Search results for the GEO ID: GSE27455  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM678445 | GPL1261 |
|
MouseESC_Tcf3WT_ControlMedia_replicate01
|
embryonic stem cells
|
genotype: TCF3+/+
treatment: control
|
Tcf3+/+ mouse ESC cultured in standard self rernewal conditions
|
| Sample_geo_accession | GSM678445
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678445/suppl/GSM678445_WT_Con_01.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
| | |
|
GSM678446 | GPL1261 |
|
MouseESC_Tcf3WT_ControlMedia_replicate02
|
embryonic stem cells
|
genotype: TCF3+/+
treatment: control
|
Tcf3+/+ mouse ESC cultured in standard self rernewal conditions
|
| Sample_geo_accession | GSM678446
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678446/suppl/GSM678446_WT_Con_02.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
| | |
|
GSM678447 | GPL1261 |
|
MouseESC_Tcf3WT_ControlMedia_replicate03
|
embryonic stem cells
|
genotype: TCF3+/+
treatment: control
|
Tcf3+/+ mouse ESC cultured in standard self rernewal conditions
|
| Sample_geo_accession | GSM678447
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678447/suppl/GSM678447_WT_Con_03.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
| | |
|
GSM678448 | GPL1261 |
|
MouseESC_Tcf3KO_ControlMedia_replicate01
|
embryonic stem cells
|
genotype: TCF3-/-
treatment: control
|
Tcf3-/- mouse ESC cultured in standard self rernewal conditions
|
| Sample_geo_accession | GSM678448
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678448/suppl/GSM678448_KO_Con_01.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
| | |
|
GSM678449 | GPL1261 |
|
MouseESC_Tcf3KO_ControlMedia_replicate02
|
embryonic stem cells
|
genotype: TCF3-/-
treatment: control
|
Tcf3-/- mouse ESC cultured in standard self rernewal conditions
|
| Sample_geo_accession | GSM678449
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678449/suppl/GSM678449_KO_Con_02.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
| | |
|
GSM678450 | GPL1261 |
|
MouseESC_Tcf3KO_ControlMedia_replicate03
|
embryonic stem cells
|
genotype: TCF3-/-
treatment: control
|
Tcf3-/- mouse ESC cultured in standard self rernewal conditions
|
| Sample_geo_accession | GSM678450
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678450/suppl/GSM678450_KO_Con_03.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
| | |
|
GSM678451 | GPL1261 |
|
MouseESC_Tcf3WT_WntMedia_replicate01
|
embryonic stem cells
|
genotype: TCF3+/+
treatment: 50ng/ml recombinant Wnt3a
|
Tcf3+/+ mouse ESC cultured in standard self rernewal conditions + Wnt3a for 24hrs
|
| Sample_geo_accession | GSM678451
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | 50ng/ml recombinant Wnt3a (#1324-WN, R&D Systems) was added 24hrs prior to RNA isolation.
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678451/suppl/GSM678451_WT_Wnt_01.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
| | |
|
GSM678452 | GPL1261 |
|
MouseESC_Tcf3WT_WntMedia_replicate02
|
embryonic stem cells
|
genotype: TCF3+/+
treatment: 50ng/ml recombinant Wnt3a
|
Tcf3+/+ mouse ESC cultured in standard self rernewal conditions + Wnt3a for 24hrs
|
| Sample_geo_accession | GSM678452
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | 50ng/ml recombinant Wnt3a (#1324-WN, R&D Systems) was added 24hrs prior to RNA isolation.
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678452/suppl/GSM678452_WT_Wnt_02.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
| | |
|
GSM678453 | GPL1261 |
|
MouseESC_Tcf3WT_WntMedia_replicate03
|
embryonic stem cells
|
genotype: TCF3+/+
treatment: 50ng/ml recombinant Wnt3a
|
Tcf3+/+ mouse ESC cultured in standard self rernewal conditions + Wnt3a for 24hrs
|
| Sample_geo_accession | GSM678453
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | 50ng/ml recombinant Wnt3a (#1324-WN, R&D Systems) was added 24hrs prior to RNA isolation.
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678453/suppl/GSM678453_WT_Wnt_03.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
| | |
|
GSM678454 | GPL1261 |
|
MouseESC_Tcf3KO_WntMedia_replicate01
|
embryonic stem cells
|
genotype: TCF3-/-
treatment: 50ng/ml recombinant Wnt3a
|
Tcf3-/- mouse ESC cultured in standard self rernewal conditions + Wnt3a for 24hrs
|
| Sample_geo_accession | GSM678454
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | 50ng/ml recombinant Wnt3a (#1324-WN, R&D Systems) was added 24hrs prior to RNA isolation.
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678454/suppl/GSM678454_KO_Wnt_01.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
| | |
|
GSM678455 | GPL1261 |
|
MouseESC_Tcf3KO_WntMedia_replicate02
|
embryonic stem cells
|
genotype: TCF3-/-
treatment: 50ng/ml recombinant Wnt3a
|
Tcf3-/- mouse ESC cultured in standard self rernewal conditions + Wnt3a for 24hrs
|
| Sample_geo_accession | GSM678455
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | 50ng/ml recombinant Wnt3a (#1324-WN, R&D Systems) was added 24hrs prior to RNA isolation.
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678455/suppl/GSM678455_KO_Wnt_02.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
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GSM678456 | GPL1261 |
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MouseESC_Tcf3KO_WntMedia_replicate03
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embryonic stem cells
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genotype: TCF3-/-
treatment: 50ng/ml recombinant Wnt3a
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Tcf3-/- mouse ESC cultured in standard self rernewal conditions + Wnt3a for 24hrs
|
| Sample_geo_accession | GSM678456
| | Sample_status | Public on Feb 24 2011
| | Sample_submission_date | Feb 23 2011
| | Sample_last_update_date | Feb 24 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | 50ng/ml recombinant Wnt3a (#1324-WN, R&D Systems) was added 24hrs prior to RNA isolation.
| | Sample_growth_protocol_ch1 | ESC were grown on geltanized plates in the absence of feeders in Knockout Dulbecco’s Modified Eagle Medium (Knockout-DMEM, GIBCO 10829) supplemented with 15% fetal bovine serum (Atlanta Biologicals), 2 mM L-glutamine (GIBCO), 10 mM HEPES (GIBCO), 100 U/ml penicillin (GIBCO), 100 g/ml streptomiycin (GIBCO), 0.1 mM nonessential amino acids (GIBCO), 0.1 mM -mercaptoethanol (GIBCO), and 1000 U/ml Lif (Chemicon).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted using Trizol reagent and purified using Rneasy Mini Kit according to manufacturers' protocols
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (GeneChip Expression Analysis Technical Manual Rev5).
| | Sample_hyb_protocol | Following fragmentation, labeled RNA were hybridized for 16 hr at 45C on Affymetrix MOE430-2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChip Scanner 3000 7G
| | Sample_data_processing | Raw data were normalized by quantiles, background corrected, and summarized by robust multiarray average (RMA) using ExpressionFileCreator module in the GenePattern software suite.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Bradley,,Merrill
| | Sample_contact_institute | University of Illinois at Chicago
| | Sample_contact_address | 900 S. Ashland Ave
| | Sample_contact_city | Chicago
| | Sample_contact_zip/postal_code | 60607
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM678nnn/GSM678456/suppl/GSM678456_KO_Wnt_03.CEL.gz
| | Sample_series_id | GSE27455
| | Sample_data_row_count | 45101
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