017, 17727680, |
| ETS transcription factor | 17172821 |
% removed indicates that number of times standard NCA failed to retain the particular transcription factor on 100 tested networks. PMID is the PubMed database identification number