Search results for the GEO ID: GSE24225 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM595886 | GPL1261 |
|
Tgif1 null MEFs, passage 3, rep1
|
Primary MEFs lacking Tgif1 at passage 3
|
cell type: primary MEFs
genotype: Tgif1 -/-
strain: C57BL/6J x 129Sv/J
passage number: P3
|
Gene expression data from Tgif1 null passage 3 MEFs
|
Sample_geo_accession | GSM595886
| Sample_status | Public on Jun 21 2012
| Sample_submission_date | Sep 20 2010
| Sample_last_update_date | Jun 21 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | RNA was harvested at passage 3 or passage 5. No treatments.
| Sample_growth_protocol_ch1 | MEFs were isolated from 13.5 day mouse embryos, and cultured in DMEM supplemented with 10% Fetal Bovine Serum. For 3T3 growth MEFs were seeded at 3x105 cells per 10cm plate, trypsinized after three days, counted with a hemacytometer, and re-seeded at the same density.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was isolated and purified using Absolutely RNA kit (Stratagene), according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using Affymetrix IVT 3' Express from 5 ug total RNA.
| Sample_hyb_protocol | Standard Affymetrix hybridization protocol with Mouse430_2.0 chips
| Sample_scan_protocol | FS-0001
| Sample_data_processing | All data was normlaized using the GCRMA algorithm. Linear Models for Microarray Data (LIMMA) was run using a linear model fit by robust M-estimation allowing for a small proportion of outliers. Empirical Bayes statistics for Differential Expressions was used to rank differentially expressed genes, using a Bonferroni adjusted p-values
| Sample_platform_id | GPL1261
| Sample_contact_name | David,,Wotton
| Sample_contact_email | dw2p@virginia.edu
| Sample_contact_phone | 434 243 6752
| Sample_contact_fax | 434 924 1236
| Sample_contact_department | Biochemistry and Molecular Genetics
| Sample_contact_institute | University of Virginia
| Sample_contact_address | Box 500877, 1400 JPA
| Sample_contact_city | Charlotesville
| Sample_contact_zip/postal_code | 22908
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595886/suppl/GSM595886.CEL.gz
| Sample_series_id | GSE24225
| Sample_data_row_count | 45101
| |
|
GSM595887 | GPL1261 |
|
Tgif1 null MEFs, passage 3, rep2
|
Primary MEFs lacking Tgif1 at passage 3
|
cell type: primary MEFs
genotype: Tgif1 -/-
strain: C57BL/6J x 129Sv/J
passage number: P3
|
Gene expression data from Tgif1 null passage 3 MEFs
|
Sample_geo_accession | GSM595887
| Sample_status | Public on Jun 21 2012
| Sample_submission_date | Sep 20 2010
| Sample_last_update_date | Jun 21 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | RNA was harvested at passage 3 or passage 5. No treatments.
| Sample_growth_protocol_ch1 | MEFs were isolated from 13.5 day mouse embryos, and cultured in DMEM supplemented with 10% Fetal Bovine Serum. For 3T3 growth MEFs were seeded at 3x105 cells per 10cm plate, trypsinized after three days, counted with a hemacytometer, and re-seeded at the same density.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was isolated and purified using Absolutely RNA kit (Stratagene), according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using Affymetrix IVT 3' Express from 5 ug total RNA.
| Sample_hyb_protocol | Standard Affymetrix hybridization protocol with Mouse430_2.0 chips
| Sample_scan_protocol | FS-0001
| Sample_data_processing | All data was normlaized using the GCRMA algorithm. Linear Models for Microarray Data (LIMMA) was run using a linear model fit by robust M-estimation allowing for a small proportion of outliers. Empirical Bayes statistics for Differential Expressions was used to rank differentially expressed genes, using a Bonferroni adjusted p-values
| Sample_platform_id | GPL1261
| Sample_contact_name | David,,Wotton
| Sample_contact_email | dw2p@virginia.edu
| Sample_contact_phone | 434 243 6752
| Sample_contact_fax | 434 924 1236
| Sample_contact_department | Biochemistry and Molecular Genetics
| Sample_contact_institute | University of Virginia
| Sample_contact_address | Box 500877, 1400 JPA
| Sample_contact_city | Charlotesville
| Sample_contact_zip/postal_code | 22908
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595887/suppl/GSM595887.CEL.gz
| Sample_series_id | GSE24225
| Sample_data_row_count | 45101
| |
|
GSM595888 | GPL1261 |
|
Tgif1 null MEFs, passage 3, rep3
|
Primary MEFs lacking Tgif1 at passage 3
|
cell type: primary MEFs
genotype: Tgif1 -/-
strain: C57BL/6J x 129Sv/J
passage number: P3
|
Gene expression data from Tgif1 null passage 3 MEFs
|
Sample_geo_accession | GSM595888
| Sample_status | Public on Jun 21 2012
| Sample_submission_date | Sep 20 2010
| Sample_last_update_date | Jun 21 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | RNA was harvested at passage 3 or passage 5. No treatments.
| Sample_growth_protocol_ch1 | MEFs were isolated from 13.5 day mouse embryos, and cultured in DMEM supplemented with 10% Fetal Bovine Serum. For 3T3 growth MEFs were seeded at 3x105 cells per 10cm plate, trypsinized after three days, counted with a hemacytometer, and re-seeded at the same density.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was isolated and purified using Absolutely RNA kit (Stratagene), according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using Affymetrix IVT 3' Express from 5 ug total RNA.
| Sample_hyb_protocol | Standard Affymetrix hybridization protocol with Mouse430_2.0 chips
| Sample_scan_protocol | FS-0001
| Sample_data_processing | All data was normlaized using the GCRMA algorithm. Linear Models for Microarray Data (LIMMA) was run using a linear model fit by robust M-estimation allowing for a small proportion of outliers. Empirical Bayes statistics for Differential Expressions was used to rank differentially expressed genes, using a Bonferroni adjusted p-values
| Sample_platform_id | GPL1261
| Sample_contact_name | David,,Wotton
| Sample_contact_email | dw2p@virginia.edu
| Sample_contact_phone | 434 243 6752
| Sample_contact_fax | 434 924 1236
| Sample_contact_department | Biochemistry and Molecular Genetics
| Sample_contact_institute | University of Virginia
| Sample_contact_address | Box 500877, 1400 JPA
| Sample_contact_city | Charlotesville
| Sample_contact_zip/postal_code | 22908
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595888/suppl/GSM595888.CEL.gz
| Sample_series_id | GSE24225
| Sample_data_row_count | 45101
| |
|
GSM595889 | GPL1261 |
|
WT MEFs, passage 3, rep1
|
Primary wild type MEFs at passage 3
|
cell type: primary MEFs
genotype: wild type
strain: C57BL/6J x 129Sv/J
passage number: P3
|
Gene expression data from wild type passage 3 MEFs
|
Sample_geo_accession | GSM595889
| Sample_status | Public on Jun 21 2012
| Sample_submission_date | Sep 20 2010
| Sample_last_update_date | Jun 21 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | RNA was harvested at passage 3 or passage 5. No treatments.
| Sample_growth_protocol_ch1 | MEFs were isolated from 13.5 day mouse embryos, and cultured in DMEM supplemented with 10% Fetal Bovine Serum. For 3T3 growth MEFs were seeded at 3x105 cells per 10cm plate, trypsinized after three days, counted with a hemacytometer, and re-seeded at the same density.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was isolated and purified using Absolutely RNA kit (Stratagene), according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using Affymetrix IVT 3' Express from 5 ug total RNA.
| Sample_hyb_protocol | Standard Affymetrix hybridization protocol with Mouse430_2.0 chips
| Sample_scan_protocol | FS-0001
| Sample_data_processing | All data was normlaized using the GCRMA algorithm. Linear Models for Microarray Data (LIMMA) was run using a linear model fit by robust M-estimation allowing for a small proportion of outliers. Empirical Bayes statistics for Differential Expressions was used to rank differentially expressed genes, using a Bonferroni adjusted p-values
| Sample_platform_id | GPL1261
| Sample_contact_name | David,,Wotton
| Sample_contact_email | dw2p@virginia.edu
| Sample_contact_phone | 434 243 6752
| Sample_contact_fax | 434 924 1236
| Sample_contact_department | Biochemistry and Molecular Genetics
| Sample_contact_institute | University of Virginia
| Sample_contact_address | Box 500877, 1400 JPA
| Sample_contact_city | Charlotesville
| Sample_contact_zip/postal_code | 22908
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595889/suppl/GSM595889.CEL.gz
| Sample_series_id | GSE24225
| Sample_data_row_count | 45101
| |
|
GSM595890 | GPL1261 |
|
WT MEFs, passage 3, rep2
|
Primary wild type MEFs at passage 3
|
cell type: primary MEFs
genotype: wild type
strain: C57BL/6J x 129Sv/J
passage number: P3
|
Gene expression data from wild type passage 3 MEFs
|
Sample_geo_accession | GSM595890
| Sample_status | Public on Jun 21 2012
| Sample_submission_date | Sep 20 2010
| Sample_last_update_date | Jun 21 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | RNA was harvested at passage 3 or passage 5. No treatments.
| Sample_growth_protocol_ch1 | MEFs were isolated from 13.5 day mouse embryos, and cultured in DMEM supplemented with 10% Fetal Bovine Serum. For 3T3 growth MEFs were seeded at 3x105 cells per 10cm plate, trypsinized after three days, counted with a hemacytometer, and re-seeded at the same density.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was isolated and purified using Absolutely RNA kit (Stratagene), according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using Affymetrix IVT 3' Express from 5 ug total RNA.
| Sample_hyb_protocol | Standard Affymetrix hybridization protocol with Mouse430_2.0 chips
| Sample_scan_protocol | FS-0001
| Sample_data_processing | All data was normlaized using the GCRMA algorithm. Linear Models for Microarray Data (LIMMA) was run using a linear model fit by robust M-estimation allowing for a small proportion of outliers. Empirical Bayes statistics for Differential Expressions was used to rank differentially expressed genes, using a Bonferroni adjusted p-values
| Sample_platform_id | GPL1261
| Sample_contact_name | David,,Wotton
| Sample_contact_email | dw2p@virginia.edu
| Sample_contact_phone | 434 243 6752
| Sample_contact_fax | 434 924 1236
| Sample_contact_department | Biochemistry and Molecular Genetics
| Sample_contact_institute | University of Virginia
| Sample_contact_address | Box 500877, 1400 JPA
| Sample_contact_city | Charlotesville
| Sample_contact_zip/postal_code | 22908
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595890/suppl/GSM595890.CEL.gz
| Sample_series_id | GSE24225
| Sample_data_row_count | 45101
| |
|
GSM595891 | GPL1261 |
|
WT MEFs, passage 3, rep3
|
Primary wild type MEFs at passage 3
|
cell type: primary MEFs
genotype: wild type
strain: C57BL/6J x 129Sv/J
passage number: P3
|
Gene expression data from wild type passage 3 MEFs
|
Sample_geo_accession | GSM595891
| Sample_status | Public on Jun 21 2012
| Sample_submission_date | Sep 20 2010
| Sample_last_update_date | Jun 21 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | RNA was harvested at passage 3 or passage 5. No treatments.
| Sample_growth_protocol_ch1 | MEFs were isolated from 13.5 day mouse embryos, and cultured in DMEM supplemented with 10% Fetal Bovine Serum. For 3T3 growth MEFs were seeded at 3x105 cells per 10cm plate, trypsinized after three days, counted with a hemacytometer, and re-seeded at the same density.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was isolated and purified using Absolutely RNA kit (Stratagene), according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using Affymetrix IVT 3' Express from 5 ug total RNA.
| Sample_hyb_protocol | Standard Affymetrix hybridization protocol with Mouse430_2.0 chips
| Sample_scan_protocol | FS-0001
| Sample_data_processing | All data was normlaized using the GCRMA algorithm. Linear Models for Microarray Data (LIMMA) was run using a linear model fit by robust M-estimation allowing for a small proportion of outliers. Empirical Bayes statistics for Differential Expressions was used to rank differentially expressed genes, using a Bonferroni adjusted p-values
| Sample_platform_id | GPL1261
| Sample_contact_name | David,,Wotton
| Sample_contact_email | dw2p@virginia.edu
| Sample_contact_phone | 434 243 6752
| Sample_contact_fax | 434 924 1236
| Sample_contact_department | Biochemistry and Molecular Genetics
| Sample_contact_institute | University of Virginia
| Sample_contact_address | Box 500877, 1400 JPA
| Sample_contact_city | Charlotesville
| Sample_contact_zip/postal_code | 22908
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595891/suppl/GSM595891.CEL.gz
| Sample_series_id | GSE24225
| Sample_data_row_count | 45101
| |
|
GSM595892 | GPL1261 |
|
WT MEFs, passage 5, rep1
|
Primary wild type MEFs at passage 5
|
cell type: primary MEFs
genotype: wild type
strain: C57BL/6J x 129Sv/J
passage number: P5
|
Gene expression data from wild type passage 5 MEFs
|
Sample_geo_accession | GSM595892
| Sample_status | Public on Jun 21 2012
| Sample_submission_date | Sep 20 2010
| Sample_last_update_date | Jun 21 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | RNA was harvested at passage 3 or passage 5. No treatments.
| Sample_growth_protocol_ch1 | MEFs were isolated from 13.5 day mouse embryos, and cultured in DMEM supplemented with 10% Fetal Bovine Serum. For 3T3 growth MEFs were seeded at 3x105 cells per 10cm plate, trypsinized after three days, counted with a hemacytometer, and re-seeded at the same density.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was isolated and purified using Absolutely RNA kit (Stratagene), according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using Affymetrix IVT 3' Express from 5 ug total RNA.
| Sample_hyb_protocol | Standard Affymetrix hybridization protocol with Mouse430_2.0 chips
| Sample_scan_protocol | FS-0001
| Sample_data_processing | All data was normlaized using the GCRMA algorithm. Linear Models for Microarray Data (LIMMA) was run using a linear model fit by robust M-estimation allowing for a small proportion of outliers. Empirical Bayes statistics for Differential Expressions was used to rank differentially expressed genes, using a Bonferroni adjusted p-values
| Sample_platform_id | GPL1261
| Sample_contact_name | David,,Wotton
| Sample_contact_email | dw2p@virginia.edu
| Sample_contact_phone | 434 243 6752
| Sample_contact_fax | 434 924 1236
| Sample_contact_department | Biochemistry and Molecular Genetics
| Sample_contact_institute | University of Virginia
| Sample_contact_address | Box 500877, 1400 JPA
| Sample_contact_city | Charlotesville
| Sample_contact_zip/postal_code | 22908
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595892/suppl/GSM595892.CEL.gz
| Sample_series_id | GSE24225
| Sample_data_row_count | 45101
| |
|
GSM595893 | GPL1261 |
|
WT MEFs, passage 5, rep2
|
Primary wild type MEFs at passage 5
|
cell type: primary MEFs
genotype: wild type
strain: C57BL/6J x 129Sv/J
passage number: P5
|
Gene expression data from wild type passage 5 MEFs
|
Sample_geo_accession | GSM595893
| Sample_status | Public on Jun 21 2012
| Sample_submission_date | Sep 20 2010
| Sample_last_update_date | Jun 21 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | RNA was harvested at passage 3 or passage 5. No treatments.
| Sample_growth_protocol_ch1 | MEFs were isolated from 13.5 day mouse embryos, and cultured in DMEM supplemented with 10% Fetal Bovine Serum. For 3T3 growth MEFs were seeded at 3x105 cells per 10cm plate, trypsinized after three days, counted with a hemacytometer, and re-seeded at the same density.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was isolated and purified using Absolutely RNA kit (Stratagene), according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using Affymetrix IVT 3' Express from 5 ug total RNA.
| Sample_hyb_protocol | Standard Affymetrix hybridization protocol with Mouse430_2.0 chips
| Sample_scan_protocol | FS-0001
| Sample_data_processing | All data was normlaized using the GCRMA algorithm. Linear Models for Microarray Data (LIMMA) was run using a linear model fit by robust M-estimation allowing for a small proportion of outliers. Empirical Bayes statistics for Differential Expressions was used to rank differentially expressed genes, using a Bonferroni adjusted p-values
| Sample_platform_id | GPL1261
| Sample_contact_name | David,,Wotton
| Sample_contact_email | dw2p@virginia.edu
| Sample_contact_phone | 434 243 6752
| Sample_contact_fax | 434 924 1236
| Sample_contact_department | Biochemistry and Molecular Genetics
| Sample_contact_institute | University of Virginia
| Sample_contact_address | Box 500877, 1400 JPA
| Sample_contact_city | Charlotesville
| Sample_contact_zip/postal_code | 22908
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595893/suppl/GSM595893.CEL.gz
| Sample_series_id | GSE24225
| Sample_data_row_count | 45101
| |
|
GSM595894 | GPL1261 |
|
WT MEFs, passage 5, rep3
|
Primary wild type MEFs at passage 5
|
cell type: primary MEFs
genotype: wild type
strain: C57BL/6J x 129Sv/J
passage number: P5
|
Gene expression data from wild type passage 5 MEFs
|
Sample_geo_accession | GSM595894
| Sample_status | Public on Jun 21 2012
| Sample_submission_date | Sep 20 2010
| Sample_last_update_date | Jun 21 2012
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | RNA was harvested at passage 3 or passage 5. No treatments.
| Sample_growth_protocol_ch1 | MEFs were isolated from 13.5 day mouse embryos, and cultured in DMEM supplemented with 10% Fetal Bovine Serum. For 3T3 growth MEFs were seeded at 3x105 cells per 10cm plate, trypsinized after three days, counted with a hemacytometer, and re-seeded at the same density.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | RNA was isolated and purified using Absolutely RNA kit (Stratagene), according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared using Affymetrix IVT 3' Express from 5 ug total RNA.
| Sample_hyb_protocol | Standard Affymetrix hybridization protocol with Mouse430_2.0 chips
| Sample_scan_protocol | FS-0001
| Sample_data_processing | All data was normlaized using the GCRMA algorithm. Linear Models for Microarray Data (LIMMA) was run using a linear model fit by robust M-estimation allowing for a small proportion of outliers. Empirical Bayes statistics for Differential Expressions was used to rank differentially expressed genes, using a Bonferroni adjusted p-values
| Sample_platform_id | GPL1261
| Sample_contact_name | David,,Wotton
| Sample_contact_email | dw2p@virginia.edu
| Sample_contact_phone | 434 243 6752
| Sample_contact_fax | 434 924 1236
| Sample_contact_department | Biochemistry and Molecular Genetics
| Sample_contact_institute | University of Virginia
| Sample_contact_address | Box 500877, 1400 JPA
| Sample_contact_city | Charlotesville
| Sample_contact_zip/postal_code | 22908
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595894/suppl/GSM595894.CEL.gz
| Sample_series_id | GSE24225
| Sample_data_row_count | 45101
| |
|
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