Search results for the GEO ID: GSE28996  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM718434 | GPL570 |
|
ACC10
|
adenoid cystic carcinoma
|
specimen id: ACC10
tissue: adenoid cystic carcinoma
tissue source: Human
|
|
| Sample_geo_accession | GSM718434
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718434/suppl/GSM718434_08-34_ACC10.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718435 | GPL570 |
|
ACC11
|
adenoid cystic carcinoma
|
specimen id: ACC11
tissue: adenoid cystic carcinoma
tissue source: Human
|
|
| Sample_geo_accession | GSM718435
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718435/suppl/GSM718435_08-34_ACC11.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718436 | GPL570 |
|
ACC12
|
adenoid cystic carcinoma
|
specimen id: ACC12
tissue: adenoid cystic carcinoma
tissue source: Human
|
|
| Sample_geo_accession | GSM718436
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718436/suppl/GSM718436_08-34_ACC12.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718437 | GPL570 |
|
ACC27
|
adenoid cystic carcinoma
|
specimen id: ACC27
tissue: adenoid cystic carcinoma
tissue source: Human
|
|
| Sample_geo_accession | GSM718437
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718437/suppl/GSM718437_08-34_ACC27.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718438 | GPL570 |
|
ACC42
|
adenoid cystic carcinoma
|
specimen id: ACC42
tissue: adenoid cystic carcinoma
tissue source: Human
|
|
| Sample_geo_accession | GSM718438
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718438/suppl/GSM718438_08-34_ACC42.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718439 | GPL570 |
|
ACC43
|
adenoid cystic carcinoma
|
specimen id: ACC43
tissue: adenoid cystic carcinoma
tissue source: Human
|
|
| Sample_geo_accession | GSM718439
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718439/suppl/GSM718439_08-34_ACC43.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718440 | GPL570 |
|
ACC48
|
adenoid cystic carcinoma
|
specimen id: ACC48
tissue: adenoid cystic carcinoma
tissue source: Human
|
|
| Sample_geo_accession | GSM718440
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718440/suppl/GSM718440_08-34_ACC48.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718441 | GPL570 |
|
ACC6
|
adenoid cystic carcinoma
|
specimen id: ACC6
tissue: adenoid cystic carcinoma
tissue source: Human
|
|
| Sample_geo_accession | GSM718441
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718441/suppl/GSM718441_08-34_ACC6.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718442 | GPL570 |
|
ACC7
|
adenoid cystic carcinoma
|
specimen id: ACC7
tissue: adenoid cystic carcinoma
tissue source: Human
|
|
| Sample_geo_accession | GSM718442
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718442/suppl/GSM718442_08-34_ACC7.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718443 | GPL570 |
|
ACC7M1
|
adenoid cystic carcinoma
|
specimen id: ACC7M1
tissue: adenoid cystic carcinoma
tissue source: Human
|
|
| Sample_geo_accession | GSM718443
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718443/suppl/GSM718443_08-34_ACC7M1.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718444 | GPL570 |
|
ACCX1
|
adenoid cystic carcinoma
|
specimen id: ACCX1
tissue: adenoid cystic carcinoma
tissue source: Xenograft
|
|
| Sample_geo_accession | GSM718444
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718444/suppl/GSM718444_08-34_ACCX1.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718445 | GPL570 |
|
ACCX11
|
adenoid cystic carcinoma
|
specimen id: ACCX11
tissue: adenoid cystic carcinoma
tissue source: Xenograft
xenograft source: ACC42
|
|
| Sample_geo_accession | GSM718445
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718445/suppl/GSM718445_08-34_ACCX11.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718446 | GPL570 |
|
ACCX12
|
adenoid cystic carcinoma
|
specimen id: ACCX12
tissue: adenoid cystic carcinoma
tissue source: Xenograft
|
|
| Sample_geo_accession | GSM718446
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718446/suppl/GSM718446_08-34_ACCX12.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718447 | GPL570 |
|
ACCX16
|
adenoid cystic carcinoma
|
specimen id: ACCX16
tissue: adenoid cystic carcinoma
tissue source: Xenograft
xenograft source: ACC48
|
|
| Sample_geo_accession | GSM718447
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718447/suppl/GSM718447_08-34_ACCX16.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718448 | GPL570 |
|
ACCX2
|
adenoid cystic carcinoma
|
specimen id: ACCX2
tissue: adenoid cystic carcinoma
tissue source: Xenograft
xenograft source: ACC7
|
|
| Sample_geo_accession | GSM718448
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718448/suppl/GSM718448_08-34_ACCX2.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718449 | GPL570 |
|
ACCX4
|
adenoid cystic carcinoma
|
specimen id: ACCX4
tissue: adenoid cystic carcinoma
tissue source: Xenograft
xenograft source: ACC27
|
|
| Sample_geo_accession | GSM718449
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718449/suppl/GSM718449_08-34_ACCX4.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718450 | GPL570 |
|
ACCX5
|
adenoid cystic carcinoma
|
specimen id: ACCX5
tissue: adenoid cystic carcinoma
tissue source: Xenograft
|
|
| Sample_geo_accession | GSM718450
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718450/suppl/GSM718450_08-34_ACCX5.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718451 | GPL570 |
|
ACCX5M1
|
adenoid cystic carcinoma
|
specimen id: ACCX5M1
tissue: adenoid cystic carcinoma
tissue source: Xenograft
|
|
| Sample_geo_accession | GSM718451
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718451/suppl/GSM718451_08-34_ACCX5M1.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718452 | GPL570 |
|
ACCX6
|
adenoid cystic carcinoma
|
specimen id: ACCX6
tissue: adenoid cystic carcinoma
tissue source: Xenograft
xenograft source: ACC7M1
|
|
| Sample_geo_accession | GSM718452
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718452/suppl/GSM718452_08-34_ACCX6.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718453 | GPL570 |
|
ACCX9
|
adenoid cystic carcinoma
|
specimen id: ACCX9
tissue: adenoid cystic carcinoma
tissue source: Xenograft
xenograft source: ACC10
|
|
| Sample_geo_accession | GSM718453
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718453/suppl/GSM718453_08-34_ACCX9.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718454 | GPL570 |
|
MAD04-385
|
adenoid cystic carcinoma
|
specimen id: MAD04-385
tissue: adenoid cystic carcinoma
tissue source: Xenograft
|
|
| Sample_geo_accession | GSM718454
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718454/suppl/GSM718454_08-34_MAD04-385.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
|
GSM718455 | GPL570 |
|
M167
|
adenoid cystic carcinoma
|
specimen id: M167
tissue: adenoid cystic carcinoma
tissue source: Xenograft
|
|
| Sample_geo_accession | GSM718455
| | Sample_status | Public on May 03 2011
| | Sample_submission_date | Apr 30 2011
| | Sample_last_update_date | May 03 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | All xenografts reported here were implanted in mice within 36 hours of tissue being removed from the human subjects. Nude mice (nu/nu) were anesthetized with intraperitoneal injection of Ketamine/Xylazine 60-80/5-10 mg/kg. Cutaneous incisions were made in the midscapular and bilateral flank regions, with a subcutaneous pocket created by blunt dissection. One to four fragments of minced tumor (1-2 mm in diameter) were placed in each pocket, with subsequent closure of the incision with surgical staples. Tumors were allowed to grow to a maximum diameter of 1 to 1.5 cm, and were then surgically harvested. Aliquots of the xenograft tumor were minced and passaged into new mice as described above.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen tissue samples of ACC xenografts and corresponding human cancers were embedded in O.C.T. compound (Sakura Finetek) and subjected to cryostat sectioning. The stained frozen sections were used to direct the dissection of tumor that corresponded to > 80% tumor cellularity. These dissected subsamples were disrupted using a tissue homogenizer (Pro-200, ProScientific) in lysis buffer supplied in the RNeasy kit (Qiagen) with subsequent RNA isolation using columns and materials supplied by the manufacturer.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was generated using standard Affymetrix protocols.
| | Sample_hyb_protocol | Hybridization was performed according to standard protocols for Affymetrix HG-U133 plus 2.0 arrays.
| | Sample_scan_protocol | Arrays were scanned using an Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | The data was processed through the Affymetrix Power Tools (APT) suite using quantile normalization, perfect-match vs. mismatch correction, and the PLIER algorithm.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Alexander,,Baras
| | Sample_contact_email | baras@virginia.edu
| | Sample_contact_institute | University of Virginia
| | Sample_contact_address | 3024 University Hospital, PO Box 800214
| | Sample_contact_city | Charlottesville
| | Sample_contact_state | Virginia
| | Sample_contact_zip/postal_code | 22908
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM718nnn/GSM718455/suppl/GSM718455_2009-003_M167.CEL.gz
| | Sample_series_id | GSE28996
| | Sample_data_row_count | 54675
| | |
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