Search results for the GEO ID: GSE35896 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM877126 | GPL570 |
|
CRC_28
|
Large Intestine, Adenocarcinoma
|
subtype: 2.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93309_H133+_CRC-CL-028-A
|
Sample_geo_accession | GSM877126
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877126/suppl/GSM877126_EA09076_93309_H133+_CRC-CL-028-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877127 | GPL570 |
|
CRC_01
|
Large Intestine, Adenocarcinoma
|
subtype: 2.1
kras.mutation: N
braf.mutation: N
apc.mutation: N
p53.mutation: N
pik3ca.mutation: Y
pten.mutation: Y
microsatellite.status: MSI
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93310_H133+_CRC-CL-001
|
Sample_geo_accession | GSM877127
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877127/suppl/GSM877127_EA09076_93310_H133+_CRC-CL-001.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877128 | GPL570 |
|
CRC_65
|
Adenocarcinoma
|
subtype: 2.1
kras.mutation: N
braf.mutation: Y
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: NA
|
Sample name: EA09076_93311_H133+_CRC-CL-065
|
Sample_geo_accession | GSM877128
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877128/suppl/GSM877128_EA09076_93311_H133+_CRC-CL-065.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877130 | GPL570 |
|
CRC_42
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: N
braf.mutation: N
apc.mutation: N
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93313_H133+_CRC-CL-042
|
Sample_geo_accession | GSM877130
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877130/suppl/GSM877130_EA09076_93313_H133+_CRC-CL-042.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877131 | GPL570 |
|
CRC_44
|
Large Intestine, Adenocarcinoma
|
subtype: 1.2
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93314_H133+_CRC-CL-044
|
Sample_geo_accession | GSM877131
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877131/suppl/GSM877131_EA09076_93314_H133+_CRC-CL-044.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877132 | GPL570 |
|
CRC_20
|
Large Intestine, Adenocarcinoma
|
subtype: 1.3
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93315_H133+_CRC-CL-020
|
Sample_geo_accession | GSM877132
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877132/suppl/GSM877132_EA09076_93315_H133+_CRC-CL-020.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877133 | GPL570 |
|
CRC_51
|
Large Intestine, Adenocarcinoma
|
subtype: 2.1
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: Y
pten.mutation: Y
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93316_H133+_CRC-CL-051
|
Sample_geo_accession | GSM877133
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877133/suppl/GSM877133_EA09076_93316_H133+_CRC-CL-051.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877134 | GPL570 |
|
CRC_24
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: Y
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93317_H133+_CRC-CL-024
|
Sample_geo_accession | GSM877134
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877134/suppl/GSM877134_EA09076_93317_H133+_CRC-CL-024.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877135 | GPL570 |
|
CRC_32
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93318_H133+_CRC-CL-032-A
|
Sample_geo_accession | GSM877135
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877135/suppl/GSM877135_EA09076_93318_H133+_CRC-CL-032-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877136 | GPL570 |
|
CRC_05
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93319_H133+_CRC-CL-005
|
Sample_geo_accession | GSM877136
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877136/suppl/GSM877136_EA09076_93319_H133+_CRC-CL-005.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877137 | GPL570 |
|
CRC_46
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93320_H133+_CRC-CL-046-A
|
Sample_geo_accession | GSM877137
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877137/suppl/GSM877137_EA09076_93320_H133+_CRC-CL-046-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877138 | GPL570 |
|
CRC_02
|
Large Intestine, Adenocarcinoma
|
subtype: 2.1
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSI
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93321_H133+_CRC-CL-002
|
Sample_geo_accession | GSM877138
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877138/suppl/GSM877138_EA09076_93321_H133+_CRC-CL-002.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877139 | GPL570 |
|
CRC_59
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93322_H133+_CRC-CL-059
|
Sample_geo_accession | GSM877139
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877139/suppl/GSM877139_EA09076_93322_H133+_CRC-CL-059.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877140 | GPL570 |
|
CRC_19
|
Large Intestine, Adenocarcinoma
|
subtype: 2.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSI
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93323_H133+_CRC-CL-019
|
Sample_geo_accession | GSM877140
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877140/suppl/GSM877140_EA09076_93323_H133+_CRC-CL-019.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877141 | GPL570 |
|
CRC_45
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93324_H133+_CRC-CL-045-A
|
Sample_geo_accession | GSM877141
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877141/suppl/GSM877141_EA09076_93324_H133+_CRC-CL-045-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877142 | GPL570 |
|
CRC_61
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: N
braf.mutation: N
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93325_H133+_CRC-CL-061-D
|
Sample_geo_accession | GSM877142
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877142/suppl/GSM877142_EA09076_93325_H133+_CRC-CL-061-D.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877143 | GPL570 |
|
CRC_18
|
Large Intestine, Adenocarcinoma
|
subtype: 1.3
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93326_H133+_CRC-CL-018-A
|
Sample_geo_accession | GSM877143
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877143/suppl/GSM877143_EA09076_93326_H133+_CRC-CL-018-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877144 | GPL570 |
|
CRC_66
|
Adenocarcinoma
|
subtype: 1.2
kras.mutation: N
braf.mutation: Y
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: NA
|
Sample name: EA09076_93327_H133+_CRC-CL-066
|
Sample_geo_accession | GSM877144
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877144/suppl/GSM877144_EA09076_93327_H133+_CRC-CL-066.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877145 | GPL570 |
|
CRC_47
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93328_H133+_CRC-CL-047-A
|
Sample_geo_accession | GSM877145
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877145/suppl/GSM877145_EA09076_93328_H133+_CRC-CL-047-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877146 | GPL570 |
|
CRC_16
|
Large Intestine, Adenocarcinoma
|
subtype: 1.3
kras.mutation: N
braf.mutation: N
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93329_H133+_CRC-CL-016
|
Sample_geo_accession | GSM877146
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877146/suppl/GSM877146_EA09076_93329_H133+_CRC-CL-016.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877147 | GPL570 |
|
CRC_27
|
Large Intestine, Adenocarcinoma
|
subtype: 1.2
kras.mutation: Y
braf.mutation: N
apc.mutation: N
p53.mutation: N
pik3ca.mutation: Y
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93330_H133+_CRC-CL-027
|
Sample_geo_accession | GSM877147
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877147/suppl/GSM877147_EA09076_93330_H133+_CRC-CL-027.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877148 | GPL570 |
|
CRC_34
|
Large Intestine, Adenocarcinoma
|
subtype: 1.3
kras.mutation: N
braf.mutation: N
apc.mutation: N
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93331_H133+_CRC-CL-034
|
Sample_geo_accession | GSM877148
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877148/suppl/GSM877148_EA09076_93331_H133+_CRC-CL-034.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877149 | GPL570 |
|
CRC_09
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93332_H133+_CRC-CL-009
|
Sample_geo_accession | GSM877149
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877149/suppl/GSM877149_EA09076_93332_H133+_CRC-CL-009.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877150 | GPL570 |
|
CRC_39
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: Y
braf.mutation: N
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: ---
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93333_H133+_CRC-CL-039
|
Sample_geo_accession | GSM877150
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877150/suppl/GSM877150_EA09076_93333_H133+_CRC-CL-039.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877151 | GPL570 |
|
CRC_35
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: N
braf.mutation: N
apc.mutation: N
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93334_H133+_CRC-CL-035-A
|
Sample_geo_accession | GSM877151
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877151/suppl/GSM877151_EA09076_93334_H133+_CRC-CL-035-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877152 | GPL570 |
|
CRC_33
|
Large Intestine, Adenocarcinoma
|
subtype: 1.3
kras.mutation: Y
braf.mutation: N
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93335_H133+_CRC-CL-033-A
|
Sample_geo_accession | GSM877152
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877152/suppl/GSM877152_EA09076_93335_H133+_CRC-CL-033-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877153 | GPL570 |
|
CRC_70
|
Large Intestine, Adenocarcinoma
|
subtype: 2.1
kras.mutation: N
braf.mutation: Y
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93336_H133+_CRC-CL-070
|
Sample_geo_accession | GSM877153
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877153/suppl/GSM877153_EA09076_93336_H133+_CRC-CL-070.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877154 | GPL570 |
|
CRC_29
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: Y
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93337_H133+_CRC-CL-029-A
|
Sample_geo_accession | GSM877154
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877154/suppl/GSM877154_EA09076_93337_H133+_CRC-CL-029-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877155 | GPL570 |
|
CRC_43
|
Large Intestine, Adenocarcinoma
|
subtype: 1.2
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93338_H133+_CRC-CL-043
|
Sample_geo_accession | GSM877155
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877155/suppl/GSM877155_EA09076_93338_H133+_CRC-CL-043.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877156 | GPL570 |
|
CRC_23
|
Large Intestine, Adenocarcinoma
|
subtype: 2.1
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSI
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93339_H133+_CRC-CL-023
|
Sample_geo_accession | GSM877156
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877156/suppl/GSM877156_EA09076_93339_H133+_CRC-CL-023.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877157 | GPL570 |
|
CRC_08
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: N
braf.mutation: N
apc.mutation: N
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93340_H133+_CRC-CL-008
|
Sample_geo_accession | GSM877157
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877157/suppl/GSM877157_EA09076_93340_H133+_CRC-CL-008.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877158 | GPL570 |
|
CRC_64
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93341_H133+_CRC-CL-064
|
Sample_geo_accession | GSM877158
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877158/suppl/GSM877158_EA09076_93341_H133+_CRC-CL-064.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877159 | GPL570 |
|
CRC_12
|
Large Intestine, Adenocarcinoma
|
subtype: 1.2
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Asian/Pacific Islander
|
Sample name: EA09076_93342_H133+_CRC-CL-012
|
Sample_geo_accession | GSM877159
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877159/suppl/GSM877159_EA09076_93342_H133+_CRC-CL-012.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877160 | GPL570 |
|
CRC_14
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: Y
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Asian/Pacific Islander
|
Sample name: EA09076_93343_H133+_CRC-CL-014
|
Sample_geo_accession | GSM877160
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877160/suppl/GSM877160_EA09076_93343_H133+_CRC-CL-014.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877161 | GPL570 |
|
CRC_31
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93344_H133+_CRC-CL-031
|
Sample_geo_accession | GSM877161
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877161/suppl/GSM877161_EA09076_93344_H133+_CRC-CL-031.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877162 | GPL570 |
|
CRC_69
|
Large Intestine, Adenocarcinoma
|
subtype: 1.2
kras.mutation: N
braf.mutation: Y
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: Y
microsatellite.status: MSI
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93345_H133+_CRC-CL-069-A
|
Sample_geo_accession | GSM877162
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877162/suppl/GSM877162_EA09076_93345_H133+_CRC-CL-069-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877163 | GPL570 |
|
CRC_04
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93346_H133+_CRC-CL-004
|
Sample_geo_accession | GSM877163
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877163/suppl/GSM877163_EA09076_93346_H133+_CRC-CL-004.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877164 | GPL570 |
|
CRC_13
|
Large Intestine, Adenocarcinoma in Villous Adenoma
|
subtype: 2.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: Y
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Asian/Pacific Islander
|
Sample name: EA09076_93347_H133+_CRC-CL-013
|
Sample_geo_accession | GSM877164
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877164/suppl/GSM877164_EA09076_93347_H133+_CRC-CL-013.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877165 | GPL570 |
|
CRC_60
|
Large Intestine, Mucinous Adenocarcinoma
|
subtype: 1.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93348_H133+_CRC-CL-060-A
|
Sample_geo_accession | GSM877165
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877165/suppl/GSM877165_EA09076_93348_H133+_CRC-CL-060-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877166 | GPL570 |
|
CRC_52
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: N
braf.mutation: Y
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93349_H133+_CRC-CL-052-A
|
Sample_geo_accession | GSM877166
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877166/suppl/GSM877166_EA09076_93349_H133+_CRC-CL-052-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877167 | GPL570 |
|
CRC_41
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93350_H133+_CRC-CL-041
|
Sample_geo_accession | GSM877167
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877167/suppl/GSM877167_EA09076_93350_H133+_CRC-CL-041.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877168 | GPL570 |
|
CRC_37
|
Large Intestine, Adenocarcinoma
|
subtype: 1.3
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93351_H133+_CRC-CL-037
|
Sample_geo_accession | GSM877168
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877168/suppl/GSM877168_EA09076_93351_H133+_CRC-CL-037.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877169 | GPL570 |
|
CRC_15
|
Large Intestine, Adenocarcinoma
|
subtype: 2.1
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: Y
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Asian/Pacific Islander
|
Sample name: EA09076_93352_H133+_CRC-CL-015
|
Sample_geo_accession | GSM877169
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877169/suppl/GSM877169_EA09076_93352_H133+_CRC-CL-015.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877170 | GPL570 |
|
CRC_11
|
Large Intestine, Adenocarcinoma
|
subtype: 1.2
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93353_H133+_CRC-CL-011
|
Sample_geo_accession | GSM877170
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877170/suppl/GSM877170_EA09076_93353_H133+_CRC-CL-011.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877171 | GPL570 |
|
CRC_21
|
Large Intestine, Adenocarcinoma
|
subtype: 2.1
kras.mutation: Y
braf.mutation: N
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93354_H133+_CRC-CL-021
|
Sample_geo_accession | GSM877171
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877171/suppl/GSM877171_EA09076_93354_H133+_CRC-CL-021.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877173 | GPL570 |
|
CRC_17
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: Y
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93356_H133+_CRC-CL-017
|
Sample_geo_accession | GSM877173
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877173/suppl/GSM877173_EA09076_93356_H133+_CRC-CL-017.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877174 | GPL570 |
|
CRC_10
|
Large Intestine, Adenocarcinoma
|
subtype: 2.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93357_H133+_CRC-CL-010
|
Sample_geo_accession | GSM877174
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877174/suppl/GSM877174_EA09076_93357_H133+_CRC-CL-010.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877175 | GPL570 |
|
CRC_50
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93358_H133+_CRC-CL-050
|
Sample_geo_accession | GSM877175
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877175/suppl/GSM877175_EA09076_93358_H133+_CRC-CL-050.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877176 | GPL570 |
|
CRC_58
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93359_H133+_CRC-CL-058
|
Sample_geo_accession | GSM877176
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877176/suppl/GSM877176_EA09076_93359_H133+_CRC-CL-058.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877177 | GPL570 |
|
CRC_03
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93360_H133+_CRC-CL-003
|
Sample_geo_accession | GSM877177
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877177/suppl/GSM877177_EA09076_93360_H133+_CRC-CL-003.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877178 | GPL570 |
|
CRC_55
|
Large Intestine, Villous Adenoma
|
subtype: 2.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93361_H133+_CRC-CL-055-A
|
Sample_geo_accession | GSM877178
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877178/suppl/GSM877178_EA09076_93361_H133+_CRC-CL-055-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877179 | GPL570 |
|
CRC_30
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: N
braf.mutation: N
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93362_H133+_CRC-CL-030-A
|
Sample_geo_accession | GSM877179
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877179/suppl/GSM877179_EA09076_93362_H133+_CRC-CL-030-A.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877180 | GPL570 |
|
CRC_36
|
Large Intestine, Adenocarcinoma
|
subtype: 1.3
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93363_H133+_CRC-CL-036
|
Sample_geo_accession | GSM877180
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877180/suppl/GSM877180_EA09076_93363_H133+_CRC-CL-036.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877181 | GPL570 |
|
CRC_06
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93364_H133+_CRC-CL-006
|
Sample_geo_accession | GSM877181
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877181/suppl/GSM877181_EA09076_93364_H133+_CRC-CL-006.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877182 | GPL570 |
|
CRC_68
|
Mucinous Adenocarcinoma
|
subtype: 1.2
kras.mutation: N
braf.mutation: Y
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: Y
microsatellite.status: MSS
gender: Female
ethnicity: NA
|
Sample name: EA09076_93366_H133+_CRC-CL-068-B
|
Sample_geo_accession | GSM877182
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877182/suppl/GSM877182_EA09076_93366_H133+_CRC-CL-068-B.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877183 | GPL570 |
|
CRC_57
|
Large Intestine, Mucinous Adenocarcinoma
|
subtype: 2.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93367_H133+_CRC-CL-057
|
Sample_geo_accession | GSM877183
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877183/suppl/GSM877183_EA09076_93367_H133+_CRC-CL-057.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877184 | GPL570 |
|
CRC_62
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Caucasian
|
Sample name: EA09076_93368_H133+_CRC-CL-062
|
Sample_geo_accession | GSM877184
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877184/suppl/GSM877184_EA09076_93368_H133+_CRC-CL-062.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877185 | GPL570 |
|
CRC_38
|
Large Intestine, Adenocarcinoma
|
subtype: 1.1
kras.mutation: Y
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93370_H133+_CRC-CL-038
|
Sample_geo_accession | GSM877185
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877185/suppl/GSM877185_EA09076_93370_H133+_CRC-CL-038.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877186 | GPL570 |
|
CRC_40
|
Large Intestine, Adenocarcinoma
|
subtype: 1.2
kras.mutation: N
braf.mutation: N
apc.mutation: N
p53.mutation: Y
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Female
ethnicity: Asian/Pacific Islander
|
Sample name: EA09076_93371_H133+_CRC-CL-040
|
Sample_geo_accession | GSM877186
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877186/suppl/GSM877186_EA09076_93371_H133+_CRC-CL-040.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877187 | GPL570 |
|
CRC_49
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_93372_H133+_CRC-CL-049
|
Sample_geo_accession | GSM877187
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877187/suppl/GSM877187_EA09076_93372_H133+_CRC-CL-049.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
GSM877188 | GPL570 |
|
CRC_22
|
Large Intestine, Adenocarcinoma
|
subtype: 2.2
kras.mutation: Y
braf.mutation: N
apc.mutation: N
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSS
gender: Male
ethnicity: Caucasian
|
Sample name: EA09076_94782_H133+_CRC-CL-022
|
Sample_geo_accession | GSM877188
| Sample_status | Public on Jan 14 2013
| Sample_submission_date | Feb 16 2012
| Sample_last_update_date | Jan 14 2013
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | none
| Sample_growth_protocol_ch1 | none
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
| Sample_hyb_protocol | Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
| Sample_scan_protocol | Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
| Sample_data_processing | Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
| Sample_platform_id | GPL570
| Sample_contact_name | Garry,,Beran
| Sample_contact_email | Garry.Beran@AstraZeneca.com
| Sample_contact_department | Oncology
| Sample_contact_institute | AstraZeneca
| Sample_contact_address | Mereside, Alderley Park
| Sample_contact_city | Macclesfield
| Sample_contact_zip/postal_code | SK10 4TG
| Sample_contact_country | United Kingdom
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM877nnn/GSM877188/suppl/GSM877188_EA09076_94782_H133+_CRC-CL-022.CEL.gz
| Sample_series_id | GSE35896
| Sample_data_row_count | 54675
| |
|
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Select GSMs and click on "Add groups" |
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