Search results for the GEO ID: GSE23180  |
(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 |
GSM570692 | GPL1261 |
|
Wild-type unstimulated
|
Wild-type macrophages unstimulated
|
genotype/variation: Wild-type unstimulated
treatment: unstimulated
|
-
|
| Sample_geo_accession | GSM570692
| | Sample_status | Public on Aug 22 2010
| | Sample_submission_date | Jul 27 2010
| | Sample_last_update_date | Apr 10 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | stimulated with 100 ng/ml LPS for 4 hours
| | Sample_growth_protocol_ch1 | Mouse bone marrow cells were cultured with M-CSF for 5 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared by NuGEN Ovation system according to the manufactuerer's inscrution.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene CHIP scanner 3000.
| | Sample_data_processing | The data were analyzed with RMA using R program.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Osamu ,,Takeuchi
| | Sample_contact_email | otake@biken.osaka-u.ac.jp
| | Sample_contact_phone | 81-6-6879-8303
| | Sample_contact_fax | 81-6-6879-8305
| | Sample_contact_laboratory | Host Defense
| | Sample_contact_department | RIMD
| | Sample_contact_institute | Osaka University
| | Sample_contact_address | 3-1 Yamada-oka
| | Sample_contact_city | Suita
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 565-1871
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM570nnn/GSM570692/suppl/GSM570692.CEL.gz
| | Sample_relation | Reanalyzed by: GSE45704
| | Sample_series_id | GSE23180
| | Sample_series_id | GSE23306
| | Sample_data_row_count | 45101
| | |
|
GSM570693 | GPL1261 |
|
Wild-type LPS
|
Wild-type macrophages stimulated with LPS for 4 h
|
genotype/variation: Wild-type LPS
treatment: stimulated with LPS for 4 h
|
-
|
| Sample_geo_accession | GSM570693
| | Sample_status | Public on Aug 22 2010
| | Sample_submission_date | Jul 27 2010
| | Sample_last_update_date | Apr 10 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | stimulated with 100 ng/ml LPS for 4 hours
| | Sample_growth_protocol_ch1 | Mouse bone marrow cells were cultured with M-CSF for 5 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared by NuGEN Ovation system according to the manufactuerer's inscrution.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene CHIP scanner 3000.
| | Sample_data_processing | The data were analyzed with RMA using R program.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Osamu ,,Takeuchi
| | Sample_contact_email | otake@biken.osaka-u.ac.jp
| | Sample_contact_phone | 81-6-6879-8303
| | Sample_contact_fax | 81-6-6879-8305
| | Sample_contact_laboratory | Host Defense
| | Sample_contact_department | RIMD
| | Sample_contact_institute | Osaka University
| | Sample_contact_address | 3-1 Yamada-oka
| | Sample_contact_city | Suita
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 565-1871
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM570nnn/GSM570693/suppl/GSM570693.CEL.gz
| | Sample_relation | Reanalyzed by: GSE45704
| | Sample_series_id | GSE23180
| | Sample_series_id | GSE23306
| | Sample_data_row_count | 45101
| | |
|
GSM570694 | GPL1261 |
|
Jmjd3-/- unstimulated
|
Jmjd3-/- macrophages unstimulated
|
genotype/variation: Jmjd3-/- unstimulated
treatment: unstimulated
|
-
|
| Sample_geo_accession | GSM570694
| | Sample_status | Public on Aug 22 2010
| | Sample_submission_date | Jul 27 2010
| | Sample_last_update_date | Aug 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | stimulated with 100 ng/ml LPS for 4 hours
| | Sample_growth_protocol_ch1 | Mouse bone marrow cells were cultured with M-CSF for 5 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared by NuGEN Ovation system according to the manufactuerer's inscrution.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene CHIP scanner 3000.
| | Sample_data_processing | The data were analyzed with RMA using R program.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Osamu ,,Takeuchi
| | Sample_contact_email | otake@biken.osaka-u.ac.jp
| | Sample_contact_phone | 81-6-6879-8303
| | Sample_contact_fax | 81-6-6879-8305
| | Sample_contact_laboratory | Host Defense
| | Sample_contact_department | RIMD
| | Sample_contact_institute | Osaka University
| | Sample_contact_address | 3-1 Yamada-oka
| | Sample_contact_city | Suita
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 565-1871
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM570nnn/GSM570694/suppl/GSM570694.CEL.gz
| | Sample_series_id | GSE23180
| | Sample_series_id | GSE23306
| | Sample_data_row_count | 45101
| | |
|
GSM570695 | GPL1261 |
|
Jmjd3-/- LPS
|
Jmjd3-/- macrophages stimulated with LPS for 4 h
|
genotype/variation: Jmjd3-/- LPS
treatment: stimulated with LPS for 4 h
|
-
|
| Sample_geo_accession | GSM570695
| | Sample_status | Public on Aug 22 2010
| | Sample_submission_date | Jul 27 2010
| | Sample_last_update_date | Aug 17 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | stimulated with 100 ng/ml LPS for 4 hours
| | Sample_growth_protocol_ch1 | Mouse bone marrow cells were cultured with M-CSF for 5 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared by NuGEN Ovation system according to the manufactuerer's inscrution.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene CHIP scanner 3000.
| | Sample_data_processing | The data were analyzed with RMA using R program.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Osamu ,,Takeuchi
| | Sample_contact_email | otake@biken.osaka-u.ac.jp
| | Sample_contact_phone | 81-6-6879-8303
| | Sample_contact_fax | 81-6-6879-8305
| | Sample_contact_laboratory | Host Defense
| | Sample_contact_department | RIMD
| | Sample_contact_institute | Osaka University
| | Sample_contact_address | 3-1 Yamada-oka
| | Sample_contact_city | Suita
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 565-1871
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM570nnn/GSM570695/suppl/GSM570695.CEL.gz
| | Sample_series_id | GSE23180
| | Sample_series_id | GSE23306
| | 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 |
|
|
