Result

Search results for the GEO ID: GSE17007

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM425497

GPL570

NC1153 1

Kit225 cells treated with NC1153 12h

cell line: Kit225

12h treatment

Sample_geo_accession	GSM425497
Sample_status	Public on Jul 08 2010
Sample_submission_date	Jul 08 2009
Sample_last_update_date	Jul 08 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Kit225 cells at a density of 8x10E5/ml were treated with 25 mM NC1153 or 0.1 % DMSO for 12 hours.
Sample_growth_protocol_ch1	Kit225 cells were maintained in RPMI-1640 medium containing 10% fetal calf serum, 2 mM L-glutamine and penicillin-streptomycin supplemented with 20 U/ml human recombinant IL-2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	QIAGEN RNeasy Kit. RNA samples were analyzed for purity (A260/280 min. 1.9, A260/230 min 1.7) and integrity (capillary electrophoresis for degradation and DNA contamination) on an Agilent 2100 Bioanalyser and the NanoDrop ND-1000 Spectrophotometer. Only RNA samples that passed this Quality Check were used for subsequent hybridization.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Affymetrix Labeling (Total RNA). These steps as well as the QC steps were perfomed by MCF according to their standardized procedures.
Sample_hyb_protocol	Affymetrix Hybridization, Washing/Staining on the Fluidics Station
Sample_scan_protocol	Affymetrix GeneChip® Scanner 3000
Sample_data_processing	Array quality parameters were as follows: Scaling Factor (6.681, 2.881, 2.967, 2.656 for NC1153_1, DMSO_1, NC1153_2, DMSO_2, respectively), Average Background (65.71, 87.2, 72.77, 79.23), number of present probes for housekeeping probe sets were 3 for GAPDH and b-actin and 2 for spike in probe sets bioB, bioC and bioD on each array. The 3’-end to 5’-end probe intensity ratios were 0.93, 0.91, 0.92 and 0.94 for GAPDH and 4.47, 3.54, 3.89 and 3.82 for b-actin. Differences in percent of probe sets present between compared chips (determined by Affymetrix’s algorhythm) were below 10 percent.
Sample_platform_id	GPL570
Sample_contact_name	Zsuzsanna,S.,Nagy
Sample_contact_department	Biochemistry and Molecular Biology
Sample_contact_institute	University of Debrecen
Sample_contact_address	Nagyerdei krt. 98
Sample_contact_city	Debrecen
Sample_contact_zip/postal_code	H-4032
Sample_contact_country	Hungary
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM425nnn/GSM425497/suppl/GSM425497.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM425nnn/GSM425497/suppl/GSM425497.CHP.gz
Sample_series_id	GSE17007
Sample_data_row_count	54675

GSM425498

GPL570

DMSO 1

Kit225 cells treated with DMSO 12h

cell line: Kit225

12h treatment

Sample_geo_accession	GSM425498
Sample_status	Public on Jul 08 2010
Sample_submission_date	Jul 08 2009
Sample_last_update_date	Jul 08 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Kit225 cells at a density of 8x10E5/ml were treated with 25 mM NC1153 or 0.1 % DMSO for 12 hours.
Sample_growth_protocol_ch1	Kit225 cells were maintained in RPMI-1640 medium containing 10% fetal calf serum, 2 mM L-glutamine and penicillin-streptomycin supplemented with 20 U/ml human recombinant IL-2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	QIAGEN RNeasy Kit. RNA samples were analyzed for purity (A260/280 min. 1.9, A260/230 min 1.7) and integrity (capillary electrophoresis for degradation and DNA contamination) on an Agilent 2100 Bioanalyser and the NanoDrop ND-1000 Spectrophotometer. Only RNA samples that passed this Quality Check were used for subsequent hybridization.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Affymetrix Labeling (Total RNA). These steps as well as the QC steps were perfomed by MCF according to their standardized procedures.
Sample_hyb_protocol	Affymetrix Hybridization, Washing/Staining on the Fluidics Station
Sample_scan_protocol	Affymetrix GeneChip® Scanner 3000
Sample_data_processing	Array quality parameters were as follows: Scaling Factor (6.681, 2.881, 2.967, 2.656 for NC1153_1, DMSO_1, NC1153_2, DMSO_2, respectively), Average Background (65.71, 87.2, 72.77, 79.23), number of present probes for housekeeping probe sets were 3 for GAPDH and b-actin and 2 for spike in probe sets bioB, bioC and bioD on each array. The 3’-end to 5’-end probe intensity ratios were 0.93, 0.91, 0.92 and 0.94 for GAPDH and 4.47, 3.54, 3.89 and 3.82 for b-actin. Differences in percent of probe sets present between compared chips (determined by Affymetrix’s algorhythm) were below 10 percent.
Sample_platform_id	GPL570
Sample_contact_name	Zsuzsanna,S.,Nagy
Sample_contact_department	Biochemistry and Molecular Biology
Sample_contact_institute	University of Debrecen
Sample_contact_address	Nagyerdei krt. 98
Sample_contact_city	Debrecen
Sample_contact_zip/postal_code	H-4032
Sample_contact_country	Hungary
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM425nnn/GSM425498/suppl/GSM425498.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM425nnn/GSM425498/suppl/GSM425498.CHP.gz
Sample_series_id	GSE17007
Sample_data_row_count	54675

GSM425499

GPL570

NC1153 2

Kit225 cells treated with NC1153 12h

cell line: Kit225

12h treatment

Sample_geo_accession	GSM425499
Sample_status	Public on Jul 08 2010
Sample_submission_date	Jul 08 2009
Sample_last_update_date	Jul 08 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Kit225 cells at a density of 8x10E5/ml were treated with 25 mM NC1153 or 0.1 % DMSO for 12 hours.
Sample_growth_protocol_ch1	Kit225 cells were maintained in RPMI-1640 medium containing 10% fetal calf serum, 2 mM L-glutamine and penicillin-streptomycin supplemented with 20 U/ml human recombinant IL-2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	QIAGEN RNeasy Kit. RNA samples were analyzed for purity (A260/280 min. 1.9, A260/230 min 1.7) and integrity (capillary electrophoresis for degradation and DNA contamination) on an Agilent 2100 Bioanalyser and the NanoDrop ND-1000 Spectrophotometer. Only RNA samples that passed this Quality Check were used for subsequent hybridization.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Affymetrix Labeling (Total RNA). These steps as well as the QC steps were perfomed by MCF according to their standardized procedures.
Sample_hyb_protocol	Affymetrix Hybridization, Washing/Staining on the Fluidics Station
Sample_scan_protocol	Affymetrix GeneChip® Scanner 3000
Sample_data_processing	Array quality parameters were as follows: Scaling Factor (6.681, 2.881, 2.967, 2.656 for NC1153_1, DMSO_1, NC1153_2, DMSO_2, respectively), Average Background (65.71, 87.2, 72.77, 79.23), number of present probes for housekeeping probe sets were 3 for GAPDH and b-actin and 2 for spike in probe sets bioB, bioC and bioD on each array. The 3’-end to 5’-end probe intensity ratios were 0.93, 0.91, 0.92 and 0.94 for GAPDH and 4.47, 3.54, 3.89 and 3.82 for b-actin. Differences in percent of probe sets present between compared chips (determined by Affymetrix’s algorhythm) were below 10 percent.
Sample_platform_id	GPL570
Sample_contact_name	Zsuzsanna,S.,Nagy
Sample_contact_department	Biochemistry and Molecular Biology
Sample_contact_institute	University of Debrecen
Sample_contact_address	Nagyerdei krt. 98
Sample_contact_city	Debrecen
Sample_contact_zip/postal_code	H-4032
Sample_contact_country	Hungary
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM425nnn/GSM425499/suppl/GSM425499.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM425nnn/GSM425499/suppl/GSM425499.CHP.gz
Sample_series_id	GSE17007
Sample_data_row_count	54675

GSM425500

GPL570

DMSO 2

Kit225 cells treated with DMSO 12h

cell line: Kit225

12h treatment

Sample_geo_accession	GSM425500
Sample_status	Public on Jul 08 2010
Sample_submission_date	Jul 08 2009
Sample_last_update_date	Jul 08 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Kit225 cells at a density of 8x10E5/ml were treated with 25 mM NC1153 or 0.1 % DMSO for 12 hours.
Sample_growth_protocol_ch1	Kit225 cells were maintained in RPMI-1640 medium containing 10% fetal calf serum, 2 mM L-glutamine and penicillin-streptomycin supplemented with 20 U/ml human recombinant IL-2.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	QIAGEN RNeasy Kit. RNA samples were analyzed for purity (A260/280 min. 1.9, A260/230 min 1.7) and integrity (capillary electrophoresis for degradation and DNA contamination) on an Agilent 2100 Bioanalyser and the NanoDrop ND-1000 Spectrophotometer. Only RNA samples that passed this Quality Check were used for subsequent hybridization.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Affymetrix Labeling (Total RNA). These steps as well as the QC steps were perfomed by MCF according to their standardized procedures.
Sample_hyb_protocol	Affymetrix Hybridization, Washing/Staining on the Fluidics Station
Sample_scan_protocol	Affymetrix GeneChip® Scanner 3000
Sample_data_processing	Array quality parameters were as follows: Scaling Factor (6.681, 2.881, 2.967, 2.656 for NC1153_1, DMSO_1, NC1153_2, DMSO_2, respectively), Average Background (65.71, 87.2, 72.77, 79.23), number of present probes for housekeeping probe sets were 3 for GAPDH and b-actin and 2 for spike in probe sets bioB, bioC and bioD on each array. The 3’-end to 5’-end probe intensity ratios were 0.93, 0.91, 0.92 and 0.94 for GAPDH and 4.47, 3.54, 3.89 and 3.82 for b-actin. Differences in percent of probe sets present between compared chips (determined by Affymetrix’s algorhythm) were below 10 percent.
Sample_platform_id	GPL570
Sample_contact_name	Zsuzsanna,S.,Nagy
Sample_contact_department	Biochemistry and Molecular Biology
Sample_contact_institute	University of Debrecen
Sample_contact_address	Nagyerdei krt. 98
Sample_contact_city	Debrecen
Sample_contact_zip/postal_code	H-4032
Sample_contact_country	Hungary
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM425nnn/GSM425500/suppl/GSM425500.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM425nnn/GSM425500/suppl/GSM425500.CHP.gz
Sample_series_id	GSE17007
Sample_data_row_count	54675

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