Search results for the GEO ID: GSE35711  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM873748 | GPL570 |
|
UPN727 cells, autologous plasma, biological replicate 1
|
UPN727 cells stimuated with AutoB1S1 plasma
|
responder cell line: UPN727
protocol: stimuated with AutoB1S1 plasma
|
Gene expression data from cell lines stimulated with autologous plasma
|
| Sample_geo_accession | GSM873748
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873748/suppl/GSM873748_AutoB1S1_pbmc727_9hr_12_072209.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873749 | GPL570 |
|
UPN727 cells, autologous plasma, biological replicate 2
|
UPN727 cells stimuated with AutoB1S2 plasma
|
responder cell line: UPN727
protocol: stimuated with AutoB1S2 plasma
|
Gene expression data from cell lines stimulated with autologous plasma
|
| Sample_geo_accession | GSM873749
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873749/suppl/GSM873749_AutoB1S2_pbmc727_9hr_34_090730.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873750 | GPL570 |
|
UPN727 cells, autologous plasma, biological replicate 3
|
UPN727 cells stimuated with AutoB1S3 plasma
|
responder cell line: UPN727
protocol: stimuated with AutoB1S3 plasma
|
Gene expression data from cell lines stimulated with autologous plasma
|
| Sample_geo_accession | GSM873750
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873750/suppl/GSM873750_AutoB1S3_pbmc727_9hr_35_090731.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873751 | GPL570 |
|
UPN727 cells, autologous plasma, biological replicate 4
|
UPN727 cells stimuated with AutoB3W1 plasma
|
responder cell line: UPN727
protocol: stimuated with AutoB3W1 plasma
|
Gene expression data from cell lines stimulated with autologous plasma
|
| Sample_geo_accession | GSM873751
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873751/suppl/GSM873751_AutoB3W1_pbmc727_9hr_1_091609.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873752 | GPL570 |
|
UPN727 cells, autologous plasma, biological replicate 5
|
UPN727 cells stimuated with AutoB3W1+2 plasma
|
responder cell line: UPN727
protocol: stimuated with AutoB3W1+2 plasma
|
Gene expression data from cell lines stimulated with autologous plasma
|
| Sample_geo_accession | GSM873752
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873752/suppl/GSM873752_AutoB3W1and2_pbmc727_9hr_1p2_110409.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873753 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4017 plasma
|
UPN727 cells stimulated with CF4017 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4017 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873753
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873753/suppl/GSM873753_CF4017_pbmc727_9hr_07_072409.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873754 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4024 plasma
|
UPN727 cells stimulated with CF4024 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4024 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873754
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873754/suppl/GSM873754_CF4024_pbmc727_9hr_08_072409.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873755 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4026 plasma
|
UPN727 cells stimulated with CF4026 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4026 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873755
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873755/suppl/GSM873755_CF4026_pbmc727_9hr_09_072409.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873756 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4045 plasma
|
UPN727 cells stimulated with CF4045 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4045 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873756
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873756/suppl/GSM873756_CF4045_pbmc727_9hr_13_090730.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873758 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4047 plasma
|
UPN727 cells stimulated with CF4047 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4047 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873758
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873758/suppl/GSM873758_CF4047_pbmc727_9hr_14_090730.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873759 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4087 plasma
|
UPN727 cells stimulated with CF4087 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4087 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873759
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873759/suppl/GSM873759_CF4087_pbmc727_9hr_15_090730.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873760 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4091 plasma
|
UPN727 cells stimulated with CF4091 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4091 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873760
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873760/suppl/GSM873760_CF4091_pbmc727_9hr_29_090730.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873761 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4107 plasma
|
UPN727 cells stimulated with CF4107 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4107 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873761
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873761/suppl/GSM873761_CF4107_pbmc727_9hr_30_090730.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873762 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4088 plasma
|
UPN727 cells stimulated with CF4088 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4088 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873762
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873762/suppl/GSM873762_CF4088_pbmc727_9hr_16_090731.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873763 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4133 plasma
|
UPN727 cells stimulated with CF4133 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4133 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873763
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873763/suppl/GSM873763_CF4133_pbmc727_9hr_31_090731.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873764 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4138 plasma
|
UPN727 cells stimulated with CF4138 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4138 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873764
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873764/suppl/GSM873764_CF4138_pbmc727_9hr_32_090731.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873765 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4157 plasma
|
UPN727 cells stimulated with CF4157 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4157 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873765
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873765/suppl/GSM873765_CF4157_pbmc727_9hr_35_090731.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873766 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4184 plasma
|
UPN727 cells stimulated with CF4184 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4184 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873766
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873766/suppl/GSM873766_CF4184_pbmc727_9hr_31_102709.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873767 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4256 plasma
|
UPN727 cells stimulated with CF4256 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4256 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873767
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873767/suppl/GSM873767_CF4256_pbmc727_9hr_32_101509.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873768 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4265 plasma
|
UPN727 cells stimulated with CF4265 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4265 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873768
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873768/suppl/GSM873768_CF4265_pbmc727_9hr_33_101509.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873769 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4271 plasma
|
UPN727 cells stimulated with CF4271 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4271 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873769
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873769/suppl/GSM873769_CF4271_pbmc727_9hr_34_101509.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873770 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4297 plasma
|
UPN727 cells stimulated with CF4297 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4297 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873770
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873770/suppl/GSM873770_CF4297_pbmc727_9hr_35_102109.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873771 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4304 plasma
|
UPN727 cells stimulated with CF4304 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4304 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873771
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873771/suppl/GSM873771_CF4304_pbmc727_9hr_36_102109.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873772 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4305 plasma
|
UPN727 cells stimulated with CF4305 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4305 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873772
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873772/suppl/GSM873772_CF4305_pbmc727_9hr_37_102709.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873773 | GPL570 |
|
UPN727 cells, cystic fibrosis patient CF4285 plasma
|
UPN727 cells stimulated with CF4285 plasma
|
responder cell line: UPN727
protocol: stimulated with CF4285 plasma
|
Gene expression data from cell lines stimulated with cystic fibrosis patient plasma
|
| Sample_geo_accession | GSM873773
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873773/suppl/GSM873773_CF4285_pbmc727_9hr_38_102709.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873774 | GPL570 |
|
UPN727 cells, healthy control 1271 plasma
|
UPN727 cells stimulated with HC1271 plasma
|
responder cell line: UPN727
protocol: stimulated with HC1271 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873774
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873774/suppl/GSM873774_HC1271_pbmc727_9hr_06_072209.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873775 | GPL570 |
|
UPN727 cells, healthy control 1365 plasma
|
UPN727 cells stimulated with HC1365 plasma
|
responder cell line: UPN727
protocol: stimulated with HC1365 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873775
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873775/suppl/GSM873775_HC1365_pbmc727_9hr_04_072209.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873776 | GPL570 |
|
UPN727 cells, healthy control 1301 plasma
|
UPN727 cells stimulated with HC1301 plasma
|
responder cell line: UPN727
protocol: stimulated with HC1301 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873776
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873776/suppl/GSM873776_HC1301_pbmc727_9hr_05_072409.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873777 | GPL570 |
|
UPN727 cells, healthy control 1249 plasma
|
UPN727 cells stimulated with HC1249 plasma
|
responder cell line: UPN727
protocol: stimulated with HC1249 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873777
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873777/suppl/GSM873777_HC1249_pbmc727_9hr_05_090730.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873778 | GPL570 |
|
UPN727 cells, healthy control 1265 plasma
|
UPN727 cells stimulated with HC1265 plasma
|
responder cell line: UPN727
protocol: stimulated with HC1265 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873778
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873778/suppl/GSM873778_HC1265_pbmc727_9hr_04_090730.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873779 | GPL570 |
|
UPN727 cells, healthy control 2300 plasma
|
UPN727 cells stimulated with HC2300 plasma
|
responder cell line: UPN727
protocol: stimulated with HC2300 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873779
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873779/suppl/GSM873779_HC2300_pbmc727_9hr_06_090731.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873780 | GPL570 |
|
UPN727 cells, healthy control 1259 plasma
|
UPN727 cells stimulated with HC1259 plasma
|
responder cell line: UPN727
protocol: stimulated with HC1259 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873780
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873780/suppl/GSM873780_HC1259_pbmc727_9hr_41_091609.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873781 | GPL570 |
|
UPN727 cells, healthy control 1369 plasma
|
UPN727 cells stimulated with HC1369 plasma
|
responder cell line: UPN727
protocol: stimulated with HC1369 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873781
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873781/suppl/GSM873781_HC1369_pbmc727_9hr_40_091609.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873782 | GPL570 |
|
UPN727 cells, healthy control 381 plasma
|
UPN727 cells stimulated with HC381 plasma
|
responder cell line: UPN727
protocol: stimulated with HC381 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873782
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873782/suppl/GSM873782_HC381_pbmc727_9hr_39_101509.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873783 | GPL570 |
|
UPN727 cells, healthy control 1534 plasma
|
UPN727 cells stimulated with HC1534 plasma
|
responder cell line: UPN727
protocol: stimulated with HC1534 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873783
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873783/suppl/GSM873783_HC1534_pbmc727_9hr_43_101509.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873784 | GPL570 |
|
UPN727 cells, healthy control 1730 plasma
|
UPN727 cells stimulated with HC1730 plasma
|
responder cell line: UPN727
protocol: stimulated with HC1730 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873784
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873784/suppl/GSM873784_HC1730_pbmc727_9hr_44_101509.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873785 | GPL570 |
|
UPN727 cells, healthy control 217 plasma
|
UPN727 cells stimulated with HCy217 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy217 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873785
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873785/suppl/GSM873785_HCy217_pbmc727_9hr_45_101509.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873786 | GPL570 |
|
UPN727 cells, healthy control 226 plasma
|
UPN727 cells stimulated with HCy226 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy226 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873786
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873786/suppl/GSM873786_HCy226_pbmc727_9hr_47_102109.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873787 | GPL570 |
|
UPN727 cells, healthy control 252 plasma
|
UPN727 cells stimulated with HCy252 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy252 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873787
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873787/suppl/GSM873787_HCy252_pbmc727_9hr_48_102109.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873788 | GPL570 |
|
UPN727 cells, healthy control 2301 plasma
|
UPN727 cells stimulated with HCy2301 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy2301 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873788
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873788/suppl/GSM873788_HCy2301_pbmc727_9hr_46_102109.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873789 | GPL570 |
|
UPN727 cells, healthy control 294 plasma
|
UPN727 cells stimulated with HCy294 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy294 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873789
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873789/suppl/GSM873789_HCy294_pbmc727_9hr_49_102709.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873790 | GPL570 |
|
UPN727 cells, healthy control 295 plasma
|
UPN727 cells stimulated with HCy295 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy295 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873790
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873790/suppl/GSM873790_HCy295_pbmc727_9hr_51_102709.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873791 | GPL570 |
|
UPN727 cells, healthy control 385 plasma
|
UPN727 cells stimulated with HCy385 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy385 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873791
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873791/suppl/GSM873791_HCy385_pbmc727_9hr_50_102709.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873792 | GPL570 |
|
UPN727 cells, healthy control 390 plasma
|
UPN727 cells stimulated with HCy390 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy390 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873792
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873792/suppl/GSM873792_HCy390_pbmc727_9hr_54_102709.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873793 | GPL570 |
|
UPN727 cells, healthy control 393 plasma
|
UPN727 cells stimulated with HCy393 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy393 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873793
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873793/suppl/GSM873793_HCy393_pbmc727_9hr_52_102709.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873794 | GPL570 |
|
UPN727 cells, healthy control 1006 plasma
|
UPN727 cells stimulated with HCy1006 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy1006 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873794
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873794/suppl/GSM873794_HCy1006_pbmc727_9hr_53_102709.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873795 | GPL570 |
|
UPN727 cells, healthy control 233 plasma
|
UPN727 cells stimulated with HCy233 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy233 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873795
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873795/suppl/GSM873795_HCy233_pbmc727_9hr_56_110609.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873796 | GPL570 |
|
UPN727 cells, healthy control 284 plasma
|
UPN727 cells stimulated with HCy284 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy284 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873796
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873796/suppl/GSM873796_HCy284_pbmc727_9hr_57_110609.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
|
GSM873797 | GPL570 |
|
UPN727 cells, healthy control 1837 plasma
|
UPN727 cells stimulated with HCy1837 plasma
|
responder cell line: UPN727
protocol: stimulated with HCy1837 plasma
|
Gene expression data from cell lines stimulated with healthy control plasma
|
| Sample_geo_accession | GSM873797
| | Sample_status | Public on Sep 01 2012
| | Sample_submission_date | Feb 10 2012
| | Sample_last_update_date | Sep 01 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Gene expression was accomplished by culturing PBMCs at 37°C in 5% CO2 with 40% of autologous, healthy control (HC), or cystic fibrosis (CF) plasma. Cultures were prepared in a Costar 24-well plate (Corning) using 500,000 cells/well and in RPMI 1640 medium supplemented with 100U/ml penicillin and 100ug/ml streptomycin in a total of 500 µl. After culture (9 hours optimal for cryopreserved PBMCs) total RNA was extracted using TRIzol reagent (Invitrogen Life Technologies).
| | Sample_growth_protocol_ch1 | Commercial cryopreserved PBMCs of healthy Caucasian male donor UPN727 were thawed and washed per the manufacturer’s protocol (Cellular Technology Ltd., Shaker Heights, OH).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted and amplified using an Affymetrix two-cycle cDNA synthesis kit (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cRNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual.
| | Sample_hyb_protocol | The GeneChip human genome U133 plus 2.0 array was selected for these studies for its overall comprehensive coverage.
| | Sample_scan_protocol | After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner
| | Sample_data_processing | Image data were normalized and analyzed Partek Genomic Suite (Partek GS) to determine signal log ratios. Each sample was independently analyzed. The statistical significance of differential gene expression and false discovery rates (FDR) were derived through a Paired 2 sample ttest as a statistic analysis method in Partek GS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Martin,,Hessner
| | Sample_contact_email | mhessner@mcw.edu
| | Sample_contact_phone | 414-456-4496
| | Sample_contact_fax | 414-456-6663
| | Sample_contact_laboratory | Max McGee National Research Center for Juvenile Diabetes
| | Sample_contact_department | Pediatrics
| | Sample_contact_institute | Medical College of Wisconsin
| | Sample_contact_address | 8701 Watertown Plank Road
| | Sample_contact_city | Milwaukee
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53226
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.mcw.edu/MaxMcGeeResearchCenter.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM873nnn/GSM873797/suppl/GSM873797_HCy1837_pbmc727_9hr_58_110609.CEL.gz
| | Sample_series_id | GSE35711
| | Sample_series_id | GSE35713
| | Sample_data_row_count | 54675
| | |
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| |
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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