Search results for the GEO ID: GSE32598  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM808014 | GPL1261 |
|
ViPSCs, rep1
|
VM-deirved iPSCs
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: undifferentiated pluripotent stem cells
cell type: VM-deirved iPSCs
|
|
| Sample_geo_accession | GSM808014
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808014/suppl/GSM808014_C61_KC2011022201.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
GSM808015 | GPL1261 |
|
ViPSCs, rep2
|
VM-deirved iPSCs
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: undifferentiated pluripotent stem cells
cell type: VM-deirved iPSCs
|
|
| Sample_geo_accession | GSM808015
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808015/suppl/GSM808015_C63_KC2011022202.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
GSM808016 | GPL1261 |
|
ViPSCs, rep3
|
VM-deirved iPSCs
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: undifferentiated pluripotent stem cells
cell type: VM-deirved iPSCs
|
|
| Sample_geo_accession | GSM808016
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808016/suppl/GSM808016_C64_KC2011022203.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
GSM808017 | GPL1261 |
|
TiPSCs, rep1
|
TTF-derived iPSCs
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: undifferentiated pluripotent stem cells
cell type: TTF-derived iPSCs
|
|
| Sample_geo_accession | GSM808017
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808017/suppl/GSM808017_T20_KC2011022204.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
GSM808018 | GPL1261 |
|
TiPSCs, rep2
|
TTF-derived iPSCs
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: undifferentiated pluripotent stem cells
cell type: TTF-derived iPSCs
|
|
| Sample_geo_accession | GSM808018
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808018/suppl/GSM808018_T21_KC2011022205.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
GSM808019 | GPL1261 |
|
TiPSCs, rep3
|
TTF-derived iPSCs
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: undifferentiated pluripotent stem cells
cell type: TTF-derived iPSCs
|
|
| Sample_geo_accession | GSM808019
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808019/suppl/GSM808019_T23_KC2011022206.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
GSM808020 | GPL1261 |
|
mESCs, rep1
|
Genetically matched mouse ES cells
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: undifferentiated pluripotent stem cells
cell type: Genetically matched mouse ES cells
|
|
| Sample_geo_accession | GSM808020
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808020/suppl/GSM808020_V16_KC2011022209.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
GSM808021 | GPL1261 |
|
mESCs, rep2
|
Genetically matched mouse ES cells
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: undifferentiated pluripotent stem cells
cell type: Genetically matched mouse ES cells
|
|
| Sample_geo_accession | GSM808021
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808021/suppl/GSM808021_V7_KC2011022208.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
GSM808022 | GPL1261 |
|
mESCs, rep3
|
Genetically matched mouse ES cells
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: undifferentiated pluripotent stem cells
cell type: Genetically matched mouse ES cells
|
|
| Sample_geo_accession | GSM808022
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808022/suppl/GSM808022_V4_KC2011022207.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
GSM808023 | GPL1261 |
|
Tail tip fibroblasts
|
Tail tip fibroblasts
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: postnatal day one
cell type: Tail tip fibroblasts
|
|
| Sample_geo_accession | GSM808023
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808023/suppl/GSM808023_TTF_KC2011022211.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
GSM808024 | GPL1261 |
|
Ventricular cardiomyocytes
|
Ventricular cardiomyocytes
|
genetic background: C57/Bl and BlackSwiss mixed background
developmental stage: postnatal day one
cell type: Ventricular cardiomyocytes
|
|
| Sample_geo_accession | GSM808024
| | Sample_status | Public on Oct 05 2011
| | Sample_submission_date | Oct 04 2011
| | Sample_last_update_date | Oct 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | To dislodge the ES or iPS cells from the culture dishes, the cells were treated with 0.25% trypsin for 5 minutes at 37oC. Culture medium was added to the dishes to stop trypsinization. The cells were dispersed into individual ones, transfered to uncoated cutlure dishes and incubated for 45 minutes for differential plating to remove MEF cells. The ES or iPS cells remaining in the suspension were collected for RNA extraction. Mouse tail tip fibroblasts and ventricular myocytes are derived from postnatal day one pups using standard protocols.
| | Sample_growth_protocol_ch1 | Mouse ES or iPS cells were maintained on irradiated MEF feeders in Dulbecco's Minimum Essential medium (GMEM; GIBCO), supplemented with 15% heat-inactivated fetal bovine serum, 55 mM b-mercaptoethanol (GIBCO), 2mM L-glutamine, 0.1mM MEM non-essential amino acid, 5,000 units/ml penicillin/streptomycin and LIF suppliment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA MiniPrep kit (Qiagen) was used to extract total RNA for analysis.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA was converted into cDNA using a T7 promoter-tailed olilgo-dT primer, and second cDNA systhesis was then carried out. The double-stranded cDNA was used as the template in an in vitro transcription reaction catalyzed by T7 polymerase and containing biotinylated CTP and UTP in addition to the for unmodified ribonucleotide triphosphates.
| | Sample_hyb_protocol | The biotinylated complementary RNA (cRNA) was purified, fragmented and added to a hybridization solution containing several biotinylated control oligonucleotides, and hybridized to a microarray chip overnight at 45oC. The chips were transferred to a fluidics instrument that performed washes to remove cRNA that had not hybridized to its complementary oligonucleotide probe. The bound cRNA was then fluorescently labeled using phycoerythrin-conjugated streptavidin (SAPE); additional fluors were then added using biotinylated anti-streptavidin antibody and additional SAPE.
| | Sample_scan_protocol | Each cRNA bound at its complementary oligonucleotide is excited using a confocal laser scanner, and the positions and intensities of the fluorescent emissions are captured.
| | Sample_data_processing | Raw data (.cel files) were normalized using the RMA method in affy (R/Bioconductor).
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kenneth,,Chien
| | Sample_contact_email | kchien@partners.org
| | Sample_contact_phone | 617-643-3440
| | Sample_contact_fax | 617-643-3451
| | Sample_contact_department | Cardiovascular Research Center
| | Sample_contact_institute | Masschusetts General Hospital
| | Sample_contact_address | Richard B. Simches Research Center, CPZN 3208, 185 Cambridge Street
| | Sample_contact_city | Boston
| | Sample_contact_state | MA
| | Sample_contact_zip/postal_code | 02114
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM808nnn/GSM808024/suppl/GSM808024_VM_KC2011022210.CEL.gz
| | Sample_series_id | GSE32598
| | Sample_data_row_count | 45101
| | |
|
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Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
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