Search results for the GEO ID: GSE14245  |
(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 |
GSM356796 | GPL570 |
|
pancreatic cancer saliva-1
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356796
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356796/suppl/GSM356796.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356797 | GPL570 |
|
pancreatic cancer saliva-2
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356797
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356797/suppl/GSM356797.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356798 | GPL570 |
|
pancreatic cancer saliva-3
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356798
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356798/suppl/GSM356798.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356799 | GPL570 |
|
pancreatic cancer saliva-4
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356799
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356799/suppl/GSM356799.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356800 | GPL570 |
|
pancreatic cancer saliva-5
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356800
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356800/suppl/GSM356800.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356801 | GPL570 |
|
pancreatic cancer saliva-6
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356801
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356801/suppl/GSM356801.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356802 | GPL570 |
|
pancreatic cancer saliva-7
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356802
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356802/suppl/GSM356802.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356803 | GPL570 |
|
pancreatic cancer saliva-8
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356803
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356803/suppl/GSM356803.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356804 | GPL570 |
|
pancreatic cancer saliva-9
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356804
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356804/suppl/GSM356804.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356805 | GPL570 |
|
pancreatic cancer saliva-10
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356805
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356805/suppl/GSM356805.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356806 | GPL570 |
|
pancreatic cancer saliva-11
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356806
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356806/suppl/GSM356806.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356807 | GPL570 |
|
pancreatic cancer saliva-12
|
saliva
|
early pancreatic cancer
|
no additional information
|
| Sample_geo_accession | GSM356807
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356807/suppl/GSM356807.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356808 | GPL570 |
|
Healthy control saliva-1
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356808
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356808/suppl/GSM356808.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356809 | GPL570 |
|
Healthy control saliva-2
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356809
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356809/suppl/GSM356809.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356810 | GPL570 |
|
Healthy control saliva-3
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356810
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356810/suppl/GSM356810.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356811 | GPL570 |
|
Healthy control saliva-4
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356811
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356811/suppl/GSM356811.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356812 | GPL570 |
|
Healthy control saliva-5
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356812
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356812/suppl/GSM356812.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356813 | GPL570 |
|
Healthy control saliva-6
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356813
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356813/suppl/GSM356813.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356814 | GPL570 |
|
Healthy control saliva-7
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356814
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356814/suppl/GSM356814.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356815 | GPL570 |
|
Healthy control saliva-8
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356815
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356815/suppl/GSM356815.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356816 | GPL570 |
|
Healthy control saliva-9
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356816
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356816/suppl/GSM356816.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356817 | GPL570 |
|
Healthy control saliva-10
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356817
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356817/suppl/GSM356817.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356818 | GPL570 |
|
Healthy control saliva-11
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356818
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356818/suppl/GSM356818.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
GSM356819 | GPL570 |
|
Healthy control saliva-12
|
saliva
|
healthy control
|
no additional information
|
| Sample_geo_accession | GSM356819
| | Sample_status | Public on Dec 31 2008
| | Sample_submission_date | Dec 30 2008
| | Sample_last_update_date | Dec 31 2008
| | 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 | Twelve pancreatic cancer samples and 12 matched control samples were used for salivary transcriptome profiling. RNA was isolated from 330 mL of saliva supernatant using the MagMAX Viral RNA Isolation Kit (Ambion). This process was automated using KingFisher mL technology (Thermo Fisher Scientific Inc.), followed by TURBO™ DNase treatment (Ambion). Eluted 10 mL RNA was reserved for subsequent quantitative real-time polymerase chain reaction (qPCR) validation. The remaining RNA (90 mL) was concentrated to 11 mL and then linearly amplified using the RiboAmp RNA Amplification kit (Molecular Devices, Sunnyvale, CA).
| | Sample_extract_protocol_ch1 | After purification, cDNA was in vitro transcribed and biotinylated using GeneChip Expression 3’-Amplification Reagents for in vitro transcription labeling (Affymetrix, Santa Clara, CA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_hyb_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_scan_protocol | Standard Affymetrix protocols via UCLA Microarray Core (http://microarray.genetics.ucla.edu/)
| | Sample_data_processing | The CEL files from all datasets (array data from 12 pancreatic cancer saliva samples and 12 healthy saliva samples) were imported into Affymetrix® Expression Console™ Software. The analysis was performed as follows: the PLIER expression measures were computed after background correction and quantile normalization for each microarray dataset. Probeset-level quantile normalization was performed across all samples to make the effect sizes similar among all datasets.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Lei,,Zhang
| | Sample_contact_email | leizhang@ucla.edu
| | Sample_contact_institute | UCLA Dental Research Institute
| | Sample_contact_address | 10833 Le Conte Ave., CHS 73-029
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90066
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM356nnn/GSM356819/suppl/GSM356819.CEL.gz
| | Sample_series_id | GSE14245
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
