Search results for the GEO ID: GSE9946  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM251628 | GPL96 |
|
Immature_dendritic_cells_sample_1
|
Immature dendritic cells
|
Immature monocyte-derived human dendritic cells.
|
Sufficient amount of high quality RNA was isolated and immDC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM251628
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immature monocyte-derived DC were harvested on day 7, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251628/suppl/GSM251628.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM251631 | GPL96 |
|
Mature_dendritic_cells_sample_1
|
Mature dendritic cells
|
Stimulatory mature monocyte-derived human dendritic cells.
|
Sufficient amount of high quality RNA was isolated and matDC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM251631
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After harvesting (day 7 of culture) immature DC were treated with anti-CD40 mAb and TNFalpha and consequently incubated for three days to obtain mature DC (matDC).
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Mature monocyte-derived DC were harvested on day 10, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251631/suppl/GSM251631.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM251632 | GPL96 |
|
Mature_dendritic_cells_PGE2_sample_1
|
Mature dendritic cells, treated with PGE2
|
Inhibitory mature monocyte-derived human dendritic cells, treated with PGE2.
|
Sufficient amount of high quality RNA was isolated and PGE2-DC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM251632
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After harvesting (day 7 of culture) immature DC were treated with anti-CD40 mAb and TNFalpha with addition of prostaglandin E2 (PGE2) and consequently incubated for three days to obtain mature DC treated with PGE2 (PGE2-DC).
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Mature monocyte-derived PGE2-treated DC were harvested on day 10, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251632/suppl/GSM251632.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM251634 | GPL96 |
|
Infected_dendritic_cells_sample_1
|
Dendritic cells infected with L.monocytogenes
|
Inhibitory monocyte-derived human dendritic cells infected with L.monocytogenes.
|
Sufficient amount of high quality RNA was isolated and infDC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM251634
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After harvesting (day 7 of culture) immature DC were infected with Listeria monocytogenes (L.monocytogenes) at MOI of 10 and consequently incubated for 6 hours.
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Monocyte-derived dendritic cells (mo-DC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days to generate immature mo-DC (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Monocyte-derived DC were harvested 6 hours after infection with L.monocytogenes, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251634/suppl/GSM251634.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM335153 | GPL96 |
|
Infected_dendritic_cells_sample_2
|
Dendritic cells infected with L.monocytogenes
|
Inhibitory monocyte-derived human dendritic cells infected with L.monocytogenes.
|
Sufficient amount of high quality RNA was isolated and infDC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM335153
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Oct 19 2008
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After harvesting (day 7 of culture) immature DC were infected with Listeria monocytogenes (L.monocytogenes) at MOI of 10 and consequently incubated for 6 hours.
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Monocyte-derived DC were harvested 6 hours after infection with L.monocytogenes, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM335nnn/GSM335153/suppl/GSM335153.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM335154 | GPL96 |
|
Infected_dendritic_cells_sample_3
|
Dendritic cells infected with L.monocytogenes
|
Inhibitory monocyte-derived human dendritic cells infected with L.monocytogenes.
|
Sufficient amount of high quality RNA was isolated and infDC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM335154
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Oct 19 2008
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After harvesting (day 7 of culture) immature DC were infected with Listeria monocytogenes (L.monocytogenes) at MOI of 10 and consequently incubated for 6 hours.
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Monocyte-derived DC were harvested 6 hours after infection with L.monocytogenes, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM335nnn/GSM335154/suppl/GSM335154.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM335155 | GPL96 |
|
Immature_dendritic_cells_sample_2
|
Immature dendritic cells
|
Immature monocyte-derived human dendritic cells.
|
Sufficient amount of high quality RNA was isolated and immDC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM335155
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Oct 19 2008
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immature monocyte-derived DC were harvested on day 7, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM335nnn/GSM335155/suppl/GSM335155.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM335156 | GPL96 |
|
Immature_dendritic_cells_sample_3
|
Immature dendritic cells
|
Immature monocyte-derived human dendritic cells.
|
Sufficient amount of high quality RNA was isolated and immDC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM335156
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Oct 19 2008
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immature monocyte-derived DC were harvested on day 7, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM335nnn/GSM335156/suppl/GSM335156.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM335157 | GPL96 |
|
Mature_dendritic_cells_sample_2
|
Mature dendritic cells
|
Stimulatory mature monocyte-derived human dendritic cells.
|
Sufficient amount of high quality RNA was isolated and matDC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM335157
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Oct 19 2008
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After harvesting (day 7 of culture) immature DC were treated with anti-CD40 mAb and TNFalpha and consequently incubated for three days to obtain mature DC (matDC).
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Mature monocyte-derived DC were harvested on day 10, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM335nnn/GSM335157/suppl/GSM335157.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM335158 | GPL96 |
|
Mature_dendritic_cells_sample_3
|
Mature dendritic cells
|
Stimulatory mature monocyte-derived human dendritic cells.
|
Sufficient amount of high quality RNA was isolated and matDC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM335158
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Oct 19 2008
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After harvesting (day 7 of culture) immature DC were treated with anti-CD40 mAb and TNFalpha and consequently incubated for three days to obtain mature DC (matDC).
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Mature monocyte-derived DC were harvested on day 10, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM335nnn/GSM335158/suppl/GSM335158.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM335159 | GPL96 |
|
Mature_dendritic_cells_PGE2_sample_2
|
Mature dendritic cells, treated with PGE2
|
Inhibitory mature monocyte-derived human dendritic cells, treated with PGE2.
|
Sufficient amount of high quality RNA was isolated and PGE2-DC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM335159
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Oct 19 2008
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After harvesting (day 7 of culture) immature DC were treated with anti-CD40 mAb and TNFalpha with addition of prostaglandin E2 (PGE2) and consequently incubated for three days to obtain mature DC treated with PGE2 (PGE2-DC).
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Mature monocyte-derived PGE2-treated DC were harvested on day 10, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM335nnn/GSM335159/suppl/GSM335159.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
|
GSM335160 | GPL96 |
|
Mature_dendritic_cells_PGE2_sample_3
|
Mature dendritic cells, treated with PGE2
|
Inhibitory mature monocyte-derived human dendritic cells, treated with PGE2.
|
Sufficient amount of high quality RNA was isolated and PGE2-DC transcriptome was assessed using the HG-U133A Affymetrix microarray.
|
| Sample_geo_accession | GSM335160
| | Sample_status | Public on Oct 21 2008
| | Sample_submission_date | Oct 19 2008
| | Sample_last_update_date | Dec 19 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After harvesting (day 7 of culture) immature DC were treated with anti-CD40 mAb and TNFalpha with addition of prostaglandin E2 (PGE2) and consequently incubated for three days to obtain mature DC treated with PGE2 (PGE2-DC).
| | Sample_growth_protocol_ch1 | Circulating CD14+ monocytes were positively enriched from PBMC, obtained from buffy coats of healthy donors using CD14 MicroBeads (cell purity > 95%). Immature monocyte-derived dendritic cells (immDC) were generated from the CD14+ monocytes in a serum-free medium (CellGro) supplemented with 2mM glutamine, 500 U/ml IL-4 and 800 U/ml GM-CSF for seven days (cytokines were replenished on day 3 and 5).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Mature monocyte-derived PGE2-treated DC were harvested on day 10, lyzed in TRIzol and stored at –80° until further processing. RNA was extracted from cell lyzates with chloroform/isopropanol method, and was clean-uped in silica columns (Qiagen). The quality of the isolated RNA was determined by measuring the A260 / 280 ratio and the integrity of the ribosomal 28s and 18s bands were determined by agarose-gel electrophoresis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | Synthesis of biotin labeled cRNA was performed with BioArray HighYield RNA TranscriptLabeling Kit (ENZO) following standard procedures.
| | Sample_hyb_protocol | Hybridization and washing was performed following standard procedures for Affymetrix HG-U133A arrays (www.affymetrix.com) on a GeneChip Fluidic station 400, using the EukGe-WS2v4 protocol.
| | Sample_scan_protocol | Scanning was performed twice with filter set at 570 nm on an Agilent gene array scanner (Affymetrix).
| | Sample_data_processing | MAS5.0 (Affymetrix) was used for raw data measurement and quality control. dChip 2006 was used for data normalization, quality control and data analysis.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joachim,,Schultze
| | Sample_contact_email | j.schultze@uni-bonn.de
| | Sample_contact_department | Genomics and Immunoregulation
| | Sample_contact_institute | LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
| | Sample_contact_address | Carl-Troll-Strasse 31
| | Sample_contact_city | Bonn
| | Sample_contact_state | NRW
| | Sample_contact_zip/postal_code | 53115
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM335nnn/GSM335160/suppl/GSM335160.CEL.gz
| | Sample_series_id | GSE9946
| | Sample_data_row_count | 22283
| | |
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