Search results for the GEO ID: GSE21491 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM537080 | GPL1261 |
|
activated CD8alpha cDCs, replicate 1
|
activated CD8alpha cDCs, replicate 1
|
cell type: Spleen dendritic cells from WT mice, positively enriched with a cocktail of anti-CD11c- and PDCA1-conjugated magnetic beads (Miltenyi Biotec), and FACS sorted as CD19(neg), CD3(neg), NK1.1(neg), 120G8(neg/low), CD11c(high), CD8alpha(positive)
strain: C57BL/6 mice
gender: Female
age: 6-8 weeks
infection: murine cytomegalovirus
|
MD_A2_430_2
Gene expression data from purified splenic DCs from 10-15 WT C57BL6 mice
|
Sample_geo_accession | GSM537080
| Sample_status | Public on Oct 17 2012
| Sample_submission_date | Apr 23 2010
| Sample_last_update_date | Oct 17 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hors post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before magnetic separation
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from between 7.5x10E5 and 1.5x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on column DNase digestion, according to the manufacturer protocol, yielding between 200 and 700 ng of total RNA for each sample.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | 100 ng of RNA from each sample was used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MOE-430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | RMA normalization
| Sample_platform_id | GPL1261
| Sample_contact_name | Marc,,DALOD
| Sample_contact_email | dalod@ciml.univ-mrs.fr
| Sample_contact_laboratory | dalod
| Sample_contact_department | Dendritic cells and antiviral defense
| Sample_contact_institute | Center of Immunology of Marseille Luminy (CIML)
| Sample_contact_address | Parc scientifique de Luminy, Case 906
| Sample_contact_city | Marseille
| Sample_contact_zip/postal_code | 13288, Cedex 09
| Sample_contact_country | France
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537080/suppl/GSM537080.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537080/suppl/GSM537080.CHP.gz
| Sample_series_id | GSE21491
| Sample_data_row_count | 45101
| |
|
GSM537081 | GPL1261 |
|
activated CD8alpha cDCs, replicate 2
|
activated CD8alpha cDCs, replicate 2
|
cell type: Spleen dendritic cells from WT mice, positively enriched with a cocktail of anti-CD11c- and PDCA1-conjugated magnetic beads (Miltenyi Biotec), and FACS sorted as CD19(neg), CD3(neg), NK1.1(neg), 120G8(neg/low), CD11c(high), CD8alpha(positive)
strain: C57BL/6 mice
gender: Female
age: 6-8 weeks
infection: murine cytomegalovirus
|
MD_15_430_2
Gene expression data from purified splenic DCs from 10-15 WT C57BL6 mice
|
Sample_geo_accession | GSM537081
| Sample_status | Public on Oct 17 2012
| Sample_submission_date | Apr 23 2010
| Sample_last_update_date | Oct 17 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hors post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before magnetic separation
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from between 7.5x10E5 and 1.5x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on column DNase digestion, according to the manufacturer protocol, yielding between 200 and 700 ng of total RNA for each sample.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | 100 ng of RNA from each sample was used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MOE-430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | RMA normalization
| Sample_platform_id | GPL1261
| Sample_contact_name | Marc,,DALOD
| Sample_contact_email | dalod@ciml.univ-mrs.fr
| Sample_contact_laboratory | dalod
| Sample_contact_department | Dendritic cells and antiviral defense
| Sample_contact_institute | Center of Immunology of Marseille Luminy (CIML)
| Sample_contact_address | Parc scientifique de Luminy, Case 906
| Sample_contact_city | Marseille
| Sample_contact_zip/postal_code | 13288, Cedex 09
| Sample_contact_country | France
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537081/suppl/GSM537081.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537081/suppl/GSM537081.CHP.gz
| Sample_series_id | GSE21491
| Sample_data_row_count | 45101
| |
|
GSM537082 | GPL1261 |
|
activated CD11b cDCs, replicate 1
|
activated CD11b cDCs, replicate 1
|
cell type: Spleen dendritic cells from WT mice, positively enriched with a cocktail of anti-CD11c- and PDCA1-conjugated magnetic beads (Miltenyi Biotec), and FACS sorted as CD19(neg), CD3(neg), NK1.1(neg), 120G8(neg/low), CD11c(high), CD11b(positive)
strain: C57BL/6 mice
gender: Female
age: 6-8 weeks
infection: murine cytomegalovirus
|
MD_A3_430_2
Gene expression data from purified splenic DCs from 10-15 WT C57BL6 mice
|
Sample_geo_accession | GSM537082
| Sample_status | Public on Oct 17 2012
| Sample_submission_date | Apr 23 2010
| Sample_last_update_date | Oct 17 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hors post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before magnetic separation
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from between 7.5x10E5 and 1.5x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on column DNase digestion, according to the manufacturer protocol, yielding between 200 and 700 ng of total RNA for each sample.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | 100 ng of RNA from each sample was used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MOE-430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | RMA normalization
| Sample_platform_id | GPL1261
| Sample_contact_name | Marc,,DALOD
| Sample_contact_email | dalod@ciml.univ-mrs.fr
| Sample_contact_laboratory | dalod
| Sample_contact_department | Dendritic cells and antiviral defense
| Sample_contact_institute | Center of Immunology of Marseille Luminy (CIML)
| Sample_contact_address | Parc scientifique de Luminy, Case 906
| Sample_contact_city | Marseille
| Sample_contact_zip/postal_code | 13288, Cedex 09
| Sample_contact_country | France
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537082/suppl/GSM537082.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537082/suppl/GSM537082.CHP.gz
| Sample_series_id | GSE21491
| Sample_data_row_count | 45101
| |
|
GSM537083 | GPL1261 |
|
activated CD11b cDCs, replicate 2
|
activated CD11b cDCs, replicate 2
|
cell type: Spleen dendritic cells from WT mice, positively enriched with a cocktail of anti-CD11c- and PDCA1-conjugated magnetic beads (Miltenyi Biotec), and FACS sorted as CD19(neg), CD3(neg), NK1.1(neg), 120G8(neg/low), CD11c(high), CD11b(positive)
strain: C57BL/6 mice
gender: Female
age: 6-8 weeks
infection: murine cytomegalovirus
|
MD_C3_430_2
Gene expression data from purified splenic DCs from 10-15 WT C57BL6 mice
|
Sample_geo_accession | GSM537083
| Sample_status | Public on Oct 17 2012
| Sample_submission_date | Apr 23 2010
| Sample_last_update_date | Oct 17 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hors post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before magnetic separation
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from between 7.5x10E5 and 1.5x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on column DNase digestion, according to the manufacturer protocol, yielding between 200 and 700 ng of total RNA for each sample.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | 100 ng of RNA from each sample was used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MOE-430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | RMA normalization
| Sample_platform_id | GPL1261
| Sample_contact_name | Marc,,DALOD
| Sample_contact_email | dalod@ciml.univ-mrs.fr
| Sample_contact_laboratory | dalod
| Sample_contact_department | Dendritic cells and antiviral defense
| Sample_contact_institute | Center of Immunology of Marseille Luminy (CIML)
| Sample_contact_address | Parc scientifique de Luminy, Case 906
| Sample_contact_city | Marseille
| Sample_contact_zip/postal_code | 13288, Cedex 09
| Sample_contact_country | France
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537083/suppl/GSM537083.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537083/suppl/GSM537083.CHP.gz
| Sample_series_id | GSE21491
| Sample_data_row_count | 45101
| |
|
GSM537084 | GPL1261 |
|
activated pDCs, replicate 1
|
activated pDCs, replicate 1
|
cell type: Spleen plasmacytoid dendritic cells from WT mice, positively enriched with a cocktail of anti-CD11c- and PDCA1-conjugated magnetic beads (Miltenyi Biotec), and FACS sorted as CD19(neg), CD3(neg), NK1.1(neg), 120G8(high), CD11c(intermediate)
strain: C57BL/6 mice
gender: Female
age: 6-8 weeks
infection: murine cytomegalovirus
|
MD_11_430_2
Gene expression data from purified splenic DCs from 10-15 WT C57BL6 mice
|
Sample_geo_accession | GSM537084
| Sample_status | Public on Oct 17 2012
| Sample_submission_date | Apr 23 2010
| Sample_last_update_date | Oct 17 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hors post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before magnetic separation
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from between 7.5x10E5 and 1.5x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on column DNase digestion, according to the manufacturer protocol, yielding between 200 and 700 ng of total RNA for each sample.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | 100 ng of RNA from each sample was used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MOE-430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | RMA normalization
| Sample_platform_id | GPL1261
| Sample_contact_name | Marc,,DALOD
| Sample_contact_email | dalod@ciml.univ-mrs.fr
| Sample_contact_laboratory | dalod
| Sample_contact_department | Dendritic cells and antiviral defense
| Sample_contact_institute | Center of Immunology of Marseille Luminy (CIML)
| Sample_contact_address | Parc scientifique de Luminy, Case 906
| Sample_contact_city | Marseille
| Sample_contact_zip/postal_code | 13288, Cedex 09
| Sample_contact_country | France
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537084/suppl/GSM537084.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537084/suppl/GSM537084.CHP.gz
| Sample_series_id | GSE21491
| Sample_data_row_count | 45101
| |
|
GSM537085 | GPL1261 |
|
activated pDCs, replicate 2
|
activated pDCs, replicate 2
|
cell type: Spleen plasmacytoid dendritic cells from WT mice, positively enriched with a cocktail of anti-CD11c- and PDCA1-conjugated magnetic beads (Miltenyi Biotec), and FACS sorted as CD19(neg), CD3(neg), NK1.1(neg), 120G8(high), CD11c(intermediate)
strain: C57BL/6 mice
gender: Female
age: 6-8 weeks
infection: murine cytomegalovirus
|
MD_14_430_2
Gene expression data from purified splenic DCs from 10-15 WT C57BL6 mice
|
Sample_geo_accession | GSM537085
| Sample_status | Public on Oct 17 2012
| Sample_submission_date | Apr 23 2010
| Sample_last_update_date | Oct 17 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hors post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before magnetic separation
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from between 7.5x10E5 and 1.5x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on column DNase digestion, according to the manufacturer protocol, yielding between 200 and 700 ng of total RNA for each sample.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | 100 ng of RNA from each sample was used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MOE-430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | RMA normalization
| Sample_platform_id | GPL1261
| Sample_contact_name | Marc,,DALOD
| Sample_contact_email | dalod@ciml.univ-mrs.fr
| Sample_contact_laboratory | dalod
| Sample_contact_department | Dendritic cells and antiviral defense
| Sample_contact_institute | Center of Immunology of Marseille Luminy (CIML)
| Sample_contact_address | Parc scientifique de Luminy, Case 906
| Sample_contact_city | Marseille
| Sample_contact_zip/postal_code | 13288, Cedex 09
| Sample_contact_country | France
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537085/suppl/GSM537085.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537085/suppl/GSM537085.CHP.gz
| Sample_series_id | GSE21491
| Sample_data_row_count | 45101
| |
|
GSM537086 | GPL1261 |
|
activated NK cells, replicate 1
|
activated NK cells, replicate 1
|
cell type: Spleen Natural Killer (NK) Cells from WT mice, positively enriched with anti-DX5-conjugated magnetic beads (Miltenyi Biotec), and FACS sorted as TCRbeta(neg), NK1.1(positive)
strain: C57BL/6 mice
gender: Female
age: 6-8 weeks
infection: murine cytomegalovirus
|
MD_18_430_2
Gene expression data from purified splenic NK cells from 6-10 WT C57BL6 mice
|
Sample_geo_accession | GSM537086
| Sample_status | Public on Oct 17 2012
| Sample_submission_date | Apr 23 2010
| Sample_last_update_date | Oct 17 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hors post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before magnetic separation
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from between 7.5x10E5 and 1.5x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on column DNase digestion, according to the manufacturer protocol, yielding between 200 and 700 ng of total RNA for each sample.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | 100 ng of RNA from each sample was used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MOE-430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | RMA normalization
| Sample_platform_id | GPL1261
| Sample_contact_name | Marc,,DALOD
| Sample_contact_email | dalod@ciml.univ-mrs.fr
| Sample_contact_laboratory | dalod
| Sample_contact_department | Dendritic cells and antiviral defense
| Sample_contact_institute | Center of Immunology of Marseille Luminy (CIML)
| Sample_contact_address | Parc scientifique de Luminy, Case 906
| Sample_contact_city | Marseille
| Sample_contact_zip/postal_code | 13288, Cedex 09
| Sample_contact_country | France
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537086/suppl/GSM537086.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537086/suppl/GSM537086.CHP.gz
| Sample_series_id | GSE21491
| Sample_data_row_count | 45101
| |
|
GSM537087 | GPL1261 |
|
activated NK cells, replicate 2
|
activated NK cells, replicate 2
|
cell type: Spleen Natural Killer (NK) Cells from WT mice, positively enriched with anti-DX5-conjugated magnetic beads (Miltenyi Biotec), and FACS sorted as TCRbeta(neg), NK1.1(positive)
strain: C57BL/6 mice
gender: Female
age: 6-8 weeks
infection: murine cytomegalovirus
|
MD_20_430_2
Gene expression data from purified splenic NK cells from 6-10 WT C57BL6 mice
|
Sample_geo_accession | GSM537087
| Sample_status | Public on Oct 17 2012
| Sample_submission_date | Apr 23 2010
| Sample_last_update_date | Oct 17 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hors post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before magnetic separation
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from between 7.5x10E5 and 1.5x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on column DNase digestion, according to the manufacturer protocol, yielding between 200 and 700 ng of total RNA for each sample.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | 100 ng of RNA from each sample was used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MOE-430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | RMA normalization
| Sample_platform_id | GPL1261
| Sample_contact_name | Marc,,DALOD
| Sample_contact_email | dalod@ciml.univ-mrs.fr
| Sample_contact_laboratory | dalod
| Sample_contact_department | Dendritic cells and antiviral defense
| Sample_contact_institute | Center of Immunology of Marseille Luminy (CIML)
| Sample_contact_address | Parc scientifique de Luminy, Case 906
| Sample_contact_city | Marseille
| Sample_contact_zip/postal_code | 13288, Cedex 09
| Sample_contact_country | France
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537087/suppl/GSM537087.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537087/suppl/GSM537087.CHP.gz
| Sample_series_id | GSE21491
| Sample_data_row_count | 45101
| |
|
GSM537088 | GPL1261 |
|
activated B lymphocytes, replicate 1
|
activated B lymphocytes, replicate 1
|
cell type: Spleen B lymphocytes from WT mice, FACS sorted as CD19(positive) and low in autofluorescence
strain: C57BL/6 mice
gender: Female
age: 6-8 weeks
infection: murine cytomegalovirus
|
MD_22_430_2
Gene expression data from purified splenic B lymphocytes from 3 WT C57BL6 mice
|
Sample_geo_accession | GSM537088
| Sample_status | Public on Oct 17 2012
| Sample_submission_date | Apr 23 2010
| Sample_last_update_date | Oct 17 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Mice were infected intraperitoneally with salivary gland-murine cytomegalovirus (5x10e4 pfu/mouse). Spleens were harvested at 36 hors post-infection and digested with collagenase (Liberase CI), erythrocytes were lysed with NH(4)Cl, and leukocytes were resuspended in PBS EDTA 5mM before magnetic separation
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted from between 7.5x10E5 and 1.5x10E6 cells for each leukocyte subset with the Qiagen micro RNAeasy kit, with on column DNase digestion, according to the manufacturer protocol, yielding between 200 and 700 ng of total RNA for each sample.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | 100 ng of RNA from each sample was used to synthesize biotinylated probes, using 2 successive rounds of cRNA amplification with appropriate quality control to ensure full length synthesis according to standard Affymetrix protocols.
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MOE-430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 with the EukGE_WS2v5 protocol.
| Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | RMA normalization
| Sample_platform_id | GPL1261
| Sample_contact_name | Marc,,DALOD
| Sample_contact_email | dalod@ciml.univ-mrs.fr
| Sample_contact_laboratory | dalod
| Sample_contact_department | Dendritic cells and antiviral defense
| Sample_contact_institute | Center of Immunology of Marseille Luminy (CIML)
| Sample_contact_address | Parc scientifique de Luminy, Case 906
| Sample_contact_city | Marseille
| Sample_contact_zip/postal_code | 13288, Cedex 09
| Sample_contact_country | France
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537088/suppl/GSM537088.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM537nnn/GSM537088/suppl/GSM537088.CHP.gz
| Sample_series_id | GSE21491
| Sample_data_row_count | 45101
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