Search results for the GEO ID: GSE31545  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM782946 | GPL570 |
|
NNI-1 (AFG1133-1)
|
Primary neurosphere culture
|
histology: Glioblastoma multiforme
grade: IV
growth pattern: Free floating
patient: 1
gender: Male
age: 44
|
replicate 1
Raw data file: AFG1133-1.CEL
|
| Sample_geo_accession | GSM782946
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782946/suppl/GSM782946.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782947 | GPL570 |
|
NNI-1 (AFG1133-22)
|
Primary neurosphere culture
|
histology: Glioblastoma multiforme
grade: IV
growth pattern: Free floating
patient: 1
gender: Male
age: 44
|
replicate 2
Raw data file: AFG1133-22.CEL
|
| Sample_geo_accession | GSM782947
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782947/suppl/GSM782947.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782948 | GPL570 |
|
NNI-2 (AFG1133-2)
|
Primary neurosphere culture
|
histology: Glioblastoma multiforme
grade: IV
growth pattern: Free floating
patient: 2
gender: Female
age: 67
|
replicate 1
Raw data file: AFG1133-2.CEL
|
| Sample_geo_accession | GSM782948
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782948/suppl/GSM782948.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782949 | GPL570 |
|
NNI-2 (AFG1133-23)
|
Primary neurosphere culture
|
histology: Glioblastoma multiforme
grade: IV
growth pattern: Free floating
patient: 2
gender: Female
age: 67
|
replicate 2
Raw data file: AFG1133-23.CEL
|
| Sample_geo_accession | GSM782949
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782949/suppl/GSM782949.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782950 | GPL570 |
|
NNI-3 (AFG1133-3)
|
Primary neurosphere culture
|
histology: Glioblastoma multiforme
grade: IV
growth pattern: Free floating
patient: 3
gender: Male
age: 60
|
replicate 1
Raw data file: AFG1133-3.CEL
|
| Sample_geo_accession | GSM782950
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782950/suppl/GSM782950.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782951 | GPL570 |
|
NNI-3 (AFG1133-24)
|
Primary neurosphere culture
|
histology: Glioblastoma multiforme
grade: IV
growth pattern: Free floating
patient: 3
gender: Male
age: 60
|
replicate 2
Raw data file: AFG1133-24.CEL
|
| Sample_geo_accession | GSM782951
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782951/suppl/GSM782951.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782952 | GPL570 |
|
NNI-4 (AFG1133-4)
|
Primary neurosphere culture
|
histology: Glioblastoma multiforme
grade: IV
growth pattern: Semi-adherent
patient: 4
gender: Male
age: 53
|
replicate 1
Raw data file: AFG1133-4.CEL
|
| Sample_geo_accession | GSM782952
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782952/suppl/GSM782952.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782953 | GPL570 |
|
NNI-4 (AFG1133-25)
|
Primary neurosphere culture
|
histology: Glioblastoma multiforme
grade: IV
growth pattern: Semi-adherent
patient: 4
gender: Male
age: 53
|
replicate 2
Raw data file: AFG1133-25.CEL
|
| Sample_geo_accession | GSM782953
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782953/suppl/GSM782953.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782954 | GPL570 |
|
NNI-5 (AFG1133-5)
|
Primary neurosphere culture
|
histology: Glioblastoma multiforme
grade: IV
growth pattern: Free floating
patient: 5
gender: Male
age: 55
|
replicate 1
Raw data file: AFG1133-5.CEL
|
| Sample_geo_accession | GSM782954
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782954/suppl/GSM782954.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782955 | GPL570 |
|
NNI-5 (AFG1133-26)
|
Primary neurosphere culture
|
histology: Glioblastoma multiforme
grade: IV
growth pattern: Free floating
patient: 5
gender: Male
age: 55
|
replicate 2
Raw data file: AFG1133-26.CEL
|
| Sample_geo_accession | GSM782955
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782955/suppl/GSM782955.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782956 | GPL570 |
|
NNI-8 (AFG1133-6)
|
Primary neurosphere culture
|
histology: Anaplastic Oligoastrocytoma
grade: III
growth pattern: Free floating
patient: 8
gender: Male
age: 63
|
replicate 1
Raw data file: AFG1133-6.CEL
|
| Sample_geo_accession | GSM782956
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782956/suppl/GSM782956.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782957 | GPL570 |
|
NNI-8 (AFG1133-27)
|
Primary neurosphere culture
|
histology: Anaplastic Oligoastrocytoma
grade: III
growth pattern: Free floating
patient: 8
gender: Male
age: 63
|
replicate 2
Raw data file: AFG1133-27.CEL
|
| Sample_geo_accession | GSM782957
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782957/suppl/GSM782957.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782958 | GPL570 |
|
NNI-8 (AFG1133-16)
|
Primary tumor
|
histology: Anaplastic Oligoastrocytoma
grade: III
growth pattern: Free floating
patient: 8
gender: Male
age: 63
|
replicate 1
Raw data file: AFG1133-16.CEL
|
| Sample_geo_accession | GSM782958
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782958/suppl/GSM782958.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
GSM782959 | GPL570 |
|
NNI-8 (AFG1133-37)
|
Primary tumor
|
histology: Anaplastic Oligoastrocytoma
grade: III
growth pattern: Free floating
patient: 8
gender: Male
age: 63
|
replicate 2
Raw data file: AFG1133-37.CEL
|
| Sample_geo_accession | GSM782959
| | Sample_status | Public on Jun 03 2012
| | Sample_submission_date | Aug 19 2011
| | Sample_last_update_date | Jun 04 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Graded brain tumor specimens were obtained with informed consent, as part of a study protocol approved by the institutional review board. Cells were seeded at a density of 2,500 per cm2 in chemically defined serum-free selection growth medium consisting of basic fibroblast growth factor, bFGF (20 ng/ml, Chemicon), epidermal growth factor, EGF (20 ng/ml, Chemicon), heparin (5 µg/ml, Sigma-Aldrich) and serm-free supplement, B27 (1x, Gibco) in a 3:1 mix of Dulbecco’s Modified Eagle Medium (Sigma-Aldrich) and F-12 Nutrient Mixture (Gibco). The cultures were incubated at 37 deg C in a water-saturated atmosphere containing 5% CO2 and 95% air. To maintain the undifferentiated state of neurosphere cultures, growth factors were replenished every 2 days.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from neurosphere cells using TRI Reagent (Molecular Research Center) and purified with the RNeasy Mini Kit (Qiagen, Hilden, Germany). Reverse transcription and cRNA amplification were performed using an RNA Amplification kit (Ambion, Austin, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Standard Affymetrix label protocol
| | Sample_hyb_protocol | Standard Affymetrix hybridization protocol
| | Sample_scan_protocol | Standard Affymetrix scanning protocol
| | Sample_data_processing | The data were processed using mas5.0 and quantile normalized. Probes with 'Absent' call in all samples were removed.
| | Sample_data_processing | All processing done in R statistical software v2.12.1 using the 'affy' and 'Biobase' Bioconductor packages.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Felicia,,Ng
| | Sample_contact_institute | Cambridge Institute for Medical Research
| | Sample_contact_address | Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
| | Sample_contact_city | Cambridge
| | Sample_contact_zip/postal_code | CB3 9BB
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM782nnn/GSM782959/suppl/GSM782959.CEL.gz
| | Sample_series_id | GSE31545
| | Sample_data_row_count | 27832
| | |
|
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