Result

Search results for the GEO ID: GSE40496

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM995261

GPL570

WC066-400 PBMCs, longitudinal A plasma, visit 1

Healthy control donor PBMCs stimulated with Longitudinal A plasma, visit 1

responder cells: healthy control donor WC066-400 PBMCs stimulated with: 20% plasma from a longitudinally monitored sibling of a T1D patient

WC066-400_0003

Sample_geo_accession	GSM995261
Sample_status	Public on Jun 01 2013
Sample_submission_date	Aug 30 2012
Sample_last_update_date	Jun 01 2013
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 20% of longitudinal T1D 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	PBMCs from healthy individual control donor WC066-400 were isolated using a Histopaque 1077 gradient (Sigma).
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 (v.6.5 (6.11.0321)) to determine signal log ratios. Each sample was independently analyzed (1 array for each time point on the same patient, 6 arrays in total). This time serise data was analysis by S.T.E.M. - Short Time-series Expression Miner.
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/GSM995nnn/GSM995261/suppl/GSM995261_WC066-400_ID2133_0003_070420.CEL.gz
Sample_series_id	GSE40496
Sample_series_id	GSE40498
Sample_data_row_count	54675

GSM995262

GPL570

WC066-400 PBMCs, longitudinal A plasma, visit 2

Healthy control donor PBMCs stimulated with Longitudinal A plasma, visit 2

responder cells: healthy control donor WC066-400 PBMCs stimulated with: 20% plasma from a longitudinally monitored sibling of a T1D patient

WC066-400_0350

Sample_geo_accession	GSM995262
Sample_status	Public on Jun 01 2013
Sample_submission_date	Aug 30 2012
Sample_last_update_date	Jun 01 2013
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 20% of longitudinal T1D 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	PBMCs from healthy individual control donor WC066-400 were isolated using a Histopaque 1077 gradient (Sigma).
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 (v.6.5 (6.11.0321)) to determine signal log ratios. Each sample was independently analyzed (1 array for each time point on the same patient, 6 arrays in total). This time serise data was analysis by S.T.E.M. - Short Time-series Expression Miner.
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/GSM995nnn/GSM995262/suppl/GSM995262_WC066-400_ID2133_0350_070420.CEL.gz
Sample_series_id	GSE40496
Sample_series_id	GSE40498
Sample_data_row_count	54675

GSM995263

GPL570

WC066-400 PBMCs, longitudinal A plasma, visit 3

Healthy control donor PBMCs stimulated with Longitudinal A plasma, visit 3

responder cells: healthy control donor WC066-400 PBMCs stimulated with: 20% plasma from a longitudinally monitored sibling of a T1D patient

WC066-400_1063

Sample_geo_accession	GSM995263
Sample_status	Public on Jun 01 2013
Sample_submission_date	Aug 30 2012
Sample_last_update_date	Jun 01 2013
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 20% of longitudinal T1D 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	PBMCs from healthy individual control donor WC066-400 were isolated using a Histopaque 1077 gradient (Sigma).
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 (v.6.5 (6.11.0321)) to determine signal log ratios. Each sample was independently analyzed (1 array for each time point on the same patient, 6 arrays in total). This time serise data was analysis by S.T.E.M. - Short Time-series Expression Miner.
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/GSM995nnn/GSM995263/suppl/GSM995263_WC066-400_ID2133_1063_070420.CEL.gz
Sample_series_id	GSE40496
Sample_series_id	GSE40498
Sample_data_row_count	54675

GSM995264

GPL570

WC066-400 PBMCs, longitudinal A plasma, visit 4

Healthy control donor PBMCs stimulated with Longitudinal A plasma, visit 4

responder cells: healthy control donor WC066-400 PBMCs stimulated with: 20% plasma from a longitudinally monitored sibling of a T1D patient

WC066-400_1377

Sample_geo_accession	GSM995264
Sample_status	Public on Jun 01 2013
Sample_submission_date	Aug 30 2012
Sample_last_update_date	Jun 01 2013
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 20% of longitudinal T1D 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	PBMCs from healthy individual control donor WC066-400 were isolated using a Histopaque 1077 gradient (Sigma).
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 (v.6.5 (6.11.0321)) to determine signal log ratios. Each sample was independently analyzed (1 array for each time point on the same patient, 6 arrays in total). This time serise data was analysis by S.T.E.M. - Short Time-series Expression Miner.
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/GSM995nnn/GSM995264/suppl/GSM995264_WC066-400_ID2133_1377_070420.CEL.gz
Sample_series_id	GSE40496
Sample_series_id	GSE40498
Sample_data_row_count	54675

GSM995265

GPL570

WC066-400 PBMCs, longitudinal A plasma, visit 5

Healthy control donor PBMCs stimulated with Longitudinal A plasma, visit 5

responder cells: healthy control donor WC066-400 PBMCs stimulated with: 20% plasma from a longitudinally monitored sibling of a T1D patient

WC066-400_1910

Sample_geo_accession	GSM995265
Sample_status	Public on Jun 01 2013
Sample_submission_date	Aug 30 2012
Sample_last_update_date	Jun 01 2013
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 20% of longitudinal T1D 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	PBMCs from healthy individual control donor WC066-400 were isolated using a Histopaque 1077 gradient (Sigma).
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 (v.6.5 (6.11.0321)) to determine signal log ratios. Each sample was independently analyzed (1 array for each time point on the same patient, 6 arrays in total). This time serise data was analysis by S.T.E.M. - Short Time-series Expression Miner.
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/GSM995nnn/GSM995265/suppl/GSM995265_WC066-400_ID2133_1910_070420.CEL.gz
Sample_series_id	GSE40496
Sample_series_id	GSE40498
Sample_data_row_count	54675

GSM995266

GPL570

WC066-400 PBMCs, longitudinal A plasma, visit 6

Healthy control donor PBMCs stimulated with Longitudinal A plasma, visit 6

responder cells: healthy control donor WC066-400 PBMCs stimulated with: 20% plasma from a longitudinally monitored sibling of a T1D patient

WC066-400_2132

Sample_geo_accession	GSM995266
Sample_status	Public on Jun 01 2013
Sample_submission_date	Aug 30 2012
Sample_last_update_date	Jun 01 2013
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 20% of longitudinal T1D 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	PBMCs from healthy individual control donor WC066-400 were isolated using a Histopaque 1077 gradient (Sigma).
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 (v.6.5 (6.11.0321)) to determine signal log ratios. Each sample was independently analyzed (1 array for each time point on the same patient, 6 arrays in total). This time serise data was analysis by S.T.E.M. - Short Time-series Expression Miner.
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/GSM995nnn/GSM995266/suppl/GSM995266_WC066-400_ID2133_2132_070420.CEL.gz
Sample_series_id	GSE40496
Sample_series_id	GSE40498
Sample_data_row_count	54675

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