Search results for the GEO ID: GSE30323  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM751954 | GPL1261 |
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BASC-Control-1 [mRNA]
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bronchoalveolar stem cells
|
strain: ICR
cell type: bronchoalveolar stem cells (BASC)
genotype/variation: control
|
Gene expression data from mouse bronchoalveolar stem cells
BASC-CMYC-C-1
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| Sample_geo_accession | GSM751954
| | Sample_status | Public on Jan 26 2012
| | Sample_submission_date | Jun 30 2011
| | Sample_last_update_date | Jan 26 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | We depleted c-Myc endogenous expression by transfecting lentivirus-delivered c-Myc shRNA into BASCs, After several generations of puromycin selection, stable c-Myc knock down cell lines were established and the degree of c-Myc reduction in both mRNA and protein level was confirmed
| | Sample_growth_protocol_ch1 | BASCs were isolated from the lungs of 4-6 week old ICR mice. In brief, Mice were sacrificed, and their lungs were removed and cut into small pieces. Tissue dissociation was performed, then passing the lungs through a 70 μM filter to obtain a single cell suspension. After washing with PBS. cells were stained with Biotin-conjugated anti-CD31 and anti-CD45, APC-conjugated streptavidin, PE-conjugated anti-Scal, and FITC-conjugated anti-CD34. Cells were washed and sorted for CD31neg, CD45neg, CD34pos and ScaIpos cells on an Aria Flow Cytometry machine. Sorted BASCs were cultured onto irradiated MEF (mouse embryonic fibroblast) cells with BASC media.
| | 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 | Lableing was performed according to Affymetrix Gene Chip technical manual
| | Sample_hyb_protocol | The targets for Affymetrix DNA microarray analysis were prepared according to the manufacturer’s instructions. Biotin-labeled cRNA, produced by in vitro transcription, was fragmented and hybridized to Affymetrix GeneChip Mouse Genome 430 2.0 Arrays at 45°C for 16 hr and then washed and stained using the GeneChip Fluidics.
| | Sample_scan_protocol | The arrays were scanned by a GeneArray Scanner and patterns of hybridization detected as light emitted from the fluorescent reporter groups incorporated into the target and hybridized to oligonucleotide probes.
| | Sample_data_processing | The data were analyzed with Partek Genomics Suite 6.4 using Affymetrix default analysis settings and GC-RMA as normalization method
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jie,,Dong
| | Sample_contact_email | dong.jie@mayo.edu
| | Sample_contact_department | Thoracic Surgery
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 1st SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55901
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM751nnn/GSM751954/suppl/GSM751954.cel.gz
| | Sample_series_id | GSE30323
| | Sample_series_id | GSE30437
| | Sample_data_row_count | 45101
| | |
|
GSM751955 | GPL1261 |
|
BASC-Control-2 [mRNA]
|
bronchoalveolar stem cells
|
strain: ICR
cell type: bronchoalveolar stem cells (BASC)
genotype/variation: control
|
Gene expression data from mouse bronchoalveolar stem cells
BASC-CMYC-C-2
|
| Sample_geo_accession | GSM751955
| | Sample_status | Public on Jan 26 2012
| | Sample_submission_date | Jun 30 2011
| | Sample_last_update_date | Jan 26 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | We depleted c-Myc endogenous expression by transfecting lentivirus-delivered c-Myc shRNA into BASCs, After several generations of puromycin selection, stable c-Myc knock down cell lines were established and the degree of c-Myc reduction in both mRNA and protein level was confirmed
| | Sample_growth_protocol_ch1 | BASCs were isolated from the lungs of 4-6 week old ICR mice. In brief, Mice were sacrificed, and their lungs were removed and cut into small pieces. Tissue dissociation was performed, then passing the lungs through a 70 μM filter to obtain a single cell suspension. After washing with PBS. cells were stained with Biotin-conjugated anti-CD31 and anti-CD45, APC-conjugated streptavidin, PE-conjugated anti-Scal, and FITC-conjugated anti-CD34. Cells were washed and sorted for CD31neg, CD45neg, CD34pos and ScaIpos cells on an Aria Flow Cytometry machine. Sorted BASCs were cultured onto irradiated MEF (mouse embryonic fibroblast) cells with BASC media.
| | 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 | Lableing was performed according to Affymetrix Gene Chip technical manual
| | Sample_hyb_protocol | The targets for Affymetrix DNA microarray analysis were prepared according to the manufacturer’s instructions. Biotin-labeled cRNA, produced by in vitro transcription, was fragmented and hybridized to Affymetrix GeneChip Mouse Genome 430 2.0 Arrays at 45°C for 16 hr and then washed and stained using the GeneChip Fluidics.
| | Sample_scan_protocol | The arrays were scanned by a GeneArray Scanner and patterns of hybridization detected as light emitted from the fluorescent reporter groups incorporated into the target and hybridized to oligonucleotide probes.
| | Sample_data_processing | The data were analyzed with Partek Genomics Suite 6.4 using Affymetrix default analysis settings and GC-RMA as normalization method
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jie,,Dong
| | Sample_contact_email | dong.jie@mayo.edu
| | Sample_contact_department | Thoracic Surgery
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 1st SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55901
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM751nnn/GSM751955/suppl/GSM751955.cel.gz
| | Sample_series_id | GSE30323
| | Sample_series_id | GSE30437
| | Sample_data_row_count | 45101
| | |
|
GSM751956 | GPL1261 |
|
BASC-Myc-depletion-1 [mRNA]
|
bronchoalveolar stem cells
|
strain: ICR
cell type: bronchoalveolar stem cells (BASC)
genotype/variation: Myc-depleted
|
Gene expression data from mouse bronchoalveolar stem cells
BASC-CMYC-depletion-1
|
| Sample_geo_accession | GSM751956
| | Sample_status | Public on Jan 26 2012
| | Sample_submission_date | Jun 30 2011
| | Sample_last_update_date | Jan 26 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | We depleted c-Myc endogenous expression by transfecting lentivirus-delivered c-Myc shRNA into BASCs, After several generations of puromycin selection, stable c-Myc knock down cell lines were established and the degree of c-Myc reduction in both mRNA and protein level was confirmed
| | Sample_growth_protocol_ch1 | BASCs were isolated from the lungs of 4-6 week old ICR mice. In brief, Mice were sacrificed, and their lungs were removed and cut into small pieces. Tissue dissociation was performed, then passing the lungs through a 70 μM filter to obtain a single cell suspension. After washing with PBS. cells were stained with Biotin-conjugated anti-CD31 and anti-CD45, APC-conjugated streptavidin, PE-conjugated anti-Scal, and FITC-conjugated anti-CD34. Cells were washed and sorted for CD31neg, CD45neg, CD34pos and ScaIpos cells on an Aria Flow Cytometry machine. Sorted BASCs were cultured onto irradiated MEF (mouse embryonic fibroblast) cells with BASC media.
| | 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 | Lableing was performed according to Affymetrix Gene Chip technical manual
| | Sample_hyb_protocol | The targets for Affymetrix DNA microarray analysis were prepared according to the manufacturer’s instructions. Biotin-labeled cRNA, produced by in vitro transcription, was fragmented and hybridized to Affymetrix GeneChip Mouse Genome 430 2.0 Arrays at 45°C for 16 hr and then washed and stained using the GeneChip Fluidics.
| | Sample_scan_protocol | The arrays were scanned by a GeneArray Scanner and patterns of hybridization detected as light emitted from the fluorescent reporter groups incorporated into the target and hybridized to oligonucleotide probes.
| | Sample_data_processing | The data were analyzed with Partek Genomics Suite 6.4 using Affymetrix default analysis settings and GC-RMA as normalization method
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jie,,Dong
| | Sample_contact_email | dong.jie@mayo.edu
| | Sample_contact_department | Thoracic Surgery
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 1st SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55901
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM751nnn/GSM751956/suppl/GSM751956.cel.gz
| | Sample_series_id | GSE30323
| | Sample_series_id | GSE30437
| | Sample_data_row_count | 45101
| | |
|
GSM751957 | GPL1261 |
|
BASC-Myc-depletion-2 [mRNA]
|
bronchoalveolar stem cells
|
strain: ICR
cell type: bronchoalveolar stem cells (BASC)
genotype/variation: Myc-depleted
|
Gene expression data from mouse bronchoalveolar stem cells
BASC-CMYC-depletion-2
|
| Sample_geo_accession | GSM751957
| | Sample_status | Public on Jan 26 2012
| | Sample_submission_date | Jun 30 2011
| | Sample_last_update_date | Jan 26 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | We depleted c-Myc endogenous expression by transfecting lentivirus-delivered c-Myc shRNA into BASCs, After several generations of puromycin selection, stable c-Myc knock down cell lines were established and the degree of c-Myc reduction in both mRNA and protein level was confirmed
| | Sample_growth_protocol_ch1 | BASCs were isolated from the lungs of 4-6 week old ICR mice. In brief, Mice were sacrificed, and their lungs were removed and cut into small pieces. Tissue dissociation was performed, then passing the lungs through a 70 μM filter to obtain a single cell suspension. After washing with PBS. cells were stained with Biotin-conjugated anti-CD31 and anti-CD45, APC-conjugated streptavidin, PE-conjugated anti-Scal, and FITC-conjugated anti-CD34. Cells were washed and sorted for CD31neg, CD45neg, CD34pos and ScaIpos cells on an Aria Flow Cytometry machine. Sorted BASCs were cultured onto irradiated MEF (mouse embryonic fibroblast) cells with BASC media.
| | 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 | Lableing was performed according to Affymetrix Gene Chip technical manual
| | Sample_hyb_protocol | The targets for Affymetrix DNA microarray analysis were prepared according to the manufacturer’s instructions. Biotin-labeled cRNA, produced by in vitro transcription, was fragmented and hybridized to Affymetrix GeneChip Mouse Genome 430 2.0 Arrays at 45°C for 16 hr and then washed and stained using the GeneChip Fluidics.
| | Sample_scan_protocol | The arrays were scanned by a GeneArray Scanner and patterns of hybridization detected as light emitted from the fluorescent reporter groups incorporated into the target and hybridized to oligonucleotide probes.
| | Sample_data_processing | The data were analyzed with Partek Genomics Suite 6.4 using Affymetrix default analysis settings and GC-RMA as normalization method
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jie,,Dong
| | Sample_contact_email | dong.jie@mayo.edu
| | Sample_contact_department | Thoracic Surgery
| | Sample_contact_institute | Mayo Clinic
| | Sample_contact_address | 200 1st SW
| | Sample_contact_city | Rochester
| | Sample_contact_state | MN
| | Sample_contact_zip/postal_code | 55901
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM751nnn/GSM751957/suppl/GSM751957.cel.gz
| | Sample_series_id | GSE30323
| | Sample_series_id | GSE30437
| | Sample_data_row_count | 45101
| | |
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