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After 4 h DHT (10 nM) treatment, ChIP was conducted as described previously [23] except that no salmon sperm DNA was used as blocking reagent.
The hybridization intensities of the probes were measured with the treatment (ChIP) and control (human whole genome) samples for the technical triplicates of each of the two biological replicates.
Indeed, as shown in Figures 5 and 6, Supplementary Figure S3, the sFRP1 and Smad4 expression level was significantly increased both by 5Az treatment (Chip assay) and by miR-1260b inhibitransfectiontion (luciferase assay).
As a control for antibody specificity, we carried out parallel ChIP assay with a polyclonal antibody against ID14, an extracellular matrix protein [ 55]. Figure 6A showed that even in the absence of T3 treatment, ChIP signal for TR was very strong at the TRE2 region and the signal was elevated further upon T3 treatment.
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The supplementary figure displays the tiling array profiles when the DMSO and tunicamycin treatment chips are hybridized with the barcodes alone or with the addition of gDNA.
Surface treatments (chip seals, single or double binder application, cape seals, slurry seals, microsurfacing, fog seals, reinforced seals) are widely used in flexible pavements maintenance and rehabilitation because of the reduced costs and the easiness of application.
This parameter is equal to the maximum average chip signal (both in the control and cold-treatment chip datasets) and was chosen to roughly estimate overall transcript abundance.
Interestingly, the promoters of 63 out of 280 genes have been previously found to be bound by p53 in U2OS cells upon actinomycin D treatment using ChIP-chip analysis (Supplementary Table S10, marked with a star).
First, the HPV genotyping immobilized probe DNA was spotted on a treatment glass chip by using the pin array method.
Alternatively, the micro-device can be used for fragmentation of chromatins through micrococcal nuclease (MNase) treatment on chip, after the cell permeabilization.
Finally, the target DNA was hybridized with the HPV genotyping immobilized probe DNA in one well on the treatment glass chip, as shown in Fig. 2(a).
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