Search results for the GEO ID: GSE34055  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM841045 | GPL570 |
|
HMEC_Control_1
|
normal HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: Control
|
Sample name: 127574
EA10128_127574_HGU133_PLUS_2_01.CEL
rep1 Control
|
| Sample_geo_accession | GSM841045
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841045/suppl/GSM841045.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
|
GSM841046 | GPL570 |
|
HMEC_HighMyc_1
|
High Myc in HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: Tamoxifen induced
|
Sample name: 127575
EA10128_127575_HGU133_PLUS_2_TAM1.CEL
rep1 Myc
|
| Sample_geo_accession | GSM841046
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841046/suppl/GSM841046.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
|
GSM841047 | GPL570 |
|
HMEC_SUMO depleted_1
|
SUMO depleted in HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: shRNA SAE2
|
Sample name: 127576
EA10128_127576_HGU133_PLUS_2_DOX1.CEL
rep1 shSAE2
|
| Sample_geo_accession | GSM841047
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841047/suppl/GSM841047.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
|
GSM841048 | GPL570 |
|
HMEC_HighMyc+SUMO depleted_1
|
High Myc+Sumo Depleted in HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: Tamoxifen+shRNA
|
Sample name: 127577
EA10128_127577_HGU133_PLUS_2_TAMDOX1.CEL
rep1 Myc/shSAE2
|
| Sample_geo_accession | GSM841048
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841048/suppl/GSM841048.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
|
GSM841049 | GPL570 |
|
HMEC_Control_2
|
normal HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: Control
|
Sample name: 127578
EA10128_127578_HGU133_PLUS_2_02.CEL
rep2 Control
|
| Sample_geo_accession | GSM841049
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841049/suppl/GSM841049.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
|
GSM841050 | GPL570 |
|
HMEC_HighMyc_2
|
High Myc in HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: Tamoxifen induced
|
Sample name: 127579
EA10128_127579_HGU133_PLUS_2_TAM2.CEL
rep2 Myc
|
| Sample_geo_accession | GSM841050
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841050/suppl/GSM841050.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
|
GSM841051 | GPL570 |
|
HMEC_SUMO depleted_2
|
SUMO depleted in HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: shRNA SAE2
|
Sample name: 127580
EA10128_127580_HGU133_PLUS_2_DOX2.CEL
rep2 shSAE2
|
| Sample_geo_accession | GSM841051
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841051/suppl/GSM841051.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
|
GSM841052 | GPL570 |
|
HMEC_HighMyc+SUMO depleted_2
|
High Myc+Sumo Depleted in HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: Tamoxifen+shRNA
|
Sample name: 127581
EA10128_127581_HGU133_PLUS_2_TAMDOX2.CEL
rep2 Myc/shSAE2
|
| Sample_geo_accession | GSM841052
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841052/suppl/GSM841052.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
|
GSM841053 | GPL570 |
|
HMEC_Control_3
|
normal HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: Control
|
Sample name: 127582
EA10128_127582_HGU133_PLUS_2_03.CEL
rep3 Control
|
| Sample_geo_accession | GSM841053
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841053/suppl/GSM841053.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
|
GSM841054 | GPL570 |
|
HMEC_HighMyc_3
|
High Myc in HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: Tamoxifen induced
|
Sample name: 127583
EA10128_127583_HGU133_PLUS_2_TAM3.CEL
rep3 Myc
|
| Sample_geo_accession | GSM841054
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841054/suppl/GSM841054.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
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GSM841055 | GPL570 |
|
HMEC_SUMO depleted_3
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SUMO depleted in HMEC
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cell line: human mammary epithelial cells (HMECs)
treatment: shRNA SAE2
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Sample name: 127584
EA10128_127584_HGU133_PLUS_2_DOX3.CEL
rep3 shSAE2
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| Sample_geo_accession | GSM841055
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841055/suppl/GSM841055.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
|
GSM841056 | GPL570 |
|
HMEC_HighMyc+SUMO depleted_3
|
High Myc+Sumo Depleted in HMEC
|
cell line: human mammary epithelial cells (HMECs)
treatment: Tamoxifen+shRNA
|
Sample name: 127585
EA10128_127585_HGU133_PLUS_2_TAMDOX3.CEL
rep3 Myc/shSAE2
|
| Sample_geo_accession | GSM841056
| | Sample_status | Public on Dec 08 2011
| | Sample_submission_date | Nov 30 2011
| | Sample_last_update_date | Dec 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER HMECs were treated for three days -/+ 1ug/mL dox and one day -/+ 300nM TAM (all samples done in triplicate)
| | Sample_growth_protocol_ch1 | pINDUCER11-shSAE2 infected Myc-ER human mammary epithelial cells (HMECs) were cultured at 37C with 5% CO2 in mammary epithelial growth medium (MEGM, Lonza)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the RNeasy kit (Qiagen) according to the manufacturer's instructions
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 2 ug total RNA using the Single-Round 3’ RNA Amplification and Biotin Labeling (Enzo Life Sciences)
| | Sample_hyb_protocol | The hybridization cocktail was denatured at 99°C for 5 minutes, incubated at 45°C for 5 minutes and then injected into a GeneChip cartridge which was incubated at 45°C for at least 16 hours in a rotating oven at 60 rpm. GeneChips were washed and stained using a Fluidics station 450 using protocol: EukGE-WS2v4_450
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix GC3000 scanner with 7G upgrade, Factory PMT settings.
| | Sample_data_processing | data were analyzed in R using the GCRMA R package with defaults
| | Sample_platform_id | GPL570
| | Sample_contact_name | Chad,A.,Shaw
| | Sample_contact_email | cashaw@bcm.edu
| | Sample_contact_phone | 7137988087
| | Sample_contact_laboratory | Shaw
| | Sample_contact_department | Molecular and Human Genetics
| | Sample_contact_institute | BCM
| | Sample_contact_address | 1 Baylor Plaza
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM841nnn/GSM841056/suppl/GSM841056.CEL.gz
| | Sample_series_id | GSE34055
| | Sample_data_row_count | 54675
| | |
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