Search results for the GEO ID: GSE15928  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM399634 | GPL96 |
|
No treatment 1
|
PBMC
|
cell type: PBMC
|
cultured PBMC, nontreated
untreated PBMC
|
| Sample_geo_accession | GSM399634
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399634/suppl/GSM399634.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399634/suppl/GSM399634.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399635 | GPL96 |
|
No treatment 2
|
PBMC
|
cell type: PBMC
|
cultured PBMC, nontreated
untreated PBMC
|
| Sample_geo_accession | GSM399635
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399635/suppl/GSM399635.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399635/suppl/GSM399635.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399636 | GPL96 |
|
No treatment 3
|
PBMC
|
cell type: PBMC
|
cultured PBMC, nontreated
untreated PBMC
|
| Sample_geo_accession | GSM399636
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399636/suppl/GSM399636.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399636/suppl/GSM399636.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399637 | GPL96 |
|
No treatment 4
|
PBMC
|
cell type: PBMC
|
cultured PBMC, nontreated
untreated PBMC
|
| Sample_geo_accession | GSM399637
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399637/suppl/GSM399637.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399637/suppl/GSM399637.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399638 | GPL96 |
|
OKT-3/IL-2 8h 1
|
PBMC
|
cell type: PBMC
|
cultured PBMC, IL-2 treated
PBMC were stimulated for 8 hrs with 100 ng/ml OKT-3 together with 100 U/ml recombinant human interleukin-2
|
| Sample_geo_accession | GSM399638
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399638/suppl/GSM399638.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399638/suppl/GSM399638.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399639 | GPL96 |
|
OKT-3/IL-2 8h 2
|
PBMC
|
cell type: PBMC
|
cultured PBMC, IL-2 treated
PBMC were stimulated for 8 hrs with 100 ng/ml OKT-3 together with 100 U/ml recombinant human interleukin-2
|
| Sample_geo_accession | GSM399639
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399639/suppl/GSM399639.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399639/suppl/GSM399639.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399640 | GPL96 |
|
OKT-3/IL-2 8h, anti-CD25 1
|
PBMC
|
cell type: PBMC
|
cultured PBMC, IL-2 and anti-CD25 treated
PBMC were stimulated for 8 hrs with 100 ng/ml OKT-3 together with 100 U/ml recombinant human interleukin-2 presence of 30 µg/ml anti-CD25 antibody.
|
| Sample_geo_accession | GSM399640
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399640/suppl/GSM399640.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399640/suppl/GSM399640.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399641 | GPL96 |
|
OKT-3/IL-2 8h, anti-CD25 2
|
PBMC
|
cell type: PBMC
|
cultured PBMC, IL-2 and anti-CD25 treated
PBMC were stimulated for 8 hrs with 100 ng/ml OKT-3 together with 100 U/ml recombinant human interleukin-2 presence of 30 µg/ml anti-CD25 antibody.
|
| Sample_geo_accession | GSM399641
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399641/suppl/GSM399641.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399641/suppl/GSM399641.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399642 | GPL96 |
|
OKT-3/IL-2 16h 1
|
PBMC
|
cell type: PBMC
|
cultured PBMC, IL-2 treated
PBMC were stimulated for 16 hrs with 100 ng/ml OKT-3 together with 100 U/ml recombinant human interleukin-2
|
| Sample_geo_accession | GSM399642
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399642/suppl/GSM399642.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399642/suppl/GSM399642.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399643 | GPL96 |
|
OKT-3/IL-2 16h 2
|
PBMC
|
cell type: PBMC
|
cultured PBMC, IL-2 treated
PBMC were stimulated for 16 hrs with 100 ng/ml OKT-3 together with 100 U/ml recombinant human interleukin-2
|
| Sample_geo_accession | GSM399643
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399643/suppl/GSM399643.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399643/suppl/GSM399643.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399644 | GPL96 |
|
OKT-3/IL-2 16h, anti-CD25 1
|
PBMC
|
cell type: PBMC
|
cultured PBMC, IL-2 and anti-CD25 treated
PBMC were stimulated for 16 hrs with 100 ng/ml OKT-3 together with 100 U/ml recombinant human interleukin-2 presence of 30 µg/ml anti-CD25 antibody.
|
| Sample_geo_accession | GSM399644
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399644/suppl/GSM399644.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399644/suppl/GSM399644.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
|
GSM399645 | GPL96 |
|
OKT-3/IL-2 16h, anti-CD25 2
|
PBMC
|
cell type: PBMC
|
cultured PBMC, IL-2 and anti-CD25 treated
PBMC were stimulated for 16 hrs with 100 ng/ml OKT-3 together with 100 U/ml recombinant human interleukin-2 presence of 30 µg/ml anti-CD25 antibody.
|
| Sample_geo_accession | GSM399645
| | Sample_status | Public on May 02 2009
| | Sample_submission_date | May 01 2009
| | Sample_last_update_date | May 01 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Peripheral blood mononuclear cells (PBMC) were isolated from human peripheral blood samples (obtained with IRB approval and informed consent) by centrifugation over Ficoll-Paque (GE Healthcare, Freiburg, Germany). Isolated PBMCs were cultured at 106 cells in RPMI 1640 supplemented with 10 % FCS (both Biochrom, Berlin, Germany) and antibiotics and incubated at different time points with 100 ng/ml OKT-3 and 100 U/ml IL-2 ± 30 µg/ml anti-CD25 antibody
| | Sample_growth_protocol_ch1 | Cells were cultivated in RPMI 1640 medium containing 10 % FCS with additional 1 % penicillin/streptomycin in a humidified atmosphere at 37 °C and 5 % CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was prepared with acid phenol/chloroform extraction (TRIzol, Invitrogen; Karlsruhe, Germany) followed by purification with RNeasy Mini Kit (Qiagen; Hilden, Germany) according to the manufacturer’s instructions and was quantified spectro-photometrically. The quality of the purified RNA was assessed by agarose gel analysis.
| | Sample_label_ch1 | biotin, streptavidin-phycoerytrin
| | Sample_label_protocol_ch1 | A total of 10 µg RNA from each sample was used to prepare biotinylated target cRNA as previously described (Staege MS, Hutter C, Neumann I, et al. DNA microarrays reveal relationship of Ewing family tumors to both endothelial and fetal neural crest-derived cells and define novel targets. Cancer Res 2004;64:8213-21). A detailed protocol is available at www.affymetrix.com.
| | Sample_hyb_protocol | standard Affymetrix protocol
| | Sample_scan_protocol | standard Affymetrix protocol
| | Sample_data_processing | Microarray Suite 5.0 was used with the data and for normalization by scaling all probe sets to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Guenther,HS,Richter
| | Sample_contact_email | guenther.richter@lrz.tum.de
| | Sample_contact_fax | +49-89-3068 3791
| | Sample_contact_laboratory | Laboratory f. Functional Genomics & Transplantation Biology
| | Sample_contact_department | Pediatrics & Children's Cancer Research Center
| | Sample_contact_institute | Klinikum rechts der Isar, TU-Muenchen
| | Sample_contact_address | Parzivalstr. 16
| | Sample_contact_city | Munich
| | Sample_contact_zip/postal_code | D-80804
| | Sample_contact_country | Germany
| | Sample_contact_web_link | http://www.kind.med.tu-muenchen.de/cms/front_content.php
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399645/suppl/GSM399645.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399645/suppl/GSM399645.CHP.gz
| | Sample_series_id | GSE15928
| | Sample_data_row_count | 22283
| | |
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