Search results for the GEO ID: GSE16874  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM422913 | GPL1261 |
|
BCells_WildType_day0_REP1
|
B cells, wild type, unstimulated
|
genotype: Wild Type
stimulation: non stimulated
cell type: B cells
|
Gene expression data from unstimulated, wild type B cells
|
| Sample_geo_accession | GSM422913
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422913/suppl/GSM422913.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422914 | GPL1261 |
|
BCells_WildType_day0_REP2
|
B cells, wild type, unstimulated
|
genotype: Wild Type
stimulation: non stimulated
cell type: B cells
|
Gene expression data from unstimulated, wild type B cells
|
| Sample_geo_accession | GSM422914
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422914/suppl/GSM422914.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422915 | GPL1261 |
|
BCells_WildType_day0_REP3
|
B cells, wild type, unstimulated
|
genotype: Wild Type
stimulation: non stimulated
cell type: B cells
|
Gene expression data from unstimulated, wild type B cells
|
| Sample_geo_accession | GSM422915
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422915/suppl/GSM422915.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422916 | GPL1261 |
|
BCells_Transgenic_day0_REP1
|
B cells, transgenic, unstimulated
|
genotype: EFLmDREAM
stimulation: non stimulated
cell type: B cells
|
Gene expression data from unstimulated, transgenic B cells
|
| Sample_geo_accession | GSM422916
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422916/suppl/GSM422916.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422917 | GPL1261 |
|
BCells_Transgenic_day0_REP2
|
B cells, transgenic, unstimulated
|
genotype: EFLmDREAM
stimulation: non stimulated
cell type: B cells
|
Gene expression data from unstimulated, transgenic B cells
|
| Sample_geo_accession | GSM422917
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422917/suppl/GSM422917.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422918 | GPL1261 |
|
BCells_Transgenic_day0_REP3
|
B cells, transgenic, unstimulated
|
genotype: EFLmDREAM
stimulation: non stimulated
cell type: B cells
|
Gene expression data from unstimulated, transgenic B cells
|
| Sample_geo_accession | GSM422918
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422918/suppl/GSM422918.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422919 | GPL1261 |
|
BCells_WildType_day2_REP1
|
B cells, wild type, stimulated
|
genotype: Wild Type
stimulation: stimulated with LPS and mouse recombinant IL-4 (day 2)
cell type: B cells
|
Gene expression data from stimulated, wild type B cells
|
| Sample_geo_accession | GSM422919
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422919/suppl/GSM422919.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422920 | GPL1261 |
|
BCells_WildType_day2_REP2
|
B cells, wild type, stimulated
|
genotype: Wild Type
stimulation: stimulated with LPS and mouse recombinant IL-4 (day 2)
cell type: B cells
|
Gene expression data from stimulated, wild type B cells
|
| Sample_geo_accession | GSM422920
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422920/suppl/GSM422920.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422921 | GPL1261 |
|
BCells_WildType_day2_REP3
|
B cells, wild type, stimulated
|
genotype: Wild Type
stimulation: stimulated with LPS and mouse recombinant IL-4 (day 2)
cell type: B cells
|
Gene expression data from stimulated, wild type B cells
|
| Sample_geo_accession | GSM422921
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422921/suppl/GSM422921.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422922 | GPL1261 |
|
BCells_Transgenic_day2_REP1
|
B cells, transgenic, stimulated
|
genotype: EFLmDREAM
stimulation: stimulated with LPS and mouse recombinant IL-4 (day 2)
cell type: B cells
|
Gene expression data from stimulated, transgenic B cells
|
| Sample_geo_accession | GSM422922
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422922/suppl/GSM422922.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422923 | GPL1261 |
|
BCells_Transgenic_day2_REP2
|
B cells, transgenic, stimulated
|
genotype: EFLmDREAM
stimulation: stimulated with LPS and mouse recombinant IL-4 (day 2)
cell type: B cells
|
Gene expression data from stimulated, transgenic B cells
|
| Sample_geo_accession | GSM422923
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422923/suppl/GSM422923.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
GSM422924 | GPL1261 |
|
BCells_Transgenic_day2_REP3
|
B cells, transgenic, stimulated
|
genotype: EFLmDREAM
stimulation: stimulated with LPS and mouse recombinant IL-4 (day 2)
cell type: B cells
|
Gene expression data from stimulated, transgenic B cells
|
| Sample_geo_accession | GSM422924
| | Sample_status | Public on Dec 07 2010
| | Sample_submission_date | Jun 29 2009
| | Sample_last_update_date | Dec 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | For stimulation, B cells (0.4 x 106) were cultured in 24-well plates and stimulated with LPS (20 µg/ml; Sigma) and mouse recombinant IL-4 (10 ng/ml; Pharmingen) for 2 days.
| | Sample_growth_protocol_ch1 | B cells from spleen were isolated by negative selection using CD43 microbeads (MACS; Milteny). The purity of the different subpopulations was above 98% as assayed by flow cytometry.B cells were grown in RPMI with Glutamax containing 10% FCS (Invitrogene), nonessential amino acids (0.1 mM), sodium pyruvate (1 mM), penicillin (100 U/ml)/streptomycin (100 µg/ml) and 50 µM b-mercaptoethanol and were maintained at 37 ºC in an atmosphere at 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 4 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (GeneChip Mouse Genome 430 2.0 Array). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Juan,Carlos,Oliveros
| | Sample_contact_institute | CNB, CSIC
| | Sample_contact_address | Darwin 3
| | Sample_contact_city | Cantoblanco
| | Sample_contact_state | Madrid
| | Sample_contact_zip/postal_code | 28049
| | Sample_contact_country | Spain
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM422nnn/GSM422924/suppl/GSM422924.CEL.gz
| | Sample_series_id | GSE16874
| | Sample_data_row_count | 45101
| | |
|
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