Search results for the GEO ID: GSE30363  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM753490 | GPL1261 |
|
Bone marrow B220+ cells isolated from kinase dead knockin IKKαK44A/K44A mice 1
|
Bone marrow B220+ cells
|
cell type: Bone marrow B220+ cells
genotype: kinase dead knockin IKKαK44A/K44A
genetic background: FVB
|
KAFv (IKK alpha kinase knockin FVB mice)
Bone marrow B220+ cells isolated from kinase dead knockin IKKαK44A/K44A mice
|
| Sample_geo_accession | GSM753490
| | Sample_status | Public on Jul 02 2011
| | Sample_submission_date | Jul 01 2011
| | Sample_last_update_date | Jul 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | No prior treatment was given to the BM B220+ cells
| | Sample_growth_protocol_ch1 | Bone marrow from the tibias and femurs of 4wk old KAKA and WT littermate control mice was flushed out in RPMI medium containing 1% FCS. Cells were RBC lysed and washed thoroughly. B220+ cells were enriched using anti-B220+ magnetic beads and separated through magnetic cell sorter (MACS) columns.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from a total of 3×106 B220+ cells. We used a trizol method of RNA extraction.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated aRNA were prepared according to the standard Affymetrix protocol from 150ng total RNA (GeneChip® 3’ IVT Express Kit Labeling Assay,P/N 702646 Rev. 7, Dec 2009).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of aRNA were hybridized for 16 hr at 45C on GeneChip mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450, with Affymetrix W/S kit 900720, protocol FS450_0001.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000, 7G
| | Sample_data_processing | The data were analyzed with Affymetrix GeneExpression Console 1.1 (MAS 5.0). The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Mumtaz,,Yaseen
| | Sample_contact_email | mumtaz.yaseen@osumc.edu
| | Sample_contact_phone | 6144532031
| | Sample_contact_institute | NCI
| | Sample_contact_address | 1050 Boyles Street
| | Sample_contact_city | Frederick
| | Sample_contact_state | Maryland
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM753nnn/GSM753490/suppl/GSM753490_KAB220plus_Mouse430_2_.CEL.gz
| | Sample_series_id | GSE30363
| | Sample_data_row_count | 45101
| | |
|
GSM753491 | GPL1261 |
|
Bone marrow B220+ cells isolated from WT littermate control mice 1
|
Bone marrow B220+ cells
|
cell type: Bone marrow B220+ cells
genotype: wild type
genetic background: FVB
|
KAFv (IKK alpha kinase knockin FVB mice)
Bone marrow B220+ cells isolated from WT littermate control mice
|
| Sample_geo_accession | GSM753491
| | Sample_status | Public on Jul 02 2011
| | Sample_submission_date | Jul 01 2011
| | Sample_last_update_date | Jul 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | No prior treatment was given to the BM B220+ cells
| | Sample_growth_protocol_ch1 | Bone marrow from the tibias and femurs of 4wk old KAKA and WT littermate control mice was flushed out in RPMI medium containing 1% FCS. Cells were RBC lysed and washed thoroughly. B220+ cells were enriched using anti-B220+ magnetic beads and separated through magnetic cell sorter (MACS) columns.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from a total of 3×106 B220+ cells. We used a trizol method of RNA extraction.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated aRNA were prepared according to the standard Affymetrix protocol from 150ng total RNA (GeneChip® 3’ IVT Express Kit Labeling Assay,P/N 702646 Rev. 7, Dec 2009).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of aRNA were hybridized for 16 hr at 45C on GeneChip mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450, with Affymetrix W/S kit 900720, protocol FS450_0001.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000, 7G
| | Sample_data_processing | The data were analyzed with Affymetrix GeneExpression Console 1.1 (MAS 5.0). The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Mumtaz,,Yaseen
| | Sample_contact_email | mumtaz.yaseen@osumc.edu
| | Sample_contact_phone | 6144532031
| | Sample_contact_institute | NCI
| | Sample_contact_address | 1050 Boyles Street
| | Sample_contact_city | Frederick
| | Sample_contact_state | Maryland
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM753nnn/GSM753491/suppl/GSM753491_WTB220plus_Mouse430_2_.CEL.gz
| | Sample_series_id | GSE30363
| | Sample_data_row_count | 45101
| | |
|
GSM753492 | GPL1261 |
|
Bone marrow B220+ cells isolated from kinase dead knockin IKKαK44A/K44A mice 2
|
Bone marrow B220+ cells
|
cell type: Bone marrow B220+ cells
genotype: kinase dead knockin IKKαK44A/K44A
genetic background: FVB
|
KAFv (IKK alpha kinase knockin FVB mice)
Bone marrow B220+ cells isolated from kinase dead knockin IKKαK44A/K44A mice
|
| Sample_geo_accession | GSM753492
| | Sample_status | Public on Jul 02 2011
| | Sample_submission_date | Jul 01 2011
| | Sample_last_update_date | Jul 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | No prior treatment was given to the BM B220+ cells
| | Sample_growth_protocol_ch1 | Bone marrow from the tibias and femurs of 4wk old KAKA and WT littermate control mice was flushed out in RPMI medium containing 1% FCS. Cells were RBC lysed and washed thoroughly. B220+ cells were enriched using anti-B220+ magnetic beads and separated through magnetic cell sorter (MACS) columns.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from a total of 3×106 B220+ cells. We used a trizol method of RNA extraction.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated aRNA were prepared according to the standard Affymetrix protocol from 150ng total RNA (GeneChip® 3’ IVT Express Kit Labeling Assay,P/N 702646 Rev. 7, Dec 2009).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of aRNA were hybridized for 16 hr at 45C on GeneChip mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450, with Affymetrix W/S kit 900720, protocol FS450_0001.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000, 7G
| | Sample_data_processing | The data were analyzed with Affymetrix GeneExpression Console 1.1 (MAS 5.0). The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Mumtaz,,Yaseen
| | Sample_contact_email | mumtaz.yaseen@osumc.edu
| | Sample_contact_phone | 6144532031
| | Sample_contact_institute | NCI
| | Sample_contact_address | 1050 Boyles Street
| | Sample_contact_city | Frederick
| | Sample_contact_state | Maryland
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM753nnn/GSM753492/suppl/GSM753492_Jami_KA2_Mouse430_2_.CEL.gz
| | Sample_series_id | GSE30363
| | Sample_data_row_count | 45101
| | |
|
GSM753493 | GPL1261 |
|
Bone marrow B220+ cells isolated from kinase dead knockin IKKαK44A/K44A mice 3
|
Bone marrow B220+ cells
|
cell type: Bone marrow B220+ cells
genotype: kinase dead knockin IKKαK44A/K44A
genetic background: FVB
|
KAFv (IKK alpha kinase knockin FVB mice)
Bone marrow B220+ cells isolated from kinase dead knockin IKKαK44A/K44A mice
|
| Sample_geo_accession | GSM753493
| | Sample_status | Public on Jul 02 2011
| | Sample_submission_date | Jul 01 2011
| | Sample_last_update_date | Jul 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | No prior treatment was given to the BM B220+ cells
| | Sample_growth_protocol_ch1 | Bone marrow from the tibias and femurs of 4wk old KAKA and WT littermate control mice was flushed out in RPMI medium containing 1% FCS. Cells were RBC lysed and washed thoroughly. B220+ cells were enriched using anti-B220+ magnetic beads and separated through magnetic cell sorter (MACS) columns.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from a total of 3×106 B220+ cells. We used a trizol method of RNA extraction.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated aRNA were prepared according to the standard Affymetrix protocol from 150ng total RNA (GeneChip® 3’ IVT Express Kit Labeling Assay,P/N 702646 Rev. 7, Dec 2009).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of aRNA were hybridized for 16 hr at 45C on GeneChip mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450, with Affymetrix W/S kit 900720, protocol FS450_0001.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000, 7G
| | Sample_data_processing | The data were analyzed with Affymetrix GeneExpression Console 1.1 (MAS 5.0). The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Mumtaz,,Yaseen
| | Sample_contact_email | mumtaz.yaseen@osumc.edu
| | Sample_contact_phone | 6144532031
| | Sample_contact_institute | NCI
| | Sample_contact_address | 1050 Boyles Street
| | Sample_contact_city | Frederick
| | Sample_contact_state | Maryland
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM753nnn/GSM753493/suppl/GSM753493_Jami_KAT_Mouse430_2_.CEL.gz
| | Sample_series_id | GSE30363
| | Sample_data_row_count | 45101
| | |
|
GSM753494 | GPL1261 |
|
Bone marrow B220+ cells isolated from WT littermate control mice 2
|
Bone marrow B220+ cells
|
cell type: Bone marrow B220+ cells
genotype: wild type
genetic background: FVB
|
KAFv (IKK alpha kinase knockin FVB mice)
Bone marrow B220+ cells isolated from WT littermate control mice
|
| Sample_geo_accession | GSM753494
| | Sample_status | Public on Jul 02 2011
| | Sample_submission_date | Jul 01 2011
| | Sample_last_update_date | Jul 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | No prior treatment was given to the BM B220+ cells
| | Sample_growth_protocol_ch1 | Bone marrow from the tibias and femurs of 4wk old KAKA and WT littermate control mice was flushed out in RPMI medium containing 1% FCS. Cells were RBC lysed and washed thoroughly. B220+ cells were enriched using anti-B220+ magnetic beads and separated through magnetic cell sorter (MACS) columns.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from a total of 3×106 B220+ cells. We used a trizol method of RNA extraction.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated aRNA were prepared according to the standard Affymetrix protocol from 150ng total RNA (GeneChip® 3’ IVT Express Kit Labeling Assay,P/N 702646 Rev. 7, Dec 2009).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of aRNA were hybridized for 16 hr at 45C on GeneChip mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450, with Affymetrix W/S kit 900720, protocol FS450_0001.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000, 7G
| | Sample_data_processing | The data were analyzed with Affymetrix GeneExpression Console 1.1 (MAS 5.0). The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Mumtaz,,Yaseen
| | Sample_contact_email | mumtaz.yaseen@osumc.edu
| | Sample_contact_phone | 6144532031
| | Sample_contact_institute | NCI
| | Sample_contact_address | 1050 Boyles Street
| | Sample_contact_city | Frederick
| | Sample_contact_state | Maryland
| | Sample_contact_zip/postal_code | 21702
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM753nnn/GSM753494/suppl/GSM753494_Jami_WT2_Mouse430_2_.CEL.gz
| | Sample_series_id | GSE30363
| | Sample_data_row_count | 45101
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
