Search results for the GEO ID: GSE15583 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM389810 | GPL570 |
|
GI-LI-N_hypoxia
|
neuroblastoma cell line under hypoxic conditions
|
cell line: GI-LI-N
condition: hypoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2. Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
|
Sample_geo_accession | GSM389810
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389810/suppl/GSM389810.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389810/suppl/GSM389810.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389811 | GPL570 |
|
GI-LI-N_normoxia
|
neuroblastoma cell line under normoxic conditions
|
cell line: GI-LI-N
condition: normoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
|
Sample_geo_accession | GSM389811
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389811/suppl/GSM389811.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389811/suppl/GSM389811.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389812 | GPL570 |
|
ACN_hypoxia
|
neuroblastoma cell line under hypoxic conditions
|
cell line: ACN
condition: hypoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2. Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
|
Sample_geo_accession | GSM389812
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389812/suppl/GSM389812.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389812/suppl/GSM389812.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389813 | GPL570 |
|
ACN_normoxia
|
neuroblastoma cell line under normoxic conditions
|
cell line: ACN
condition: normoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
|
Sample_geo_accession | GSM389813
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389813/suppl/GSM389813.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389813/suppl/GSM389813.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389814 | GPL570 |
|
SHEP-2_hypoxia
|
neuroblastoma cell line under hypoxic conditions
|
cell line: SHEP-2
condition: hypoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2. Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
|
Sample_geo_accession | GSM389814
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389814/suppl/GSM389814.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389814/suppl/GSM389814.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389815 | GPL570 |
|
SHEP-2_normoxia
|
neuroblastoma cell line under normoxic conditions
|
cell line: SHEP-2
condition: normoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
|
Sample_geo_accession | GSM389815
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389815/suppl/GSM389815.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389815/suppl/GSM389815.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389816 | GPL570 |
|
SK-N-BE2(C)_hypoxia
|
neuroblastoma cell line under hypoxic conditions
|
cell line: SK-N-BE2(C)
condition: hypoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2. Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
|
Sample_geo_accession | GSM389816
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389816/suppl/GSM389816.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389816/suppl/GSM389816.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389817 | GPL570 |
|
SK-N-BE2(C)_normoxia
|
neuroblastoma cell line under normoxic conditions
|
cell line: SK-N-BE2(C)
condition: normoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
|
Sample_geo_accession | GSM389817
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389817/suppl/GSM389817.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389817/suppl/GSM389817.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389818 | GPL570 |
|
IMR-32_hypoxia
|
neuroblastoma cell line under hypoxic conditions
|
cell line: IMR-32
condition: hypoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2. Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
|
Sample_geo_accession | GSM389818
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389818/suppl/GSM389818.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389818/suppl/GSM389818.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389819 | GPL570 |
|
IMR-32_normoxia
|
neuroblastoma cell line under normoxic conditions
|
cell line: IMR-32
condition: normoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
|
Sample_geo_accession | GSM389819
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389819/suppl/GSM389819.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389819/suppl/GSM389819.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389820 | GPL570 |
|
SK-N-F1_hypoxia
|
neuroblastoma cell line under hypoxic conditions
|
cell line: SK-N-F1
condition: hypoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2. Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
|
Sample_geo_accession | GSM389820
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389820/suppl/GSM389820.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389820/suppl/GSM389820.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389822 | GPL570 |
|
SK-N-F1_normoxia
|
neuroblastoma cell line under normoxic conditions
|
cell line: SK-N-F1
condition: normoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
|
Sample_geo_accession | GSM389822
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389822/suppl/GSM389822.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389822/suppl/GSM389822.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389823 | GPL570 |
|
LAN-1_hypoxia
|
neuroblastoma cell line under hypoxic conditions
|
cell line: LAN-1
condition: hypoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2. Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
|
Sample_geo_accession | GSM389823
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389823/suppl/GSM389823.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389823/suppl/GSM389823.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389824 | GPL570 |
|
LAN-1_normoxia
|
neuroblastoma cell line under normoxic conditions
|
cell line: LAN-1
condition: normoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
|
Sample_geo_accession | GSM389824
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389824/suppl/GSM389824.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389824/suppl/GSM389824.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389825 | GPL570 |
|
SK-N-SH_hypoxia
|
neuroblastoma cell line under hypoxic conditions
|
cell line: SK-N-SH
condition: hypoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2. Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
|
Sample_geo_accession | GSM389825
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389825/suppl/GSM389825.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389825/suppl/GSM389825.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389827 | GPL570 |
|
SK-N-SH_normoxia
|
neuroblastoma cell line under normoxic conditions
|
cell line: SK-N-SH
condition: normoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
|
Sample_geo_accession | GSM389827
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389827/suppl/GSM389827.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389827/suppl/GSM389827.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
| |
|
GSM389828 | GPL570 |
|
GI-ME-N_hypoxia
|
neuroblastoma cell line under hypoxic conditions
|
cell line: GI-ME-N
condition: hypoxia
|
The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2. Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
|
Sample_geo_accession | GSM389828
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Hypoxic conditions (1% O2) were achieved by culturing the cells in an anaerobic workstation incubator (BUG BOX, Jouan, ALC International S.r.l., Cologno Monzese, Milano, Italy) flushed with a gas mixture containing 1% O2, 5% CO2, and balanced N2 at 37°C in a humidified atmosphere. Oxygen tension in the medium was measured with a portable, trace oxygen analyzer (Oxi 315i/set, WTW; VWR International, Milano, Italy).
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389828/suppl/GSM389828.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389828/suppl/GSM389828.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
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GSM389829 | GPL570 |
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GI-ME-N_normoxia
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neuroblastoma cell line under normoxic conditions
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cell line: GI-ME-N
condition: normoxia
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The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
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Sample_geo_accession | GSM389829
| Sample_status | Public on Apr 11 2009
| Sample_submission_date | Apr 07 2009
| Sample_last_update_date | Aug 20 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_growth_protocol_ch1 | The cell lines were cultured in RPMI 16140 (Euroclone Ltd., Celbio, Milan, Italy), supplemented with 10% heat-inactivated fetal bovine serum (Sigma, Milan Italy), 2 mmol/L L-glutamine, 10 mM Hepes, 100 units/mL penicillin, and 100 ug/mL streptomycin (Euroclone Ltd), at 37° C in a humidified incubator containing 20% O2, 5% CO2, and 75% N2.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from cell lines using Trizol (Invitrogen Life technologies, Irvine, CA) according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | The RNA was reverse-transcribed into cDNA and biotin labeled according to the Affymetrix’s instructions.
| Sample_hyb_protocol | Fragmented cRNA was used for hybridization to Affymetrix HG-U133 plus 2.0 arrays according to the Affymetrix’s instructions.
| Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Expression values were quantified and array quality control was performed with the statistical algorithms implemented in Affymetrix Microarray Suite 5.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Paolo,,Fardin
| Sample_contact_email | paolofardin@ospedale-gaslini.ge.it
| Sample_contact_department | Molecular Biology
| Sample_contact_institute | Istiuto Giannina Gaslini
| Sample_contact_address | Largo G. Gaslini 5
| Sample_contact_city | Genoa
| Sample_contact_zip/postal_code | 16147
| Sample_contact_country | Italy
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389829/suppl/GSM389829.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM389nnn/GSM389829/suppl/GSM389829.CHP.gz
| Sample_series_id | GSE15583
| Sample_series_id | GSE17714
| Sample_data_row_count | 54675
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