Search results for the GEO ID: GSE19713  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM492478 | GPL570 |
|
PCSC-1 parental biol repl 1
|
PCSC-1 parental cultures in PCSCs medium
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-1
culture type: adherent
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492478
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492478/suppl/GSM492478.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492479 | GPL570 |
|
PCSC-1 parental biol repl 2
|
PCSC-1 parental cultures in PCSCs medium
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-1
culture type: adherent
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492479
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492479/suppl/GSM492479.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492480 | GPL570 |
|
PCSC-2 parental biol repl 1
|
PCSC-2 parental cultures in PCSCs medium
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-2
culture type: adherent
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492480
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492480/suppl/GSM492480.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492481 | GPL570 |
|
PCSC-2 parental biol repl 2
|
PCSC-2 parental cultures in PCSCs medium
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-2
culture type: adherent
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492481
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492481/suppl/GSM492481.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492482 | GPL570 |
|
PCSC-3 parental biol repl 1
|
PCSC-3 parental cultures in PCSCs medium
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-3
culture type: adherent
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492482
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492482/suppl/GSM492482.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492483 | GPL570 |
|
PCSC-3 parental biol repl 2
|
PCSC-3 parental cultures in PCSCs medium
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-3
culture type: adherent
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492483
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492483/suppl/GSM492483.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492484 | GPL570 |
|
PCSC-1 sphere biol repl 1
|
PCSC-1 spheres 7 days in SCM-1% KO
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-1
culture type: sphere
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492484
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492484/suppl/GSM492484.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492485 | GPL570 |
|
PCSC-1 sphere biol repl 2
|
PCSC-1 spheres 7 days in SCM-1% KO
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-1
culture type: sphere
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492485
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492485/suppl/GSM492485.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492486 | GPL570 |
|
PCSC-2 sphere biol repl 1
|
PCSC-2 spheres 7 days in SCM-1% KO
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-2
culture type: sphere
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492486
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492486/suppl/GSM492486.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492487 | GPL570 |
|
PCSC-2 sphere biol repl 2
|
PCSC-2 spheres 7 days in SCM-1% KO
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-2
culture type: sphere
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492487
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492487/suppl/GSM492487.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492488 | GPL570 |
|
PCSC-3 sphere biol repl 1
|
PCSC-3 spheres 7 days in SCM-1% KO
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-3
culture type: sphere
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492488
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492488/suppl/GSM492488.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
|
GSM492489 | GPL570 |
|
PCSC-3 sphere biol repl 2
|
PCSC-3 spheres 7 days in SCM-1% KO
|
cell type: prostate cancer stem cell primary lines
cell line: PCSC-3
culture type: sphere
|
Gene expression data from parental-adherent considered as cells commited to differentiation
|
| Sample_geo_accession | GSM492489
| | Sample_status | Public on Jan 01 2010
| | Sample_submission_date | Dec 31 2009
| | Sample_last_update_date | Dec 31 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Spheres were grown from a single cell suspension of bulk PCSCS adherent cultures, washed three times in PBS and plated at low density in SCM-1%KO. The cultures were grown for 7 days and floating spheres were then isolated.
| | Sample_growth_protocol_ch1 | Spheres were grown in SCM medium (DMEM:F12 plus 10 ng/mL bFGF, 20 ng/mL EGF, 5 mg/mL insulin, and 0.4% BSA) supplemented with 1% KO serum replacement (Invitrogen/Gibco, p/n 10828-028) at a density of 2500 cells/mL. Parental cell line was grown in RPMI-1640-10% FBS. Regular tissue culture flask treated to improve cell attachment were used in both cases.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA extracted using RNeasy kit from Qiagen
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA using Affymetrix 3' One Cycle Target Labeling kit following manufacturer’s instructions.
| | Sample_hyb_protocol | Following fragmentation, 1 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array; Affymetrix (p/n 900467). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GeneChip scanner 3000.
| | Sample_data_processing | Data were collected using Affymetrix GCOS software, normalized using the GC-RMA algorithm and log 2 transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Maria,Ana,Duhagon
| | Sample_contact_email | duhagonm@mail.nih.gov
| | Sample_contact_laboratory | Cancer Stem Cell Section
| | Sample_contact_department | Laboratory of Cancer Prevention
| | Sample_contact_institute | NCI-Frederick
| | Sample_contact_address | 1050 Boyles St.
| | Sample_contact_city | Frederick
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM492nnn/GSM492489/suppl/GSM492489.CEL.gz
| | Sample_series_id | GSE19713
| | Sample_data_row_count | 54675
| | |
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