Search results for the GEO ID: GSE25970  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM637758 | GPL3921 |
|
HUES1
|
Human ES cell line HUES1, harvested at passage 28
|
cell line: HUES1
Sex: female
passage number: 28
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637758
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637758/suppl/GSM637758.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637759 | GPL3921 |
|
HUES3
|
Human ES cell line HUES3, harvested at passage 27
|
cell line: HUES3
Sex: male
passage number: 27
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637759
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637759/suppl/GSM637759.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637760 | GPL3921 |
|
HUES6
|
Human ES cell line HUES6, harvested at passage 23
|
cell line: HUES6
Sex: female
passage number: 23
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637760
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637760/suppl/GSM637760.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637761 | GPL3921 |
|
HUES8
|
Human ES cell line HUES8, harvested at passage 30
|
cell line: HUES8
Sex: male
passage number: 30
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637761
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637761/suppl/GSM637761.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637762 | GPL3921 |
|
HUES9
|
Human ES cell line HUES9, harvested at passage 24
|
cell line: HUES9
Sex: female
passage number: 24
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637762
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637762/suppl/GSM637762.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637763 | GPL3921 |
|
HUES13
|
Human ES cell line HUES13, harvested at passage 46
|
cell line: HUES13
Sex: male
passage number: 46
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637763
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637763/suppl/GSM637763.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637764 | GPL3921 |
|
HUES28
|
Human ES cell line HUES28, harvested at passage 17
|
cell line: HUES28
Sex: female
passage number: 17
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637764
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637764/suppl/GSM637764.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637765 | GPL3921 |
|
HUES44
|
Human ES cell line HUES44, harvested at passage 18
|
cell line: HUES44
Sex: female
passage number: 18
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637765
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637765/suppl/GSM637765.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637766 | GPL3921 |
|
HUES45
|
Human ES cell line HUES45, harvested at passage 20
|
cell line: HUES45
Sex: female
passage number: 20
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637766
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637766/suppl/GSM637766.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637767 | GPL3921 |
|
HUES48
|
Human ES cell line HUES48, harvested at passage 19
|
cell line: HUES48
Sex: female
passage number: 19
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637767
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637767/suppl/GSM637767.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637768 | GPL3921 |
|
HUES49
|
Human ES cell line HUES49, harvested at passage 17
|
cell line: HUES49
Sex: female
passage number: 17
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637768
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637768/suppl/GSM637768.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637769 | GPL3921 |
|
HUES53
|
Human ES cell line HUES53, harvested at passage 18
|
cell line: HUES53
Sex: male
passage number: 18
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637769
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637769/suppl/GSM637769.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637770 | GPL3921 |
|
HUES62
|
Human ES cell line HUES62, harvested at passage 17
|
cell line: HUES62
Sex: female
passage number: 17
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637770
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637770/suppl/GSM637770.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637771 | GPL3921 |
|
HUES63
|
Human ES cell line HUES63, harvested at passage 14
|
cell line: HUES63
Sex: male
passage number: 14
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637771
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637771/suppl/GSM637771.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637772 | GPL3921 |
|
HUES64
|
Human ES cell line HUES64, harvested at passage 19
|
cell line: HUES64
Sex: male
passage number: 19
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637772
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637772/suppl/GSM637772.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637773 | GPL3921 |
|
HUES65
|
Human ES cell line HUES65, harvested at passage 19
|
cell line: HUES65
Sex: male
passage number: 19
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637773
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637773/suppl/GSM637773.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637774 | GPL3921 |
|
HUES66
|
Human ES cell line HUES66, harvested at passage 20
|
cell line: HUES66
Sex: female
passage number: 20
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637774
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637774/suppl/GSM637774.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637775 | GPL3921 |
|
H1
|
Human ES cell line H1, harvested at passage 37
|
cell line: H1
Sex: male
passage number: 37
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637775
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637775/suppl/GSM637775.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637776 | GPL3921 |
|
H7
|
Human ES cell line H7, harvested at passage 48
|
cell line: H7
Sex: female
passage number: 48
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637776
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637776/suppl/GSM637776.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637777 | GPL3921 |
|
H9
|
Human ES cell line H9, harvested at passage 65
|
cell line: H9
Sex: female
passage number: 65
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637777
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637777/suppl/GSM637777.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637778 | GPL3921 |
|
hiPS 11a
|
Human iPS cell line 11a, harvested at passage 22
|
cell line: hiPS 11a
Sex: male
passage number: 22
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637778
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637778/suppl/GSM637778.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637779 | GPL3921 |
|
hiPS 11b
|
Human iPS cell line 11b, harvested at passage 13
|
cell line: hiPS 11b
Sex: male
passage number: 13
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637779
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637779/suppl/GSM637779.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637780 | GPL3921 |
|
hiPS 11c
|
Human iPS cell line 11c, harvested at passage 18
|
cell line: hiPS 11c
Sex: male
passage number: 18
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637780
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637780/suppl/GSM637780.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637781 | GPL3921 |
|
hiPS 15b
|
Human iPS cell line 15b, harvested at passage 16
|
cell line: hiPS 15b
Sex: female
passage number: 16
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637781
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637781/suppl/GSM637781.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637782 | GPL3921 |
|
hiPS 17a
|
Human iPS cell line 17a, harvested at passage 12
|
cell line: hiPS 17a
Sex: female
passage number: 12
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637782
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637782/suppl/GSM637782.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637783 | GPL3921 |
|
hiPS 17b
|
Human iPS cell line 17b, harvested at passage 32
|
cell line: hiPS 17b
Sex: female
passage number: 32
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637783
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637783/suppl/GSM637783.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637784 | GPL3921 |
|
hiPS 18a
|
Human iPS cell line 18a, harvested at passage 30
|
cell line: hiPS 18a
Sex: female
passage number: 30
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637784
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637784/suppl/GSM637784.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637785 | GPL3921 |
|
hiPS 18b
|
Human iPS cell line 18b, harvested at passage 27
|
cell line: hiPS 18b
Sex: female
passage number: 27
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637785
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637785/suppl/GSM637785.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637786 | GPL3921 |
|
hiPS 18c
|
Human iPS cell line 18c, harvested at passage 27
|
cell line: hiPS 18c
Sex: female
passage number: 27
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637786
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637786/suppl/GSM637786.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637787 | GPL3921 |
|
hiPS 20b
|
Human iPS cell line 20b, harvested at passage 43
|
cell line: hiPS 20b
Sex: male
passage number: 43
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637787
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637787/suppl/GSM637787.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637788 | GPL3921 |
|
hiPS 27b
|
Human iPS cell line 27b, harvested at passage 31
|
cell line: hiPS 27b
Sex: female
passage number: 31
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637788
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637788/suppl/GSM637788.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637789 | GPL3921 |
|
hiPS 27e
|
Human iPS cell line 27e, harvested at passage 30
|
cell line: hiPS 27e
Sex: female
passage number: 30
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637789
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637789/suppl/GSM637789.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637790 | GPL3921 |
|
hFib 11
|
Human fibroblast cell line 11, harvested at passage 8
|
cell line: hFib 11
Sex: male
passage number: 8
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637790
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637790/suppl/GSM637790.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637791 | GPL3921 |
|
hFib 15
|
Human fibroblast cell line 15, harvested at passage 7
|
cell line: hFib 15
Sex: female
passage number: 7
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637791
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637791/suppl/GSM637791.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637792 | GPL3921 |
|
hFib 17
|
Human fibroblast cell line 17, harvested at passage 7
|
cell line: hFib 17
Sex: female
passage number: 7
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637792
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637792/suppl/GSM637792.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637793 | GPL3921 |
|
hFib 18
|
Human fibroblast cell line 18, harvested at passage 7
|
cell line: hFib 18
Sex: female
passage number: 7
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637793
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637793/suppl/GSM637793.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637794 | GPL3921 |
|
hFib 20
|
Human fibroblast cell line 20, harvested at passage 7
|
cell line: hFib 20
Sex: male
passage number: 7
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637794
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637794/suppl/GSM637794.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637795 | GPL3921 |
|
hFib 27
|
Human fibroblast cell line 27, harvested at passage 7
|
cell line: hFib 27
Sex: female
passage number: 7
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637795
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637795/suppl/GSM637795.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637796 | GPL3921 |
|
hEB16d HUES1
|
Human embryoid body derived from HUES1 passage 29
|
cell line: hEB16d HUES1
Sex: female
passage number: 29
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637796
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637796/suppl/GSM637796.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637797 | GPL3921 |
|
hEB16d HUES3
|
Human embryoid body derived from HUES3 passage 22
|
cell line: hEB16d HUES3
Sex: male
passage number: 22
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637797
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637797/suppl/GSM637797.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637798 | GPL3921 |
|
hEB16d HUES6
|
Human embryoid body derived from HUES6 passage 30
|
cell line: hEB16d HUES6
Sex: female
passage number: 30
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637798
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637798/suppl/GSM637798.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
| | |
|
GSM637799 | GPL3921 |
|
hEB16d HUES45
|
Human embryoid body derived from HUES45 passage 21
|
cell line: hEB16d HUES45
Sex: female
passage number: 21
|
Cultured under normal growth conditions
|
| Sample_geo_accession | GSM637799
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637799/suppl/GSM637799.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
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GSM637800 | GPL3921 |
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hEB16d H1
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Human embryoid body derived from H1 passage 38
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cell line: hEB16d H1
Sex: male
passage number: 38
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Cultured under normal growth conditions
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| Sample_geo_accession | GSM637800
| | Sample_status | Public on Feb 03 2011
| | Sample_submission_date | Dec 09 2010
| | Sample_last_update_date | Feb 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Embryoid body (EB) differentiation was performed as follows: Undifferentiated cells were harvested using dispase or trypsin and plated in suspension in low-adherence plates in the presence of human ES cell culture media without bFGF and plasmanate. Cell aggregates (EBs) were allowed to grow for a total of 16 days, refreshing media every 48h.
| | Sample_growth_protocol_ch1 | The pluripotent cell lines were grown in human ES media consisting of KO-DMEM (Invitrogen), 10% KOSR (Invitrogen), 10% plasmanate (Talecris), 1% glutamax or L-glutamin, non-essential amino acids, penicillin/streptomycin, 0.1% 2-mercaptoethanol and 10-20ng/ml bFGF. All pluripotent cells were grown on a monolayer of irradiated CF1-MEFs (GlobalStem) and passaged using trypsin (0.05%) or dispase (Invitrogen). Before collection of RNA for analysis, ES and iPS cells were either isolated using trypsin (0.05%) or dispase, or plated on matrigel (BD Biosciences) for one passage and fed with human ES cell media conditioned in CF1-MEFs for 24h.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using RNeasy kit (Qiagen) according to manufacturer’s recommendation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA from the samples was normalized to 50 ng/ul and the GeneChip 3’ IVT Express Protocol was used for amplification in a semi automated process. The total RNA underwent reverse transcription to synthesize first-strand cDNA. This cDNA was then converted into a double-stranded DNA template for transcription. In vitro transcription synthesized aRNA and incorporated a biotin-conjugated nucleotide. The aRNA was then purified to remove unincorporated NTPs, salts, enzymes, and inorganic phosphate. Fragmentation of the biotin-labeled aRNA prepared the samples for hybridization on the microarray.
| | Sample_hyb_protocol | The hybridization and subsequent washing and staining were performed on the Affymetrix GeneChip® Array Station (GCAS) automation platform.
| | Sample_scan_protocol | The microarrays were scanned on the GeneChip® HT Array Plate Scanner (Affymetrix 00-0332).
| | Sample_data_processing | The data were normalized using GCRMA and Bioconductor 2.4 with default parameters.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Christoph,,Bock
| | Sample_contact_email | cbock@cemm.oeaw.ac.at
| | Sample_contact_institute | CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
| | Sample_contact_address | Lazarettgasse 14
| | Sample_contact_city | Vienna
| | Sample_contact_zip/postal_code | 1090
| | Sample_contact_country | Austria
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM637nnn/GSM637800/suppl/GSM637800.cel.gz
| | Sample_series_id | GSE25970
| | Sample_data_row_count | 22277
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