Search results for the GEO ID: GSE37294  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM915682 | GPL1261 |
|
NOD B cells, 2h unstimulated, biological replicate 1
|
Splenic NOD B cells, 2h culture without stimulation
|
gender: female
strain: NOD/ShiLtJ (NOD)
age: 6 weeks
cell type: splenic B cells
stimulation: unstimulated
|
Gene expression data from splenic NOD B cells cultured for 2h without stimulation
|
| Sample_geo_accession | GSM915682
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915682/suppl/GSM915682_GC_430_2_GES06_0349.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
|
GSM915683 | GPL1261 |
|
NOD B cells, 2h unstimulated, biological replicate 2
|
Splenic NOD B cells, 2h culture without stimulation
|
gender: female
strain: NOD/ShiLtJ (NOD)
age: 6 weeks
cell type: splenic B cells
stimulation: unstimulated
|
Gene expression data from splenic NOD B cells cultured for 2h without stimulation
|
| Sample_geo_accession | GSM915683
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915683/suppl/GSM915683_GC_430_2_GES06_0350.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
|
GSM915684 | GPL1261 |
|
NOD B cells, 2h unstimulated, biological replicate 3
|
Splenic NOD B cells, 2h culture without stimulation
|
gender: female
strain: NOD/ShiLtJ (NOD)
age: 6 weeks
cell type: splenic B cells
stimulation: unstimulated
|
Gene expression data from splenic NOD B cells cultured for 2h without stimulation
|
| Sample_geo_accession | GSM915684
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915684/suppl/GSM915684_GC_430_2_GES06_0351.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
|
GSM915685 | GPL1261 |
|
NOD B cells, 2h anti-IgM stimulation, biological replicate 1
|
Splenic NOD B cells, 2h culture with anti-IgM stimulation
|
gender: female
strain: NOD/ShiLtJ (NOD)
age: 6 weeks
cell type: splenic B cells
stimulation: anti-IgM stimulated
|
Gene expression data from splenic NOD B cells cultured for 2h with anti-IgM stimulation
|
| Sample_geo_accession | GSM915685
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915685/suppl/GSM915685_GC_430_2_GES06_0347.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
|
GSM915686 | GPL1261 |
|
NOD B cells, 2h anti-IgM stimulation, biological replicate 2
|
Splenic NOD B cells, 2h culture with anti-IgM stimulation
|
gender: female
strain: NOD/ShiLtJ (NOD)
age: 6 weeks
cell type: splenic B cells
stimulation: anti-IgM stimulated
|
Gene expression data from splenic NOD B cells cultured for 2h with anti-IgM stimulation
|
| Sample_geo_accession | GSM915686
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915686/suppl/GSM915686_GC_430_2_GES06_0348.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
|
GSM915687 | GPL1261 |
|
NR4 B cells, 2h unstimulated, biological replicate 1
|
Splenic NR4 B cells, 2h culture without stimulation
|
gender: female
strain: NOD.NOR-Chr4/DvsJ (NR4)
age: 6 weeks
cell type: splenic B cells
stimulation: unstimulated
|
Gene expression data from splenic NR4 B cells cultured for 2h without stimulation
|
| Sample_geo_accession | GSM915687
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915687/suppl/GSM915687_GC_430_2_GES06_0344.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
|
GSM915688 | GPL1261 |
|
NR4 B cells, 2h unstimulated, biological replicate 2
|
Splenic NR4 B cells, 2h culture without stimulation
|
gender: female
strain: NOD.NOR-Chr4/DvsJ (NR4)
age: 6 weeks
cell type: splenic B cells
stimulation: unstimulated
|
Gene expression data from splenic NR4 B cells cultured for 2h without stimulation
|
| Sample_geo_accession | GSM915688
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915688/suppl/GSM915688_GC_430_2_GES06_0345.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
|
GSM915689 | GPL1261 |
|
NR4 B cells, 2h unstimulated, biological replicate 3
|
Splenic NR4 B cells, 2h culture without stimulation
|
gender: female
strain: NOD.NOR-Chr4/DvsJ (NR4)
age: 6 weeks
cell type: splenic B cells
stimulation: unstimulated
|
Gene expression data from splenic NR4 B cells cultured for 2h without stimulation
|
| Sample_geo_accession | GSM915689
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915689/suppl/GSM915689_GC_430_2_GES06_0346.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
|
GSM915690 | GPL1261 |
|
NR4 B cells, 2h anti-IgM stimulation, biological replicate 1
|
Splenic NR4 B cells, 2h culture with anti-IgM stimulation
|
gender: female
strain: NOD.NOR-Chr4/DvsJ (NR4)
age: 6 weeks
cell type: splenic B cells
stimulation: anti-IgM stimulated
|
Gene expression data from splenic NR4 B cells cultured for 2h with anti-IgM stimulation
|
| Sample_geo_accession | GSM915690
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915690/suppl/GSM915690_GC_430_2_GES06_0341.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
|
GSM915691 | GPL1261 |
|
NR4 B cells, 2h anti-IgM stimulation, biological replicate 2
|
Splenic NR4 B cells, 2h culture with anti-IgM stimulation
|
gender: female
strain: NOD.NOR-Chr4/DvsJ (NR4)
age: 6 weeks
cell type: splenic B cells
stimulation: anti-IgM stimulated
|
Gene expression data from splenic NR4 B cells cultured for 2h with anti-IgM stimulation
|
| Sample_geo_accession | GSM915691
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915691/suppl/GSM915691_GC_430_2_GES06_0342.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
|
GSM915692 | GPL1261 |
|
NR4 B cells, 2h anti-IgM stimulation, biological replicate 3
|
Splenic NR4 B cells, 2h culture with anti-IgM stimulation
|
gender: female
strain: NOD.NOR-Chr4/DvsJ (NR4)
age: 6 weeks
cell type: splenic B cells
stimulation: anti-IgM stimulated
|
Gene expression data from splenic NR4 B cells cultured for 2h with anti-IgM stimulation
|
| Sample_geo_accession | GSM915692
| | Sample_status | Public on Jun 08 2012
| | Sample_submission_date | Apr 16 2012
| | Sample_last_update_date | Jun 08 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Purified B cells from each lot were resuspended at 1x10<7> cells/ml for 2h in complete RPMI media alone or with 10µg/ml AffiniPure goat anti-mouse IgM F(ab’)2 fragments.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA from cultured cells was performed according to the manufacturer's instructions and quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following reverse transcription with an Oligo(dT)-T7 primer (Affymetrix, Santa Clara, Ca), double stranded stranded cDNA was synthesized with the GeneChip® Expression 3’-Amplification One-cycle kit (Affymetrix, Santa Clara, Ca). In an in vitro (IVT) reaction with T7 RNA polymerase, the cDNA was linearly amplified and labeled with biotinylated nucleotides (Affymetrix).
| | Sample_hyb_protocol | 10ug of fragmented RNA was hybridised for 16h at 45C on Affymetrix Mouse Genome 4.30 2.0 Arrays. Washing and staining performed as per manufacturer's instruction on Affymetrix Fludics Station 450 instrument.
| | Sample_scan_protocol | Arrays were scanned with a GeneChip Scanner 3000 laser confocal slide scanner (Affymetrix).
| | Sample_data_processing | Analysis of data was performed using GeneSpring 12.0 software (Agilent). Samples were preprocessed with RMA. All samples were normalised on a per gene basis to the median of total samples. The data was filtered for genes which had a raw expression level of >50 in at least one sample.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Pablo,Alejandro,Silveira
| | Sample_contact_email | P.Silveira@garvan.org.au
| | Sample_contact_phone | +61-2-9295 8456
| | Sample_contact_fax | +61-2-9295 8404
| | Sample_contact_department | Immunology Program
| | Sample_contact_institute | Garvan Institute
| | Sample_contact_address | 384 Victoria St
| | Sample_contact_city | Darlinghurst
| | Sample_contact_state | NSW
| | Sample_contact_zip/postal_code | 2010
| | Sample_contact_country | Australia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM915nnn/GSM915692/suppl/GSM915692_GC_430_2_GES06_0343.CEL.gz
| | Sample_series_id | GSE37294
| | Sample_data_row_count | 45101
| | |
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