Search results for the GEO ID: GSE18826  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM466740 | GPL570 |
|
A2
|
UMCL01-101 cell, cultured in RWV Bioreactor
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cell line: UMCL01-101
culture: 3D assembly
|
3D assembly
|
| Sample_geo_accession | GSM466740
| | Sample_status | Public on Mar 01 2010
| | Sample_submission_date | Oct 30 2009
| | Sample_last_update_date | Oct 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For growth in the RWV Bioreactor (Model RCCS-4D, Synthecon, Inc., Houston, TX), cells were seeded at 1 x 10e7 per ml in disposable 50-ml vessels and were grown for 15 days at a rotation speed of 12 rpm through day 10 and 14 rpm thereafter.
| | Sample_growth_protocol_ch1 | UMCL01-101 cells were grown as conventional suspension cultures or in RWV bioreactor.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total cellular RNA was isolated and purified using the RNeasy Mini Kit (Qiagen, Valencia, CA). Integrity and purity of the RNA were verified using an Agilent Bioanalyzer (Palo Alto, CA).
| | Sample_label_ch1 | biotiin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using the standard Affymetrix T7 oligo(dT) primer protocol starting with 5 µg total RNA.
| | Sample_hyb_protocol | 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration. A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4. Analysis of the results using Bayesian Analysis of Variance model (BAM) identified genes highly likely to be differentially expressed under 3D growth conditions as compared to conventional culture.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,S,Levy
| | Sample_contact_email | llevy@tulane.edu
| | Sample_contact_phone | 504-988-3291
| | Sample_contact_fax | 504-988-2951
| | Sample_contact_department | Microbiology & Immunology
| | Sample_contact_institute | Tulane University
| | Sample_contact_address | 1430 Tulane Ave SL38
| | Sample_contact_city | New Orleans
| | Sample_contact_state | LA
| | Sample_contact_zip/postal_code | 70112
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM466nnn/GSM466740/suppl/GSM466740.CEL.gz
| | Sample_series_id | GSE18826
| | Sample_data_row_count | 54675
| | |
|
GSM466741 | GPL570 |
|
B1
|
UMCL01-101 cell, grown in suspension culture
|
cell line: UMCL01-101
culture: conventional cuture
|
Conventional cuture
|
| Sample_geo_accession | GSM466741
| | Sample_status | Public on Mar 01 2010
| | Sample_submission_date | Oct 30 2009
| | Sample_last_update_date | Oct 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For growth in the RWV Bioreactor (Model RCCS-4D, Synthecon, Inc., Houston, TX), cells were seeded at 1 x 10e7 per ml in disposable 50-ml vessels and were grown for 15 days at a rotation speed of 12 rpm through day 10 and 14 rpm thereafter.
| | Sample_growth_protocol_ch1 | UMCL01-101 cells were grown as conventional suspension cultures or in RWV bioreactor.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total cellular RNA was isolated and purified using the RNeasy Mini Kit (Qiagen, Valencia, CA). Integrity and purity of the RNA were verified using an Agilent Bioanalyzer (Palo Alto, CA).
| | Sample_label_ch1 | biotiin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using the standard Affymetrix T7 oligo(dT) primer protocol starting with 5 µg total RNA.
| | Sample_hyb_protocol | 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration. A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4. Analysis of the results using Bayesian Analysis of Variance model (BAM) identified genes highly likely to be differentially expressed under 3D growth conditions as compared to conventional culture.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,S,Levy
| | Sample_contact_email | llevy@tulane.edu
| | Sample_contact_phone | 504-988-3291
| | Sample_contact_fax | 504-988-2951
| | Sample_contact_department | Microbiology & Immunology
| | Sample_contact_institute | Tulane University
| | Sample_contact_address | 1430 Tulane Ave SL38
| | Sample_contact_city | New Orleans
| | Sample_contact_state | LA
| | Sample_contact_zip/postal_code | 70112
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM466nnn/GSM466741/suppl/GSM466741.CEL.gz
| | Sample_series_id | GSE18826
| | Sample_data_row_count | 54675
| | |
|
GSM466742 | GPL570 |
|
B3
|
UMCL01-101 cell, grown in suspension culture
|
cell line: UMCL01-101
culture: conventional cuture
|
Conventional cuture
|
| Sample_geo_accession | GSM466742
| | Sample_status | Public on Mar 01 2010
| | Sample_submission_date | Oct 30 2009
| | Sample_last_update_date | Oct 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For growth in the RWV Bioreactor (Model RCCS-4D, Synthecon, Inc., Houston, TX), cells were seeded at 1 x 10e7 per ml in disposable 50-ml vessels and were grown for 15 days at a rotation speed of 12 rpm through day 10 and 14 rpm thereafter.
| | Sample_growth_protocol_ch1 | UMCL01-101 cells were grown as conventional suspension cultures or in RWV bioreactor.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total cellular RNA was isolated and purified using the RNeasy Mini Kit (Qiagen, Valencia, CA). Integrity and purity of the RNA were verified using an Agilent Bioanalyzer (Palo Alto, CA).
| | Sample_label_ch1 | biotiin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using the standard Affymetrix T7 oligo(dT) primer protocol starting with 5 µg total RNA.
| | Sample_hyb_protocol | 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration. A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4. Analysis of the results using Bayesian Analysis of Variance model (BAM) identified genes highly likely to be differentially expressed under 3D growth conditions as compared to conventional culture.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,S,Levy
| | Sample_contact_email | llevy@tulane.edu
| | Sample_contact_phone | 504-988-3291
| | Sample_contact_fax | 504-988-2951
| | Sample_contact_department | Microbiology & Immunology
| | Sample_contact_institute | Tulane University
| | Sample_contact_address | 1430 Tulane Ave SL38
| | Sample_contact_city | New Orleans
| | Sample_contact_state | LA
| | Sample_contact_zip/postal_code | 70112
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM466nnn/GSM466742/suppl/GSM466742.CEL.gz
| | Sample_series_id | GSE18826
| | Sample_data_row_count | 54675
| | |
|
GSM466743 | GPL570 |
|
A5
|
UMCL01-101 cell, cultured in RWV Bioreactor
|
cell line: UMCL01-101
culture: 3D assembly
|
3D assembly
|
| Sample_geo_accession | GSM466743
| | Sample_status | Public on Mar 01 2010
| | Sample_submission_date | Oct 30 2009
| | Sample_last_update_date | Oct 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For growth in the RWV Bioreactor (Model RCCS-4D, Synthecon, Inc., Houston, TX), cells were seeded at 1 x 10e7 per ml in disposable 50-ml vessels and were grown for 15 days at a rotation speed of 12 rpm through day 10 and 14 rpm thereafter.
| | Sample_growth_protocol_ch1 | UMCL01-101 cells were grown as conventional suspension cultures or in RWV bioreactor.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total cellular RNA was isolated and purified using the RNeasy Mini Kit (Qiagen, Valencia, CA). Integrity and purity of the RNA were verified using an Agilent Bioanalyzer (Palo Alto, CA).
| | Sample_label_ch1 | biotiin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using the standard Affymetrix T7 oligo(dT) primer protocol starting with 5 µg total RNA.
| | Sample_hyb_protocol | 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration. A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4. Analysis of the results using Bayesian Analysis of Variance model (BAM) identified genes highly likely to be differentially expressed under 3D growth conditions as compared to conventional culture.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,S,Levy
| | Sample_contact_email | llevy@tulane.edu
| | Sample_contact_phone | 504-988-3291
| | Sample_contact_fax | 504-988-2951
| | Sample_contact_department | Microbiology & Immunology
| | Sample_contact_institute | Tulane University
| | Sample_contact_address | 1430 Tulane Ave SL38
| | Sample_contact_city | New Orleans
| | Sample_contact_state | LA
| | Sample_contact_zip/postal_code | 70112
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM466nnn/GSM466743/suppl/GSM466743.CEL.gz
| | Sample_series_id | GSE18826
| | Sample_data_row_count | 54675
| | |
|
GSM466744 | GPL570 |
|
A6
|
UMCL01-101 cell, cultured in RWV Bioreactor
|
cell line: UMCL01-101
culture: 3D assembly
|
3D assembly
|
| Sample_geo_accession | GSM466744
| | Sample_status | Public on Mar 01 2010
| | Sample_submission_date | Oct 30 2009
| | Sample_last_update_date | Oct 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For growth in the RWV Bioreactor (Model RCCS-4D, Synthecon, Inc., Houston, TX), cells were seeded at 1 x 10e7 per ml in disposable 50-ml vessels and were grown for 15 days at a rotation speed of 12 rpm through day 10 and 14 rpm thereafter.
| | Sample_growth_protocol_ch1 | UMCL01-101 cells were grown as conventional suspension cultures or in RWV bioreactor.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total cellular RNA was isolated and purified using the RNeasy Mini Kit (Qiagen, Valencia, CA). Integrity and purity of the RNA were verified using an Agilent Bioanalyzer (Palo Alto, CA).
| | Sample_label_ch1 | biotiin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using the standard Affymetrix T7 oligo(dT) primer protocol starting with 5 µg total RNA.
| | Sample_hyb_protocol | 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration. A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4. Analysis of the results using Bayesian Analysis of Variance model (BAM) identified genes highly likely to be differentially expressed under 3D growth conditions as compared to conventional culture.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,S,Levy
| | Sample_contact_email | llevy@tulane.edu
| | Sample_contact_phone | 504-988-3291
| | Sample_contact_fax | 504-988-2951
| | Sample_contact_department | Microbiology & Immunology
| | Sample_contact_institute | Tulane University
| | Sample_contact_address | 1430 Tulane Ave SL38
| | Sample_contact_city | New Orleans
| | Sample_contact_state | LA
| | Sample_contact_zip/postal_code | 70112
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM466nnn/GSM466744/suppl/GSM466744.CEL.gz
| | Sample_series_id | GSE18826
| | Sample_data_row_count | 54675
| | |
|
GSM466745 | GPL570 |
|
B4
|
UMCL01-101 cell, grown in suspension culture
|
cell line: UMCL01-101
culture: conventional cuture
|
Conventional cuture
|
| Sample_geo_accession | GSM466745
| | Sample_status | Public on Mar 01 2010
| | Sample_submission_date | Oct 30 2009
| | Sample_last_update_date | Oct 30 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For growth in the RWV Bioreactor (Model RCCS-4D, Synthecon, Inc., Houston, TX), cells were seeded at 1 x 10e7 per ml in disposable 50-ml vessels and were grown for 15 days at a rotation speed of 12 rpm through day 10 and 14 rpm thereafter.
| | Sample_growth_protocol_ch1 | UMCL01-101 cells were grown as conventional suspension cultures or in RWV bioreactor.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total cellular RNA was isolated and purified using the RNeasy Mini Kit (Qiagen, Valencia, CA). Integrity and purity of the RNA were verified using an Agilent Bioanalyzer (Palo Alto, CA).
| | Sample_label_ch1 | biotiin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using the standard Affymetrix T7 oligo(dT) primer protocol starting with 5 µg total RNA.
| | Sample_hyb_protocol | 15.0 µg of the labeled cRNA was fragmented and re-checked for concentration. A hybridization cocktail containing Affymetrix spike-in controls and fragmented labeled cRNA was loaded onto a GeneChip® array. The array was hybridized overnight at 45°C with rotation at 60 rpm then washed and stained with a strepavidin, R-phycoerythrin conjugate stain. Signal amplification was done using biotinylated antistreptavidin.
| | Sample_scan_protocol | The stained array was scanned on the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The images were analyzed and quality control metrics recorded using Affymetrix GCOS software version 1.4. Analysis of the results using Bayesian Analysis of Variance model (BAM) identified genes highly likely to be differentially expressed under 3D growth conditions as compared to conventional culture.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Laura,S,Levy
| | Sample_contact_email | llevy@tulane.edu
| | Sample_contact_phone | 504-988-3291
| | Sample_contact_fax | 504-988-2951
| | Sample_contact_department | Microbiology & Immunology
| | Sample_contact_institute | Tulane University
| | Sample_contact_address | 1430 Tulane Ave SL38
| | Sample_contact_city | New Orleans
| | Sample_contact_state | LA
| | Sample_contact_zip/postal_code | 70112
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM466nnn/GSM466745/suppl/GSM466745.CEL.gz
| | Sample_series_id | GSE18826
| | Sample_data_row_count | 54675
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