Search results for the GEO ID: GSE37645  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM924978 | GPL570 |
|
Panc265 xenograft GSI_265B Sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_265B
donor cell line: Panc265
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924978
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924978/suppl/GSM924978_GSI_265B.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924979 | GPL570 |
|
Panc253 xenograft GSI_253B Non-sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_253B
donor cell line: Panc253
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Non-sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924979
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924979/suppl/GSM924979_GSI_253B.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924980 | GPL570 |
|
Panc291 xenograft GSI_291B Non-sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_291B
donor cell line: Panc291
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Non-sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924980
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924980/suppl/GSM924980_GSI_291B.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924981 | GPL570 |
|
Panc374 xenograft GSI_374B Sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_374B
donor cell line: Panc374
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924981
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924981/suppl/GSM924981_GSI_374B.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924982 | GPL570 |
|
Panc253 xenograft GSI_253A Non-sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_253A
donor cell line: Panc253
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Non-sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924982
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924982/suppl/GSM924982_GSI_253A.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924983 | GPL570 |
|
Panc291 xenograft GSI_291A Non-sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_291A
donor cell line: Panc291
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Non-sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924983
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924983/suppl/GSM924983_GSI_291A.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924984 | GPL570 |
|
Panc374 xenograft GSI_374A Sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_374A
donor cell line: Panc374
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924984
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924984/suppl/GSM924984_GSI_374A.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924985 | GPL570 |
|
Panc215 xenograft GSI_215A Non-sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_215A
donor cell line: Panc215
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Non-sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924985
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924985/suppl/GSM924985_GSI_215A.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924986 | GPL570 |
|
JH033 xenograft GSI_JH033A Sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_JH033A
donor cell line: JH033
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924986
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924986/suppl/GSM924986_GSI_JH033A.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924987 | GPL570 |
|
Panc198 xenograft GSI_198A Non-sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_198A
donor cell line: Panc198
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Non-sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924987
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924987/suppl/GSM924987_GSI_198A.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924988 | GPL570 |
|
Panc420 xenograft GSI_420A Sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_420A
donor cell line: Panc420
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924988
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924988/suppl/GSM924988_GSI_420A.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924989 | GPL570 |
|
Panc219 xenograft GSI_219B Sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_219B
donor cell line: Panc219
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924989
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924989/suppl/GSM924989_GSI_219B.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924990 | GPL570 |
|
Panc219 xenograft GSI_219A Sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_219A
donor cell line: Panc219
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924990
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924990/suppl/GSM924990_GSI_219A.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924991 | GPL570 |
|
Panc215 xenograft GSI_215B Non-sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_215B
donor cell line: Panc215
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Non-sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924991
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924991/suppl/GSM924991_GSI_215B.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924992 | GPL570 |
|
JH033 xenograft GSI_JH033B Sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_JH033B
donor cell line: JH033
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924992
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924992/suppl/GSM924992_GSI_JH033B.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924993 | GPL570 |
|
Panc420 xenograft GSI_420B Sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_420B
donor cell line: Panc420
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924993
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924993/suppl/GSM924993_GSI_420B.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924994 | GPL570 |
|
Panc265 xenograft GSI_265A Sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_265A
donor cell line: Panc265
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924994
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924994/suppl/GSM924994_GSI_265A.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
GSM924995 | GPL570 |
|
Panc198 xenograft GSI_198B Non-sensitive to MRK-003
|
pancreatic ductal adenocarcinoma cell lines
|
sample: GSI_198B
donor cell line: Panc198
host: immunocompromised Athymic Nude-Foxn1nu mouse
phenotype: Non-sensitive to MRK-003
tissue: Pancreatic ductal adenocarcinoma tumor xenograft
|
We used pancreatic ductal adenocarcinoma cell lines to determine whether pharmacological targeting of the Notch pathway could inhibit pancreatic tumor growth and potentiate gemcitabine sensitivity.
|
| Sample_geo_accession | GSM924995
| | Sample_status | Public on May 03 2012
| | Sample_submission_date | Apr 29 2012
| | Sample_last_update_date | May 03 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
| | Sample_label_ch1 | Biotin ining process that provides the measurable signal.
| | Sample_label_protocol_ch1 | The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
| | Sample_hyb_protocol | GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45?C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
| | Sample_scan_protocol | Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
| | Sample_data_processing | Data were loaded into the Rosetta Resolver? system (Rosetta Biosoftware, Seattle, WA) and processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260). Intensities were calculated based on RMA, a Rosetta-developed error, and a MAS-5 p-value. The Rosetta-developed error is used in the calculation of xdev for the ratio p-values as described in section 2.2 (http://bioinformatics.oxfordjournals.org/cgi/content/full/22/9/1111).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Oscar,,Puig
| | Sample_contact_email | oscar_puig@merck.com
| | Sample_contact_department | Molecular Profiling Research Informatics
| | Sample_contact_institute | Merck Research Laboratories
| | Sample_contact_address | 126 East Lincoln Ave
| | Sample_contact_city | Rahway
| | Sample_contact_state | NJ
| | Sample_contact_zip/postal_code | 07065
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM924nnn/GSM924995/suppl/GSM924995_GSI_198B.CEL.gz
| | Sample_series_id | GSE37645
| | Sample_data_row_count | 54613
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
