Search results for the GEO ID: GSE18607  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM462596 | GPL1261 |
|
IFN1_d7
|
pulmonary CD11c+ cells from IFNAR-/- mouse 1 at day 7 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from IFNAR-/- mouse 1 at day 7 post infection
|
| Sample_geo_accession | GSM462596
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462596/suppl/GSM462596.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462596/suppl/GSM462596.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462597 | GPL1261 |
|
IFN2_d7
|
pulmonary CD11c+ cells from IFNAR-/- mouse 2 at day 7 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from IFNAR-/- mouse 2 at day 7 post infection
|
| Sample_geo_accession | GSM462597
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462597/suppl/GSM462597.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462597/suppl/GSM462597.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462598 | GPL1261 |
|
IFN3_d7
|
pulmonary CD11c+ cells from IFNAR-/- mouse 3 at day 7 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from IFNAR-/- mouse 3 at day 7 post infection
|
| Sample_geo_accession | GSM462598
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462598/suppl/GSM462598.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462598/suppl/GSM462598.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462599 | GPL1261 |
|
IFN1_d14
|
pulmonary CD11c+ cells from IFNAR-/- mouse 1 at day 14 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from IFNAR-/- mouse 1 at day 14 post infection
|
| Sample_geo_accession | GSM462599
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462599/suppl/GSM462599.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462599/suppl/GSM462599.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462600 | GPL1261 |
|
IFN2_d14
|
pulmonary CD11c+ cells from IFNAR-/- mouse 2 at day 14 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from IFNAR-/- mouse 2 at day 14 post infection
|
| Sample_geo_accession | GSM462600
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462600/suppl/GSM462600.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462600/suppl/GSM462600.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462601 | GPL1261 |
|
IFN3_d14
|
pulmonary CD11c+ cells from IFNAR-/- mouse 3 at day 14 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from IFNAR-/- mouse 3 at day 14 post infection
|
| Sample_geo_accession | GSM462601
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462601/suppl/GSM462601.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462601/suppl/GSM462601.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462602 | GPL1261 |
|
WT1_d7
|
pulmonary CD11c+ cells from wildtype mouse 1 at day 7 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from wildtype mouse 1 at day 7 post infection
|
| Sample_geo_accession | GSM462602
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462602/suppl/GSM462602.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462602/suppl/GSM462602.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462603 | GPL1261 |
|
WT2_d7
|
pulmonary CD11c+ cells from wildtype mouse 2 at day 7 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from wildtype mouse 2 at day 7 post infection
|
| Sample_geo_accession | GSM462603
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462603/suppl/GSM462603.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462603/suppl/GSM462603.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462604 | GPL1261 |
|
WT3_d7
|
pulmonary CD11c+ cells from wildtype mouse 3 at day 7 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from wildtype mouse 3 at day 7 post infection
|
| Sample_geo_accession | GSM462604
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462604/suppl/GSM462604.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462604/suppl/GSM462604.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462605 | GPL1261 |
|
WT1_d14
|
pulmonary CD11c+ cells from wildtype mouse 1 at day 14 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from wildtype mouse 1 at day 14 post infection
|
| Sample_geo_accession | GSM462605
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462605/suppl/GSM462605.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462605/suppl/GSM462605.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462606 | GPL1261 |
|
WT2_d14
|
pulmonary CD11c+ cells from wildtype mouse 2 at day 14 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from wildtype mouse 2 at day 14 post infection
|
| Sample_geo_accession | GSM462606
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462606/suppl/GSM462606.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462606/suppl/GSM462606.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
GSM462607 | GPL1261 |
|
WT3_d14
|
pulmonary CD11c+ cells from wildtype mouse 3 at day 14 post infection
|
tissue type: lung
cell type: primary pulmonary CD11c+ cells
|
pulmonary CD11c+ cells from wildtype mouse 3 at day 14 post infection
|
| Sample_geo_accession | GSM462607
| | Sample_status | Public on Jul 07 2010
| | Sample_submission_date | Oct 16 2009
| | Sample_last_update_date | Jul 07 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Lungs of infected animals were excised, cut into small pieces , placed into RPMI containing 50U/ml Collagenase IV and 1U/ml DNase and incubated at 37oC for 1 hour. The obtained single cell suspesnion was filtered and incubated in the presence of beads-labeled anti-CD11c antibody and further processed according to the manufacturer's (Miltenyi) protocol. Purity of isolated cells were >90%. contaminating cells consisted of < 5% lymphocytes and soem unidentified cells
| | Sample_growth_protocol_ch1 | 6 wildtype and 6 IFNAR-/- mice were Pneumocystis infeced via intratracheal instillation of 10e7 PC nuclei. 3 mice from each group were harvested at day 7 and at day 14 post infection and lungs processed as described below
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using Affymetrix scanner 7G.
| | Sample_data_processing | The data were imported into Genespring using RMA preprocessing for analysis.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Kate,,McInnerney
| | Sample_contact_email | kmcinnerney@montana.edu
| | Sample_contact_phone | 406-994-5666
| | Sample_contact_fax | 406-994-4926
| | Sample_contact_laboratory | Functional Genomics Facility
| | Sample_contact_department | Microbiology
| | Sample_contact_institute | Montana State University
| | Sample_contact_address | 109 Lewis Hall
| | Sample_contact_city | Bozeman
| | Sample_contact_state | MT
| | Sample_contact_zip/postal_code | 59717
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://cores.montana.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462607/suppl/GSM462607.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM462nnn/GSM462607/suppl/GSM462607.CHP.gz
| | Sample_series_id | GSE18607
| | Sample_data_row_count | 45101
| | |
|
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Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
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