Search results for the GEO ID: GSE33253  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM822870 | GPL1261 |
|
Knockout-1
|
Tumor-associated endothelial cells from B16F1 melanoma tumor grown in TNFR 1, 2 -/- mouse
|
background strain: C57BL/6
genotype/variation: TNFR 1, 2 -/-
tumor type: B16F1 melanoma
cell type: tumor endothelial cells
|
Tumor-associated endothelial cells derived from B16F1 melanoma tumors grown in TNFR 1, 2 -/- (knockout) mouse, untreated, technical replicate 1
|
| Sample_geo_accession | GSM822870
| | Sample_status | Public on Oct 20 2012
| | Sample_submission_date | Oct 26 2011
| | Sample_last_update_date | Oct 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 = B16-F1 murine melanoma cells were cultured in RPMI 1640 medium. Tumor culture media was purchased from Invitrogen (Carlsbad, CA) and supplemented with 10% fetal calf serum (Atlanta Biologicals; Lawrenceville, GA) and 1% penicillin/ streptomycin (Invitrogen). Cell cultures were maintained at 37 °C in a humidified environment containing 5% CO2. C57BL/6 (C57BL/6-NCr) wild-type mice were obtained from FCRI-Taconic (Germantown, NY). TNFR 1, 2 -/- (B6;129S-Tnfrsf1a[tm1Imx]Tnfrsf1b[tm1Imx]/J) breeding pairs were obtained from Jackson Laboratories (Bar Harbor, ME). Mice were 8-12 weeks of age when experimentation began. B16-F1 tumors were established following subcutaneous injection of 1-2x106 cells in 100 μl of phosphate-buffered saline (PBS) into the right hind limbs of WT and KO mice. At the start of each tumor experiment (day 0 corresponding to 10 days post-injection) the mean tumor volume of B16-F1 tumors was equal in WT and KO mice (mean initial tumor volume (V0) ± S.E.M.; WT: 144 ± 44 mm3; KO: 209 ± 11 mm3; p = 0.19, 2-tailed Student’s t- test). Tumor volume was determined by direct measurement with calipers and estimated by using the formula (length x width x depth/2). Mice were euthanized using CO2 followed by cervical dislocation in accordance with institutional guidelines. Tumor endothelial cells were isolated from day 0 WT (n = 15) and KO (n | 13) tumors when tumor volumes were equal. This process was based on a stepwise immunopurification (Seaman, S. et al. Genes that distinguish physiological and pathological angiogenesis. Cancer Cell 11, 539-54 (2007)) of tumor tissue that had been pooled, minced and dissociated at 37 °C with 2 mg/ml of collagenase A in PBS (Roche; Indianapolis, IN) for 1 hour. Cells were filtered through 100 µm and 25 µm mesh nylon filter fabric and pelleted in PBS with 0.5% bovine serum albumin (BSA) at 1000 x g for 5 minutes at 4 °C. Centrifugation was repeated until the supernatant was transparent (8-12 times). All subsequent steps were carried out on ice or at 4 °C. Samples were cleared of hematopoietic cells by incubation for 30 minutes at 4 °C with a 1:1:1 mixture of biotin anti-CD19, biotin anti-CD45 and biotin anti-F4/80, which had been separately pre-bound to streptavidin-linked dynabeads (Dynal; Lake Success, NY), followed by removal of the bead-bound cells with a Dynal-50 magnet. Fc-Block (anti-CD16/32 antibodies) (BD-Pharmingen; San Diego, CA) was added to the cell suspension to prevent non-specific binding of Fc-receptor containing cells in the positive selection. After an additional 30 minutes of 4 °C incubation, anti-VE cadherin and anti-CD105 antibodies were added to bind the endothelial cells. Following 30 minutes of 4 °C incubation, the cell suspension was washed 5 times with PBS/BSA. Streptavidin-linked dynabeads were added to the cell suspension, rotated for 5 minutes at 4 °C, captured with the Dynal-50 magnet, and washed 5-10 times with PBS/BSA until only bead-bound cells remained. Cells were then washed twice with complete media (RPMI 1640 with 10% FCS) with 1% penicillin/streptomycin and 1 µg/ml Fungizone (E.R. Squibb & Sons; Princeton, NJ) and resuspended in the same media. Cells were rested in culture at 37 °C and 5% CO2 for 1 hour before RNA isolation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was collected and purified from confluent WT and KO tumor endothelial cell cultures using TRIzol reagent according to the manufacturer’s recommendations (Invitrogen). The quality of samples was assessed by using gel electrophoresis in 1.8% agarose and spectrophotometry. Samples of high quality were transferred to the Functional Genomics Facility of The University of Chicago for labeling and hybridization in duplicates with Affymetrix GeneChip® Mouse Genome 430 2.0 arrays.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized on Affymetrix GeneChip® Mouse Genome 430 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Agilent GeneArray Scanner.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 750.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Sean,Pravin,Pitroda
| | Sample_contact_email | spitroda@uchicago.edu
| | Sample_contact_department | Radiation and Cellular Oncology
| | Sample_contact_institute | The University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue, MC 1105
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM822nnn/GSM822870/suppl/GSM822870_Knockout-1.CEL.gz
| | Sample_series_id | GSE33253
| | Sample_data_row_count | 45101
| | |
|
GSM822871 | GPL1261 |
|
Knockout-2
|
Tumor-associated endothelial cells from B16F1 melanoma tumor grown in TNFR 1, 2 -/- mouse
|
background strain: C57BL/6
genotype/variation: TNFR 1, 2 -/-
tumor type: B16F1 melanoma
cell type: tumor endothelial cells
|
Tumor-associated endothelial cells derived from B16F1 melanoma tumors grown in TNFR 1, 2 -/- (knockout) mouse, untreated, technical replicate 2
|
| Sample_geo_accession | GSM822871
| | Sample_status | Public on Oct 20 2012
| | Sample_submission_date | Oct 26 2011
| | Sample_last_update_date | Oct 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 = B16-F1 murine melanoma cells were cultured in RPMI 1640 medium. Tumor culture media was purchased from Invitrogen (Carlsbad, CA) and supplemented with 10% fetal calf serum (Atlanta Biologicals; Lawrenceville, GA) and 1% penicillin/ streptomycin (Invitrogen). Cell cultures were maintained at 37 °C in a humidified environment containing 5% CO2. C57BL/6 (C57BL/6-NCr) wild-type mice were obtained from FCRI-Taconic (Germantown, NY). TNFR 1, 2 -/- (B6;129S-Tnfrsf1a[tm1Imx]Tnfrsf1b[tm1Imx]/J) breeding pairs were obtained from Jackson Laboratories (Bar Harbor, ME). Mice were 8-12 weeks of age when experimentation began. B16-F1 tumors were established following subcutaneous injection of 1-2x106 cells in 100 μl of phosphate-buffered saline (PBS) into the right hind limbs of WT and KO mice. At the start of each tumor experiment (day 0 corresponding to 10 days post-injection) the mean tumor volume of B16-F1 tumors was equal in WT and KO mice (mean initial tumor volume (V0) ± S.E.M.; WT: 144 ± 44 mm3; KO: 209 ± 11 mm3; p = 0.19, 2-tailed Student’s t- test). Tumor volume was determined by direct measurement with calipers and estimated by using the formula (length x width x depth/2). Mice were euthanized using CO2 followed by cervical dislocation in accordance with institutional guidelines. Tumor endothelial cells were isolated from day 0 WT (n = 15) and KO (n | 13) tumors when tumor volumes were equal. This process was based on a stepwise immunopurification (Seaman, S. et al. Genes that distinguish physiological and pathological angiogenesis. Cancer Cell 11, 539-54 (2007)) of tumor tissue that had been pooled, minced and dissociated at 37 °C with 2 mg/ml of collagenase A in PBS (Roche; Indianapolis, IN) for 1 hour. Cells were filtered through 100 µm and 25 µm mesh nylon filter fabric and pelleted in PBS with 0.5% bovine serum albumin (BSA) at 1000 x g for 5 minutes at 4 °C. Centrifugation was repeated until the supernatant was transparent (8-12 times). All subsequent steps were carried out on ice or at 4 °C. Samples were cleared of hematopoietic cells by incubation for 30 minutes at 4 °C with a 1:1:1 mixture of biotin anti-CD19, biotin anti-CD45 and biotin anti-F4/80, which had been separately pre-bound to streptavidin-linked dynabeads (Dynal; Lake Success, NY), followed by removal of the bead-bound cells with a Dynal-50 magnet. Fc-Block (anti-CD16/32 antibodies) (BD-Pharmingen; San Diego, CA) was added to the cell suspension to prevent non-specific binding of Fc-receptor containing cells in the positive selection. After an additional 30 minutes of 4 °C incubation, anti-VE cadherin and anti-CD105 antibodies were added to bind the endothelial cells. Following 30 minutes of 4 °C incubation, the cell suspension was washed 5 times with PBS/BSA. Streptavidin-linked dynabeads were added to the cell suspension, rotated for 5 minutes at 4 °C, captured with the Dynal-50 magnet, and washed 5-10 times with PBS/BSA until only bead-bound cells remained. Cells were then washed twice with complete media (RPMI 1640 with 10% FCS) with 1% penicillin/streptomycin and 1 µg/ml Fungizone (E.R. Squibb & Sons; Princeton, NJ) and resuspended in the same media. Cells were rested in culture at 37 °C and 5% CO2 for 1 hour before RNA isolation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was collected and purified from confluent WT and KO tumor endothelial cell cultures using TRIzol reagent according to the manufacturer’s recommendations (Invitrogen). The quality of samples was assessed by using gel electrophoresis in 1.8% agarose and spectrophotometry. Samples of high quality were transferred to the Functional Genomics Facility of The University of Chicago for labeling and hybridization in duplicates with Affymetrix GeneChip® Mouse Genome 430 2.0 arrays.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized on Affymetrix GeneChip® Mouse Genome 430 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Agilent GeneArray Scanner.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 750.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Sean,Pravin,Pitroda
| | Sample_contact_email | spitroda@uchicago.edu
| | Sample_contact_department | Radiation and Cellular Oncology
| | Sample_contact_institute | The University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue, MC 1105
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM822nnn/GSM822871/suppl/GSM822871_Knockout-2.CEL.gz
| | Sample_series_id | GSE33253
| | Sample_data_row_count | 45101
| | |
|
GSM822872 | GPL1261 |
|
Wild-type-1
|
Tumor-associated endothelial cells from B16F1 melanoma tumor grown in C57BL/6 mouse
|
background strain: C57BL/6
genotype/variation: wild type
tumor type: B16F1 melanoma
cell type: tumor endothelial cells
|
Tumor-associated endothelial cells derived from B16F1 melanoma tumors grown in C57BL/6 (wild-type) mouse, untreated, technical replicate 1
|
| Sample_geo_accession | GSM822872
| | Sample_status | Public on Oct 20 2012
| | Sample_submission_date | Oct 26 2011
| | Sample_last_update_date | Oct 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 = B16-F1 murine melanoma cells were cultured in RPMI 1640 medium. Tumor culture media was purchased from Invitrogen (Carlsbad, CA) and supplemented with 10% fetal calf serum (Atlanta Biologicals; Lawrenceville, GA) and 1% penicillin/ streptomycin (Invitrogen). Cell cultures were maintained at 37 °C in a humidified environment containing 5% CO2. C57BL/6 (C57BL/6-NCr) wild-type mice were obtained from FCRI-Taconic (Germantown, NY). TNFR 1, 2 -/- (B6;129S-Tnfrsf1a[tm1Imx]Tnfrsf1b[tm1Imx]/J) breeding pairs were obtained from Jackson Laboratories (Bar Harbor, ME). Mice were 8-12 weeks of age when experimentation began. B16-F1 tumors were established following subcutaneous injection of 1-2x106 cells in 100 μl of phosphate-buffered saline (PBS) into the right hind limbs of WT and KO mice. At the start of each tumor experiment (day 0 corresponding to 10 days post-injection) the mean tumor volume of B16-F1 tumors was equal in WT and KO mice (mean initial tumor volume (V0) ± S.E.M.; WT: 144 ± 44 mm3; KO: 209 ± 11 mm3; p = 0.19, 2-tailed Student’s t- test). Tumor volume was determined by direct measurement with calipers and estimated by using the formula (length x width x depth/2). Mice were euthanized using CO2 followed by cervical dislocation in accordance with institutional guidelines. Tumor endothelial cells were isolated from day 0 WT (n = 15) and KO (n | 13) tumors when tumor volumes were equal. This process was based on a stepwise immunopurification (Seaman, S. et al. Genes that distinguish physiological and pathological angiogenesis. Cancer Cell 11, 539-54 (2007)) of tumor tissue that had been pooled, minced and dissociated at 37 °C with 2 mg/ml of collagenase A in PBS (Roche; Indianapolis, IN) for 1 hour. Cells were filtered through 100 µm and 25 µm mesh nylon filter fabric and pelleted in PBS with 0.5% bovine serum albumin (BSA) at 1000 x g for 5 minutes at 4 °C. Centrifugation was repeated until the supernatant was transparent (8-12 times). All subsequent steps were carried out on ice or at 4 °C. Samples were cleared of hematopoietic cells by incubation for 30 minutes at 4 °C with a 1:1:1 mixture of biotin anti-CD19, biotin anti-CD45 and biotin anti-F4/80, which had been separately pre-bound to streptavidin-linked dynabeads (Dynal; Lake Success, NY), followed by removal of the bead-bound cells with a Dynal-50 magnet. Fc-Block (anti-CD16/32 antibodies) (BD-Pharmingen; San Diego, CA) was added to the cell suspension to prevent non-specific binding of Fc-receptor containing cells in the positive selection. After an additional 30 minutes of 4 °C incubation, anti-VE cadherin and anti-CD105 antibodies were added to bind the endothelial cells. Following 30 minutes of 4 °C incubation, the cell suspension was washed 5 times with PBS/BSA. Streptavidin-linked dynabeads were added to the cell suspension, rotated for 5 minutes at 4 °C, captured with the Dynal-50 magnet, and washed 5-10 times with PBS/BSA until only bead-bound cells remained. Cells were then washed twice with complete media (RPMI 1640 with 10% FCS) with 1% penicillin/streptomycin and 1 µg/ml Fungizone (E.R. Squibb & Sons; Princeton, NJ) and resuspended in the same media. Cells were rested in culture at 37 °C and 5% CO2 for 1 hour before RNA isolation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was collected and purified from confluent WT and KO tumor endothelial cell cultures using TRIzol reagent according to the manufacturer’s recommendations (Invitrogen). The quality of samples was assessed by using gel electrophoresis in 1.8% agarose and spectrophotometry. Samples of high quality were transferred to the Functional Genomics Facility of The University of Chicago for labeling and hybridization in duplicates with Affymetrix GeneChip® Mouse Genome 430 2.0 arrays.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized on Affymetrix GeneChip® Mouse Genome 430 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Agilent GeneArray Scanner.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 750.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Sean,Pravin,Pitroda
| | Sample_contact_email | spitroda@uchicago.edu
| | Sample_contact_department | Radiation and Cellular Oncology
| | Sample_contact_institute | The University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue, MC 1105
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM822nnn/GSM822872/suppl/GSM822872_Wild-type-1.CEL.gz
| | Sample_series_id | GSE33253
| | Sample_data_row_count | 45101
| | |
|
GSM822873 | GPL1261 |
|
Wild-type-2
|
Tumor-associated endothelial cells from B16F1 melanoma tumor grown in C57BL/6 mouse
|
background strain: C57BL/6
genotype/variation: wild type
tumor type: B16F1 melanoma
cell type: tumor endothelial cells
|
Tumor-associated endothelial cells derived from B16F1 melanoma tumors grown in C57BL/6 (wild-type) mouse, untreated, technical replicate 2
|
| Sample_geo_accession | GSM822873
| | Sample_status | Public on Oct 20 2012
| | Sample_submission_date | Oct 26 2011
| | Sample_last_update_date | Oct 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 = B16-F1 murine melanoma cells were cultured in RPMI 1640 medium. Tumor culture media was purchased from Invitrogen (Carlsbad, CA) and supplemented with 10% fetal calf serum (Atlanta Biologicals; Lawrenceville, GA) and 1% penicillin/ streptomycin (Invitrogen). Cell cultures were maintained at 37 °C in a humidified environment containing 5% CO2. C57BL/6 (C57BL/6-NCr) wild-type mice were obtained from FCRI-Taconic (Germantown, NY). TNFR 1, 2 -/- (B6;129S-Tnfrsf1a[tm1Imx]Tnfrsf1b[tm1Imx]/J) breeding pairs were obtained from Jackson Laboratories (Bar Harbor, ME). Mice were 8-12 weeks of age when experimentation began. B16-F1 tumors were established following subcutaneous injection of 1-2x106 cells in 100 μl of phosphate-buffered saline (PBS) into the right hind limbs of WT and KO mice. At the start of each tumor experiment (day 0 corresponding to 10 days post-injection) the mean tumor volume of B16-F1 tumors was equal in WT and KO mice (mean initial tumor volume (V0) ± S.E.M.; WT: 144 ± 44 mm3; KO: 209 ± 11 mm3; p = 0.19, 2-tailed Student’s t- test). Tumor volume was determined by direct measurement with calipers and estimated by using the formula (length x width x depth/2). Mice were euthanized using CO2 followed by cervical dislocation in accordance with institutional guidelines. Tumor endothelial cells were isolated from day 0 WT (n = 15) and KO (n | 13) tumors when tumor volumes were equal. This process was based on a stepwise immunopurification (Seaman, S. et al. Genes that distinguish physiological and pathological angiogenesis. Cancer Cell 11, 539-54 (2007)) of tumor tissue that had been pooled, minced and dissociated at 37 °C with 2 mg/ml of collagenase A in PBS (Roche; Indianapolis, IN) for 1 hour. Cells were filtered through 100 µm and 25 µm mesh nylon filter fabric and pelleted in PBS with 0.5% bovine serum albumin (BSA) at 1000 x g for 5 minutes at 4 °C. Centrifugation was repeated until the supernatant was transparent (8-12 times). All subsequent steps were carried out on ice or at 4 °C. Samples were cleared of hematopoietic cells by incubation for 30 minutes at 4 °C with a 1:1:1 mixture of biotin anti-CD19, biotin anti-CD45 and biotin anti-F4/80, which had been separately pre-bound to streptavidin-linked dynabeads (Dynal; Lake Success, NY), followed by removal of the bead-bound cells with a Dynal-50 magnet. Fc-Block (anti-CD16/32 antibodies) (BD-Pharmingen; San Diego, CA) was added to the cell suspension to prevent non-specific binding of Fc-receptor containing cells in the positive selection. After an additional 30 minutes of 4 °C incubation, anti-VE cadherin and anti-CD105 antibodies were added to bind the endothelial cells. Following 30 minutes of 4 °C incubation, the cell suspension was washed 5 times with PBS/BSA. Streptavidin-linked dynabeads were added to the cell suspension, rotated for 5 minutes at 4 °C, captured with the Dynal-50 magnet, and washed 5-10 times with PBS/BSA until only bead-bound cells remained. Cells were then washed twice with complete media (RPMI 1640 with 10% FCS) with 1% penicillin/streptomycin and 1 µg/ml Fungizone (E.R. Squibb & Sons; Princeton, NJ) and resuspended in the same media. Cells were rested in culture at 37 °C and 5% CO2 for 1 hour before RNA isolation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was collected and purified from confluent WT and KO tumor endothelial cell cultures using TRIzol reagent according to the manufacturer’s recommendations (Invitrogen). The quality of samples was assessed by using gel electrophoresis in 1.8% agarose and spectrophotometry. Samples of high quality were transferred to the Functional Genomics Facility of The University of Chicago for labeling and hybridization in duplicates with Affymetrix GeneChip® Mouse Genome 430 2.0 arrays.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized on Affymetrix GeneChip® Mouse Genome 430 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Agilent GeneArray Scanner.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 750.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Sean,Pravin,Pitroda
| | Sample_contact_email | spitroda@uchicago.edu
| | Sample_contact_department | Radiation and Cellular Oncology
| | Sample_contact_institute | The University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue, MC 1105
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM822nnn/GSM822873/suppl/GSM822873_Wild-type-2.CEL.gz
| | Sample_series_id | GSE33253
| | Sample_data_row_count | 45101
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