Search results for the GEO ID: GSE16119  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM403272 | GPL570 |
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GBM_TuBa2320_malePatient
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glioblastoma
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tissue: glioblastoma, fresh frozen
gender: male
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Hegi_Murat_1208_2320.CEL
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| Sample_geo_accession | GSM403272
| | Sample_status | Public on May 30 2009
| | Sample_submission_date | May 15 2009
| | Sample_last_update_date | May 18 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from frozen tumor sections (10mg) (Qiagen AllPrep Mini Kit). The first section served as reference for diagnosis and tumor content.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Probes were prepared with the WT-Ovation Pico Kit (NuGEN; San Carlos, CA) for amplification.
| | Sample_hyb_protocol | Probes were hybridized to Affymetrix HG-133Plus2.0 GeneChips (Affymetrix, Santa Clara, CA) using the standard protocol.
| | Sample_scan_protocol | GeneChip Operating Software instructions using GeneChip Scanner 3000 High-Resolution Scanning Patch.
| | Sample_data_processing | The expression intensities for all probe-sets from Affymetrix CEL-files were estimated using robust multi-array average (RMA) with probe-level quantile normalization followed by median polish summarization as implemented in the BioConductor open source software (available at http://www.bioconductor.org/).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Monika,E.,Hegi
| | Sample_contact_email | monika.hegi@chuv.ch
| | Sample_contact_laboratory | LTBG
| | Sample_contact_department | Neurosurgery
| | Sample_contact_institute | CHUV
| | Sample_contact_address | Bugnon 46
| | Sample_contact_city | Lausanne
| | Sample_contact_state | Vaud
| | Sample_contact_zip/postal_code | 1011
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM403nnn/GSM403272/suppl/GSM403272.CEL.gz
| | Sample_series_id | GSE16119
| | Sample_data_row_count | 54675
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GSM403273 | GPL570 |
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Microglia-fraction_TuBa2321_of GBM
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microglia derived from glioblastoma
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tissue: microglia derived from glioblastoma (TuBa2320) (GSM403272)
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Hegi_Murat_1208_2321.CEL
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| Sample_geo_accession | GSM403273
| | Sample_status | Public on May 30 2009
| | Sample_submission_date | May 15 2009
| | Sample_last_update_date | May 18 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Isolation of Microglia/Macrophages from Human Glioblastoma Tissue using a modified Percoll-gradient. Briefly, after resection, freshly isolated glioblastoma tissue was mechanically dissociated through a stainless steel sieve. The dissociated material was centrifuged, washed, and layered onto a Percoll gradient. After centrifugation, the cell layer was removed, washed, layered on top of a second gradient and centrifuged. Microglia/macrophages were collected from the interphase between the 1.065-g/ml and 1.03-g/ml layers. (Hussain et al. (2006) Neuro-oncol 8: 261-279)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from frozen tumor sections (10mg) (Qiagen AllPrep Mini Kit). The first section served as reference for diagnosis and tumor content.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Probes were prepared with the WT-Ovation Pico Kit (NuGEN; San Carlos, CA) for amplification.
| | Sample_hyb_protocol | Probes were hybridized to Affymetrix HG-133Plus2.0 GeneChips (Affymetrix, Santa Clara, CA) using the standard protocol.
| | Sample_scan_protocol | GeneChip Operating Software instructions using GeneChip Scanner 3000 High-Resolution Scanning Patch.
| | Sample_data_processing | The expression intensities for all probe-sets from Affymetrix CEL-files were estimated using robust multi-array average (RMA) with probe-level quantile normalization followed by median polish summarization as implemented in the BioConductor open source software (available at http://www.bioconductor.org/).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Monika,E.,Hegi
| | Sample_contact_email | monika.hegi@chuv.ch
| | Sample_contact_laboratory | LTBG
| | Sample_contact_department | Neurosurgery
| | Sample_contact_institute | CHUV
| | Sample_contact_address | Bugnon 46
| | Sample_contact_city | Lausanne
| | Sample_contact_state | Vaud
| | Sample_contact_zip/postal_code | 1011
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM403nnn/GSM403273/suppl/GSM403273.CEL.gz
| | Sample_series_id | GSE16119
| | Sample_data_row_count | 54675
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