Search results for the GEO ID: GSE9055  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM229909 | GPL570 |
|
HUVEC_TNFa_0h15m
|
TNFa 0h15m
|
Hman umbilical vein cells
|
0h15m after TNFa stimulation
|
| Sample_geo_accession | GSM229909
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229909/suppl/GSM229909.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229910 | GPL570 |
|
HUVEC_TNFa_0h30m
|
TNFa 0h30m
|
Hman umbilical vein cells
|
0h30m after TNFa stimulation
|
| Sample_geo_accession | GSM229910
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229910/suppl/GSM229910.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229911 | GPL570 |
|
HUVEC_TNFa_0h45m
|
TNFa 0h45m
|
Hman umbilical vein cells
|
0h45m after TNFa stimulation
|
| Sample_geo_accession | GSM229911
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229911/suppl/GSM229911.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229912 | GPL570 |
|
HUVEC_TNFa_1h00m
|
TNFa 1h00m
|
Hman umbilical vein cells
|
1h00m after TNFa stimulation
|
| Sample_geo_accession | GSM229912
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229912/suppl/GSM229912.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229913 | GPL570 |
|
HUVEC_TNFa_1h15m
|
TNFa 1h15m
|
Hman umbilical vein cells
|
1h15m after TNFa stimulation
|
| Sample_geo_accession | GSM229913
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229913/suppl/GSM229913.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229914 | GPL570 |
|
HUVEC_TNFa_1h30m
|
TNFa 1h30m
|
Hman umbilical vein cells
|
1h30m after TNFa stimulation
|
| Sample_geo_accession | GSM229914
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229914/suppl/GSM229914.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229915 | GPL570 |
|
HUVEC_TNFa_1h45m
|
TNFa 1h45m
|
Hman umbilical vein cells
|
1h45m after TNFa stimulation
|
| Sample_geo_accession | GSM229915
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229915/suppl/GSM229915.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229916 | GPL570 |
|
HUVEC_TNFa_2h00m
|
TNFa 2h00m
|
Hman umbilical vein cells
|
2h00m after TNFa stimulation
|
| Sample_geo_accession | GSM229916
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229916/suppl/GSM229916.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229917 | GPL570 |
|
HUVEC_TNFa_2h15m
|
TNFa 2h15m
|
Hman umbilical vein cells
|
2h15m after TNFa stimulation
|
| Sample_geo_accession | GSM229917
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229917/suppl/GSM229917.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229918 | GPL570 |
|
HUVEC_TNFa_2h30m
|
TNFa 2h30m
|
Hman umbilical vein cells
|
2h30m after TNFa stimulation
|
| Sample_geo_accession | GSM229918
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229918/suppl/GSM229918.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229919 | GPL570 |
|
HUVEC_TNFa_2h45m
|
TNFa 2h45m
|
Hman umbilical vein cells
|
2h45m after TNFa stimulation
|
| Sample_geo_accession | GSM229919
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229919/suppl/GSM229919.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229920 | GPL570 |
|
HUVEC_TNFa_3h00m
|
TNFa 3h00m
|
Hman umbilical vein cells
|
3h00m after TNFa stimulation
|
| Sample_geo_accession | GSM229920
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229920/suppl/GSM229920.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229921 | GPL570 |
|
HUVEC_TNFa_3h15m
|
TNFa 3h15m
|
Hman umbilical vein cells
|
3h15m after TNFa stimulation
|
| Sample_geo_accession | GSM229921
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229921/suppl/GSM229921.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229922 | GPL570 |
|
HUVEC_TNFa_3h30m
|
TNFa 3h30m
|
Hman umbilical vein cells
|
3h30m after TNFa stimulation
|
| Sample_geo_accession | GSM229922
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229922/suppl/GSM229922.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229923 | GPL570 |
|
HUVEC_TNFa_3h45m
|
TNFa 3h45m
|
Hman umbilical vein cells
|
3h45m after TNFa stimulation
|
| Sample_geo_accession | GSM229923
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229923/suppl/GSM229923.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229924 | GPL570 |
|
HUVEC_TNFa_4h00m
|
TNFa 4h00m
|
Hman umbilical vein cells
|
4h00m after TNFa stimulation
|
| Sample_geo_accession | GSM229924
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229924/suppl/GSM229924.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229925 | GPL570 |
|
HUVEC_TNFa_4h30m
|
TNFa 4h30m
|
Hman umbilical vein cells
|
4h30m after TNFa stimulation
|
| Sample_geo_accession | GSM229925
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229925/suppl/GSM229925.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229926 | GPL570 |
|
HUVEC_TNFa_5h00m
|
TNFa 5h00m
|
Hman umbilical vein cells
|
5h00m after TNFa stimulation
|
| Sample_geo_accession | GSM229926
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229926/suppl/GSM229926.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229927 | GPL570 |
|
HUVEC_TNFa_5h30m
|
TNFa 5h30m
|
Hman umbilical vein cells
|
5h30m after TNFa stimulation
|
| Sample_geo_accession | GSM229927
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229927/suppl/GSM229927.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229928 | GPL570 |
|
HUVEC_TNFa_6h00m
|
TNFa 6h00m
|
Hman umbilical vein cells
|
6h00m after TNFa stimulation
|
| Sample_geo_accession | GSM229928
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229928/suppl/GSM229928.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229929 | GPL570 |
|
HUVEC_TNFa_6h30m
|
TNFa 6h30m
|
Hman umbilical vein cells
|
6h30m after TNFa stimulation
|
| Sample_geo_accession | GSM229929
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229929/suppl/GSM229929.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229930 | GPL570 |
|
HUVEC_TNFa_7h00m
|
TNFa 7h00m
|
Hman umbilical vein cells
|
7h00m after TNFa stimulation
|
| Sample_geo_accession | GSM229930
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229930/suppl/GSM229930.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229931 | GPL570 |
|
HUVEC_TNFa_7h30m
|
TNFa 7h30m
|
Hman umbilical vein cells
|
7h30m after TNFa stimulation
|
| Sample_geo_accession | GSM229931
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229931/suppl/GSM229931.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229932 | GPL570 |
|
HUVEC_TNFa_8h00m
|
TNFa 8h00m
|
Hman umbilical vein cells
|
8h00m after TNFa stimulation
|
| Sample_geo_accession | GSM229932
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229932/suppl/GSM229932.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
|
GSM229941 | GPL570 |
|
HUVEC_TNFa_0h00m
|
TNFa 0h00m
|
Hman umbilical vein cells
|
0h00m after TNFa stimulation
|
| Sample_geo_accession | GSM229941
| | Sample_status | Public on Sep 13 2008
| | Sample_submission_date | Sep 14 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Human umbilical vein cells were serum-starved in EBM-2 (Clonetics) containing 0.5% FBS for 18 h, and then treated 10 ng/ml TNF-alpha (Peprotec) and samples collected after each time
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNAs were extracted using Isogen (Nippon Gene, Osaka, Japan). 3 micrograms of total RNA was reverse transcribed using the SuperScript III system for cDNA synthesis (Invitrogen) according to the protocol recommended by Affymetrix. The oligonucleotide used for priming was 5'-ggccagtgaattgtaatacgactcactatagggaggcgg-(t)24-3' (Invitrogen). Double-stranded cDNA was cleaned by phenol:chloroform extraction and the aqueous phase removed by centrifugation through Phase-lock Gel (Eppendorf).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45 degrees CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix Microarray Suite v5.0 with target intensity=100
| | Sample_platform_id | GPL570
| | Sample_contact_name | Shuichi,,Tsutsumi
| | Sample_contact_email | shuichi@genome.rcast.u-tokyo.ac.jp
| | Sample_contact_phone | +81-3-5452-5352
| | Sample_contact_laboratory | Genome Science Div.
| | Sample_contact_institute | The University of Tokyo
| | Sample_contact_address | 4-6-1
| | Sample_contact_city | Komaba
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM229nnn/GSM229941/suppl/GSM229941.CEL.gz
| | Sample_series_id | GSE9055
| | Sample_data_row_count | 54675
| | |
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