Search results for the GEO ID: GSE35218  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM563179 | GPL570 |
|
NBL 1 cell line
|
NBL cell line 1
|
cell type: neuroblastoma cell line
gender: female
mycn status: no MYCN amplification
alk mutation status: wild type
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563179
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563179/suppl/GSM563179.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563179/suppl/GSM563179.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563181 | GPL570 |
|
NBL 3 cell line
|
NBL cell line 3
|
cell type: neuroblastoma cell line
gender: female
mycn status: no MYCN amplification
alk mutation status: wild type
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563181
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563181/suppl/GSM563181.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563181/suppl/GSM563181.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563182 | GPL570 |
|
NBL 4 cell line
|
NBL cell line 4
|
cell type: neuroblastoma cell line
gender: male
mycn status: MYCN amplified
alk mutation status: wild type
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563182
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563182/suppl/GSM563182.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563182/suppl/GSM563182.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563183 | GPL570 |
|
NBL 5 cell line
|
NBL cell line 5
|
cell type: neuroblastoma cell line
gender: male
mycn status: MYCN amplified
alk mutation status: mutated
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563183
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563183/suppl/GSM563183.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563183/suppl/GSM563183.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563184 | GPL570 |
|
NBL 6 cell line
|
NBL cell line 6
|
cell type: neuroblastoma cell line
gender: male
mycn status: MYCN amplified
alk mutation status: mutated
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563184
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563184/suppl/GSM563184.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563184/suppl/GSM563184.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563185 | GPL570 |
|
NBL 7 cell line
|
NBL cell line 7
|
cell type: neuroblastoma cell line
gender: female
mycn status: MYCN amplified
alk mutation status: mutated
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563185
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563185/suppl/GSM563185.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563185/suppl/GSM563185.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563186 | GPL570 |
|
NBL 8 cell line
|
NBL cell line 8
|
cell type: neuroblastoma cell line
gender: male
mycn status: MYCN amplified
alk mutation status: wild type
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563186
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563186/suppl/GSM563186.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563186/suppl/GSM563186.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563187 | GPL570 |
|
NBL 9 cell line
|
NBL cell line 9
|
cell type: neuroblastoma cell line
gender: female
mycn status: MYCN amplified
alk mutation status: amplified
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563187
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563187/suppl/GSM563187.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563187/suppl/GSM563187.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563188 | GPL570 |
|
NBL 10 cell line
|
Derivative NBL16
|
cell type: derivative of neuroblastoma cell line NBL16
gender: female
mycn status: no MYCN amplification
alk mutation status: mutated
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563188
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563188/suppl/GSM563188.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563188/suppl/GSM563188.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563189 | GPL570 |
|
NBL 11 cell line
|
Derivative NBL16
|
cell type: derivative of neuroblastoma cell line NBL16
gender: female
mycn status: no MYCN amplification
alk mutation status: mutated
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563189
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563189/suppl/GSM563189.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563189/suppl/GSM563189.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563190 | GPL570 |
|
NBL 12 cell line
|
NBL cell line 12
|
cell type: neuroblastoma cell line
gender: male
mycn status: no MYCN amplification
alk mutation status: wild type
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563190
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563190/suppl/GSM563190.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563190/suppl/GSM563190.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563191 | GPL570 |
|
NBL 13 cell line
|
NBL cell line 13
|
cell type: neuroblastoma cell line
gender: female
mycn status: MYCN amplified
alk mutation status: wild type
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563191
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563191/suppl/GSM563191.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563191/suppl/GSM563191.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563192 | GPL570 |
|
NBL 14 cell line
|
NBL cell line 14
|
cell type: neuroblastoma cell line
gender: male
mycn status: MYCN amplified
alk mutation status: wild type
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563192
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563192/suppl/GSM563192.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563192/suppl/GSM563192.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563193 | GPL570 |
|
NBL 15 cell line
|
NBL cell line 15
|
cell type: neuroblastoma cell line
gender: female
mycn status: MYCN amplified
alk mutation status: amplified
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563193
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563193/suppl/GSM563193.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563193/suppl/GSM563193.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563194 | GPL570 |
|
NBL 16 cell line
|
NBL cell line 16
|
cell type: neuroblastoma cell line
gender: female
mycn status: no MYCN amplification
alk mutation status: mutated
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563194
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563194/suppl/GSM563194.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563194/suppl/GSM563194.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM563195 | GPL570 |
|
NBL 17 cell line
|
NBL cell line 17
|
cell type: neuroblastoma cell line
gender: female
mycn status: MYCN amplified
alk mutation status: amplified
|
Gene expression data of neuroblastoma cell line
|
| Sample_geo_accession | GSM563195
| | Sample_status | Public on Jul 07 2011
| | Sample_submission_date | Jul 06 2010
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563195/suppl/GSM563195.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM563nnn/GSM563195/suppl/GSM563195.CHP.gz
| | Sample_series_id | GSE22771
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM838617 | GPL570 |
|
PNET cell line 1
|
PNET cell line 1
|
gender: female
genotype/variation: EWS-FLI translocation
|
Gene expression data of PNET cell line
|
| Sample_geo_accession | GSM838617
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Nov 22 2011
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM838nnn/GSM838617/suppl/GSM838617_1_C.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM838nnn/GSM838617/suppl/GSM838617_KGK_IG_27032007_1_C.CHP.gz
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM838618 | GPL570 |
|
PNET cell line 2
|
PNET cell line 2
|
gender: female
genotype/variation: EWS-FLI translocation
|
Gene expression data of PNET cell line
|
| Sample_geo_accession | GSM838618
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Nov 22 2011
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM838nnn/GSM838618/suppl/GSM838618_2_C.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM838nnn/GSM838618/suppl/GSM838618_KGK_IG_28032007_2_C.CHP.gz
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM838619 | GPL570 |
|
PNET cell line 3
|
PNET cell line 3
|
gender: female
genotype/variation: EWS-FLI translocation
|
Gene expression data of PNET cell line
|
| Sample_geo_accession | GSM838619
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Nov 22 2011
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM838nnn/GSM838619/suppl/GSM838619_3_C.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM838nnn/GSM838619/suppl/GSM838619_KGK_IG_28032007_3_C.CHP.gz
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM838620 | GPL570 |
|
PNET cell line 4
|
PNET cell line 4
|
gender: female
genotype/variation: EWS-FLI translocation
|
Gene expression data of PNET cell line
|
| Sample_geo_accession | GSM838620
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Nov 22 2011
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM838nnn/GSM838620/suppl/GSM838620_4_C.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM838nnn/GSM838620/suppl/GSM838620_KGK_IG_28032007_4_C.CHP.gz
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM838621 | GPL570 |
|
PNET cell line 5
|
PNET cell line 5
|
gender: female
genotype/variation: EWS-FLI translocation
|
Gene expression data of PNET cell line
|
| Sample_geo_accession | GSM838621
| | Sample_status | Public on Jan 01 2012
| | Sample_submission_date | Nov 22 2011
| | Sample_last_update_date | Jan 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM838nnn/GSM838621/suppl/GSM838621_5_C.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM838nnn/GSM838621/suppl/GSM838621_KGK_IG_290307_5_C.CHP.gz
| | Sample_series_id | GSE33903
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM863993 | GPL570 |
|
NBL 2 cell line (Derivative NBL16)
|
Derivative NBL16
|
cell line: NBL
agent: untreated
gender: female
mycn status: no MYCN amplification
|
Gene expression data of neuroblastoma cell line
Sample name: NBL2
KGK_IG_290307_NBL2_C.CHP
NBL2.CEL
|
| Sample_geo_accession | GSM863993
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863993/suppl/GSM863993.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863993/suppl/GSM863993.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM863994 | GPL570 |
|
NBL 1 cell line treated
|
NBL cell line 1
|
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: no MYCN amplification
|
Gene expression data of neuroblastoma cell line
Sample name: NBL1_t
KGK_IG_270307_NBL1_B.CHP
KGK_IG_270307_NBL1_B.CEL
|
| Sample_geo_accession | GSM863994
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863994/suppl/GSM863994.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863994/suppl/GSM863994.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM863995 | GPL570 |
|
NBL 2 cell line treated
|
NBL cell line 2
|
cell line: NBL
agent: DAC and TSA combination
gender: male
mycn status: no MYCN amplification
|
Gene expression data of neuroblastoma cell line
Sample name: NBL2_t
KGK_IG_290307_NBL2_B.CHP
KGK_IG_290307_NBL2_B.CEL
|
| Sample_geo_accession | GSM863995
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863995/suppl/GSM863995.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863995/suppl/GSM863995.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM863996 | GPL570 |
|
NBL 3 cell line treated
|
NBL cell line 3
|
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: no MYCN amplification
|
Gene expression data of neuroblastoma cell line
Sample name: NBL3_t
KGK_IG_27032007_NBL3_B.CHP
KGK_IG_27032007_NBL3_B.CEL
|
| Sample_geo_accession | GSM863996
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863996/suppl/GSM863996.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863996/suppl/GSM863996.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM863997 | GPL570 |
|
NBL 4 cell line treated
|
NBL cell line 4
|
cell line: NBL
agent: DAC and TSA combination
gender: male
mycn status: MYCN amplified
|
Gene expression data of neuroblastoma cell line
Sample name: NBL4_t
KGK_IG_290307_NBL4-B.CHP
KGK_IG_290307_NBL4-B.CEL
|
| Sample_geo_accession | GSM863997
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863997/suppl/GSM863997.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863997/suppl/GSM863997.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM863998 | GPL570 |
|
NBL 5 cell line treated
|
NBL cell line 5
|
cell line: NBL
agent: DAC and TSA combination
gender: male
mycn status: MYCN amplified
|
Gene expression data of neuroblastoma cell line
Sample name: NBL5_t
KGK_IG_27032007_NBL5_B.CHP
KGK_IG_27032007_NBL5_B.CEL
|
| Sample_geo_accession | GSM863998
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863998/suppl/GSM863998.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863998/suppl/GSM863998.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM863999 | GPL570 |
|
NBL 6 cell line treated
|
NBL cell line 6
|
cell line: NBL
agent: DAC and TSA combination
gender: male
mycn status: MYCN amplified
|
Gene expression data of neuroblastoma cell line
Sample name: NBL6_t
KGK_IG_27032007_NBL6_B.CHP
KGK_IG_27032007_NBL6_B.CEL
|
| Sample_geo_accession | GSM863999
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863999/suppl/GSM863999.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM863nnn/GSM863999/suppl/GSM863999.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864000 | GPL570 |
|
NBL 7 cell line treated
|
NBL cell line 7
|
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: MYCN amplified
|
Gene expression data of neuroblastoma cell line
Sample name: NBL7_t
KGK_IG_290307_NBL7_B.CHP
KGK_IG_290307_NBL7_B.CEL
|
| Sample_geo_accession | GSM864000
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864000/suppl/GSM864000.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864000/suppl/GSM864000.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864001 | GPL570 |
|
NBL 8 cell line treated
|
NBL cell line 8
|
cell line: NBL
agent: DAC and TSA combination
gender: male
mycn status: MYCN amplified
|
Gene expression data of neuroblastoma cell line
Sample name: NBL8_t
KGK_IG_270307_NBL8_B.CHP
KGK_IG_270307_NBL8_B.CEL
|
| Sample_geo_accession | GSM864001
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864001/suppl/GSM864001.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864001/suppl/GSM864001.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864002 | GPL570 |
|
NBL 9 cell line treated
|
NBL cell line 9
|
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: MYCN amplified
|
Gene expression data of neuroblastoma cell line
Sample name: NBL9_t
KGK_IG_290307_NBL9_B.CHP
KGK_IG_290307_NBL9_B.CEL
|
| Sample_geo_accession | GSM864002
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864002/suppl/GSM864002.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864002/suppl/GSM864002.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864003 | GPL570 |
|
NBL 10 cell line treated
|
Derivative NBL16
|
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: no MYCN amplification
|
Gene expression data of neuroblastoma cell line
Sample name: NBL10_t
KGK_IG_27032007_NBL10_B.CHP
KGK_IG_27032007_NBL10_B.CEL
|
| Sample_geo_accession | GSM864003
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864003/suppl/GSM864003.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864003/suppl/GSM864003.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864004 | GPL570 |
|
NBL 11 cell line treated
|
Derivative NBL16
|
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: no MYCN amplification
|
Gene expression data of neuroblastoma cell line
Sample name: NBL11_t
KGK_IG_28032007_NBL11_B.CHP
KGK_IG_28032007_NBL11_B.CEL
|
| Sample_geo_accession | GSM864004
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864004/suppl/GSM864004.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864004/suppl/GSM864004.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864005 | GPL570 |
|
NBL 12 cell line treated
|
NBL cell line 12
|
cell line: NBL
agent: DAC and TSA combination
gender: male
mycn status: no MYCN amplification
|
Gene expression data of neuroblastoma cell line
Sample name: NBL12_t
KGK_IG_28032007_NBL12_B.CHP
KGK_IG_28032007_NBL12_B.CEL
|
| Sample_geo_accession | GSM864005
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864005/suppl/GSM864005.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864005/suppl/GSM864005.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864006 | GPL570 |
|
NBL 13 cell line treated
|
NBL cell line 13
|
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: MYCN amplified
|
Gene expression data of neuroblastoma cell line
Sample name: NBL13_t
KGK_IG_28032007_NBL13_B.CHP
KGK_IG_28032007_NBL13_B.CEL
|
| Sample_geo_accession | GSM864006
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864006/suppl/GSM864006.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864006/suppl/GSM864006.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864007 | GPL570 |
|
NBL 14 cell line treated
|
NBL cell line 14
|
cell line: NBL
agent: DAC and TSA combination
gender: male
mycn status: MYCN amplified
|
Gene expression data of neuroblastoma cell line
Sample name: NBL14_t
KGK_IG_290307_NBL14_B.CHP
KGK_IG_290307_NBL14_B.CEL
|
| Sample_geo_accession | GSM864007
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864007/suppl/GSM864007.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864007/suppl/GSM864007.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864008 | GPL570 |
|
NBL 15 cell line treated
|
NBL cell line 15
|
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: MYCN amplified
|
Gene expression data of neuroblastoma cell line
Sample name: NBL15_t
KGK_IG_28032007_NBL15_2.CHP
KGK_IG_28032007_NBL15_B_2.CEL
|
| Sample_geo_accession | GSM864008
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864008/suppl/GSM864008.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864008/suppl/GSM864008.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864009 | GPL570 |
|
NBL 16 cell line treated
|
NBL cell line 16
|
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: no MYCN amplification
|
Gene expression data of neuroblastoma cell line
Sample name: NBL16_t
KGK_IG_290307_NBL16_B.CHP
KGK_IG_290307_NBL16_B.CEL
|
| Sample_geo_accession | GSM864009
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864009/suppl/GSM864009.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864009/suppl/GSM864009.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864010 | GPL570 |
|
NBL 17 cell line treated
|
NBL cell line 17
|
cell line: NBL
agent: DAC and TSA combination
gender: female
mycn status: MYCN amplified
|
Gene expression data of neuroblastoma cell line
Sample name: NBL17_t
KGK_IG_28032007_NBL17_B.CHP
KGK_IG_28032007_NBL17_B.CEL
|
| Sample_geo_accession | GSM864010
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864010/suppl/GSM864010.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864010/suppl/GSM864010.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864011 | GPL570 |
|
PNET cell line 1 treated
|
PNET cell line 1
|
cell line: PNET
agent: DAC and TSA combination
gender: female
mycn status: EWS-FLI translocation
|
Gene expression data of PNET cell line
Sample name: PNET 1_t
KGK_IG_27032007_PNET1_B.CHP
KGK_IG_27032007_PNET1_B.CEL
|
| Sample_geo_accession | GSM864011
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864011/suppl/GSM864011.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864011/suppl/GSM864011.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864012 | GPL570 |
|
PNET cell line 2 treated
|
PNET cell line 2
|
cell line: PNET
agent: DAC and TSA combination
gender: female
mycn status: EWS-FLI translocation
|
Gene expression data of PNET cell line
Sample name: PNET 2_t
KGK_IG_28032007_PNET2_B.CHP
KGK_IG_28032007_PNET2_B.CEL
|
| Sample_geo_accession | GSM864012
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864012/suppl/GSM864012.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864012/suppl/GSM864012.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864013 | GPL570 |
|
PNET cell line 3 treated
|
PNET cell line 3
|
cell line: PNET
agent: DAC and TSA combination
gender: female
mycn status: EWS-FLI translocation
|
Gene expression data of PNET cell line
Sample name: PNET 3_t
KGK_IG_290307_PNET3_B.CHP
KGK_IG_290307_PNET3_B.CEL
|
| Sample_geo_accession | GSM864013
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864013/suppl/GSM864013.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864013/suppl/GSM864013.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864014 | GPL570 |
|
PNET cell line 4 treated
|
PNET cell line 4
|
cell line: PNET
agent: DAC and TSA combination
gender: female
mycn status: EWS-FLI translocation
|
Gene expression data of PNET cell line
Sample name: PNET 4_t
KGK_IG_28032007_PNET4_B.CHP
KGK_IG_28032007_PNET4_B.CEL
|
| Sample_geo_accession | GSM864014
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864014/suppl/GSM864014.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864014/suppl/GSM864014.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
GSM864015 | GPL570 |
|
PNET cell line 5 treated
|
PNET cell line 5
|
cell line: PNET
agent: DAC and TSA combination
gender: female
mycn status: EWS-FLI translocation
|
Gene expression data of PNET cell line
Sample name: PNET 5_t
KGK_IG_290307_PNET5_B.CHP
KGK_IG_290307_PNET5_B.CEL
|
| Sample_geo_accession | GSM864015
| | Sample_status | Public on Jul 01 2012
| | Sample_submission_date | Jan 19 2012
| | Sample_last_update_date | Jul 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | untreated, daily change of culture medium; treated, 72 hours 30 nM DAC with addition of 25 nM TSA during the last 48 hours, daily refreshal of culture media containing drugs
| | Sample_growth_protocol_ch1 | cultured in DMEM or RPMI at 37 C and 5% CO2 in non-hypoxic conditions
| | 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 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix HGU 133 Plus2.0 arrays. GeneChips were washed and stained according to Affymetrix protocol
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling (TGT value 500) as normalization method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Floor,,Duijkers
| | Sample_contact_department | Pediatric Oncology-Hematology
| | Sample_contact_institute | Erasmus MC
| | Sample_contact_address | Dr. Molewaterplein 50-60 Ee15-02
| | Sample_contact_city | Rotterdam
| | Sample_contact_zip/postal_code | 3015 GE
| | Sample_contact_country | Netherlands
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864015/suppl/GSM864015.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM864nnn/GSM864015/suppl/GSM864015.CHP.gz
| | Sample_series_id | GSE35218
| | Sample_series_id | GSE35798
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
