Search results for the GEO ID: GSE21550  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM538607 | GPL570 |
|
U937 transfected with control GFP, 9 hours post transfection, replicate 1
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing control GFP
|
|
| Sample_geo_accession | GSM538607
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538607/suppl/GSM538607.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
|
GSM538608 | GPL570 |
|
U937 transfected with GFP-PRWT,9 hours post infection, replicate 1
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing wild type PML-RARα cDNA (pEGFP-PRWT )
|
|
| Sample_geo_accession | GSM538608
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538608/suppl/GSM538608.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
|
GSM538609 | GPL570 |
|
U937 transfected with GFP-PR2VR, 9 hours post infection, replicate 1
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing wild type PML-RARα cDNA (pEGFP-PR2VR )
|
|
| Sample_geo_accession | GSM538609
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538609/suppl/GSM538609.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
|
GSM538610 | GPL570 |
|
U937 transfected with control GFP, 6 hours post transfection, replicate 1
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing control GFP
|
|
| Sample_geo_accession | GSM538610
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538610/suppl/GSM538610.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
|
GSM538611 | GPL570 |
|
U937 transfected with GFP-PRWT,6 hours post infection, replicate 1
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing wild type PML-RARα cDNA (pEGFP-PRWT )
|
|
| Sample_geo_accession | GSM538611
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538611/suppl/GSM538611.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
|
GSM538612 | GPL570 |
|
U937 transfected with GFP-PR2VR, 6 hours post infection, replicate 1
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing wild type PML-RARα cDNA (pEGFP-PR2VR )
|
|
| Sample_geo_accession | GSM538612
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538612/suppl/GSM538612.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
|
GSM538613 | GPL570 |
|
U937 transfected with control GFP, 6 hours post transfection, replicate 2
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing control GFP
|
|
| Sample_geo_accession | GSM538613
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538613/suppl/GSM538613.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
|
GSM538614 | GPL570 |
|
U937 transfected with GFP-PRWT,6 hours post infection, replicate 2
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing wild type PML-RARα cDNA (pEGFP-PRWT )
|
|
| Sample_geo_accession | GSM538614
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538614/suppl/GSM538614.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
|
GSM538615 | GPL570 |
|
U937 transfected with GFP-PR2VR, 6 hours post infection, replicate 2
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing wild type PML-RARα cDNA (pEGFP-PR2VR )
|
|
| Sample_geo_accession | GSM538615
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538615/suppl/GSM538615.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
|
GSM538616 | GPL570 |
|
U937 transfected with control GFP, 9 hours post transfection, replicate 2
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing control GFP
|
|
| Sample_geo_accession | GSM538616
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538616/suppl/GSM538616.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
|
GSM538617 | GPL570 |
|
U937 transfected with GFP-PRWT,9 hours post infection, replicate 2
|
U937 cell line
|
cell line: U937 cells
transfectant: transfected with plasmid containing wild type PML-RARα cDNA (pEGFP-PRWT )
|
|
| Sample_geo_accession | GSM538617
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538617/suppl/GSM538617.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
| | |
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GSM538618 | GPL570 |
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U937 transfected with GFP-PR2VR, 9 hours post infection, replicate 2
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U937 cell line
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cell line: U937 cells
transfectant: transfected with plasmid containing wild type PML-RARα cDNA (pEGFP-PR2VR )
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| Sample_geo_accession | GSM538618
| | Sample_status | Public on Sep 01 2010
| | Sample_submission_date | Apr 27 2010
| | Sample_last_update_date | Apr 27 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Transfection of pEGFP, pEGFP-PRWT and pEGFP-PR2VR in U937 cells was performed by electroporation (BTX).
| | 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 according tot the standard Affymetrix protocol from 6 ug total RNA(Expression analysis Technical Manual, 2001 ,Affymetrix).
| | Sample_hyb_protocol | 15 ug of biotinylated cRNAs were hybridized to Affymetrix U133Plus2 GeneChipTM oligonucleotide arrays.
| | Sample_scan_protocol | Gene chips were scanned using GS3000.
| | Sample_data_processing | To perform inter-array comparisons, the raw data for each array were scaled to an average intensity of 1,500 with Affymetrix Microarray Suite software and the (MAS5) statistical algorithm. Probesets were filtered to remove those that did not have at least 2 present calls in at least 1 of the groups (GFP, GFP-PR, GFP-PR_2VR). The remaining probesets were subjected to ANOVA, with differentially expressed genes defined at a significance level of p<0.01. MAS5-generated signal intensities were normalized to z-scores for hierarchical clustering and heatmap creation only. Statistical analysis, hierarchical clustering, and creation of heat maps were performed with Spotfire software (Spotfire, Somerville, MA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Rekha,,Meyer
| | Sample_contact_email | rmeyer@pathbox.wustl.edu
| | Sample_contact_phone | 314 362 8853
| | Sample_contact_institute | Washington University School of Medicine
| | Sample_contact_address | 4320 Forest Park Av
| | Sample_contact_city | St Louis
| | Sample_contact_state | MO
| | Sample_contact_zip/postal_code | 63128
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM538nnn/GSM538618/suppl/GSM538618.CEL.gz
| | Sample_series_id | GSE21550
| | Sample_data_row_count | 54675
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