| Delineation and initial analysis of large regulatory regions |
|
| Insertion of the promoter region upstream of reporter gene |
6.8 |
| Attachment of DNA fragment of interest to homologous or heterologous promoter and reporter gene |
6.3.1 |
| Deletion analysis |
6.1.1 |
| Assessing appropriate regulation by different agents in transient transfection assay |
6.5 |
| Detection of transcription factor binding sites |
|
| DNase I footprinting with nuclear extract |
1.1.1 |
| OP-Cu footprinting with nuclear extract |
1.6 |
| DNase I footprinting with purified or recombinant protein |
1.1.5 |
| Genomic footprinting |
1.5 |
| Methylation protection assay |
4.1 |
| Methylation interference assay |
4.2 |
| Electrophoretic mobility shift assay (EMSA) with nuclear extract |
3.1 |
| EMSA performed in the presence of competitive oligonucleotides |
3.2 |
| EMSA performed with mutant probes or competitors |
3.3 |
| Confirming the functional importance of the site |
|
| Insertion of isolated site 5′ of homologous or heterologous promoter |
6.3.2 |
| Comprehensive mutant analysis |
6.2 |
| Trans-activation of a reporter gene by overexpression of a distinct transcription factor |
6.6 |
| Genomic footprinting |
1.5 |
| Identification of DNA-binding proteins |
|
| DNase I footprinting with purified or recombinant protein |
1.1.5 |
| DNase I footprinting with nuclear extract and specific antibodies |
1.1.6 |
| EMSA with purified or recombinant protein |
3.5 |
| EMSA with nuclear extract and specific antibodies |
3.6 |
