Search results for the GEO ID: GSE14805  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM370578 | GPL3921 |
|
Gliosis non-neoplastic control tissue, ID number SF4916, microarray hybridization batch 2
|
Gliotic brain tissue
|
tissue type: Gliotic brain tissue
tumor grade: Non-tumor brain
|
Gene expression data from gliosis brain tissue
|
| Sample_geo_accession | GSM370578
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370578/suppl/GSM370578.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370579 | GPL3921 |
|
Gliosis non-neoplastic control tissue, ID number SF6637, microarray hybridization batch 2
|
Gliotic brain tissue
|
tissue type: Gliotic brain tissue
tumor grade: Non-tumor brain
|
Gene expression data from gliosis brain tissue
|
| Sample_geo_accession | GSM370579
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370579/suppl/GSM370579.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370580 | GPL3921 |
|
Gliosis non-neoplastic control tissue, ID number SF6700, microarray hybridization batch 2
|
Gliotic brain tissue
|
tissue type: Gliotic brain tissue
tumor grade: Non-tumor brain
|
Gene expression data from gliosis brain tissue
|
| Sample_geo_accession | GSM370580
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370580/suppl/GSM370580.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370581 | GPL3921 |
|
Gliosis non-neoplastic control tissue, ID number SF7178, microarray hybridization batch 2
|
Gliotic brain tissue
|
tissue type: Gliotic brain tissue
tumor grade: Non-tumor brain
|
Gene expression data from gliosis brain tissue
|
| Sample_geo_accession | GSM370581
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370581/suppl/GSM370581.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370582 | GPL3921 |
|
GBM xenograft tumor, line 3, generation 1, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370582
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370582/suppl/GSM370582.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370583 | GPL3921 |
|
GBM xenograft tumor, line 3, generation 11, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370583
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370583/suppl/GSM370583.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370584 | GPL3921 |
|
GBM xenograft tumor, line 5, generation 10, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370584
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370584/suppl/GSM370584.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370585 | GPL3921 |
|
GBM xenograft tumor, line 6, generation 8, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370585
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370585/suppl/GSM370585.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370586 | GPL3921 |
|
GBM xenograft tumor, line 8, generation 1, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370586
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370586/suppl/GSM370586.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370587 | GPL3921 |
|
GBM xenograft tumor, line 8, generation 2, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370587
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370587/suppl/GSM370587.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370588 | GPL3921 |
|
GBM xenograft tumor, line 10, generation 1, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370588
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370588/suppl/GSM370588.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370589 | GPL3921 |
|
GBM xenograft tumor, line 10, generation 9, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370589
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370589/suppl/GSM370589.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370590 | GPL3921 |
|
GBM xenograft tumor, line 10, generation 9, microarray hybridization batch 2
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370590
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370590/suppl/GSM370590.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370591 | GPL3921 |
|
GBM xenograft tumor, line 12, generation 3, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370591
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370591/suppl/GSM370591.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370592 | GPL3921 |
|
GBM xenograft tumor, line 14, generation 4, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370592
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370592/suppl/GSM370592.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370593 | GPL3921 |
|
GBM xenograft tumor, line 15, generation 1, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370593
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370593/suppl/GSM370593.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370594 | GPL3921 |
|
GBM xenograft tumor, line 15, generation 1, microarray hybridization batch 2
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370594
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370594/suppl/GSM370594.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370595 | GPL3921 |
|
GBM xenograft tumor, line 15, generation 15, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370595
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370595/suppl/GSM370595.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370596 | GPL3921 |
|
GBM xenograft tumor, line 15, generation 15, microarray hybridization batch 2
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370596
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370596/suppl/GSM370596.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370597 | GPL3921 |
|
GBM xenograft tumor, line 16, generation 4, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370597
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370597/suppl/GSM370597.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370598 | GPL3921 |
|
GBM xenograft tumor, line 22, generation 3, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370598
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370598/suppl/GSM370598.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370599 | GPL3921 |
|
GBM xenograft tumor, line 22, generation 3, microarray hybridization batch 2
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370599
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370599/suppl/GSM370599.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370600 | GPL3921 |
|
GBM xenograft tumor, line 28, generation 1, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370600
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370600/suppl/GSM370600.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370601 | GPL3921 |
|
GBM xenograft tumor, line 28, generation 3, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370601
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370601/suppl/GSM370601.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370602 | GPL3921 |
|
GBM xenograft tumor, line 34, generation 5, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370602
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370602/suppl/GSM370602.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370603 | GPL3921 |
|
GBM xenograft tumor, line 36, generation 6, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370603
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370603/suppl/GSM370603.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370604 | GPL3921 |
|
GBM xenograft tumor, line 38, generation 5, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370604
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370604/suppl/GSM370604.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370605 | GPL3921 |
|
GBM xenograft tumor, line 39, generation 4, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370605
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370605/suppl/GSM370605.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370606 | GPL3921 |
|
GBM xenograft tumor, line 40, generation 1, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370606
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370606/suppl/GSM370606.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370607 | GPL3921 |
|
GBM xenograft tumor, line 40, generation 2, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370607
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370607/suppl/GSM370607.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370608 | GPL3921 |
|
GBM xenograft tumor, line 40, generation 2, microarray hybridization batch 2
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370608
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370608/suppl/GSM370608.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370609 | GPL3921 |
|
GBM xenograft tumor, line 43, generation 2, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370609
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370609/suppl/GSM370609.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370610 | GPL3921 |
|
GBM xenograft tumor, line 44, generation 5, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370610
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370610/suppl/GSM370610.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370611 | GPL3921 |
|
GBM xenograft tumor, line 46, generation 1, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370611
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370611/suppl/GSM370611.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370612 | GPL3921 |
|
GBM xenograft tumor, line 46, generation 9, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370612
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370612/suppl/GSM370612.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370613 | GPL3921 |
|
GBM xenograft tumor, line 56, generation 2, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370613
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370613/suppl/GSM370613.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370614 | GPL3921 |
|
GBM xenograft tumor, line 58, generation 3, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370614
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370614/suppl/GSM370614.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
|
GSM370615 | GPL3921 |
|
GBM xenograft tumor, line 59, generation 2, microarray hybridization batch 1
|
GBM xenograft tumor tissue
|
tissue type: Glioblastoma multiforme (GBM) xenograft tumor tissue
tumor grade: Grade-IV tumor
|
Gene expression data from GBM subcutaneous xenograft tumor tissue
|
| Sample_geo_accession | GSM370615
| | Sample_status | Public on Mar 07 2009
| | Sample_submission_date | Feb 12 2009
| | Sample_last_update_date | Mar 06 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 GBMX tumors and non-neoplastic control brain using the mirVana RNA isolation system (Ambion), further purified using RNeasy columns (Qiagen), and RNA integrity assessed using a bioanalyzer (Aglient).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix protocol
| | Sample_hyb_protocol | Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol
| | Sample_data_processing | CEL files were read into R/Bioconductor using the Affy/affyPLM package, and RMA (robust multi-array average) intensity in log2 scale was generated for each probe set (gene). The 11 perfect match (PM) intensities per probe set were (i) background corrected; (ii) quantile-normalized (to make the distribution of intensities the same for all arrays); and (iii) summarized for each probe set using a robust fit of linear models as described.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Graeme,,Hodgson
| | Sample_contact_email | ghodgson@cc.ucsf.edu
| | Sample_contact_phone | 415-476-3630
| | Sample_contact_fax | 415-476-8218
| | Sample_contact_department | Neurological Surgery
| | Sample_contact_institute | UCSF
| | Sample_contact_address | Box0808
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM370nnn/GSM370615/suppl/GSM370615.CEL.gz
| | Sample_series_id | GSE14805
| | Sample_series_id | GSE14806
| | Sample_data_row_count | 22277
| | |
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