Search results for the GEO ID: GSE29367  |
(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 |
GSM725962 | GPL570 |
|
Parental HARA
|
squamous cell lung cancer cell line (HARA)
|
cell line: HARA
tissue: squamous cell lung cancer
|
Gene expression data from human squamous cell lung cancer cell line, HARA
|
| Sample_geo_accession | GSM725962
| | Sample_status | Public on May 19 2011
| | Sample_submission_date | May 18 2011
| | Sample_last_update_date | May 19 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | HARA and HARA-B4 were cultured in RPMI 1640 medium (Invitrogen, Carlsbad, CA) supplemented with 10% FBS and 50 units/ml of penicillin and streptomycin in humidified atmosphere under 5% CO2 at 37˚C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from HARA and HARA-B4 cells using the Qiagen RNeasy kit (Qiagen, Venlo, Netherlands) according to the manufacturer’s protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the GeneChip Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Affymetrix GeneChip Command Console and normalized with Affymetrix Expression Console.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Soichi,,Takiguchi
| | Sample_contact_email | sctakigu@nk-cc.go.jp
| | Sample_contact_institute | National Kyushu Cancer Center
| | Sample_contact_address | 3-1-1 Notame, Minami-ku
| | Sample_contact_city | Fukuoka
| | Sample_contact_zip/postal_code | 811-1395
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM725nnn/GSM725962/suppl/GSM725962_HARA.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM725nnn/GSM725962/suppl/GSM725962_HARA.CHP.gz
| | Sample_series_id | GSE29367
| | Sample_data_row_count | 54675
| | |
|
GSM725963 | GPL570 |
|
Highly bone metastatic subline of HARA
|
bone-seeking squamous lung cancer cell line (HARA-B4)
|
cell line: HARA-B4
tissue: squamous cell lung cancer
|
Gene expression data from a highly bone metastatic subline, HARA-B4
|
| Sample_geo_accession | GSM725963
| | Sample_status | Public on May 19 2011
| | Sample_submission_date | May 18 2011
| | Sample_last_update_date | May 19 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | HARA and HARA-B4 were cultured in RPMI 1640 medium (Invitrogen, Carlsbad, CA) supplemented with 10% FBS and 50 units/ml of penicillin and streptomycin in humidified atmosphere under 5% CO2 at 37˚C.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from HARA and HARA-B4 cells using the Qiagen RNeasy kit (Qiagen, Venlo, Netherlands) according to the manufacturer’s protocol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the GeneChip Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Affymetrix GeneChip Command Console and normalized with Affymetrix Expression Console.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Soichi,,Takiguchi
| | Sample_contact_email | sctakigu@nk-cc.go.jp
| | Sample_contact_institute | National Kyushu Cancer Center
| | Sample_contact_address | 3-1-1 Notame, Minami-ku
| | Sample_contact_city | Fukuoka
| | Sample_contact_zip/postal_code | 811-1395
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM725nnn/GSM725963/suppl/GSM725963_HARA-B4.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM725nnn/GSM725963/suppl/GSM725963_HARA-B4.CHP.gz
| | Sample_series_id | GSE29367
| | Sample_data_row_count | 54675
| | |
|
| |
| |
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 |
|
|
