Search results for the GEO ID: GSE48611  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1182325 | GPL570 |
|
Ts21 iPSC DS1 biological replicate 1
|
Ts21 iPSC DS1
|
condition: DS1
cell type: induced pluripotent stem cells
passage: p24
|
DS1 p24
|
| Sample_geo_accession | GSM1182325
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182325/suppl/GSM1182325_AG1_p24_01132011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182326 | GPL570 |
|
Ts21 iPSC DS1 biological replicate 2
|
Ts21 iPSC DS1
|
condition: DS1
cell type: induced pluripotent stem cells
passage: p25
|
DS1 p25
|
| Sample_geo_accession | GSM1182326
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182326/suppl/GSM1182326_AG1_p25_01132011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182327 | GPL570 |
|
Ts21 iPSC DS1 biological replicate 3
|
Ts21 iPSC DS1
|
condition: DS1
cell type: induced pluripotent stem cells
passage: p31
|
DS1 p31
|
| Sample_geo_accession | GSM1182327
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182327/suppl/GSM1182327_AG1_p31_01132011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182328 | GPL570 |
|
Ts21 iPSC DS4 biological replicate 1
|
Ts21 iPSC DS4
|
condition: DS4
cell type: induced pluripotent stem cells
passage: p28
|
DS4 p28
|
| Sample_geo_accession | GSM1182328
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182328/suppl/GSM1182328_AG4_p28_01132011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182329 | GPL570 |
|
Ts21 iPSC DS4 biological replicate 2
|
Ts21 iPSC DS4
|
condition: DS4
cell type: induced pluripotent stem cells
passage: p29
|
DS4 p29
|
| Sample_geo_accession | GSM1182329
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182329/suppl/GSM1182329_AG4_p29_01132011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182330 | GPL570 |
|
Ts21 iPSC DS4 biological replicate 3
|
Ts21 iPSC DS4
|
condition: DS4
cell type: induced pluripotent stem cells
passage: p34
|
DS4 p34
|
| Sample_geo_accession | GSM1182330
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182330/suppl/GSM1182330_AG4_p34_01132011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182331 | GPL570 |
|
Euploid iPSC DS2U biological replicate 1
|
Euploid iPSC DS2U
|
condition: DS2U
cell type: induced pluripotent stem cells
passage: p46
|
DS2U p46
|
| Sample_geo_accession | GSM1182331
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182331/suppl/GSM1182331_AG2_Eu_p46_03292011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182332 | GPL570 |
|
Euploid iPSC DS2U biological replicate 2
|
Euploid iPSC DS2U
|
condition: DS2U
cell type: induced pluripotent stem cells
passage: p47
|
DS2U p47
|
| Sample_geo_accession | GSM1182332
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182332/suppl/GSM1182332_AG2_Eu_p47_03292011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182333 | GPL570 |
|
Euploid iPSC DS2U biological replicate 3
|
Euploid iPSC DS2U
|
condition: DS2U
cell type: induced pluripotent stem cells
passage: p48
|
DS2U p48
|
| Sample_geo_accession | GSM1182333
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182333/suppl/GSM1182333_AG2_Eu_p48_03292011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182334 | GPL570 |
|
Ts21 DS1 neurons biological replicate 1
|
Ts21 DS1 neurons
|
condition: DS1
cell type: neurons differentiated from human induced pluripotent stem cells
time: day 30
|
DS1 day 30 neurons A
|
| Sample_geo_accession | GSM1182334
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182334/suppl/GSM1182334_AG1_d30_A_neurons_06202011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182335 | GPL570 |
|
Ts21 DS1 neurons biological replicate 2
|
Ts21 DS1 neurons
|
condition: DS1
cell type: neurons differentiated from human induced pluripotent stem cells
time: day 30
|
DS1 day 30 neurons B
|
| Sample_geo_accession | GSM1182335
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182335/suppl/GSM1182335_AG1_d30_b_neurons_06202011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182336 | GPL570 |
|
Ts21 DS1 neurons biological replicate 3
|
Ts21 DS1 neurons
|
condition: DS1
cell type: neurons differentiated from human induced pluripotent stem cells
time: day 30
|
DS1 day 30 neurons C
|
| Sample_geo_accession | GSM1182336
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182336/suppl/GSM1182336_AG1_d30_C_neurons_06202011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182337 | GPL570 |
|
Ts21 DS4 neurons biological replicate 1
|
Ts21 DS4 neurons
|
condition: DS4
cell type: neurons differentiated from human induced pluripotent stem cells
time: day 30
|
DS4 day 30 neurons A
|
| Sample_geo_accession | GSM1182337
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182337/suppl/GSM1182337_AG4_d30_neuronA_03292011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182338 | GPL570 |
|
Ts21 DS4 neurons biological replicate 2
|
Ts21 DS4 neurons
|
condition: DS4
cell type: neurons differentiated from human induced pluripotent stem cells
time: day 30
|
DS4 day 30 neurons B
|
| Sample_geo_accession | GSM1182338
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182338/suppl/GSM1182338_AG4_d30_neuronB_03292011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182339 | GPL570 |
|
Ts21 DS4 neurons biological replicate 3
|
Ts21 DS4 neurons
|
condition: DS4
cell type: neurons differentiated from human induced pluripotent stem cells
time: day 30
|
DS4 day 30 neurons C
|
| Sample_geo_accession | GSM1182339
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182339/suppl/GSM1182339_AG4_d30_neuronC_03292011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182340 | GPL570 |
|
Euploid DS2U neurons biological replicate 1
|
Euploid DS2U neurons
|
condition: DS2U
cell type: neurons differentiated from human induced pluripotent stem cells
time: day 30
|
DS2U day 30 neurons A
|
| Sample_geo_accession | GSM1182340
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182340/suppl/GSM1182340_AG2_d30_neuronA_03292011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182341 | GPL570 |
|
Euploid DS2U neurons biological replicate 2
|
Euploid DS2U neurons
|
condition: DS2U
cell type: neurons differentiated from human induced pluripotent stem cells
time: day 30
|
DS2U day 30 neurons B
|
| Sample_geo_accession | GSM1182341
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182341/suppl/GSM1182341_AG2_d30_neuronB_03292011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
GSM1182342 | GPL570 |
|
Euploid DS2U neurons biological replicate 3
|
Euploid DS2U neurons
|
condition: DS2U
cell type: neurons differentiated from human induced pluripotent stem cells
time: day 30
|
DS2U day 30 neurons C
|
| Sample_geo_accession | GSM1182342
| | Sample_status | Public on Jul 09 2013
| | Sample_submission_date | Jul 09 2013
| | Sample_last_update_date | Jul 09 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | iPSCs were grown on mouse embryo fibroblasts in human embryonic stem cell media and passaged with collagenase. Neurons were differentiated from human iPSCs (grown on MEFs) following previously published protocols (Hu BY, et al. (2010) Proc Natl Acad Sci USA 107(9):4335–4340; Hu BY, Zhang SC (2010) Methods Mol Biol 636(2010):123–137; Zhang SC (2006) Brain Pathol 16(2):132–142; Zhang SC, Wernig M, Duncan ID, Brüstle O, Thomson JA (2001) Nat Biotechnol 19(12):1129–1133).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Extraction of total RNA was performed according using EZRNA to the manufacturer's instructions (Omega Bio-Tek).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Performed using Ambion's MessageAmp™ II aRNA Amplification and Labeling Kit
| | Sample_hyb_protocol | Following Affymetrix recommended protocols and procedures, biotin-labeled cRNA or end-terminus biotin labeled DNA was hybridized to the appropriate GeneChip® overnight in the AFX HybOven480, post processed on the automated Fluidics450 Station.
| | Sample_scan_protocol | Scanned on the GC 3000 G7 Scanner.
| | Sample_data_processing | Data was extracted from the scanned image using AFX Expression Console software. t tests were performed using Genesifter software (Geospiza). lists (Datasets S1–S4). Subsequent analyses used one-way ANOVA followed by Tukey honestly significant difference (HSD) posthoc tests.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Anita,,Bhattacharyya
| | Sample_contact_email | bhattacharyy@waisman.wisc.edu
| | Sample_contact_department | Waisman Center
| | Sample_contact_institute | University of Wisconsin
| | Sample_contact_address | 1500 Highland Avenue
| | Sample_contact_city | Madsion
| | Sample_contact_state | WI
| | Sample_contact_zip/postal_code | 53705
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1182nnn/GSM1182342/suppl/GSM1182342_AG2_d30_neuronC_03292011_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE48611
| | Sample_data_row_count | 54675
| | |
|
| |
| |
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