Source was yeast cell line; bait produced as transgenic fusion protein; prey produced as transgenic fusion protein (prey was previously cloned reagent).

The Clk-cyc interaction was observed in light and in dark conditions.

Two-hybrid system: yeast LexA-BD/VP16-AD

Positive control.

Interaction in vitro; bait produced by in vitro translation; prey produced and labeled by in vitro translation.

Positive control.

Interaction in vitro; bait produced by in vitro translation; prey produced by in vitro translation.

Short range cooperative TF-TF interactions predicted from the analysis of multiple ChIP data sets were tested by in vitro pull down assay. Assays showing greater then 7-fold enrichment over negative controls were considered to be validated. Positive control.

Interaction in vitro; bait produced by in vitro translation; prey produced by in vitro translation.

Short range cooperative TF-TF interactions predicted from the analysis of multiple ChIP data sets were tested by in vitro pull down assay. Assays showing greater then 7-fold enrichment over negative controls were considered to be validated. Positive control.

From an analysis of many TF-ChIP data sets, TF-TF interactions were predicted on the basis of regular DNA sequence motif arrangements. 27 predicted TF-TF interactions were tested using a pull down assay that measures the \'Luminescence Intensity Ratio\'. A cut-off of 7 was used, well above values for six negative controls.

Positive control.

Interaction in vitro; bait produced by coupled in vitro translation; prey produced by coupled in vitro translation.

Source was cell extract of S2 cell line; bait produced from transfected construct; prey produced from transfected construct.

Positive control.

Source was cell extract of S2 cell line; bait produced from transfected construct; prey produced from transfected construct.

Addition of the short Clk isoform abolishes cyc-Clk long isoform interaction.