Search results for the GEO ID: GSE26862  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM661349 | GPL570 |
|
hESC, biological rep1
|
H9 human embryonic stem cells
|
cell type: H9 human embryonic stem cells
|
Gene expression data from human embryonic stem cells and FACS purified endodermal progeny
|
| Sample_geo_accession | GSM661349
| | Sample_status | Public on Mar 15 2011
| | Sample_submission_date | Jan 25 2011
| | Sample_last_update_date | Mar 15 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For stage 1, 90% confluent hESC were cultured in RPMI with 25ng/ml Wnt3a and 100ng/ml Activin A for one day. then changed to RPMI with 0.2% FBS and 100ng/ml Activin A for two days. To stage 2, the medium was changed to RPMI with 2% FBS, 50 ng/ml human FGF10 and 0.25μM KAAD-cyclopamine for 3 days.
| | Sample_growth_protocol_ch1 | The human embryonic stem cell lines H9 and modified lin hSOX17-2 were grown on irradiated CD1 mouse embryonic feeder cells in DMEM/F12 supplemented with 20% (vol/vol) knockout serum replacement, FGF2 (8 ng/ml), 3 mM L-glutamine, 0.1 mM nonessential amino acids and 0.1 mM b-mercaptoethanol.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using PicoPure RNA isolation kit (MDS Analytical Technologies, Cat# KIT0204).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100ng of total RNA was amplyfied using NuGEN Ovation RNA amplification System V2. Biotinylated cDNA were prepared according to NuGEN FL-Ovation cDNA Biotin Module V2 kit from 3.75 ug single stain cDNA
| | Sample_hyb_protocol | Following fragmentation, 3.75ug of single strain cDNA were hybridized for 16 hr at 45C onAffymetrix Human Genome U133 Plus 2.0 Array in Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | The data were generated with Affymetrix GeneChip Operating Software (GCOS). Microarray data was normalized and summarized by the Robust Multi-chip Averaging (RMA) algorithm using GeneSpring GX 11 (Agilent).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Pei,,Wang
| | Sample_contact_laboratory | Seung Kim
| | Sample_contact_department | Dev. Bio.
| | Sample_contact_institute | Stanford University
| | Sample_contact_address | 279 Campus Dr.
| | Sample_contact_city | Stanford
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94305
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM661nnn/GSM661349/suppl/GSM661349.CEL.gz
| | Sample_series_id | GSE26862
| | Sample_data_row_count | 54675
| | |
|
GSM661350 | GPL570 |
|
hESC, biological rep2
|
H9 human embryonic stem cells
|
cell type: H9 human embryonic stem cells
|
Gene expression data from human embryonic stem cells and FACS purified endodermal progeny
|
| Sample_geo_accession | GSM661350
| | Sample_status | Public on Mar 15 2011
| | Sample_submission_date | Jan 25 2011
| | Sample_last_update_date | Mar 15 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For stage 1, 90% confluent hESC were cultured in RPMI with 25ng/ml Wnt3a and 100ng/ml Activin A for one day. then changed to RPMI with 0.2% FBS and 100ng/ml Activin A for two days. To stage 2, the medium was changed to RPMI with 2% FBS, 50 ng/ml human FGF10 and 0.25μM KAAD-cyclopamine for 3 days.
| | Sample_growth_protocol_ch1 | The human embryonic stem cell lines H9 and modified lin hSOX17-2 were grown on irradiated CD1 mouse embryonic feeder cells in DMEM/F12 supplemented with 20% (vol/vol) knockout serum replacement, FGF2 (8 ng/ml), 3 mM L-glutamine, 0.1 mM nonessential amino acids and 0.1 mM b-mercaptoethanol.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using PicoPure RNA isolation kit (MDS Analytical Technologies, Cat# KIT0204).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100ng of total RNA was amplyfied using NuGEN Ovation RNA amplification System V2. Biotinylated cDNA were prepared according to NuGEN FL-Ovation cDNA Biotin Module V2 kit from 3.75 ug single stain cDNA
| | Sample_hyb_protocol | Following fragmentation, 3.75ug of single strain cDNA were hybridized for 16 hr at 45C onAffymetrix Human Genome U133 Plus 2.0 Array in Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | The data were generated with Affymetrix GeneChip Operating Software (GCOS). Microarray data was normalized and summarized by the Robust Multi-chip Averaging (RMA) algorithm using GeneSpring GX 11 (Agilent).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Pei,,Wang
| | Sample_contact_laboratory | Seung Kim
| | Sample_contact_department | Dev. Bio.
| | Sample_contact_institute | Stanford University
| | Sample_contact_address | 279 Campus Dr.
| | Sample_contact_city | Stanford
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94305
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM661nnn/GSM661350/suppl/GSM661350.CEL.gz
| | Sample_series_id | GSE26862
| | Sample_data_row_count | 54675
| | |
|
GSM661351 | GPL570 |
|
hESC, biological rep3
|
H9 human embryonic stem cells
|
cell type: H9 human embryonic stem cells
|
Gene expression data from human embryonic stem cells and FACS purified endodermal progeny
|
| Sample_geo_accession | GSM661351
| | Sample_status | Public on Mar 15 2011
| | Sample_submission_date | Jan 25 2011
| | Sample_last_update_date | Mar 15 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For stage 1, 90% confluent hESC were cultured in RPMI with 25ng/ml Wnt3a and 100ng/ml Activin A for one day. then changed to RPMI with 0.2% FBS and 100ng/ml Activin A for two days. To stage 2, the medium was changed to RPMI with 2% FBS, 50 ng/ml human FGF10 and 0.25μM KAAD-cyclopamine for 3 days.
| | Sample_growth_protocol_ch1 | The human embryonic stem cell lines H9 and modified lin hSOX17-2 were grown on irradiated CD1 mouse embryonic feeder cells in DMEM/F12 supplemented with 20% (vol/vol) knockout serum replacement, FGF2 (8 ng/ml), 3 mM L-glutamine, 0.1 mM nonessential amino acids and 0.1 mM b-mercaptoethanol.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using PicoPure RNA isolation kit (MDS Analytical Technologies, Cat# KIT0204).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100ng of total RNA was amplyfied using NuGEN Ovation RNA amplification System V2. Biotinylated cDNA were prepared according to NuGEN FL-Ovation cDNA Biotin Module V2 kit from 3.75 ug single stain cDNA
| | Sample_hyb_protocol | Following fragmentation, 3.75ug of single strain cDNA were hybridized for 16 hr at 45C onAffymetrix Human Genome U133 Plus 2.0 Array in Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | The data were generated with Affymetrix GeneChip Operating Software (GCOS). Microarray data was normalized and summarized by the Robust Multi-chip Averaging (RMA) algorithm using GeneSpring GX 11 (Agilent).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Pei,,Wang
| | Sample_contact_laboratory | Seung Kim
| | Sample_contact_department | Dev. Bio.
| | Sample_contact_institute | Stanford University
| | Sample_contact_address | 279 Campus Dr.
| | Sample_contact_city | Stanford
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94305
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM661nnn/GSM661351/suppl/GSM661351.CEL.gz
| | Sample_series_id | GSE26862
| | Sample_data_row_count | 54675
| | |
|
GSM661352 | GPL570 |
|
stage1 SOX17+, biological rep1
|
hSOX17-2 derived stage 1 endoderm
|
cell type: hSOX17-2 derived stage 1 endoderm
|
Gene expression data from human embryonic stem cells and FACS purified endodermal progeny
|
| Sample_geo_accession | GSM661352
| | Sample_status | Public on Mar 15 2011
| | Sample_submission_date | Jan 25 2011
| | Sample_last_update_date | Mar 15 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For stage 1, 90% confluent hESC were cultured in RPMI with 25ng/ml Wnt3a and 100ng/ml Activin A for one day. then changed to RPMI with 0.2% FBS and 100ng/ml Activin A for two days. To stage 2, the medium was changed to RPMI with 2% FBS, 50 ng/ml human FGF10 and 0.25μM KAAD-cyclopamine for 3 days.
| | Sample_growth_protocol_ch1 | The human embryonic stem cell lines H9 and modified lin hSOX17-2 were grown on irradiated CD1 mouse embryonic feeder cells in DMEM/F12 supplemented with 20% (vol/vol) knockout serum replacement, FGF2 (8 ng/ml), 3 mM L-glutamine, 0.1 mM nonessential amino acids and 0.1 mM b-mercaptoethanol.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using PicoPure RNA isolation kit (MDS Analytical Technologies, Cat# KIT0204).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100ng of total RNA was amplyfied using NuGEN Ovation RNA amplification System V2. Biotinylated cDNA were prepared according to NuGEN FL-Ovation cDNA Biotin Module V2 kit from 3.75 ug single stain cDNA
| | Sample_hyb_protocol | Following fragmentation, 3.75ug of single strain cDNA were hybridized for 16 hr at 45C onAffymetrix Human Genome U133 Plus 2.0 Array in Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | The data were generated with Affymetrix GeneChip Operating Software (GCOS). Microarray data was normalized and summarized by the Robust Multi-chip Averaging (RMA) algorithm using GeneSpring GX 11 (Agilent).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Pei,,Wang
| | Sample_contact_laboratory | Seung Kim
| | Sample_contact_department | Dev. Bio.
| | Sample_contact_institute | Stanford University
| | Sample_contact_address | 279 Campus Dr.
| | Sample_contact_city | Stanford
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94305
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM661nnn/GSM661352/suppl/GSM661352.CEL.gz
| | Sample_series_id | GSE26862
| | Sample_data_row_count | 54675
| | |
|
GSM661353 | GPL570 |
|
stage1 SOX17+, biological rep2
|
hSOX17-2 derived stage 1 endoderm
|
cell type: hSOX17-2 derived stage 1 endoderm
|
Gene expression data from human embryonic stem cells and FACS purified endodermal progeny
|
| Sample_geo_accession | GSM661353
| | Sample_status | Public on Mar 15 2011
| | Sample_submission_date | Jan 25 2011
| | Sample_last_update_date | Mar 15 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For stage 1, 90% confluent hESC were cultured in RPMI with 25ng/ml Wnt3a and 100ng/ml Activin A for one day. then changed to RPMI with 0.2% FBS and 100ng/ml Activin A for two days. To stage 2, the medium was changed to RPMI with 2% FBS, 50 ng/ml human FGF10 and 0.25μM KAAD-cyclopamine for 3 days.
| | Sample_growth_protocol_ch1 | The human embryonic stem cell lines H9 and modified lin hSOX17-2 were grown on irradiated CD1 mouse embryonic feeder cells in DMEM/F12 supplemented with 20% (vol/vol) knockout serum replacement, FGF2 (8 ng/ml), 3 mM L-glutamine, 0.1 mM nonessential amino acids and 0.1 mM b-mercaptoethanol.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using PicoPure RNA isolation kit (MDS Analytical Technologies, Cat# KIT0204).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100ng of total RNA was amplyfied using NuGEN Ovation RNA amplification System V2. Biotinylated cDNA were prepared according to NuGEN FL-Ovation cDNA Biotin Module V2 kit from 3.75 ug single stain cDNA
| | Sample_hyb_protocol | Following fragmentation, 3.75ug of single strain cDNA were hybridized for 16 hr at 45C onAffymetrix Human Genome U133 Plus 2.0 Array in Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | The data were generated with Affymetrix GeneChip Operating Software (GCOS). Microarray data was normalized and summarized by the Robust Multi-chip Averaging (RMA) algorithm using GeneSpring GX 11 (Agilent).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Pei,,Wang
| | Sample_contact_laboratory | Seung Kim
| | Sample_contact_department | Dev. Bio.
| | Sample_contact_institute | Stanford University
| | Sample_contact_address | 279 Campus Dr.
| | Sample_contact_city | Stanford
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94305
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM661nnn/GSM661353/suppl/GSM661353.CEL.gz
| | Sample_series_id | GSE26862
| | Sample_data_row_count | 54675
| | |
|
GSM661354 | GPL570 |
|
stage1 SOX17+, biological rep3
|
hSOX17-2 derived stage 1 endoderm
|
cell type: hSOX17-2 derived stage 1 endoderm
|
Gene expression data from human embryonic stem cells and FACS purified endodermal progeny
|
| Sample_geo_accession | GSM661354
| | Sample_status | Public on Mar 15 2011
| | Sample_submission_date | Jan 25 2011
| | Sample_last_update_date | Mar 15 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For stage 1, 90% confluent hESC were cultured in RPMI with 25ng/ml Wnt3a and 100ng/ml Activin A for one day. then changed to RPMI with 0.2% FBS and 100ng/ml Activin A for two days. To stage 2, the medium was changed to RPMI with 2% FBS, 50 ng/ml human FGF10 and 0.25μM KAAD-cyclopamine for 3 days.
| | Sample_growth_protocol_ch1 | The human embryonic stem cell lines H9 and modified lin hSOX17-2 were grown on irradiated CD1 mouse embryonic feeder cells in DMEM/F12 supplemented with 20% (vol/vol) knockout serum replacement, FGF2 (8 ng/ml), 3 mM L-glutamine, 0.1 mM nonessential amino acids and 0.1 mM b-mercaptoethanol.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using PicoPure RNA isolation kit (MDS Analytical Technologies, Cat# KIT0204).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100ng of total RNA was amplyfied using NuGEN Ovation RNA amplification System V2. Biotinylated cDNA were prepared according to NuGEN FL-Ovation cDNA Biotin Module V2 kit from 3.75 ug single stain cDNA
| | Sample_hyb_protocol | Following fragmentation, 3.75ug of single strain cDNA were hybridized for 16 hr at 45C onAffymetrix Human Genome U133 Plus 2.0 Array in Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | The data were generated with Affymetrix GeneChip Operating Software (GCOS). Microarray data was normalized and summarized by the Robust Multi-chip Averaging (RMA) algorithm using GeneSpring GX 11 (Agilent).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Pei,,Wang
| | Sample_contact_laboratory | Seung Kim
| | Sample_contact_department | Dev. Bio.
| | Sample_contact_institute | Stanford University
| | Sample_contact_address | 279 Campus Dr.
| | Sample_contact_city | Stanford
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94305
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM661nnn/GSM661354/suppl/GSM661354.CEL.gz
| | Sample_series_id | GSE26862
| | Sample_data_row_count | 54675
| | |
|
GSM661355 | GPL570 |
|
stage2 SOX17+, biological rep1
|
hSOX17-2 derived stage 2 endoderm
|
cell type: hSOX17-2 derived stage 2 endoderm
|
Gene expression data from human embryonic stem cells and FACS purified endodermal progeny
|
| Sample_geo_accession | GSM661355
| | Sample_status | Public on Mar 15 2011
| | Sample_submission_date | Jan 25 2011
| | Sample_last_update_date | Mar 15 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For stage 1, 90% confluent hESC were cultured in RPMI with 25ng/ml Wnt3a and 100ng/ml Activin A for one day. then changed to RPMI with 0.2% FBS and 100ng/ml Activin A for two days. To stage 2, the medium was changed to RPMI with 2% FBS, 50 ng/ml human FGF10 and 0.25μM KAAD-cyclopamine for 3 days.
| | Sample_growth_protocol_ch1 | The human embryonic stem cell lines H9 and modified lin hSOX17-2 were grown on irradiated CD1 mouse embryonic feeder cells in DMEM/F12 supplemented with 20% (vol/vol) knockout serum replacement, FGF2 (8 ng/ml), 3 mM L-glutamine, 0.1 mM nonessential amino acids and 0.1 mM b-mercaptoethanol.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using PicoPure RNA isolation kit (MDS Analytical Technologies, Cat# KIT0204).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100ng of total RNA was amplyfied using NuGEN Ovation RNA amplification System V2. Biotinylated cDNA were prepared according to NuGEN FL-Ovation cDNA Biotin Module V2 kit from 3.75 ug single stain cDNA
| | Sample_hyb_protocol | Following fragmentation, 3.75ug of single strain cDNA were hybridized for 16 hr at 45C onAffymetrix Human Genome U133 Plus 2.0 Array in Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | The data were generated with Affymetrix GeneChip Operating Software (GCOS). Microarray data was normalized and summarized by the Robust Multi-chip Averaging (RMA) algorithm using GeneSpring GX 11 (Agilent).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Pei,,Wang
| | Sample_contact_laboratory | Seung Kim
| | Sample_contact_department | Dev. Bio.
| | Sample_contact_institute | Stanford University
| | Sample_contact_address | 279 Campus Dr.
| | Sample_contact_city | Stanford
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94305
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM661nnn/GSM661355/suppl/GSM661355.CEL.gz
| | Sample_series_id | GSE26862
| | Sample_data_row_count | 54675
| | |
|
GSM661356 | GPL570 |
|
stage2 SOX17+, biological rep2
|
hSOX17-2 derived stage 2 endoderm
|
cell type: hSOX17-2 derived stage 2 endoderm
|
Gene expression data from human embryonic stem cells and FACS purified endodermal progeny
|
| Sample_geo_accession | GSM661356
| | Sample_status | Public on Mar 15 2011
| | Sample_submission_date | Jan 25 2011
| | Sample_last_update_date | Mar 15 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For stage 1, 90% confluent hESC were cultured in RPMI with 25ng/ml Wnt3a and 100ng/ml Activin A for one day. then changed to RPMI with 0.2% FBS and 100ng/ml Activin A for two days. To stage 2, the medium was changed to RPMI with 2% FBS, 50 ng/ml human FGF10 and 0.25μM KAAD-cyclopamine for 3 days.
| | Sample_growth_protocol_ch1 | The human embryonic stem cell lines H9 and modified lin hSOX17-2 were grown on irradiated CD1 mouse embryonic feeder cells in DMEM/F12 supplemented with 20% (vol/vol) knockout serum replacement, FGF2 (8 ng/ml), 3 mM L-glutamine, 0.1 mM nonessential amino acids and 0.1 mM b-mercaptoethanol.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using PicoPure RNA isolation kit (MDS Analytical Technologies, Cat# KIT0204).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100ng of total RNA was amplyfied using NuGEN Ovation RNA amplification System V2. Biotinylated cDNA were prepared according to NuGEN FL-Ovation cDNA Biotin Module V2 kit from 3.75 ug single stain cDNA
| | Sample_hyb_protocol | Following fragmentation, 3.75ug of single strain cDNA were hybridized for 16 hr at 45C onAffymetrix Human Genome U133 Plus 2.0 Array in Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | The data were generated with Affymetrix GeneChip Operating Software (GCOS). Microarray data was normalized and summarized by the Robust Multi-chip Averaging (RMA) algorithm using GeneSpring GX 11 (Agilent).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Pei,,Wang
| | Sample_contact_laboratory | Seung Kim
| | Sample_contact_department | Dev. Bio.
| | Sample_contact_institute | Stanford University
| | Sample_contact_address | 279 Campus Dr.
| | Sample_contact_city | Stanford
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94305
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM661nnn/GSM661356/suppl/GSM661356.CEL.gz
| | Sample_series_id | GSE26862
| | Sample_data_row_count | 54675
| | |
|
GSM661357 | GPL570 |
|
stage2 SOX17+, biological rep3
|
hSOX17-2 derived stage 2 endoderm
|
cell type: hSOX17-2 derived stage 2 endoderm
|
Gene expression data from human embryonic stem cells and FACS purified endodermal progeny
|
| Sample_geo_accession | GSM661357
| | Sample_status | Public on Mar 15 2011
| | Sample_submission_date | Jan 25 2011
| | Sample_last_update_date | Mar 15 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | For stage 1, 90% confluent hESC were cultured in RPMI with 25ng/ml Wnt3a and 100ng/ml Activin A for one day. then changed to RPMI with 0.2% FBS and 100ng/ml Activin A for two days. To stage 2, the medium was changed to RPMI with 2% FBS, 50 ng/ml human FGF10 and 0.25μM KAAD-cyclopamine for 3 days.
| | Sample_growth_protocol_ch1 | The human embryonic stem cell lines H9 and modified lin hSOX17-2 were grown on irradiated CD1 mouse embryonic feeder cells in DMEM/F12 supplemented with 20% (vol/vol) knockout serum replacement, FGF2 (8 ng/ml), 3 mM L-glutamine, 0.1 mM nonessential amino acids and 0.1 mM b-mercaptoethanol.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using PicoPure RNA isolation kit (MDS Analytical Technologies, Cat# KIT0204).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100ng of total RNA was amplyfied using NuGEN Ovation RNA amplification System V2. Biotinylated cDNA were prepared according to NuGEN FL-Ovation cDNA Biotin Module V2 kit from 3.75 ug single stain cDNA
| | Sample_hyb_protocol | Following fragmentation, 3.75ug of single strain cDNA were hybridized for 16 hr at 45C onAffymetrix Human Genome U133 Plus 2.0 Array in Affymetrix GeneChip Hybridization Oven 640. GeneChips were washed in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
| | Sample_data_processing | The data were generated with Affymetrix GeneChip Operating Software (GCOS). Microarray data was normalized and summarized by the Robust Multi-chip Averaging (RMA) algorithm using GeneSpring GX 11 (Agilent).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Pei,,Wang
| | Sample_contact_laboratory | Seung Kim
| | Sample_contact_department | Dev. Bio.
| | Sample_contact_institute | Stanford University
| | Sample_contact_address | 279 Campus Dr.
| | Sample_contact_city | Stanford
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94305
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM661nnn/GSM661357/suppl/GSM661357.CEL.gz
| | Sample_series_id | GSE26862
| | Sample_data_row_count | 54675
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Make groups for comparisons |
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| Select GSMs and click on "Add groups" |
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