Search results for the GEO ID: GSE16380  |
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(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM410920 | GPL1261 |
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CEBPb knockout, CD24+CD29hi cells, biological rep 1
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CD24+CD29hi cells from mouse mammary epithelial cells
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genotype/variation: CEBPb knockout
cell type: Mammary epithlial cells (MECs)
stem/progenitor cell subpopulation: CD24+CD29hi cells
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CEBPb knockout, CD24+CD29hi cells, biological rep 1
|
| Sample_geo_accession | GSM410920
| | Sample_status | Public on Jan 28 2010
| | Sample_submission_date | Jun 02 2009
| | Sample_last_update_date | Jan 28 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Mammary epithlial cells (MECs) were isolated from two paired sets of wildtype and germline C/EBPb-/- glands (10 mice per group). Cells were FACS sorted based on CD24, CD29 and LIN expression.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Arcturus Pico Pure RNA isolation kit (Molecular Devices, Sunnyvale, CA). The mRNA was then amplified using a NuGEN FFPE amplification kit (NuGEN, San Carlos, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized on Mouse430_2 GeneChip following the recommended procedures. GeneChips were washed and stained according to Affymetrix protocol EukGE-WS2v5 (for FS400) or FS450_0001 (for FS450).
| | Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner (Agilent).
| | Sample_data_processing | The data were analyzed with dChip version2006 using Affymetrix default analysis settings and quantile normalization method. The trimmed mean target intensity of each array was arbitrarily set to the bottom 10% of intensity values
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Chad,,Creighton
| | Sample_contact_email | creighto@bcm.tmc.edu
| | Sample_contact_department | Biostatistics, Ducan Cancer Center
| | Sample_contact_institute | Baylor College of Medicine
| | Sample_contact_address | One Baylor Plaza, Mail Stop: BCM305
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM410nnn/GSM410920/suppl/GSM410920.cel.gz
| | Sample_series_id | GSE16380
| | Sample_data_row_count | 45101
| | |
|
GSM410921 | GPL1261 |
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CEBPb knockout, CD24+CD29hi cells, biological rep 2
|
CD24+CD29hi cells from mouse mammary epithelial cells
|
genotype/variation: CEBPb knockout
cell type: Mammary epithlial cells (MECs)
stem/progenitor cell subpopulation: CD24+CD29hi cells
|
CEBPb knockout, CD24+CD29hi cells, biological rep 2
|
| Sample_geo_accession | GSM410921
| | Sample_status | Public on Jan 28 2010
| | Sample_submission_date | Jun 02 2009
| | Sample_last_update_date | Jan 28 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Mammary epithlial cells (MECs) were isolated from two paired sets of wildtype and germline C/EBPb-/- glands (10 mice per group). Cells were FACS sorted based on CD24, CD29 and LIN expression.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Arcturus Pico Pure RNA isolation kit (Molecular Devices, Sunnyvale, CA). The mRNA was then amplified using a NuGEN FFPE amplification kit (NuGEN, San Carlos, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized on Mouse430_2 GeneChip following the recommended procedures. GeneChips were washed and stained according to Affymetrix protocol EukGE-WS2v5 (for FS400) or FS450_0001 (for FS450).
| | Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner (Agilent).
| | Sample_data_processing | The data were analyzed with dChip version2006 using Affymetrix default analysis settings and quantile normalization method. The trimmed mean target intensity of each array was arbitrarily set to the bottom 10% of intensity values
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Chad,,Creighton
| | Sample_contact_email | creighto@bcm.tmc.edu
| | Sample_contact_department | Biostatistics, Ducan Cancer Center
| | Sample_contact_institute | Baylor College of Medicine
| | Sample_contact_address | One Baylor Plaza, Mail Stop: BCM305
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM410nnn/GSM410921/suppl/GSM410921.cel.gz
| | Sample_series_id | GSE16380
| | Sample_data_row_count | 45101
| | |
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GSM410922 | GPL1261 |
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CEBPb knockout, CD24hiCD29lo cells, biological rep 1
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CD24hiCD29lo cells from mouse mammary epithelial cells
|
genotype/variation: CEBPb knockout
cell type: Mammary epithlial cells (MECs)
stem/progenitor cell subpopulation: CD24hiCD29lo cells
|
CEBPb knockout, CD24hiCD29lo cells, biological rep 1
|
| Sample_geo_accession | GSM410922
| | Sample_status | Public on Jan 28 2010
| | Sample_submission_date | Jun 02 2009
| | Sample_last_update_date | Jan 28 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Mammary epithlial cells (MECs) were isolated from two paired sets of wildtype and germline C/EBPb-/- glands (10 mice per group). Cells were FACS sorted based on CD24, CD29 and LIN expression.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Arcturus Pico Pure RNA isolation kit (Molecular Devices, Sunnyvale, CA). The mRNA was then amplified using a NuGEN FFPE amplification kit (NuGEN, San Carlos, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized on Mouse430_2 GeneChip following the recommended procedures. GeneChips were washed and stained according to Affymetrix protocol EukGE-WS2v5 (for FS400) or FS450_0001 (for FS450).
| | Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner (Agilent).
| | Sample_data_processing | The data were analyzed with dChip version2006 using Affymetrix default analysis settings and quantile normalization method. The trimmed mean target intensity of each array was arbitrarily set to the bottom 10% of intensity values
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Chad,,Creighton
| | Sample_contact_email | creighto@bcm.tmc.edu
| | Sample_contact_department | Biostatistics, Ducan Cancer Center
| | Sample_contact_institute | Baylor College of Medicine
| | Sample_contact_address | One Baylor Plaza, Mail Stop: BCM305
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM410nnn/GSM410922/suppl/GSM410922.cel.gz
| | Sample_series_id | GSE16380
| | Sample_data_row_count | 45101
| | |
|
GSM410923 | GPL1261 |
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CEBPb knockout, CD24hiCD29lo cells, biological rep 2
|
CD24hiCD29lo cells from mouse mammary epithelial cells
|
genotype/variation: CEBPb knockout
cell type: Mammary epithlial cells (MECs)
stem/progenitor cell subpopulation: CD24hiCD29lo cells
|
CEBPb knockout, CD24hiCD29lo cells, biological rep 2
|
| Sample_geo_accession | GSM410923
| | Sample_status | Public on Jan 28 2010
| | Sample_submission_date | Jun 02 2009
| | Sample_last_update_date | Jan 28 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Mammary epithlial cells (MECs) were isolated from two paired sets of wildtype and germline C/EBPb-/- glands (10 mice per group). Cells were FACS sorted based on CD24, CD29 and LIN expression.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Arcturus Pico Pure RNA isolation kit (Molecular Devices, Sunnyvale, CA). The mRNA was then amplified using a NuGEN FFPE amplification kit (NuGEN, San Carlos, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized on Mouse430_2 GeneChip following the recommended procedures. GeneChips were washed and stained according to Affymetrix protocol EukGE-WS2v5 (for FS400) or FS450_0001 (for FS450).
| | Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner (Agilent).
| | Sample_data_processing | The data were analyzed with dChip version2006 using Affymetrix default analysis settings and quantile normalization method. The trimmed mean target intensity of each array was arbitrarily set to the bottom 10% of intensity values
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Chad,,Creighton
| | Sample_contact_email | creighto@bcm.tmc.edu
| | Sample_contact_department | Biostatistics, Ducan Cancer Center
| | Sample_contact_institute | Baylor College of Medicine
| | Sample_contact_address | One Baylor Plaza, Mail Stop: BCM305
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM410nnn/GSM410923/suppl/GSM410923.cel.gz
| | Sample_series_id | GSE16380
| | Sample_data_row_count | 45101
| | |
|
GSM410924 | GPL1261 |
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CEBPb wildtype, CD24+CD29hi cells, biological rep 1
|
CD24+CD29hi cells from mouse mammary epithelial cells
|
genotype/variation: CEBPb wildtype
cell type: Mammary epithlial cells (MECs)
stem/progenitor cell subpopulation: CD24+CD29hi cells
|
CEBPb wildtype, CD24+CD29hi cells, biological rep 1
|
| Sample_geo_accession | GSM410924
| | Sample_status | Public on Jan 28 2010
| | Sample_submission_date | Jun 02 2009
| | Sample_last_update_date | Jan 28 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Mammary epithlial cells (MECs) were isolated from two paired sets of wildtype and germline C/EBPb-/- glands (10 mice per group). Cells were FACS sorted based on CD24, CD29 and LIN expression.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Arcturus Pico Pure RNA isolation kit (Molecular Devices, Sunnyvale, CA). The mRNA was then amplified using a NuGEN FFPE amplification kit (NuGEN, San Carlos, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized on Mouse430_2 GeneChip following the recommended procedures. GeneChips were washed and stained according to Affymetrix protocol EukGE-WS2v5 (for FS400) or FS450_0001 (for FS450).
| | Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner (Agilent).
| | Sample_data_processing | The data were analyzed with dChip version2006 using Affymetrix default analysis settings and quantile normalization method. The trimmed mean target intensity of each array was arbitrarily set to the bottom 10% of intensity values
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Chad,,Creighton
| | Sample_contact_email | creighto@bcm.tmc.edu
| | Sample_contact_department | Biostatistics, Ducan Cancer Center
| | Sample_contact_institute | Baylor College of Medicine
| | Sample_contact_address | One Baylor Plaza, Mail Stop: BCM305
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM410nnn/GSM410924/suppl/GSM410924.cel.gz
| | Sample_series_id | GSE16380
| | Sample_data_row_count | 45101
| | |
|
GSM410925 | GPL1261 |
|
CEBPb wildtype, CD24+CD29hi cells, biological rep 2
|
CD24+CD29hi cells from mouse mammary epithelial cells
|
genotype/variation: CEBPb wildtype
cell type: Mammary epithlial cells (MECs)
stem/progenitor cell subpopulation: CD24+CD29hi cells
|
CEBPb wildtype, CD24+CD29hi cells, biological rep 2
|
| Sample_geo_accession | GSM410925
| | Sample_status | Public on Jan 28 2010
| | Sample_submission_date | Jun 02 2009
| | Sample_last_update_date | Jan 28 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Mammary epithlial cells (MECs) were isolated from two paired sets of wildtype and germline C/EBPb-/- glands (10 mice per group). Cells were FACS sorted based on CD24, CD29 and LIN expression.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Arcturus Pico Pure RNA isolation kit (Molecular Devices, Sunnyvale, CA). The mRNA was then amplified using a NuGEN FFPE amplification kit (NuGEN, San Carlos, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized on Mouse430_2 GeneChip following the recommended procedures. GeneChips were washed and stained according to Affymetrix protocol EukGE-WS2v5 (for FS400) or FS450_0001 (for FS450).
| | Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner (Agilent).
| | Sample_data_processing | The data were analyzed with dChip version2006 using Affymetrix default analysis settings and quantile normalization method. The trimmed mean target intensity of each array was arbitrarily set to the bottom 10% of intensity values
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Chad,,Creighton
| | Sample_contact_email | creighto@bcm.tmc.edu
| | Sample_contact_department | Biostatistics, Ducan Cancer Center
| | Sample_contact_institute | Baylor College of Medicine
| | Sample_contact_address | One Baylor Plaza, Mail Stop: BCM305
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM410nnn/GSM410925/suppl/GSM410925.cel.gz
| | Sample_series_id | GSE16380
| | Sample_data_row_count | 45101
| | |
|
GSM410926 | GPL1261 |
|
CEBPb wildtype, CD24hiCD29lo cells, biological rep 1
|
CD24hiCD29lo cells from mouse mammary epithelial cells
|
genotype/variation: CEBPb wildtype
cell type: Mammary epithlial cells (MECs)
stem/progenitor cell subpopulation: CD24hiCD29lo cells
|
CEBPb wildtype, CD24hiCD29lo cells, biological rep 1
|
| Sample_geo_accession | GSM410926
| | Sample_status | Public on Jan 28 2010
| | Sample_submission_date | Jun 02 2009
| | Sample_last_update_date | Jan 28 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Mammary epithlial cells (MECs) were isolated from two paired sets of wildtype and germline C/EBPb-/- glands (10 mice per group). Cells were FACS sorted based on CD24, CD29 and LIN expression.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Arcturus Pico Pure RNA isolation kit (Molecular Devices, Sunnyvale, CA). The mRNA was then amplified using a NuGEN FFPE amplification kit (NuGEN, San Carlos, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized on Mouse430_2 GeneChip following the recommended procedures. GeneChips were washed and stained according to Affymetrix protocol EukGE-WS2v5 (for FS400) or FS450_0001 (for FS450).
| | Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner (Agilent).
| | Sample_data_processing | The data were analyzed with dChip version2006 using Affymetrix default analysis settings and quantile normalization method. The trimmed mean target intensity of each array was arbitrarily set to the bottom 10% of intensity values
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Chad,,Creighton
| | Sample_contact_email | creighto@bcm.tmc.edu
| | Sample_contact_department | Biostatistics, Ducan Cancer Center
| | Sample_contact_institute | Baylor College of Medicine
| | Sample_contact_address | One Baylor Plaza, Mail Stop: BCM305
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM410nnn/GSM410926/suppl/GSM410926.cel.gz
| | Sample_series_id | GSE16380
| | Sample_data_row_count | 45101
| | |
|
GSM410927 | GPL1261 |
|
CEBPb wildtype, CD24hiCD29lo cells, biological rep 2
|
CD24hiCD29lo cells from mouse mammary epithelial cells
|
genotype/variation: CEBPb wildtype
cell type: Mammary epithlial cells (MECs)
stem/progenitor cell subpopulation: CD24hiCD29lo cells
|
CEBPb wildtype, CD24hiCD29lo cells, biological rep 2
|
| Sample_geo_accession | GSM410927
| | Sample_status | Public on Jan 28 2010
| | Sample_submission_date | Jun 02 2009
| | Sample_last_update_date | Jan 28 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Mammary epithlial cells (MECs) were isolated from two paired sets of wildtype and germline C/EBPb-/- glands (10 mice per group). Cells were FACS sorted based on CD24, CD29 and LIN expression.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the Arcturus Pico Pure RNA isolation kit (Molecular Devices, Sunnyvale, CA). The mRNA was then amplified using a NuGEN FFPE amplification kit (NuGEN, San Carlos, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized on Mouse430_2 GeneChip following the recommended procedures. GeneChips were washed and stained according to Affymetrix protocol EukGE-WS2v5 (for FS400) or FS450_0001 (for FS450).
| | Sample_scan_protocol | GeneChips were scanned using an Affymetrix GeneChip Scanner (Agilent).
| | Sample_data_processing | The data were analyzed with dChip version2006 using Affymetrix default analysis settings and quantile normalization method. The trimmed mean target intensity of each array was arbitrarily set to the bottom 10% of intensity values
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Chad,,Creighton
| | Sample_contact_email | creighto@bcm.tmc.edu
| | Sample_contact_department | Biostatistics, Ducan Cancer Center
| | Sample_contact_institute | Baylor College of Medicine
| | Sample_contact_address | One Baylor Plaza, Mail Stop: BCM305
| | Sample_contact_city | Houston
| | Sample_contact_state | TX
| | Sample_contact_zip/postal_code | 77030
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM410nnn/GSM410927/suppl/GSM410927.cel.gz
| | Sample_series_id | GSE16380
| | Sample_data_row_count | 45101
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