Ted with Alexa Fluor 488 goat-a-mouse secondary antibody (Invitrogen) at RT for one hour. Slides were washed 3 times with 16 PBS and mounted with SlowFade and DAPI (Invitrogen). Images were acquired with an Olympus fluorescent microscope using appropriate filter sets.qRT-PCRRNA was isolated as described in Microarray section. Title Loaded From File Complementary DNA synthesis was done using SuperScriptH III Reverse Transcriptase Kit (Invitrogen) according to the manufacturer’s protocol. 2 ng cDNA was amplified by iQ5 iCycler thermal cycler (Bio-Rad) and monitored by SYBRGreen (Invitrogen) for real time PCR. Threshold cycle values were normalized against actin or GAPDH. Individual samples were performed in triplicate and converted to relative gene expression using QGene96 software (http://www.gene-quantification.de/download.html#qgene). Sequences for each primer set are in Table S3.Cell Growth Assays (Cell Counts MTT)Cell count assay. Cells were plated to 6-well plates at a density of 26105 cells/well in RPMI1640 supplemented with 10 CDT-FBS, 1 PSG. After 24 hours, cells were treated with DHT 1 nM, Dox 4.5 ng/mL, Dox 20 ng/mL and vehicle only as control. Medium was refreshed every 72 hours. Individual treatments were in duplicate. At the reported time points, cells were washed gently with PBS and trypsinized 2? minutes at RT. Total cells per well were determined via CountessH Automated Cell Counter (Invitrogen) according to the manufacturer’s protocol. MTT assay. Cells were plated to 24-well plates at a density of 20 K cells/well in RPMI1640 supplemented with 10 CDT-FBS, 1 PSG. After 24 hours, cells were treated with DHT 1 nM, Dox 1480666 4.5 ng/mL, Dox 20 ng/mL and vehicle only as control. At the designated time points, 30 mL MTT labeling reagent was added to each well and incubated 4 hours at RT. Following the four hour incubation, 300 mL of the Solubilization Solution was added to each well and the plates were incubated overnight. The following day, absorbance of the formazan 1676428 product was measured at A570 on a microplate reader.Chomatin immunoprecipitation (ChIP)ChIP assays (26107cells/assay) were performed following the University of California Davis Genome Center ChIP Title Loaded From File protocol (http://genomics.ucdavis.edu/farnham). The primary antibodies used in the assays were a-FLAG M2 antibody (Sigma) and a-RNA polymerase II 8WG16 monoclonal antibody (Covance). KLK3 promoter primer sequences are: 59-TCTGCCTTTGTCCCCTAGAT-39 (forward) and 59-AACCTTCATTCCCCAGGACT-39 (reverse) [17].ChIP to chip analysisChIP assays (26107cells/assay) were performed following the University of California Davis Genome Center ChIP protocol (http://genomics.ucdavis.edu/farnham). The primary antibody used in the assays was a-FLAG M2 antibody (Sigma-Aldrich). LN/TC-AR cells were treated with 10 ng/mL doxycycline for 24 hours after three days in RPMI supplemented with 10 charcoal dextran treated (CDT) fetal bovine serum and 1 PSG.Cell Migration AssaysCell migration assay kit (ECM 509) was purchased from Millipore (CHEMICON) and the commercial protocol from Millipore was followed. Briefly, cells were incubated in RPMI1640 media supplemented with 1 PSG only for 24 hours. 36105 cellsModeling Truncated AR in AD BackgroundTwo independent ChIP experiments were performed and aFLAG M2 antibody was used for detecting occupancy of FLAGtagged TC-AR on chromatins. One total input, one IgG control and two LN/TC-AR ChIP samples were collected and sent to the UCD Cancer Center Gene Expression Resource Facility for hy.Ted with Alexa Fluor 488 goat-a-mouse secondary antibody (Invitrogen) at RT for one hour. Slides were washed 3 times with 16 PBS and mounted with SlowFade and DAPI (Invitrogen). Images were acquired with an Olympus fluorescent microscope using appropriate filter sets.qRT-PCRRNA was isolated as described in Microarray section. Complementary DNA synthesis was done using SuperScriptH III Reverse Transcriptase Kit (Invitrogen) according to the manufacturer’s protocol. 2 ng cDNA was amplified by iQ5 iCycler thermal cycler (Bio-Rad) and monitored by SYBRGreen (Invitrogen) for real time PCR. Threshold cycle values were normalized against actin or GAPDH. Individual samples were performed in triplicate and converted to relative gene expression using QGene96 software (http://www.gene-quantification.de/download.html#qgene). Sequences for each primer set are in Table S3.Cell Growth Assays (Cell Counts MTT)Cell count assay. Cells were plated to 6-well plates at a density of 26105 cells/well in RPMI1640 supplemented with 10 CDT-FBS, 1 PSG. After 24 hours, cells were treated with DHT 1 nM, Dox 4.5 ng/mL, Dox 20 ng/mL and vehicle only as control. Medium was refreshed every 72 hours. Individual treatments were in duplicate. At the reported time points, cells were washed gently with PBS and trypsinized 2? minutes at RT. Total cells per well were determined via CountessH Automated Cell Counter (Invitrogen) according to the manufacturer’s protocol. MTT assay. Cells were plated to 24-well plates at a density of 20 K cells/well in RPMI1640 supplemented with 10 CDT-FBS, 1 PSG. After 24 hours, cells were treated with DHT 1 nM, Dox 1480666 4.5 ng/mL, Dox 20 ng/mL and vehicle only as control. At the designated time points, 30 mL MTT labeling reagent was added to each well and incubated 4 hours at RT. Following the four hour incubation, 300 mL of the Solubilization Solution was added to each well and the plates were incubated overnight. The following day, absorbance of the formazan 1676428 product was measured at A570 on a microplate reader.Chomatin immunoprecipitation (ChIP)ChIP assays (26107cells/assay) were performed following the University of California Davis Genome Center ChIP protocol (http://genomics.ucdavis.edu/farnham). The primary antibodies used in the assays were a-FLAG M2 antibody (Sigma) and a-RNA polymerase II 8WG16 monoclonal antibody (Covance). KLK3 promoter primer sequences are: 59-TCTGCCTTTGTCCCCTAGAT-39 (forward) and 59-AACCTTCATTCCCCAGGACT-39 (reverse) [17].ChIP to chip analysisChIP assays (26107cells/assay) were performed following the University of California Davis Genome Center ChIP protocol (http://genomics.ucdavis.edu/farnham). The primary antibody used in the assays was a-FLAG M2 antibody (Sigma-Aldrich). LN/TC-AR cells were treated with 10 ng/mL doxycycline for 24 hours after three days in RPMI supplemented with 10 charcoal dextran treated (CDT) fetal bovine serum and 1 PSG.Cell Migration AssaysCell migration assay kit (ECM 509) was purchased from Millipore (CHEMICON) and the commercial protocol from Millipore was followed. Briefly, cells were incubated in RPMI1640 media supplemented with 1 PSG only for 24 hours. 36105 cellsModeling Truncated AR in AD BackgroundTwo independent ChIP experiments were performed and aFLAG M2 antibody was used for detecting occupancy of FLAGtagged TC-AR on chromatins. One total input, one IgG control and two LN/TC-AR ChIP samples were collected and sent to the UCD Cancer Center Gene Expression Resource Facility for hy.
