Search results for the GEO ID: GSE11178  |
(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 |
GSM281722 | GPL1261 |
|
mouse progenitors_WT_LSK sorted_rep1
|
Lin-ckit+Sca1+ (LSK) sorted from total bone marrow
|
C57BL/6x129 mice
mixed male and female
2 weeks post polyI:C treatment
Fbw7 flox/flox, Mx1Cre-
|
no additional information
|
| Sample_geo_accession | GSM281722
| | Sample_status | Public on Apr 15 2008
| | Sample_submission_date | Apr 15 2008
| | Sample_last_update_date | Apr 15 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Animals were injected intra-peritoneally with 20 ug/g polyI:C 3 times on alternate days. Two weeks post-treatment, total bone marrow was harvested and LSK and MP cells were sorted by FACS.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (QIAGEN) according to manufacturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 20 ng total RNA converted to cRNA using Affymetrix GeneChip® Two-Cycle cDNA Synthesis Kit and in vitro transcription resulting into biotin-labeled cRNA, fragmented prior to hybridization (Affymetrix Expression Analysis Technical Manual, as described).
| | Sample_hyb_protocol | 15 mcg of cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station FS450.
| | Sample_scan_protocol | Affymetrix GeneArray scanner 7G
| | Sample_data_processing | Feature intensity was extracted by GeneChip Operating System as CEL files. The probe-level analysis of the CEL files was done by the RMA algorithm using GeneSpring 7.2 program. No further adjustments were made to the data in the table.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Iannis,,Aifantis
| | Sample_contact_email | iannis.aifantis@med.nyu.edu
| | Sample_contact_phone | (212) 263 5365
| | Sample_contact_laboratory | MSB 538
| | Sample_contact_department | Pathology
| | Sample_contact_institute | NYU Sch of Medicine
| | Sample_contact_address | 550 First Ave
| | Sample_contact_city | New York
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM281nnn/GSM281722/suppl/GSM281722.CEL.gz
| | Sample_series_id | GSE11178
| | Sample_data_row_count | 45101
| | |
|
GSM281723 | GPL1261 |
|
mouse progenitors_Fbw7 deficient_LSK sorted_rep1
|
Lin-ckit+Sca1+ (LSK) sorted from total bone marrow
|
C57BL/6x129 mice
mixed male and female
2 weeks post polyI:C treatment
Fbw7 flox/flox, Mx1Cre+
|
no additional information
|
| Sample_geo_accession | GSM281723
| | Sample_status | Public on Apr 15 2008
| | Sample_submission_date | Apr 15 2008
| | Sample_last_update_date | Apr 15 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Animals were injected intra-peritoneally with 20 ug/g polyI:C 3 times on alternate days. Two weeks post-treatment, total bone marrow was harvested and LSK and MP cells were sorted by FACS.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (QIAGEN) according to manufacturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 20 ng total RNA converted to cRNA using Affymetrix GeneChip® Two-Cycle cDNA Synthesis Kit and in vitro transcription resulting into biotin-labeled cRNA, fragmented prior to hybridization (Affymetrix Expression Analysis Technical Manual, as described).
| | Sample_hyb_protocol | 15 mcg of cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station FS450.
| | Sample_scan_protocol | Affymetrix GeneArray scanner 7G
| | Sample_data_processing | Feature intensity was extracted by GeneChip Operating System as CEL files. The probe-level analysis of the CEL files was done by the RMA algorithm using GeneSpring 7.2 program. No further adjustments were made to the data in the table.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Iannis,,Aifantis
| | Sample_contact_email | iannis.aifantis@med.nyu.edu
| | Sample_contact_phone | (212) 263 5365
| | Sample_contact_laboratory | MSB 538
| | Sample_contact_department | Pathology
| | Sample_contact_institute | NYU Sch of Medicine
| | Sample_contact_address | 550 First Ave
| | Sample_contact_city | New York
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM281nnn/GSM281723/suppl/GSM281723.CEL.gz
| | Sample_series_id | GSE11178
| | Sample_data_row_count | 45101
| | |
|
GSM281724 | GPL1261 |
|
mouse progenitors_WT_MP sorted_rep1
|
Lin-ckit+Sca1- myeloid progenitors (MP) sorted from total bone marrow
|
C57BL/6x129 mice
mixed male and female
2 weeks post polyI:C treatment
Fbw7 flox/flox, Mx1Cre-
|
no additional information
|
| Sample_geo_accession | GSM281724
| | Sample_status | Public on Apr 15 2008
| | Sample_submission_date | Apr 15 2008
| | Sample_last_update_date | Apr 15 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Animals were injected intra-peritoneally with 20 ug/g polyI:C 3 times on alternate days. Two weeks post-treatment, total bone marrow was harvested and LSK and MP cells were sorted by FACS.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (QIAGEN) according to manufacturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 20 ng total RNA converted to cRNA using Affymetrix GeneChip® Two-Cycle cDNA Synthesis Kit and in vitro transcription resulting into biotin-labeled cRNA, fragmented prior to hybridization (Affymetrix Expression Analysis Technical Manual, as described).
| | Sample_hyb_protocol | 15 mcg of cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station FS450.
| | Sample_scan_protocol | Affymetrix GeneArray scanner 7G
| | Sample_data_processing | Feature intensity was extracted by GeneChip Operating System as CEL files. The probe-level analysis of the CEL files was done by the RMA algorithm using GeneSpring 7.2 program. No further adjustments were made to the data in the table.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Iannis,,Aifantis
| | Sample_contact_email | iannis.aifantis@med.nyu.edu
| | Sample_contact_phone | (212) 263 5365
| | Sample_contact_laboratory | MSB 538
| | Sample_contact_department | Pathology
| | Sample_contact_institute | NYU Sch of Medicine
| | Sample_contact_address | 550 First Ave
| | Sample_contact_city | New York
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM281nnn/GSM281724/suppl/GSM281724.CEL.gz
| | Sample_series_id | GSE11178
| | Sample_data_row_count | 45101
| | |
|
GSM281725 | GPL1261 |
|
mouse progenitors_Fbw7 deficient_MP sorted_rep1
|
Lin-ckit+Sca1- myeloid progenitors (MP) sorted from total bone marrow
|
C57BL/6x129 mice
mixed male and female
2 weeks post polyI:C treatment
Fbw7 flox/flox, Mx1Cre+
|
no additional information
|
| Sample_geo_accession | GSM281725
| | Sample_status | Public on Apr 15 2008
| | Sample_submission_date | Apr 15 2008
| | Sample_last_update_date | Apr 15 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Animals were injected intra-peritoneally with 20 ug/g polyI:C 3 times on alternate days. Two weeks post-treatment, total bone marrow was harvested and LSK and MP cells were sorted by FACS.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (QIAGEN) according to manufacturer's protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 20 ng total RNA converted to cRNA using Affymetrix GeneChip® Two-Cycle cDNA Synthesis Kit and in vitro transcription resulting into biotin-labeled cRNA, fragmented prior to hybridization (Affymetrix Expression Analysis Technical Manual, as described).
| | Sample_hyb_protocol | 15 mcg of cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station FS450.
| | Sample_scan_protocol | Affymetrix GeneArray scanner 7G
| | Sample_data_processing | Feature intensity was extracted by GeneChip Operating System as CEL files. The probe-level analysis of the CEL files was done by the RMA algorithm using GeneSpring 7.2 program. No further adjustments were made to the data in the table.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Iannis,,Aifantis
| | Sample_contact_email | iannis.aifantis@med.nyu.edu
| | Sample_contact_phone | (212) 263 5365
| | Sample_contact_laboratory | MSB 538
| | Sample_contact_department | Pathology
| | Sample_contact_institute | NYU Sch of Medicine
| | Sample_contact_address | 550 First Ave
| | Sample_contact_city | New York
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM281nnn/GSM281725/suppl/GSM281725.CEL.gz
| | Sample_series_id | GSE11178
| | 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: |
|
|
|
Select expression type |
| Transcripts profile based on; |
A. Differential status (Up/Down regulation) |
|
|
Regulation type |
|
Fold change |
|
p-value |
|
|
|
B. Absolute calls (Transcribed/Not-detected) |
|
|
| Derive calls within/across groups |
Within groups |
|
|
Detection status |
|
Percentage detection |
|
|
Across groups |
|
|
Detection status |
First group: |
- |
Second group:
|
Percentage detection |
First group: |
- |
Second group:
|
|
|
| |
Filter results by number of probes |
|
|
