Search results for the GEO ID: GSE22606  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM560828 | GPL570 |
|
LNCaP EtOH rep 1
|
LNCaP cells, treated with EtOH, biological rep 1
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: control siRNA
agent (treatment): EtOH vehicle
|
Gene expression data from LNCaP cells treated with EtOH
|
| Sample_geo_accession | GSM560828
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560828/suppl/GSM560828.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
| | |
|
GSM560829 | GPL570 |
|
LNCaP EtOH rep 2
|
LNCaP cells, treated with EtOH, biological rep 2
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: control siRNA
agent (treatment): EtOH vehicle
|
Gene expression data from LNCaP cells treated with EtOH
|
| Sample_geo_accession | GSM560829
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560829/suppl/GSM560829.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
| | |
|
GSM560830 | GPL570 |
|
LNCaP EtOH rep 3
|
LNCaP cells, treated with EtOH, biological rep 3
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: control siRNA
agent (treatment): EtOH vehicle
|
Gene expression data from LNCaP cells treated with EtOH
|
| Sample_geo_accession | GSM560830
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560830/suppl/GSM560830.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
| | |
|
GSM560831 | GPL570 |
|
LNCaP R1881 rep 1
|
LNCaP cells, treated with R1881, biological rep 1
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: control siRNA
agent (treatment): R1881
|
Gene expression data from LNCaP cells treated with R1881
|
| Sample_geo_accession | GSM560831
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560831/suppl/GSM560831.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
| | |
|
GSM560832 | GPL570 |
|
LNCaP R1881 rep 2
|
LNCaP cells, treated with R1881, biological rep 2
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: control siRNA
agent (treatment): R1881
|
Gene expression data from LNCaP cells treated with R1881
|
| Sample_geo_accession | GSM560832
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560832/suppl/GSM560832.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
| | |
|
GSM560833 | GPL570 |
|
LNCaP R1881 rep 3
|
LNCaP cells, treated with R1881, biological rep 3
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: control siRNA
agent (treatment): R1881
|
Gene expression data from LNCaP cells treated with R1881
|
| Sample_geo_accession | GSM560833
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560833/suppl/GSM560833.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
| | |
|
GSM560834 | GPL570 |
|
SRF silenced EtOH rep 1
|
SRF silenced, treated with EtOH, biological rep 1
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: SRF Silencing
agent (treatment): EtOH vehicle
|
Gene expression data from SRF silenced cells treated with EtOH
|
| Sample_geo_accession | GSM560834
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560834/suppl/GSM560834.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
| | |
|
GSM560835 | GPL570 |
|
SRF silenced EtOH rep 2
|
SRF silenced, treated with EtOH, biological rep 2
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: SRF Silencing
agent (treatment): EtOH vehicle
|
Gene expression data from SRF silenced cells treated with EtOH
|
| Sample_geo_accession | GSM560835
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560835/suppl/GSM560835.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
| | |
|
GSM560836 | GPL570 |
|
SRF silenced EtOH rep 3
|
SRF silenced, treated with EtOH, biological rep 3
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: SRF Silencing
agent (treatment): EtOH vehicle
|
Gene expression data from SRF silenced cells treated with EtOH
|
| Sample_geo_accession | GSM560836
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560836/suppl/GSM560836.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
| | |
|
GSM560837 | GPL570 |
|
SRF silenced R1881 rep 1
|
SRF silenced, treated with R1881, biological rep 1
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: SRF Silencing
agent (treatment): R1881
|
Gene expression data from SRF silenced cells treated with R1881
|
| Sample_geo_accession | GSM560837
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560837/suppl/GSM560837.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
| | |
|
GSM560838 | GPL570 |
|
SRF silenced R1881 rep 2
|
SRF silenced, treated with R1881, biological rep 2
|
cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: SRF Silencing
agent (treatment): R1881
|
Gene expression data from SRF silenced cells treated with R1881
|
| Sample_geo_accession | GSM560838
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560838/suppl/GSM560838.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
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GSM560839 | GPL570 |
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SRF silenced R1881 rep 3
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SRF silenced, treated with R1881, biological rep 3
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cell line: LNCaP androgen-sensitive human prostate adenocarcinoma cell line
sirna transfection protocol: SRF Silencing
agent (treatment): R1881
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Gene expression data from SRF silenced cells treated with R1881
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| Sample_geo_accession | GSM560839
| | Sample_status | Public on Feb 28 2011
| | Sample_submission_date | Jun 28 2010
| | Sample_last_update_date | Feb 28 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 42 hours post-transfection, cells were treated for 48 hours with 5nM R1881 or ethanol vehicle
| | Sample_growth_protocol_ch1 | LNCaP cells were cultured under androgen deprived conditions for 48 hours, and transfected with control siRNA or siRNA directed against SRF
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction followed by Rneasy column purification
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 1-Cycle protocol from 3.5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
| | Sample_data_processing | The software R was used along with bioconductor. The GC corrections steps were used from GCRMA, then the PM probes were normalized using fastlo, and then the median-polish portion of rma was used to summarize the expression values into probesets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Keith,,Anderson
| | Sample_contact_email | anderson.s@mayo.edu
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 First Street SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55906
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM560nnn/GSM560839/suppl/GSM560839.cel.gz
| | Sample_series_id | GSE22606
| | Sample_data_row_count | 54675
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