Search results for the GEO ID: GSE16194  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM406502 | GPL570 |
|
H441 vector control
|
Parental cell lines were purchased from the American Type Culture Collection.
|
histology: adenocarcinoma
cell line: H441
|
Gene expression data from H441 lung cancer cell line stably transduced with an empty vector.
|
| Sample_geo_accession | GSM406502
| | Sample_status | Public on May 21 2010
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 26 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were stably transduced as follows: wild-type Snail cDNA pcDNA3 (a gift from Dr. E. Fearon, University of Michigan) was excised from the plasmid with HindIII and EcoRV and subcloned into the retroviral vector pLHCX (Clontech, Mountain View, CA), which includes a drug resistance (hygromycin B) marker. All constructs were verified by restriction endonuclease digestion. For virus production, 70% confluent 293T cells were co-transfected with pLHCX-Snail or pLHCX (vector alone). Tumor cells were then transduced with high-titer supernatants producing either Snail or pLHCX virus. Following transduction, the tumor cells were selected with hygromycin B. Cells were verified by genotyping and tested for mycoplasma prior to use in experiments. Cells were collected at similar confluencies for RNA extraction.
| | Sample_growth_protocol_ch1 | Cells were grown in 10% FBS/RPMI 1640 with L-glutamine containing 1% penicillin-streptomycin and 350µg/mL hygromycin B. Cells were maintained at confluencies between 50-80%.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was collected with the Qiagen RNeasy mini kit per kit instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix Gene Chip Human Genome U133 Plus 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Scanning was performed with an Affymetrix GeneChip Scanner 3000 7G. GCOS v1.4 was used for image processing.
| | Sample_data_processing | Harvard dChip software was used for data analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jane,,Yanagawa
| | Sample_contact_email | jyanagawa@ucsd.edu
| | Sample_contact_phone | (310)206-3881
| | Sample_contact_fax | (310)794-9808
| | Sample_contact_laboratory | Dubinett
| | Sample_contact_department | Medicine
| | Sample_contact_institute | UCLA
| | Sample_contact_address | 10833 Le Conte Ave, Box 951690, 37-131 CHS
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90095
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406502/suppl/GSM406502.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406502/suppl/GSM406502.CHP.gz
| | Sample_series_id | GSE16194
| | Sample_data_row_count | 54675
| | |
|
GSM406503 | GPL570 |
|
H441 Snail over-expressing
|
Parental cell lines were purchased from the American Type Culture Collection.
|
histology: adenocarcinoma
cell line: H441
|
Gene expression data from H441 lung cancer cell line stably transduced with a Snail over-expressing vector.
|
| Sample_geo_accession | GSM406503
| | Sample_status | Public on May 21 2010
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 26 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were stably transduced as follows: wild-type Snail cDNA pcDNA3 (a gift from Dr. E. Fearon, University of Michigan) was excised from the plasmid with HindIII and EcoRV and subcloned into the retroviral vector pLHCX (Clontech, Mountain View, CA), which includes a drug resistance (hygromycin B) marker. All constructs were verified by restriction endonuclease digestion. For virus production, 70% confluent 293T cells were co-transfected with pLHCX-Snail or pLHCX (vector alone). Tumor cells were then transduced with high-titer supernatants producing either Snail or pLHCX virus. Following transduction, the tumor cells were selected with hygromycin B. Cells were verified by genotyping and tested for mycoplasma prior to use in experiments. Cells were collected at similar confluencies for RNA extraction.
| | Sample_growth_protocol_ch1 | Cells were grown in 10% FBS/RPMI 1640 with L-glutamine containing 1% penicillin-streptomycin and 350µg/mL hygromycin B. Cells were maintained at confluencies between 50-80%.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was collected with the Qiagen RNeasy mini kit per kit instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix Gene Chip Human Genome U133 Plus 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Scanning was performed with an Affymetrix GeneChip Scanner 3000 7G. GCOS v1.4 was used for image processing.
| | Sample_data_processing | Harvard dChip software was used for data analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jane,,Yanagawa
| | Sample_contact_email | jyanagawa@ucsd.edu
| | Sample_contact_phone | (310)206-3881
| | Sample_contact_fax | (310)794-9808
| | Sample_contact_laboratory | Dubinett
| | Sample_contact_department | Medicine
| | Sample_contact_institute | UCLA
| | Sample_contact_address | 10833 Le Conte Ave, Box 951690, 37-131 CHS
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90095
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406503/suppl/GSM406503.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406503/suppl/GSM406503.CHP.gz
| | Sample_series_id | GSE16194
| | Sample_data_row_count | 54675
| | |
|
GSM406504 | GPL570 |
|
H292 vector control
|
Parental cell lines were purchased from the American Type Culture Collection.
|
histology: mucoepidermoid
cell line: H292
|
Gene expression data from H292 lung cancer cell line stably transduced with an empty vector.
|
| Sample_geo_accession | GSM406504
| | Sample_status | Public on May 21 2010
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 26 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were stably transduced as follows: wild-type Snail cDNA pcDNA3 (a gift from Dr. E. Fearon, University of Michigan) was excised from the plasmid with HindIII and EcoRV and subcloned into the retroviral vector pLHCX (Clontech, Mountain View, CA), which includes a drug resistance (hygromycin B) marker. All constructs were verified by restriction endonuclease digestion. For virus production, 70% confluent 293T cells were co-transfected with pLHCX-Snail or pLHCX (vector alone). Tumor cells were then transduced with high-titer supernatants producing either Snail or pLHCX virus. Following transduction, the tumor cells were selected with hygromycin B. Cells were verified by genotyping and tested for mycoplasma prior to use in experiments. Cells were collected at similar confluencies for RNA extraction.
| | Sample_growth_protocol_ch1 | Cells were grown in 10% FBS/RPMI 1640 with L-glutamine containing 1% penicillin-streptomycin and 350µg/mL hygromycin B. Cells were maintained at confluencies between 50-80%.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was collected with the Qiagen RNeasy mini kit per kit instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix Gene Chip Human Genome U133 Plus 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Scanning was performed with an Affymetrix GeneChip Scanner 3000 7G. GCOS v1.4 was used for image processing.
| | Sample_data_processing | Harvard dChip software was used for data analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jane,,Yanagawa
| | Sample_contact_email | jyanagawa@ucsd.edu
| | Sample_contact_phone | (310)206-3881
| | Sample_contact_fax | (310)794-9808
| | Sample_contact_laboratory | Dubinett
| | Sample_contact_department | Medicine
| | Sample_contact_institute | UCLA
| | Sample_contact_address | 10833 Le Conte Ave, Box 951690, 37-131 CHS
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90095
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406504/suppl/GSM406504.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406504/suppl/GSM406504.CHP.gz
| | Sample_series_id | GSE16194
| | Sample_data_row_count | 54675
| | |
|
GSM406505 | GPL570 |
|
H292 Snail over-expressing
|
Parental cell lines were purchased from the American Type Culture Collection.
|
histology: mucoepidermoid
cell line: H292
|
Gene expression data from H292 lung cancer cell line stably transduced with a Snail over-expressing vector.
|
| Sample_geo_accession | GSM406505
| | Sample_status | Public on May 21 2010
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 26 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were stably transduced as follows: wild-type Snail cDNA pcDNA3 (a gift from Dr. E. Fearon, University of Michigan) was excised from the plasmid with HindIII and EcoRV and subcloned into the retroviral vector pLHCX (Clontech, Mountain View, CA), which includes a drug resistance (hygromycin B) marker. All constructs were verified by restriction endonuclease digestion. For virus production, 70% confluent 293T cells were co-transfected with pLHCX-Snail or pLHCX (vector alone). Tumor cells were then transduced with high-titer supernatants producing either Snail or pLHCX virus. Following transduction, the tumor cells were selected with hygromycin B. Cells were verified by genotyping and tested for mycoplasma prior to use in experiments. Cells were collected at similar confluencies for RNA extraction.
| | Sample_growth_protocol_ch1 | Cells were grown in 10% FBS/RPMI 1640 with L-glutamine containing 1% penicillin-streptomycin and 350µg/mL hygromycin B. Cells were maintained at confluencies between 50-80%.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was collected with the Qiagen RNeasy mini kit per kit instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix Gene Chip Human Genome U133 Plus 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Scanning was performed with an Affymetrix GeneChip Scanner 3000 7G. GCOS v1.4 was used for image processing.
| | Sample_data_processing | Harvard dChip software was used for data analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jane,,Yanagawa
| | Sample_contact_email | jyanagawa@ucsd.edu
| | Sample_contact_phone | (310)206-3881
| | Sample_contact_fax | (310)794-9808
| | Sample_contact_laboratory | Dubinett
| | Sample_contact_department | Medicine
| | Sample_contact_institute | UCLA
| | Sample_contact_address | 10833 Le Conte Ave, Box 951690, 37-131 CHS
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90095
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406505/suppl/GSM406505.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406505/suppl/GSM406505.CHP.gz
| | Sample_series_id | GSE16194
| | Sample_data_row_count | 54675
| | |
|
GSM406506 | GPL570 |
|
H1437 vector control
|
Parental cell lines were purchased from the American Type Culture Collection.
|
histology: adenocarcinoma
cell line: H1437
|
Gene expression data from H1437 lung cancer cell line stably transduced with an empty vector.
|
| Sample_geo_accession | GSM406506
| | Sample_status | Public on May 21 2010
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 26 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were stably transduced as follows: wild-type Snail cDNA pcDNA3 (a gift from Dr. E. Fearon, University of Michigan) was excised from the plasmid with HindIII and EcoRV and subcloned into the retroviral vector pLHCX (Clontech, Mountain View, CA), which includes a drug resistance (hygromycin B) marker. All constructs were verified by restriction endonuclease digestion. For virus production, 70% confluent 293T cells were co-transfected with pLHCX-Snail or pLHCX (vector alone). Tumor cells were then transduced with high-titer supernatants producing either Snail or pLHCX virus. Following transduction, the tumor cells were selected with hygromycin B. Cells were verified by genotyping and tested for mycoplasma prior to use in experiments. Cells were collected at similar confluencies for RNA extraction.
| | Sample_growth_protocol_ch1 | Cells were grown in 10% FBS/RPMI 1640 with L-glutamine containing 1% penicillin-streptomycin and 350µg/mL hygromycin B. Cells were maintained at confluencies between 50-80%.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was collected with the Qiagen RNeasy mini kit per kit instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix Gene Chip Human Genome U133 Plus 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Scanning was performed with an Affymetrix GeneChip Scanner 3000 7G. GCOS v1.4 was used for image processing.
| | Sample_data_processing | Harvard dChip software was used for data analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jane,,Yanagawa
| | Sample_contact_email | jyanagawa@ucsd.edu
| | Sample_contact_phone | (310)206-3881
| | Sample_contact_fax | (310)794-9808
| | Sample_contact_laboratory | Dubinett
| | Sample_contact_department | Medicine
| | Sample_contact_institute | UCLA
| | Sample_contact_address | 10833 Le Conte Ave, Box 951690, 37-131 CHS
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90095
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406506/suppl/GSM406506.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406506/suppl/GSM406506.CHP.gz
| | Sample_series_id | GSE16194
| | Sample_data_row_count | 54675
| | |
|
GSM406507 | GPL570 |
|
H1437 Snail over-expressing
|
Parental cell lines were purchased from the American Type Culture Collection.
|
histology: adenocarcinoma
cell line: H1437
|
Gene expression data from H1437 lung cancer cell line stably transduced with a Snail over-expressing vector.
|
| Sample_geo_accession | GSM406507
| | Sample_status | Public on May 21 2010
| | Sample_submission_date | May 21 2009
| | Sample_last_update_date | May 26 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were stably transduced as follows: wild-type Snail cDNA pcDNA3 (a gift from Dr. E. Fearon, University of Michigan) was excised from the plasmid with HindIII and EcoRV and subcloned into the retroviral vector pLHCX (Clontech, Mountain View, CA), which includes a drug resistance (hygromycin B) marker. All constructs were verified by restriction endonuclease digestion. For virus production, 70% confluent 293T cells were co-transfected with pLHCX-Snail or pLHCX (vector alone). Tumor cells were then transduced with high-titer supernatants producing either Snail or pLHCX virus. Following transduction, the tumor cells were selected with hygromycin B. Cells were verified by genotyping and tested for mycoplasma prior to use in experiments. Cells were collected at similar confluencies for RNA extraction.
| | Sample_growth_protocol_ch1 | Cells were grown in 10% FBS/RPMI 1640 with L-glutamine containing 1% penicillin-streptomycin and 350µg/mL hygromycin B. Cells were maintained at confluencies between 50-80%.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was collected with the Qiagen RNeasy mini kit per kit instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix Gene Chip Human Genome U133 Plus 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Scanning was performed with an Affymetrix GeneChip Scanner 3000 7G. GCOS v1.4 was used for image processing.
| | Sample_data_processing | Harvard dChip software was used for data analysis.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jane,,Yanagawa
| | Sample_contact_email | jyanagawa@ucsd.edu
| | Sample_contact_phone | (310)206-3881
| | Sample_contact_fax | (310)794-9808
| | Sample_contact_laboratory | Dubinett
| | Sample_contact_department | Medicine
| | Sample_contact_institute | UCLA
| | Sample_contact_address | 10833 Le Conte Ave, Box 951690, 37-131 CHS
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90095
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406507/suppl/GSM406507.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM406nnn/GSM406507/suppl/GSM406507.CHP.gz
| | Sample_series_id | GSE16194
| | Sample_data_row_count | 54675
| | |
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