Search results for the GEO ID: GSE20198  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM506692 | GPL96 |
|
Cord blood CD4+_act_48h_rep1
|
human cord blood CD4+ T cell, activated, 48h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 1
|
| Sample_geo_accession | GSM506692
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506692/suppl/GSM506692_SS5-2.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506692/suppl/GSM506692_SS5-2.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506693 | GPL96 |
|
Cord blood CD4+_act_48h_rep2
|
human cord blood CD4+ T cell, activated, 48h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 2
|
| Sample_geo_accession | GSM506693
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506693/suppl/GSM506693_SS13-2.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506693/suppl/GSM506693_SS13-2.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506694 | GPL96 |
|
Cord blood CD4+_act+IL-12_48h_rep1
|
human cord blood CD4+ T cell, activated and IL-12 treated, 48h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 1
|
| Sample_geo_accession | GSM506694
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506694/suppl/GSM506694_SS5-3.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506694/suppl/GSM506694_SS5-3.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506695 | GPL96 |
|
Cord blood CD4+_act+IL-12_48h_rep2
|
human cord blood CD4+ T cell, activated and IL-12 treated, 48h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 2
|
| Sample_geo_accession | GSM506695
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506695/suppl/GSM506695_SS13-3.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506695/suppl/GSM506695_SS13-3.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506696 | GPL96 |
|
Cord blood CD4+_act+IL-12+IL-18_48h_rep1
|
human cord blood CD4+ T cell, activated and IL-12+IL-18 treated, 48h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 1
|
| Sample_geo_accession | GSM506696
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506696/suppl/GSM506696_SS5-4.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506696/suppl/GSM506696_SS5-4.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506697 | GPL96 |
|
Cord blood CD4+_act+IL-12+IL-18_48h_rep2
|
human cord blood CD4+ T cell, activated and IL-12+IL-18 treated, 48h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 2
|
| Sample_geo_accession | GSM506697
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506697/suppl/GSM506697_SS13-4.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506697/suppl/GSM506697_SS13-4.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506698 | GPL96 |
|
Cord blood CD4+_act+IFN-alpha_48h_rep1
|
human cord blood CD4+ T cell, activated and IFN-alpha treated, 48h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 1
|
| Sample_geo_accession | GSM506698
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506698/suppl/GSM506698_SS5-5.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506698/suppl/GSM506698_SS5-5.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506699 | GPL96 |
|
Cord blood CD4+_act+IFN-alpha_48h_rep2
|
human cord blood CD4+ T cell, activated and IFN-alpha treated, 48h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 2
|
| Sample_geo_accession | GSM506699
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506699/suppl/GSM506699_SS13-5.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506699/suppl/GSM506699_SS13-5.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506700 | GPL96 |
|
Cord blood CD4+_act_2h
|
human cord blood CD4+ T cell, activated, 2h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 1
|
| Sample_geo_accession | GSM506700
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506700/suppl/GSM506700_SS6-2.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506700/suppl/GSM506700_SS6-2.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506701 | GPL96 |
|
Cord blood CD4+_act+IFN-alpha_2h
|
human cord blood CD4+ T cell, activated and IFN-alpha treated, 2h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 1
|
| Sample_geo_accession | GSM506701
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506701/suppl/GSM506701_SS6-5.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506701/suppl/GSM506701_SS6-5.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506702 | GPL96 |
|
Cord blood CD4+_act_6h
|
human cord blood CD4+ T cell, activated, 6h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 1
|
| Sample_geo_accession | GSM506702
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506702/suppl/GSM506702_SS6-6.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506702/suppl/GSM506702_SS6-6.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
|
GSM506703 | GPL96 |
|
Cord blood CD4+_act+IFN-alpha_6h
|
human cord blood CD4+ T cell, activated and IFN-alpha treated, 6h
|
cell source: human neonatal umbilical cord blood
cell type: CD4+ T cell
|
biological replicate 1
|
| Sample_geo_accession | GSM506703
| | Sample_status | Public on Apr 11 2010
| | Sample_submission_date | Feb 04 2010
| | Sample_last_update_date | Apr 11 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were cultured on 24-well plates, 2x106 cells/1ml Yssel´s medium, activated via T cell receptor (plate bound antiCD3 500 ng/well, and soluble antiCD28 500 ng/ml, Immunotech, France). Cytokines IL-12 (2.5 ng/ml, R&D Systems), highly purified human leukocyte IFN-alpha (100 U/ml, Red Cross Finland Blood Service) or the combination of IL-12 (2.5 ng/ml) + IL-18 (25 ng/ml, Medical & Biological Laboratories) were added to induce Th1 differentiation. Cells were harvested at 2h, 6h or 48h.
| | Sample_growth_protocol_ch1 | Umbilical cord blood was collected from healthy neonates born in Turku University Hospital, Hospital District of Southwest Finland. Mononuclear cells were isolated with Ficoll-Paque (Amersham Biosciences) gradient centrifugation, and CD4+ cell population was purified using magnetic beads (Dynal CD4 Positive Isolation Kit, Invitrogen) according to manufacturers instructions.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted with TRIzol reagent (Invitrogen) and further purified with Rneasy mini kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in dH2O.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Amplification was started from 5 micrograms of total RNA. The cDNA/cRNA synthesis reactions and sample cleanup steps were performed according to Affymetrix´s GeneChip Expression Analysis Technical Manual.
| | Sample_hyb_protocol | The biotinylated and fragmented cRNA was hybridized to Affymetrix GeneChip Human Genome U133A arrays overnight (16-18 hours) at 45C. GeneChips were washed and stained in the Affymetrix Fluidics Station.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 with AutoLoader.
| | Sample_data_processing | The data was analyzed using MAS 5.0. Data was normalized to target intensity 50.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Sanna,,Filén
| | Sample_contact_institute | Turku Centre for Biotechnology
| | Sample_contact_address | Tykistökatu 6
| | Sample_contact_city | Turku
| | Sample_contact_zip/postal_code | 20520
| | Sample_contact_country | Finland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506703/suppl/GSM506703_SS6-9.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM506nnn/GSM506703/suppl/GSM506703_SS6-9.CHP.gz
| | Sample_series_id | GSE20198
| | Sample_data_row_count | 22283
| | |
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