Search results for the GEO ID: GSE17671 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM440993 | GPL3921 |
|
AALE-KRAS, biological rep1
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Oncogenic KRAS expression
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cell type: Immortalized lung epithelial cells
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Gene expression data following oncogenic KRAS expression
|
Sample_geo_accession | GSM440993
| Sample_status | Public on Oct 21 2009
| Sample_submission_date | Aug 17 2009
| Sample_last_update_date | Oct 21 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were transduced with pBP control vector, pBP-KRAS G12V, or pBP-KRAS WT, selected in puromycin, then RNA was harvested 6 days post-infection.
| Sample_growth_protocol_ch1 | AALE cells (Lundberg et al., Oncogene 2002;21:4577) were grown in serum free SABM media with supplements using standard culture conditions.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix HT protocol from 1 ug total RNA. PolyA controls were not added.
| Sample_hyb_protocol | Following fragmentation, 13.75 ug of cRNA was hybridized for 16 hr at 45C on U133A HTA Human Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | The data were scanned using Affymetrix HT Scanner
| Sample_data_processing | The data were analyzed with RMA (Gene Pattern's ExpressionFileCreator version 8). Parameters: method RMA quantile normalization yes background correct yes compute present absent calls no normalization method none value to scale to clm file annotate probes yes
| Sample_platform_id | GPL3921
| Sample_contact_name | Pablo,,Tamayo
| Sample_contact_email | tamayo@broad.mit.edu
| Sample_contact_phone | 617-252-1410
| Sample_contact_department | Cancer Program
| Sample_contact_institute | Broad Institute
| Sample_contact_address | Seven Cambridge Center
| Sample_contact_city | Cambridge
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02142
| Sample_contact_country | USA
| Sample_contact_web_link | www.broad.mit.edu/cancer
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM440nnn/GSM440993/suppl/GSM440993.CEL.gz
| Sample_series_id | GSE17671
| Sample_series_id | GSE17672
| Sample_data_row_count | 22277
| |
|
GSM440994 | GPL3921 |
|
AALE-KRAS, biological rep2
|
Oncogenic KRAS expression
|
cell type: Immortalized lung epithelial cells
|
Gene expression data following oncogenic KRAS expression
|
Sample_geo_accession | GSM440994
| Sample_status | Public on Oct 21 2009
| Sample_submission_date | Aug 17 2009
| Sample_last_update_date | Oct 21 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were transduced with pBP control vector, pBP-KRAS G12V, or pBP-KRAS WT, selected in puromycin, then RNA was harvested 6 days post-infection.
| Sample_growth_protocol_ch1 | AALE cells (Lundberg et al., Oncogene 2002;21:4577) were grown in serum free SABM media with supplements using standard culture conditions.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix HT protocol from 1 ug total RNA. PolyA controls were not added.
| Sample_hyb_protocol | Following fragmentation, 13.75 ug of cRNA was hybridized for 16 hr at 45C on U133A HTA Human Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | The data were scanned using Affymetrix HT Scanner
| Sample_data_processing | The data were analyzed with RMA (Gene Pattern's ExpressionFileCreator version 8). Parameters: method RMA quantile normalization yes background correct yes compute present absent calls no normalization method none value to scale to clm file annotate probes yes
| Sample_platform_id | GPL3921
| Sample_contact_name | Pablo,,Tamayo
| Sample_contact_email | tamayo@broad.mit.edu
| Sample_contact_phone | 617-252-1410
| Sample_contact_department | Cancer Program
| Sample_contact_institute | Broad Institute
| Sample_contact_address | Seven Cambridge Center
| Sample_contact_city | Cambridge
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02142
| Sample_contact_country | USA
| Sample_contact_web_link | www.broad.mit.edu/cancer
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM440nnn/GSM440994/suppl/GSM440994.CEL.gz
| Sample_series_id | GSE17671
| Sample_series_id | GSE17672
| Sample_data_row_count | 22277
| |
|
GSM440995 | GPL3921 |
|
AALE-Vector, biological rep1
|
Control vector expression
|
cell type: Immortalized lung epithelial cells
|
Gene expression data following control vector expression
|
Sample_geo_accession | GSM440995
| Sample_status | Public on Oct 21 2009
| Sample_submission_date | Aug 17 2009
| Sample_last_update_date | Oct 21 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were transduced with pBP control vector, pBP-KRAS G12V, or pBP-KRAS WT, selected in puromycin, then RNA was harvested 6 days post-infection.
| Sample_growth_protocol_ch1 | AALE cells (Lundberg et al., Oncogene 2002;21:4577) were grown in serum free SABM media with supplements using standard culture conditions.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix HT protocol from 1 ug total RNA. PolyA controls were not added.
| Sample_hyb_protocol | Following fragmentation, 13.75 ug of cRNA was hybridized for 16 hr at 45C on U133A HTA Human Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | The data were scanned using Affymetrix HT Scanner
| Sample_data_processing | The data were analyzed with RMA (Gene Pattern's ExpressionFileCreator version 8). Parameters: method RMA quantile normalization yes background correct yes compute present absent calls no normalization method none value to scale to clm file annotate probes yes
| Sample_platform_id | GPL3921
| Sample_contact_name | Pablo,,Tamayo
| Sample_contact_email | tamayo@broad.mit.edu
| Sample_contact_phone | 617-252-1410
| Sample_contact_department | Cancer Program
| Sample_contact_institute | Broad Institute
| Sample_contact_address | Seven Cambridge Center
| Sample_contact_city | Cambridge
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02142
| Sample_contact_country | USA
| Sample_contact_web_link | www.broad.mit.edu/cancer
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM440nnn/GSM440995/suppl/GSM440995.CEL.gz
| Sample_series_id | GSE17671
| Sample_series_id | GSE17672
| Sample_data_row_count | 22277
| |
|
GSM440996 | GPL3921 |
|
AALE-Vector, biological rep2
|
Control vector expression
|
cell type: Immortalized lung epithelial cells
|
Gene expression data following control vector expression
|
Sample_geo_accession | GSM440996
| Sample_status | Public on Oct 21 2009
| Sample_submission_date | Aug 17 2009
| Sample_last_update_date | Oct 21 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were transduced with pBP control vector, pBP-KRAS G12V, or pBP-KRAS WT, selected in puromycin, then RNA was harvested 6 days post-infection.
| Sample_growth_protocol_ch1 | AALE cells (Lundberg et al., Oncogene 2002;21:4577) were grown in serum free SABM media with supplements using standard culture conditions.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix HT protocol from 1 ug total RNA. PolyA controls were not added.
| Sample_hyb_protocol | Following fragmentation, 13.75 ug of cRNA was hybridized for 16 hr at 45C on U133A HTA Human Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | The data were scanned using Affymetrix HT Scanner
| Sample_data_processing | The data were analyzed with RMA (Gene Pattern's ExpressionFileCreator version 8). Parameters: method RMA quantile normalization yes background correct yes compute present absent calls no normalization method none value to scale to clm file annotate probes yes
| Sample_platform_id | GPL3921
| Sample_contact_name | Pablo,,Tamayo
| Sample_contact_email | tamayo@broad.mit.edu
| Sample_contact_phone | 617-252-1410
| Sample_contact_department | Cancer Program
| Sample_contact_institute | Broad Institute
| Sample_contact_address | Seven Cambridge Center
| Sample_contact_city | Cambridge
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02142
| Sample_contact_country | USA
| Sample_contact_web_link | www.broad.mit.edu/cancer
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM440nnn/GSM440996/suppl/GSM440996.CEL.gz
| Sample_series_id | GSE17671
| Sample_series_id | GSE17672
| Sample_data_row_count | 22277
| |
|
GSM440997 | GPL3921 |
|
AALE-KRAS WT, biological rep1
|
WT KRAS expression
|
cell type: Immortalized lung epithelial cells
|
Gene expression data of WT KRAS
|
Sample_geo_accession | GSM440997
| Sample_status | Public on Oct 21 2009
| Sample_submission_date | Aug 17 2009
| Sample_last_update_date | Oct 21 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were transduced with pBP control vector, pBP-KRAS G12V, or pBP-KRAS WT, selected in puromycin, then RNA was harvested 6 days post-infection.
| Sample_growth_protocol_ch1 | AALE cells (Lundberg et al., Oncogene 2002;21:4577) were grown in serum free SABM media with supplements using standard culture conditions.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix HT protocol from 1 ug total RNA. PolyA controls were not added.
| Sample_hyb_protocol | Following fragmentation, 13.75 ug of cRNA was hybridized for 16 hr at 45C on U133A HTA Human Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | The data were scanned using Affymetrix HT Scanner
| Sample_data_processing | The data were analyzed with RMA (Gene Pattern's ExpressionFileCreator version 8). Parameters: method RMA quantile normalization yes background correct yes compute present absent calls no normalization method none value to scale to clm file annotate probes yes
| Sample_platform_id | GPL3921
| Sample_contact_name | Pablo,,Tamayo
| Sample_contact_email | tamayo@broad.mit.edu
| Sample_contact_phone | 617-252-1410
| Sample_contact_department | Cancer Program
| Sample_contact_institute | Broad Institute
| Sample_contact_address | Seven Cambridge Center
| Sample_contact_city | Cambridge
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02142
| Sample_contact_country | USA
| Sample_contact_web_link | www.broad.mit.edu/cancer
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM440nnn/GSM440997/suppl/GSM440997.CEL.gz
| Sample_series_id | GSE17671
| Sample_series_id | GSE17672
| Sample_data_row_count | 22277
| |
|
GSM440998 | GPL3921 |
|
AALE-KRAS WT, biological rep2
|
WT KRAS expression
|
cell type: Immortalized lung epithelial cells
|
Gene expression data of WT KRAS
|
Sample_geo_accession | GSM440998
| Sample_status | Public on Oct 21 2009
| Sample_submission_date | Aug 17 2009
| Sample_last_update_date | Oct 21 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were transduced with pBP control vector, pBP-KRAS G12V, or pBP-KRAS WT, selected in puromycin, then RNA was harvested 6 days post-infection.
| Sample_growth_protocol_ch1 | AALE cells (Lundberg et al., Oncogene 2002;21:4577) were grown in serum free SABM media with supplements using standard culture conditions.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix HT protocol from 1 ug total RNA. PolyA controls were not added.
| Sample_hyb_protocol | Following fragmentation, 13.75 ug of cRNA was hybridized for 16 hr at 45C on U133A HTA Human Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | The data were scanned using Affymetrix HT Scanner
| Sample_data_processing | The data were analyzed with RMA (Gene Pattern's ExpressionFileCreator version 8). Parameters: method RMA quantile normalization yes background correct yes compute present absent calls no normalization method none value to scale to clm file annotate probes yes
| Sample_platform_id | GPL3921
| Sample_contact_name | Pablo,,Tamayo
| Sample_contact_email | tamayo@broad.mit.edu
| Sample_contact_phone | 617-252-1410
| Sample_contact_department | Cancer Program
| Sample_contact_institute | Broad Institute
| Sample_contact_address | Seven Cambridge Center
| Sample_contact_city | Cambridge
| Sample_contact_state | MA
| Sample_contact_zip/postal_code | 02142
| Sample_contact_country | USA
| Sample_contact_web_link | www.broad.mit.edu/cancer
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM440nnn/GSM440998/suppl/GSM440998.CEL.gz
| Sample_series_id | GSE17671
| Sample_series_id | GSE17672
| Sample_data_row_count | 22277
| |
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