Search results for the GEO ID: GSE45646  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1111249 | GPL1261 |
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CD133-positive tumor-initiating cells
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CD133-positive liver tumor-initiating cells
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tissue: liver
cell type: CD133-positive liver tumor-initiating cells
phenotype: mesenchmal
passage: 6
gender: male
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NANOG positive (TISC) liver tumor-initiating cells.
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| Sample_geo_accession | GSM1111249
| | Sample_status | Public on Mar 30 2013
| | Sample_submission_date | Mar 29 2013
| | Sample_last_update_date | Mar 30 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | In vitro cultured tumor-initiating cells.
| | Sample_growth_protocol_ch1 | Male mice, weighing 25–30 g, were purchased from Charles River Labs (Wilmington, MA). Cells were maintained as a monolayer culture in DMEM with 10% fetal bovine serum and 1% penicillin (Life Technologies, Inc., Carlsbad, CA) at 37°C in a humidified atmosphere of 5% CO2. Viability of sorted cells was assessed by trypan blue staining.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRI Reagent extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Labeling was done according to the Affymetrix GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | The data were analyzed using Partek Genomic Suite (v.6) using the Partek default RMA normalization method.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Keigo,,Machida
| | Sample_contact_email | keigo.machida@med.usc.edu
| | Sample_contact_phone | 323-442-3501
| | Sample_contact_fax | 323-442-1721
| | Sample_contact_department | Molecular Microbiology and Immunology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2011 Zonal Ave., HMR503C
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90033
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1111nnn/GSM1111249/suppl/GSM1111249_X148_Mouse430_2_01_1_Nanog_TISC.CEL.gz
| | Sample_series_id | GSE45646
| | Sample_data_row_count | 45101
| | |
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GSM1111250 | GPL1261 |
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CD133-negative liver cells
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CD133-negative control cells
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tissue: liver
cell type: CD133-negative control cells
phenotype: epithelial
passage: 6
gender: male
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Control cells.
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| Sample_geo_accession | GSM1111250
| | Sample_status | Public on Mar 30 2013
| | Sample_submission_date | Mar 29 2013
| | Sample_last_update_date | Mar 30 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | In vitro cultured tumor-initiating cells.
| | Sample_growth_protocol_ch1 | Male mice, weighing 25–30 g, were purchased from Charles River Labs (Wilmington, MA). Cells were maintained as a monolayer culture in DMEM with 10% fetal bovine serum and 1% penicillin (Life Technologies, Inc., Carlsbad, CA) at 37°C in a humidified atmosphere of 5% CO2. Viability of sorted cells was assessed by trypan blue staining.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TRI Reagent extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Labeling was done according to the Affymetrix GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | The data were analyzed using Partek Genomic Suite (v.6) using the Partek default RMA normalization method.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Keigo,,Machida
| | Sample_contact_email | keigo.machida@med.usc.edu
| | Sample_contact_phone | 323-442-3501
| | Sample_contact_fax | 323-442-1721
| | Sample_contact_department | Molecular Microbiology and Immunology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2011 Zonal Ave., HMR503C
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90033
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1111nnn/GSM1111250/suppl/GSM1111250_X149_Mouse430_2_01_1_Control_cell.CEL.gz
| | Sample_series_id | GSE45646
| | Sample_data_row_count | 45101
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