Search results for the GEO ID: GSE41445  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1017454 | GPL570 |
|
786O_1a
|
786-O
|
gender: male
organ: Kidney
disease: renal cell adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: 786-O
atcc_number: CRL-1932
|
gene expression profiling of 21 cell lines
786-O, replicate 1
|
| Sample_geo_accession | GSM1017454
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017454/suppl/GSM1017454_mRNA_1a_271106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017455 | GPL570 |
|
786O_1b
|
786-O
|
gender: male
organ: Kidney
disease: renal cell adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: 786-O
atcc_number: CRL-1932
|
gene expression profiling of 21 cell lines
786-O, replicate 2
|
| Sample_geo_accession | GSM1017455
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017455/suppl/GSM1017455_mRNA_1b_271106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017456 | GPL570 |
|
786O_1c
|
786-O
|
gender: male
organ: Kidney
disease: renal cell adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: 786-O
atcc_number: CRL-1932
|
gene expression profiling of 21 cell lines
786-O, replicate 3
|
| Sample_geo_accession | GSM1017456
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017456/suppl/GSM1017456_mRNA_1c_271106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017457 | GPL570 |
|
A549_2a
|
A549
|
gender: male
organ: Lung
disease: non-small cell carcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: A549
atcc_number: CCL-185
|
gene expression profiling of 21 cell lines
A549, replicate 1
|
| Sample_geo_accession | GSM1017457
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017457/suppl/GSM1017457_mRNA_2a_271106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017458 | GPL570 |
|
A549_2b
|
A549
|
gender: male
organ: Lung
disease: non-small cell carcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: A549
atcc_number: CCL-185
|
gene expression profiling of 21 cell lines
A549, replicate 2
|
| Sample_geo_accession | GSM1017458
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017458/suppl/GSM1017458_mRNA_2b_281106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017459 | GPL570 |
|
A549_2c
|
A549
|
gender: male
organ: Lung
disease: non-small cell carcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: A549
atcc_number: CCL-185
|
gene expression profiling of 21 cell lines
A549, replicate 3
|
| Sample_geo_accession | GSM1017459
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017459/suppl/GSM1017459_mRNA_2c_281106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017460 | GPL570 |
|
CACO2_3a
|
Caco-2
|
gender: male
organ: Colon
disease: colorectal adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: Caco-2
atcc_number: HTB-37
|
gene expression profiling of 21 cell lines
Caco-2, replicate 1
|
| Sample_geo_accession | GSM1017460
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017460/suppl/GSM1017460_mRNA_3a_281106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017461 | GPL570 |
|
CACO2_3b
|
Caco-2
|
gender: male
organ: Colon
disease: colorectal adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: Caco-2
atcc_number: HTB-37
|
gene expression profiling of 21 cell lines
Caco-2, replicate 2
|
| Sample_geo_accession | GSM1017461
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017461/suppl/GSM1017461_mRNA_3b_281106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017462 | GPL570 |
|
CACO2_3c
|
Caco-2
|
gender: male
organ: Colon
disease: colorectal adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: Caco-2
atcc_number: HTB-37
|
gene expression profiling of 21 cell lines
Caco-2, replicate 3
|
| Sample_geo_accession | GSM1017462
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017462/suppl/GSM1017462_mRNA_3c_281106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017463 | GPL570 |
|
DU145_4a
|
DU 145
|
gender: male
organ: Prostate
disease: moderately differentiated adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: brain
in_vivo_growth: yes
cell line: DU 145
atcc_number: HTB-81
|
gene expression profiling of 21 cell lines
DU 145, replicate 1
|
| Sample_geo_accession | GSM1017463
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017463/suppl/GSM1017463_mRNA_4a_281106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017464 | GPL570 |
|
DU145_4b
|
DU 145
|
gender: male
organ: Prostate
disease: moderately differentiated adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: brain
in_vivo_growth: yes
cell line: DU 145
atcc_number: HTB-81
|
gene expression profiling of 21 cell lines
DU 145, replicate 2
|
| Sample_geo_accession | GSM1017464
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017464/suppl/GSM1017464_mRNA_4b_281106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017465 | GPL570 |
|
DU145_4c
|
DU 145
|
gender: male
organ: Prostate
disease: moderately differentiated adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: brain
in_vivo_growth: yes
cell line: DU 145
atcc_number: HTB-81
|
gene expression profiling of 21 cell lines
DU 145, replicate 3
|
| Sample_geo_accession | GSM1017465
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017465/suppl/GSM1017465_mRNA_4c_281106.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017466 | GPL570 |
|
HACAT_5a
|
HaCaT
|
gender: female
organ: Skin
disease: non-tumorigenic; spontaneously immortilized keratinocytes
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: HaCaT
atcc_number: n/a (PMID: 2450098)
|
gene expression profiling of 21 cell lines
HaCaT, replicate 1
|
| Sample_geo_accession | GSM1017466
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017466/suppl/GSM1017466_mRNA_5a_041206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017467 | GPL570 |
|
HACAT_5b
|
HaCaT
|
gender: female
organ: Skin
disease: non-tumorigenic; spontaneously immortilized keratinocytes
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: HaCaT
atcc_number: n/a (PMID: 2450098)
|
gene expression profiling of 21 cell lines
HaCaT, replicate 2
|
| Sample_geo_accession | GSM1017467
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017467/suppl/GSM1017467_mRNA_5b_041206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017468 | GPL570 |
|
HACAT_5c
|
HaCaT
|
gender: female
organ: Skin
disease: non-tumorigenic; spontaneously immortilized keratinocytes
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: HaCaT
atcc_number: n/a (PMID: 2450098)
|
gene expression profiling of 21 cell lines
HaCaT, replicate 3
|
| Sample_geo_accession | GSM1017468
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017468/suppl/GSM1017468_mRNA_5c_041206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017469 | GPL570 |
|
HCT116_6a
|
HCT 116
|
gender: male
organ: Colon
disease: colorectal carcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: HCT 116
atcc_number: CCL-247
|
gene expression profiling of 21 cell lines
HCT 116, replicate 1
|
| Sample_geo_accession | GSM1017469
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017469/suppl/GSM1017469_mRNA_6a_041206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017470 | GPL570 |
|
HCT116_6b
|
HCT 116
|
gender: male
organ: Colon
disease: colorectal carcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: HCT 116
atcc_number: CCL-247
|
gene expression profiling of 21 cell lines
HCT 116, replicate 2
|
| Sample_geo_accession | GSM1017470
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017470/suppl/GSM1017470_mRNA_6b_041206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017471 | GPL570 |
|
HCT116_6c
|
HCT 116
|
gender: male
organ: Colon
disease: colorectal carcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: HCT 116
atcc_number: CCL-247
|
gene expression profiling of 21 cell lines
HCT 116, replicate 3
|
| Sample_geo_accession | GSM1017471
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017471/suppl/GSM1017471_mRNA_6c_041206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017472 | GPL570 |
|
HELA_7a
|
HeLa
|
gender: female
organ: Cervix
disease: adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: HeLa
atcc_number: CCL-2
|
gene expression profiling of 21 cell lines
HeLa, replicate 1
|
| Sample_geo_accession | GSM1017472
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017472/suppl/GSM1017472_mRNA_7a_061206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017473 | GPL570 |
|
HELA_7b
|
HeLa
|
gender: female
organ: Cervix
disease: adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: HeLa
atcc_number: CCL-2
|
gene expression profiling of 21 cell lines
HeLa, replicate 2
|
| Sample_geo_accession | GSM1017473
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017473/suppl/GSM1017473_mRNA_7b_061206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017474 | GPL570 |
|
HELA_7c
|
HeLa
|
gender: female
organ: Cervix
disease: adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: HeLa
atcc_number: CCL-2
|
gene expression profiling of 21 cell lines
HeLa, replicate 3
|
| Sample_geo_accession | GSM1017474
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017474/suppl/GSM1017474_mRNA_7c_061206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017475 | GPL570 |
|
HS68_8a
|
Hs68
|
gender: male
organ: Skin
disease: non-tumorigenic; aspartoacylase deficiency; possible Canavan disease
morphology: fibroblast
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: Hs68
atcc_number: CRL-1635
|
gene expression profiling of 21 cell lines
Hs68, replicate 1
|
| Sample_geo_accession | GSM1017475
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017475/suppl/GSM1017475_mRNA_8a_061206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017476 | GPL570 |
|
HS68_8b
|
Hs68
|
gender: male
organ: Skin
disease: non-tumorigenic; aspartoacylase deficiency; possible Canavan disease
morphology: fibroblast
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: Hs68
atcc_number: CRL-1635
|
gene expression profiling of 21 cell lines
Hs68, replicate 2
|
| Sample_geo_accession | GSM1017476
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017476/suppl/GSM1017476_mRNA_8b_061206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017477 | GPL570 |
|
HS68_8c
|
Hs68
|
gender: male
organ: Skin
disease: non-tumorigenic; aspartoacylase deficiency; possible Canavan disease
morphology: fibroblast
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: Hs68
atcc_number: CRL-1635
|
gene expression profiling of 21 cell lines
Hs68, replicate 3
|
| Sample_geo_accession | GSM1017477
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017477/suppl/GSM1017477_mRNA_8c_061206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017478 | GPL570 |
|
HT29_9a
|
HT-29
|
gender: female
organ: Colon
disease: colorectal adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: HT-29
atcc_number: HTB-38
|
gene expression profiling of 21 cell lines
HT-29, replicate 1
|
| Sample_geo_accession | GSM1017478
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017478/suppl/GSM1017478_mRNA_9a_081206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017479 | GPL570 |
|
HT29_9b
|
HT-29
|
gender: female
organ: Colon
disease: colorectal adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: HT-29
atcc_number: HTB-38
|
gene expression profiling of 21 cell lines
HT-29, replicate 2
|
| Sample_geo_accession | GSM1017479
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017479/suppl/GSM1017479_mRNA_9b_081206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017480 | GPL570 |
|
HT29_9c
|
HT-29
|
gender: female
organ: Colon
disease: colorectal adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: HT-29
atcc_number: HTB-38
|
gene expression profiling of 21 cell lines
HT-29, replicate 3
|
| Sample_geo_accession | GSM1017480
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017480/suppl/GSM1017480_mRNA_9c_081206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017481 | GPL570 |
|
KPL4_10a
|
KPL-4
|
gender: female
organ: Breast
disease: invasive ductal carcinoma; inflammatory skin metastasis
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: yes
cell line: KPL-4
atcc_number: n/a (PMID: 10070858)
|
gene expression profiling of 21 cell lines
KPL-4, replicate 1
|
| Sample_geo_accession | GSM1017481
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017481/suppl/GSM1017481_mRNA_10a_200907.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017482 | GPL570 |
|
KPL4_10b
|
KPL-4
|
gender: female
organ: Breast
disease: invasive ductal carcinoma; inflammatory skin metastasis
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: yes
cell line: KPL-4
atcc_number: n/a (PMID: 10070858)
|
gene expression profiling of 21 cell lines
KPL-4, replicate 2
|
| Sample_geo_accession | GSM1017482
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017482/suppl/GSM1017482_mRNA_10b_200907.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017483 | GPL570 |
|
KPL4_10c
|
KPL-4
|
gender: female
organ: Breast
disease: invasive ductal carcinoma; inflammatory skin metastasis
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: yes
cell line: KPL-4
atcc_number: n/a (PMID: 10070858)
|
gene expression profiling of 21 cell lines
KPL-4, replicate 3
|
| Sample_geo_accession | GSM1017483
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017483/suppl/GSM1017483_mRNA_10c_200907.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017484 | GPL570 |
|
MCF10A_11a
|
MCF 10A
|
gender: female
organ: Breast
disease: non-tumorigenic; Fibrocystic Breast disease
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: MCF 10A
atcc_number: CRL-10317
|
gene expression profiling of 21 cell lines
MCF 10A, replicate 1
|
| Sample_geo_accession | GSM1017484
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017484/suppl/GSM1017484_mRNA_11a_081206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017485 | GPL570 |
|
MCF10A_11b
|
MCF 10A
|
gender: female
organ: Breast
disease: non-tumorigenic; Fibrocystic Breast disease
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: MCF 10A
atcc_number: CRL-10317
|
gene expression profiling of 21 cell lines
MCF 10A, replicate 2
|
| Sample_geo_accession | GSM1017485
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017485/suppl/GSM1017485_mRNA_11b_081206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017486 | GPL570 |
|
MCF10A_11c
|
MCF 10A
|
gender: female
organ: Breast
disease: non-tumorigenic; Fibrocystic Breast disease
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: MCF 10A
atcc_number: CRL-10317
|
gene expression profiling of 21 cell lines
MCF 10A, replicate 3
|
| Sample_geo_accession | GSM1017486
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017486/suppl/GSM1017486_mRNA_11c_081206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017487 | GPL570 |
|
MCF7_12a
|
MCF7
|
gender: female
organ: Breast
disease: intraductal adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: not tested
cell line: MCF7
atcc_number: HTB-22
|
gene expression profiling of 21 cell lines
MCF7, replicate 1
|
| Sample_geo_accession | GSM1017487
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017487/suppl/GSM1017487_mRNA_12a_081206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017488 | GPL570 |
|
MCF7_12b
|
MCF7
|
gender: female
organ: Breast
disease: intraductal adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: not tested
cell line: MCF7
atcc_number: HTB-22
|
gene expression profiling of 21 cell lines
MCF7, replicate 2
|
| Sample_geo_accession | GSM1017488
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017488/suppl/GSM1017488_mRNA_12b_081206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017489 | GPL570 |
|
MCF7_12c
|
MCF7
|
gender: female
organ: Breast
disease: intraductal adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: not tested
cell line: MCF7
atcc_number: HTB-22
|
gene expression profiling of 21 cell lines
MCF7, replicate 3
|
| Sample_geo_accession | GSM1017489
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017489/suppl/GSM1017489_mRNA_12c_111206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017490 | GPL570 |
|
MDAMB231_13a
|
MDA-MB-231
|
gender: female
organ: Breast
disease: adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: not tested
cell line: MDA-MB-231
atcc_number: HTB-26
|
gene expression profiling of 21 cell lines
MDA-MB-231, replicate 1
|
| Sample_geo_accession | GSM1017490
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017490/suppl/GSM1017490_mRNA_13a_111206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017491 | GPL570 |
|
MDAMB231_13b
|
MDA-MB-231
|
gender: female
organ: Breast
disease: adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: not tested
cell line: MDA-MB-231
atcc_number: HTB-26
|
gene expression profiling of 21 cell lines
MDA-MB-231, replicate 2
|
| Sample_geo_accession | GSM1017491
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017491/suppl/GSM1017491_mRNA_13b_111206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017492 | GPL570 |
|
MDAMB231_13c
|
MDA-MB-231
|
gender: female
organ: Breast
disease: adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: not tested
cell line: MDA-MB-231
atcc_number: HTB-26
|
gene expression profiling of 21 cell lines
MDA-MB-231, replicate 3
|
| Sample_geo_accession | GSM1017492
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017492/suppl/GSM1017492_mRNA_13c_111206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017493 | GPL570 |
|
MIAPACA2_14a
|
Mia PaCa-2
|
gender: female
organ: Pancreas
disease: carcinoma
morphology: attached epithelial with floating rounded cells
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: Mia PaCa-2
atcc_number: CRL-1420
|
gene expression profiling of 21 cell lines
Mia PaCa-2, replicate 1
|
| Sample_geo_accession | GSM1017493
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017493/suppl/GSM1017493_mRNA_14a_121206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017494 | GPL570 |
|
MIAPACA2_14b
|
Mia PaCa-2
|
gender: female
organ: Pancreas
disease: carcinoma
morphology: attached epithelial with floating rounded cells
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: Mia PaCa-2
atcc_number: CRL-1420
|
gene expression profiling of 21 cell lines
Mia PaCa-2, replicate 2
|
| Sample_geo_accession | GSM1017494
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017494/suppl/GSM1017494_mRNA_14b_121206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017495 | GPL570 |
|
MIAPACA2_14c
|
Mia PaCa-2
|
gender: female
organ: Pancreas
disease: carcinoma
morphology: attached epithelial with floating rounded cells
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: Mia PaCa-2
atcc_number: CRL-1420
|
gene expression profiling of 21 cell lines
Mia PaCa-2, replicate 3
|
| Sample_geo_accession | GSM1017495
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017495/suppl/GSM1017495_mRNA_14c_121206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017496 | GPL570 |
|
NCIH460_15a
|
NCI-H460
|
gender: male
organ: Lung
disease: large cell carcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: yes
cell line: NCI-H460
atcc_number: HTB-177
|
gene expression profiling of 21 cell lines
NCI-H460, replicate 1
|
| Sample_geo_accession | GSM1017496
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017496/suppl/GSM1017496_mRNA_15a_121206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017497 | GPL570 |
|
NCIH460_15b
|
NCI-H460
|
gender: male
organ: Lung
disease: large cell carcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: yes
cell line: NCI-H460
atcc_number: HTB-177
|
gene expression profiling of 21 cell lines
NCI-H460, replicate 2
|
| Sample_geo_accession | GSM1017497
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017497/suppl/GSM1017497_mRNA_15b_121206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017498 | GPL570 |
|
NCIH460_15c
|
NCI-H460
|
gender: male
organ: Lung
disease: large cell carcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: yes
cell line: NCI-H460
atcc_number: HTB-177
|
gene expression profiling of 21 cell lines
NCI-H460, replicate 3
|
| Sample_geo_accession | GSM1017498
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017498/suppl/GSM1017498_mRNA_15c_121206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017499 | GPL570 |
|
PC3_16a
|
PC-3
|
gender: male
organ: Prostate
disease: Gleason Grade 4; adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: bone
in_vivo_growth: yes
cell line: PC-3
atcc_number: CRL-1435
|
gene expression profiling of 21 cell lines
PC-3, replicate 1
|
| Sample_geo_accession | GSM1017499
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017499/suppl/GSM1017499_mRNA_16a_100107.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017500 | GPL570 |
|
PC3_16b
|
PC-3
|
gender: male
organ: Prostate
disease: Gleason Grade 4; adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: bone
in_vivo_growth: yes
cell line: PC-3
atcc_number: CRL-1435
|
gene expression profiling of 21 cell lines
PC-3, replicate 2
|
| Sample_geo_accession | GSM1017500
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017500/suppl/GSM1017500_mRNA_16b_170107.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017501 | GPL570 |
|
PC3_16c
|
PC-3
|
gender: male
organ: Prostate
disease: Gleason Grade 4; adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: bone
in_vivo_growth: yes
cell line: PC-3
atcc_number: CRL-1435
|
gene expression profiling of 21 cell lines
PC-3, replicate 3
|
| Sample_geo_accession | GSM1017501
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017501/suppl/GSM1017501_mRNA_16c_230107.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017502 | GPL570 |
|
SKMEL28_17a
|
SK-MEL-28
|
gender: male
organ: Skin
disease: malignant melanoma
morphology: polygonal
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: SK-MEL-28
atcc_number: HTB-72
|
gene expression profiling of 21 cell lines
SK-MEL-28, replicate 1
|
| Sample_geo_accession | GSM1017502
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017502/suppl/GSM1017502_mRNA_17a_121206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017503 | GPL570 |
|
SKMEL28_17b
|
SK-MEL-28
|
gender: male
organ: Skin
disease: malignant melanoma
morphology: polygonal
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: SK-MEL-28
atcc_number: HTB-72
|
gene expression profiling of 21 cell lines
SK-MEL-28, replicate 2
|
| Sample_geo_accession | GSM1017503
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017503/suppl/GSM1017503_mRNA_17b_121206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017504 | GPL570 |
|
SKMEL28_17c
|
SK-MEL-28
|
gender: male
organ: Skin
disease: malignant melanoma
morphology: polygonal
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: SK-MEL-28
atcc_number: HTB-72
|
gene expression profiling of 21 cell lines
SK-MEL-28, replicate 3
|
| Sample_geo_accession | GSM1017504
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017504/suppl/GSM1017504_mRNA_17c_131206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017505 | GPL570 |
|
SKOV3_18a
|
SK-OV-3
|
gender: female
organ: Ovary
disease: adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: ascites
in_vivo_growth: yes
cell line: SK-OV-3
atcc_number: HTB-77
|
gene expression profiling of 21 cell lines
SK-OV-3, replicate 1
|
| Sample_geo_accession | GSM1017505
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017505/suppl/GSM1017505_mRNA_18a_170107.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017506 | GPL570 |
|
SKOV3_18b
|
SK-OV-3
|
gender: female
organ: Ovary
disease: adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: ascites
in_vivo_growth: yes
cell line: SK-OV-3
atcc_number: HTB-77
|
gene expression profiling of 21 cell lines
SK-OV-3, replicate 2
|
| Sample_geo_accession | GSM1017506
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017506/suppl/GSM1017506_mRNA_18b_170107.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017507 | GPL570 |
|
SKOV3_18c
|
SK-OV-3
|
gender: female
organ: Ovary
disease: adenocarcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: ascites
in_vivo_growth: yes
cell line: SK-OV-3
atcc_number: HTB-77
|
gene expression profiling of 21 cell lines
SK-OV-3, replicate 3
|
| Sample_geo_accession | GSM1017507
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017507/suppl/GSM1017507_mRNA_18c_170107.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017508 | GPL570 |
|
SW480_19a
|
SW480
|
gender: female
organ: Colon
disease: Dukes' type B; colorectal adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: SW480
atcc_number: CCL-228
|
gene expression profiling of 21 cell lines
SW480, replicate 1
|
| Sample_geo_accession | GSM1017508
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017508/suppl/GSM1017508_mRNA_19a_131206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017509 | GPL570 |
|
SW480_19b
|
SW480
|
gender: female
organ: Colon
disease: Dukes' type B; colorectal adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: SW480
atcc_number: CCL-228
|
gene expression profiling of 21 cell lines
SW480, replicate 2
|
| Sample_geo_accession | GSM1017509
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017509/suppl/GSM1017509_mRNA_19b_131206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017510 | GPL570 |
|
SW480_19c
|
SW480
|
gender: female
organ: Colon
disease: Dukes' type B; colorectal adenocarcinoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: yes
cell line: SW480
atcc_number: CCL-228
|
gene expression profiling of 21 cell lines
SW480, replicate 3
|
| Sample_geo_accession | GSM1017510
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017510/suppl/GSM1017510_mRNA_19c_131206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017511 | GPL570 |
|
T47D_20a
|
T47D
|
gender: female
organ: Breast
disease: ductal carcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: yes
cell line: T47D
atcc_number: HTB-133
|
gene expression profiling of 21 cell lines
T47D, replicate 1
|
| Sample_geo_accession | GSM1017511
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017511/suppl/GSM1017511_mRNA_20a_200907.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017512 | GPL570 |
|
T47D_20b
|
T47D
|
gender: female
organ: Breast
disease: ductal carcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: yes
cell line: T47D
atcc_number: HTB-133
|
gene expression profiling of 21 cell lines
T47D, replicate 2
|
| Sample_geo_accession | GSM1017512
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017512/suppl/GSM1017512_mRNA_20b_200907.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017513 | GPL570 |
|
T47D_20c
|
T47D
|
gender: female
organ: Breast
disease: ductal carcinoma
morphology: epithelial
is_metastasis: yes
metastatic_site: pleural fluid
in_vivo_growth: yes
cell line: T47D
atcc_number: HTB-133
|
gene expression profiling of 21 cell lines
T47D, replicate 3
|
| Sample_geo_accession | GSM1017513
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017513/suppl/GSM1017513_mRNA_20c_210907.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017514 | GPL570 |
|
U2OS_21a
|
U-2 OS
|
gender: female
organ: Bone
disease: osteosarcoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: U-2 OS
atcc_number: HTB-96
|
gene expression profiling of 21 cell lines
U-2 OS, replicate 1
|
| Sample_geo_accession | GSM1017514
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017514/suppl/GSM1017514_mRNA_21a_131206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017515 | GPL570 |
|
U2OS_21b
|
U-2 OS
|
gender: female
organ: Bone
disease: osteosarcoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: U-2 OS
atcc_number: HTB-96
|
gene expression profiling of 21 cell lines
U-2 OS, replicate 2
|
| Sample_geo_accession | GSM1017515
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017515/suppl/GSM1017515_mRNA_21b_131206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
GSM1017516 | GPL570 |
|
U2OS_21c
|
U-2 OS
|
gender: female
organ: Bone
disease: osteosarcoma
morphology: epithelial
is_metastasis: no
metastatic_site: n/a
in_vivo_growth: not tested
cell line: U-2 OS
atcc_number: HTB-96
|
gene expression profiling of 21 cell lines
U-2 OS, replicate 3
|
| Sample_geo_accession | GSM1017516
| | Sample_status | Public on Oct 10 2012
| | Sample_submission_date | Oct 10 2012
| | Sample_last_update_date | Oct 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell lines were not treated.
| | Sample_growth_protocol_ch1 | Cell lines were obtained from ATCC and DSMZ and cultivated in appropriate media according to supplier recommendations. Isolation of total RNA was performed after 72h growth using Qiagen
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA (Expression Analysis Technical Manual, 2006, Affymetrix).
| | Sample_hyb_protocol | 15 ug of cleaned cRNA is fragmented and then hybridized for 16 hr at 45°C on GeneChip U133 Plus 2.0 probe array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000. Scanning parameters: pixel size: 1.56 μm, wavelength: 570 nm.
| | Sample_data_processing | Signal intensities were extracted with Affymetrix GeneChip Operating software (GCOS, version 1.4.0.036; Instrument control version: 6.0.1.002).
| | Sample_data_processing | Expression values for all .CEL files were computed using MAS5.0.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Philip,,Groth
| | Sample_contact_email | philip.groth@bayer.com
| | Sample_contact_laboratory | Chromatin Modulation and OncoGenomics
| | Sample_contact_department | Therapeutic Research Group Oncology
| | Sample_contact_institute | Bayer Pharma AG
| | Sample_contact_address | Muellerstr. 178
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 13353
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1017nnn/GSM1017516/suppl/GSM1017516_mRNA_21c_131206.CEL.gz
| | Sample_series_id | GSE41445
| | Sample_data_row_count | 54675
| | |
|
| |
| |
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