Search results for the GEO ID: GSE27034  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM902322 | GPL570 |
|
PBMC_RNA_PAD_1
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Discovery set
|
| Sample_geo_accession | GSM902322
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902322/suppl/GSM902322.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902322/suppl/GSM902322.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902323 | GPL570 |
|
PBMC_RNA_PAD_2
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Discovery set
|
| Sample_geo_accession | GSM902323
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902323/suppl/GSM902323.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902323/suppl/GSM902323.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902324 | GPL570 |
|
PBMC_RNA_PAD_3
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Discovery set
|
| Sample_geo_accession | GSM902324
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902324/suppl/GSM902324.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902324/suppl/GSM902324.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902326 | GPL570 |
|
PBMC_RNA_PAD_5
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Discovery set
|
| Sample_geo_accession | GSM902326
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902326/suppl/GSM902326.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902326/suppl/GSM902326.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902327 | GPL570 |
|
PBMC_RNA_PAD_6
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Discovery set
|
| Sample_geo_accession | GSM902327
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902327/suppl/GSM902327.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902327/suppl/GSM902327.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902328 | GPL570 |
|
PBMC_RNA_PAD_7
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Discovery set
|
| Sample_geo_accession | GSM902328
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902328/suppl/GSM902328.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902328/suppl/GSM902328.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902329 | GPL570 |
|
PBMC_RNA_PAD_8
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Discovery set
|
| Sample_geo_accession | GSM902329
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902329/suppl/GSM902329.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902329/suppl/GSM902329.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902330 | GPL570 |
|
PBMC_RNA_PAD_9
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Discovery set
|
| Sample_geo_accession | GSM902330
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902330/suppl/GSM902330.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902330/suppl/GSM902330.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902331 | GPL570 |
|
PBMC_RNA_PAD_10
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Validation set
|
| Sample_geo_accession | GSM902331
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902331/suppl/GSM902331.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902331/suppl/GSM902331.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902332 | GPL570 |
|
PBMC_RNA_PAD_11
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Validation set
|
| Sample_geo_accession | GSM902332
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902332/suppl/GSM902332.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902332/suppl/GSM902332.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902333 | GPL570 |
|
PBMC_RNA_PAD_12
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Validation set
|
| Sample_geo_accession | GSM902333
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902333/suppl/GSM902333.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902333/suppl/GSM902333.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902334 | GPL570 |
|
PBMC_RNA_PAD_13
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Validation set
|
| Sample_geo_accession | GSM902334
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902334/suppl/GSM902334.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902334/suppl/GSM902334.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902335 | GPL570 |
|
PBMC_RNA_PAD_14
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Validation set
|
| Sample_geo_accession | GSM902335
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902335/suppl/GSM902335.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902335/suppl/GSM902335.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902336 | GPL570 |
|
PBMC_RNA_PAD_15
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Validation set
|
| Sample_geo_accession | GSM902336
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902336/suppl/GSM902336.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902336/suppl/GSM902336.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902337 | GPL570 |
|
PBMC_RNA_PAD_16
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Validation set
|
| Sample_geo_accession | GSM902337
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902337/suppl/GSM902337.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902337/suppl/GSM902337.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902338 | GPL570 |
|
PBMC_RNA_PAD_17
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Validation set
|
| Sample_geo_accession | GSM902338
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902338/suppl/GSM902338.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902338/suppl/GSM902338.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902339 | GPL570 |
|
PBMC_RNA_PAD_18
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Validation set
|
| Sample_geo_accession | GSM902339
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902339/suppl/GSM902339.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902339/suppl/GSM902339.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902340 | GPL570 |
|
PBMC_RNA_PAD_19
|
Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - PAD patients
disease state: peripheral arterial disease (PAD)
|
Validation set
|
| Sample_geo_accession | GSM902340
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902340/suppl/GSM902340.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902340/suppl/GSM902340.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902341 | GPL570 |
|
PBMC_RNA_Control_1
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Discovery set
|
| Sample_geo_accession | GSM902341
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902341/suppl/GSM902341.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902341/suppl/GSM902341.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902342 | GPL570 |
|
PBMC_RNA_Control_2
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Discovery set
|
| Sample_geo_accession | GSM902342
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902342/suppl/GSM902342.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902342/suppl/GSM902342.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902343 | GPL570 |
|
PBMC_RNA_Control_3
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Discovery set
|
| Sample_geo_accession | GSM902343
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902343/suppl/GSM902343.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902343/suppl/GSM902343.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902344 | GPL570 |
|
PBMC_RNA_Control_4
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Discovery set
|
| Sample_geo_accession | GSM902344
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902344/suppl/GSM902344.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902344/suppl/GSM902344.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902345 | GPL570 |
|
PBMC_RNA_Control_5
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Discovery set
|
| Sample_geo_accession | GSM902345
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902345/suppl/GSM902345.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902345/suppl/GSM902345.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902346 | GPL570 |
|
PBMC_RNA_Control_6
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Discovery set
|
| Sample_geo_accession | GSM902346
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902346/suppl/GSM902346.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902346/suppl/GSM902346.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902347 | GPL570 |
|
PBMC_RNA_Control_7
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Discovery set
|
| Sample_geo_accession | GSM902347
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902347/suppl/GSM902347.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902347/suppl/GSM902347.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902348 | GPL570 |
|
PBMC_RNA_Control_8
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Discovery set
|
| Sample_geo_accession | GSM902348
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902348/suppl/GSM902348.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902348/suppl/GSM902348.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902349 | GPL570 |
|
PBMC_RNA_Control_9
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Discovery set
|
| Sample_geo_accession | GSM902349
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902349/suppl/GSM902349.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902349/suppl/GSM902349.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902350 | GPL570 |
|
PBMC_RNA_Control_10
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Validation set
|
| Sample_geo_accession | GSM902350
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902350/suppl/GSM902350.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902350/suppl/GSM902350.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902351 | GPL570 |
|
PBMC_RNA_Control_11
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Validation set
|
| Sample_geo_accession | GSM902351
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902351/suppl/GSM902351.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902351/suppl/GSM902351.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902352 | GPL570 |
|
PBMC_RNA_Control_12
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Validation set
|
| Sample_geo_accession | GSM902352
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902352/suppl/GSM902352.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902352/suppl/GSM902352.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902353 | GPL570 |
|
PBMC_RNA_Control_13
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Validation set
|
| Sample_geo_accession | GSM902353
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902353/suppl/GSM902353.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902353/suppl/GSM902353.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902354 | GPL570 |
|
PBMC_RNA_Control_14
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Validation set
|
| Sample_geo_accession | GSM902354
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902354/suppl/GSM902354.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902354/suppl/GSM902354.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902355 | GPL570 |
|
PBMC_RNA_Control_15
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Validation set
|
| Sample_geo_accession | GSM902355
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902355/suppl/GSM902355.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902355/suppl/GSM902355.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902356 | GPL570 |
|
PBMC_RNA_Control_16
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Validation set
|
| Sample_geo_accession | GSM902356
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902356/suppl/GSM902356.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902356/suppl/GSM902356.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902357 | GPL570 |
|
PBMC_RNA_Control_17
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Validation set
|
| Sample_geo_accession | GSM902357
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902357/suppl/GSM902357.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902357/suppl/GSM902357.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
GSM902358 | GPL570 |
|
PBMC_RNA_Control_18
|
Peripheral Blood Mononuclear Cells (PBMC) - Controls
|
cell type: Peripheral Blood Mononuclear Cells (PBMC) - Controls
disease state: normal
|
Validation set
|
| Sample_geo_accession | GSM902358
| | Sample_status | Public on Mar 26 2012
| | Sample_submission_date | Mar 26 2012
| | Sample_last_update_date | Jun 25 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | PBMC were introduced on hemocytometer and counted. The cells were washed and pelleted with FBS, resuspended in RPMI - 10 and processed for RNA isolation through RNEasy plus minikit (Qiagen, Valencia, CA) and TRIzol (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | PBMC isloated from whole blood were suspended in RPMI - 10 medium for counting the cells (the cell mixture was kept at room temperature).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The extractions were performed through RNEasy plus minikit and through TRIzol, as per manufacturer instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA was labeled according to the recommended procedures for Affymetrix Two - Cycle synthesis kit (Affymetrix, Santa Clara, CA). The starting total RNA concentration was 100ng
| | Sample_hyb_protocol | After fragmentation, 15µg of cRNA was hybridized to HG U133 Plus 2.0 microarray (for 16 hours at 45oC). The microarrays were washed and stained at Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | The GeneChips were scanned and data extracted using the GeneChip scanner® 3000 (Affymetrix, Santa Clara, CA)
| | Sample_data_processing | The raw data file formats were generated using Affymetrix GeneChip operating software® (GCOS). Raw gene expression data were analyzed using the GeneSpringGx 11.0 software (Agilent® Technologies). Samples were normalized using RMA method.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Iftikhar,J ,Kullo
| | Sample_contact_department | Division of Cardiovascular Diseases
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200, First Street Southwest
| | Sample_contact_city | Rochester
| | Sample_contact_state | Minnesota
| | Sample_contact_zip/postal_code | 55905
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902358/suppl/GSM902358.cel.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM902nnn/GSM902358/suppl/GSM902358.chp.gz
| | Sample_series_id | GSE27034
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
Enter the group name here: |
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