Search results for the GEO ID: GSE34206 |
(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 |
GSM844234 | GPL1261 |
|
Tumor Macrophage Untreated d1 rep1
|
Tumor macrophage
|
cell type: tumor macrophage
treatment: untreated
time: day 1
tumor source: Panc02 cell line
genetic background: C57BL/6
|
|
Sample_geo_accession | GSM844234
| Sample_status | Public on Dec 07 2011
| Sample_submission_date | Dec 06 2011
| Sample_last_update_date | Dec 15 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Three daily 20Gy treatment fractions were given using an Elekta Synergy linear accelerator (Atlanta, GA) with 6MV photons incorporating a half beam block to minimize dose to the torso
| Sample_growth_protocol_ch1 | Tumors were innoculated s.c. in the right leg below the knee at a dose of 2x105 Panc02 cells and allowed to establish for 14-17 days before initiation of treatment. At harvest, the tumor was dissected into approximately 2mm fragments followed by agitation in 1mg/mL collagenase (Invitrogen), 100µg/mL hyaluronidase (Sigma), and 20mg/mL DNase (Sigma) in PBS for 1hr at room temperature. The digest was filtered through 100µm nylon mesh to remove macroscopic debris. Cell suspensions were stained with antibodies specific for CD11b, IA (MHC class II) and Gr1 and CD11b+ IA+ cells were FACS sorted using a BD FACSAria Cell Sorter to greater than 98% purity.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was prepared from FACS sorted CD11b+IA+ cells using a PrepEase RNA Spin Kit (Affymetrix, Cleveland, OH).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | NuGEN Nano Ovation v.2 w/ Encore protocol
| Sample_hyb_protocol | Mouse Genome 430 2.0 GeneChip array (3’IVT array assay)
| Sample_scan_protocol | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_data_processing | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_platform_id | GPL1261
| Sample_contact_name | Michael,,Gough
| Sample_contact_department | Earle A Chiles Research Institute
| Sample_contact_institute | Providence Cancer Center
| Sample_contact_address | 4805 NE Glisan St
| Sample_contact_city | Portland
| Sample_contact_state | OR
| Sample_contact_zip/postal_code | 97213
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844234/suppl/GSM844234_422MG_1_004A-11H1_D1NT.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844234/suppl/GSM844234_422MG_1_004A-11H1_D1NT_UNS.CHP.gz
| Sample_series_id | GSE34206
| Sample_data_row_count | 45101
| |
|
GSM844235 | GPL1261 |
|
Tumor Macrophage Untreated d1 rep2
|
Tumor macrophage
|
cell type: tumor macrophage
treatment: untreated
time: day 1
tumor source: Panc02 cell line
genetic background: C57BL/6
|
|
Sample_geo_accession | GSM844235
| Sample_status | Public on Dec 07 2011
| Sample_submission_date | Dec 06 2011
| Sample_last_update_date | Dec 15 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Three daily 20Gy treatment fractions were given using an Elekta Synergy linear accelerator (Atlanta, GA) with 6MV photons incorporating a half beam block to minimize dose to the torso
| Sample_growth_protocol_ch1 | Tumors were innoculated s.c. in the right leg below the knee at a dose of 2x105 Panc02 cells and allowed to establish for 14-17 days before initiation of treatment. At harvest, the tumor was dissected into approximately 2mm fragments followed by agitation in 1mg/mL collagenase (Invitrogen), 100µg/mL hyaluronidase (Sigma), and 20mg/mL DNase (Sigma) in PBS for 1hr at room temperature. The digest was filtered through 100µm nylon mesh to remove macroscopic debris. Cell suspensions were stained with antibodies specific for CD11b, IA (MHC class II) and Gr1 and CD11b+ IA+ cells were FACS sorted using a BD FACSAria Cell Sorter to greater than 98% purity.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was prepared from FACS sorted CD11b+IA+ cells using a PrepEase RNA Spin Kit (Affymetrix, Cleveland, OH).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | NuGEN Nano Ovation v.2 w/ Encore protocol
| Sample_hyb_protocol | Mouse Genome 430 2.0 GeneChip array (3’IVT array assay)
| Sample_scan_protocol | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_data_processing | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_platform_id | GPL1261
| Sample_contact_name | Michael,,Gough
| Sample_contact_department | Earle A Chiles Research Institute
| Sample_contact_institute | Providence Cancer Center
| Sample_contact_address | 4805 NE Glisan St
| Sample_contact_city | Portland
| Sample_contact_state | OR
| Sample_contact_zip/postal_code | 97213
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844235/suppl/GSM844235_437MG_1_003A-11H1_D1NT.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844235/suppl/GSM844235_437MG_1_003A-11H1_D1NT.mas5.GS.chp.gz
| Sample_series_id | GSE34206
| Sample_data_row_count | 45101
| |
|
GSM844236 | GPL1261 |
|
Tumor Macrophage Untreated d7 rep1
|
Tumor macrophage
|
cell type: tumor macrophage
treatment: untreated
time: day 7
tumor source: Panc02 cell line
genetic background: C57BL/6
|
|
Sample_geo_accession | GSM844236
| Sample_status | Public on Dec 07 2011
| Sample_submission_date | Dec 06 2011
| Sample_last_update_date | Dec 15 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Three daily 20Gy treatment fractions were given using an Elekta Synergy linear accelerator (Atlanta, GA) with 6MV photons incorporating a half beam block to minimize dose to the torso
| Sample_growth_protocol_ch1 | Tumors were innoculated s.c. in the right leg below the knee at a dose of 2x105 Panc02 cells and allowed to establish for 14-17 days before initiation of treatment. At harvest, the tumor was dissected into approximately 2mm fragments followed by agitation in 1mg/mL collagenase (Invitrogen), 100µg/mL hyaluronidase (Sigma), and 20mg/mL DNase (Sigma) in PBS for 1hr at room temperature. The digest was filtered through 100µm nylon mesh to remove macroscopic debris. Cell suspensions were stained with antibodies specific for CD11b, IA (MHC class II) and Gr1 and CD11b+ IA+ cells were FACS sorted using a BD FACSAria Cell Sorter to greater than 98% purity.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was prepared from FACS sorted CD11b+IA+ cells using a PrepEase RNA Spin Kit (Affymetrix, Cleveland, OH).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | NuGEN Nano Ovation v.2 w/ Encore protocol
| Sample_hyb_protocol | Mouse Genome 430 2.0 GeneChip array (3’IVT array assay)
| Sample_scan_protocol | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_data_processing | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_platform_id | GPL1261
| Sample_contact_name | Michael,,Gough
| Sample_contact_department | Earle A Chiles Research Institute
| Sample_contact_institute | Providence Cancer Center
| Sample_contact_address | 4805 NE Glisan St
| Sample_contact_city | Portland
| Sample_contact_state | OR
| Sample_contact_zip/postal_code | 97213
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844236/suppl/GSM844236_422MG_1_001A-11H1_D7NT.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844236/suppl/GSM844236_422MG_1_001A-11H1_D7NT_UNS.CHP.gz
| Sample_series_id | GSE34206
| Sample_data_row_count | 45101
| |
|
GSM844237 | GPL1261 |
|
Tumor Macrophage Untreated d7 rep2
|
Tumor macrophage
|
cell type: tumor macrophage
treatment: untreated
time: day 7
tumor source: Panc02 cell line
genetic background: C57BL/6
|
|
Sample_geo_accession | GSM844237
| Sample_status | Public on Dec 07 2011
| Sample_submission_date | Dec 06 2011
| Sample_last_update_date | Dec 15 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Three daily 20Gy treatment fractions were given using an Elekta Synergy linear accelerator (Atlanta, GA) with 6MV photons incorporating a half beam block to minimize dose to the torso
| Sample_growth_protocol_ch1 | Tumors were innoculated s.c. in the right leg below the knee at a dose of 2x105 Panc02 cells and allowed to establish for 14-17 days before initiation of treatment. At harvest, the tumor was dissected into approximately 2mm fragments followed by agitation in 1mg/mL collagenase (Invitrogen), 100µg/mL hyaluronidase (Sigma), and 20mg/mL DNase (Sigma) in PBS for 1hr at room temperature. The digest was filtered through 100µm nylon mesh to remove macroscopic debris. Cell suspensions were stained with antibodies specific for CD11b, IA (MHC class II) and Gr1 and CD11b+ IA+ cells were FACS sorted using a BD FACSAria Cell Sorter to greater than 98% purity.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was prepared from FACS sorted CD11b+IA+ cells using a PrepEase RNA Spin Kit (Affymetrix, Cleveland, OH).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | NuGEN Nano Ovation v.2 w/ Encore protocol
| Sample_hyb_protocol | Mouse Genome 430 2.0 GeneChip array (3’IVT array assay)
| Sample_scan_protocol | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_data_processing | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_platform_id | GPL1261
| Sample_contact_name | Michael,,Gough
| Sample_contact_department | Earle A Chiles Research Institute
| Sample_contact_institute | Providence Cancer Center
| Sample_contact_address | 4805 NE Glisan St
| Sample_contact_city | Portland
| Sample_contact_state | OR
| Sample_contact_zip/postal_code | 97213
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844237/suppl/GSM844237_437MG_1_001A-11H1_D7NT.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844237/suppl/GSM844237_437MG_1_001A-11H1_D7NT.mas5.GS.chp.gz
| Sample_series_id | GSE34206
| Sample_data_row_count | 45101
| |
|
GSM844238 | GPL1261 |
|
Tumor Macrophage Irradiated d1 rep1
|
Tumor macrophage
|
cell type: tumor macrophage
treatment: irradiated
time: day 1
tumor source: Panc02 cell line
genetic background: C57BL/6
|
|
Sample_geo_accession | GSM844238
| Sample_status | Public on Dec 07 2011
| Sample_submission_date | Dec 06 2011
| Sample_last_update_date | Dec 15 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Three daily 20Gy treatment fractions were given using an Elekta Synergy linear accelerator (Atlanta, GA) with 6MV photons incorporating a half beam block to minimize dose to the torso
| Sample_growth_protocol_ch1 | Tumors were innoculated s.c. in the right leg below the knee at a dose of 2x105 Panc02 cells and allowed to establish for 14-17 days before initiation of treatment. At harvest, the tumor was dissected into approximately 2mm fragments followed by agitation in 1mg/mL collagenase (Invitrogen), 100µg/mL hyaluronidase (Sigma), and 20mg/mL DNase (Sigma) in PBS for 1hr at room temperature. The digest was filtered through 100µm nylon mesh to remove macroscopic debris. Cell suspensions were stained with antibodies specific for CD11b, IA (MHC class II) and Gr1 and CD11b+ IA+ cells were FACS sorted using a BD FACSAria Cell Sorter to greater than 98% purity.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was prepared from FACS sorted CD11b+IA+ cells using a PrepEase RNA Spin Kit (Affymetrix, Cleveland, OH).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | NuGEN Nano Ovation v.2 w/ Encore protocol
| Sample_hyb_protocol | Mouse Genome 430 2.0 GeneChip array (3’IVT array assay)
| Sample_scan_protocol | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_data_processing | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_platform_id | GPL1261
| Sample_contact_name | Michael,,Gough
| Sample_contact_department | Earle A Chiles Research Institute
| Sample_contact_institute | Providence Cancer Center
| Sample_contact_address | 4805 NE Glisan St
| Sample_contact_city | Portland
| Sample_contact_state | OR
| Sample_contact_zip/postal_code | 97213
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844238/suppl/GSM844238_422MG_1_002A-11H1_D1RT.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844238/suppl/GSM844238_422MG_1_002A-11H1_D1RT_UNS.CHP.gz
| Sample_series_id | GSE34206
| Sample_data_row_count | 45101
| |
|
GSM844239 | GPL1261 |
|
Tumor Macrophage Irradiated d1 rep2
|
Tumor macrophage
|
cell type: tumor macrophage
treatment: irradiated
time: day 1
tumor source: Panc02 cell line
genetic background: C57BL/6
|
|
Sample_geo_accession | GSM844239
| Sample_status | Public on Dec 07 2011
| Sample_submission_date | Dec 06 2011
| Sample_last_update_date | Dec 15 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Three daily 20Gy treatment fractions were given using an Elekta Synergy linear accelerator (Atlanta, GA) with 6MV photons incorporating a half beam block to minimize dose to the torso
| Sample_growth_protocol_ch1 | Tumors were innoculated s.c. in the right leg below the knee at a dose of 2x105 Panc02 cells and allowed to establish for 14-17 days before initiation of treatment. At harvest, the tumor was dissected into approximately 2mm fragments followed by agitation in 1mg/mL collagenase (Invitrogen), 100µg/mL hyaluronidase (Sigma), and 20mg/mL DNase (Sigma) in PBS for 1hr at room temperature. The digest was filtered through 100µm nylon mesh to remove macroscopic debris. Cell suspensions were stained with antibodies specific for CD11b, IA (MHC class II) and Gr1 and CD11b+ IA+ cells were FACS sorted using a BD FACSAria Cell Sorter to greater than 98% purity.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was prepared from FACS sorted CD11b+IA+ cells using a PrepEase RNA Spin Kit (Affymetrix, Cleveland, OH).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | NuGEN Nano Ovation v.2 w/ Encore protocol
| Sample_hyb_protocol | Mouse Genome 430 2.0 GeneChip array (3’IVT array assay)
| Sample_scan_protocol | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_data_processing | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_platform_id | GPL1261
| Sample_contact_name | Michael,,Gough
| Sample_contact_department | Earle A Chiles Research Institute
| Sample_contact_institute | Providence Cancer Center
| Sample_contact_address | 4805 NE Glisan St
| Sample_contact_city | Portland
| Sample_contact_state | OR
| Sample_contact_zip/postal_code | 97213
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844239/suppl/GSM844239_437MG_1_002A-11H1_D1RT.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844239/suppl/GSM844239_437MG_1_002A-11H1_D1RT.mas5.GS.chp.gz
| Sample_series_id | GSE34206
| Sample_data_row_count | 45101
| |
|
GSM844240 | GPL1261 |
|
Tumor Macrophage Irradiated d7 rep1
|
Tumor macrophage
|
cell type: tumor macrophage
treatment: irradiated
time: day 7
tumor source: Panc02 cell line
genetic background: C57BL/6
|
|
Sample_geo_accession | GSM844240
| Sample_status | Public on Dec 07 2011
| Sample_submission_date | Dec 06 2011
| Sample_last_update_date | Dec 15 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Three daily 20Gy treatment fractions were given using an Elekta Synergy linear accelerator (Atlanta, GA) with 6MV photons incorporating a half beam block to minimize dose to the torso
| Sample_growth_protocol_ch1 | Tumors were innoculated s.c. in the right leg below the knee at a dose of 2x105 Panc02 cells and allowed to establish for 14-17 days before initiation of treatment. At harvest, the tumor was dissected into approximately 2mm fragments followed by agitation in 1mg/mL collagenase (Invitrogen), 100µg/mL hyaluronidase (Sigma), and 20mg/mL DNase (Sigma) in PBS for 1hr at room temperature. The digest was filtered through 100µm nylon mesh to remove macroscopic debris. Cell suspensions were stained with antibodies specific for CD11b, IA (MHC class II) and Gr1 and CD11b+ IA+ cells were FACS sorted using a BD FACSAria Cell Sorter to greater than 98% purity.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was prepared from FACS sorted CD11b+IA+ cells using a PrepEase RNA Spin Kit (Affymetrix, Cleveland, OH).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | NuGEN Nano Ovation v.2 w/ Encore protocol
| Sample_hyb_protocol | Mouse Genome 430 2.0 GeneChip array (3’IVT array assay)
| Sample_scan_protocol | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_data_processing | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_platform_id | GPL1261
| Sample_contact_name | Michael,,Gough
| Sample_contact_department | Earle A Chiles Research Institute
| Sample_contact_institute | Providence Cancer Center
| Sample_contact_address | 4805 NE Glisan St
| Sample_contact_city | Portland
| Sample_contact_state | OR
| Sample_contact_zip/postal_code | 97213
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844240/suppl/GSM844240_422MG_1_003A-11H1_D7RT.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844240/suppl/GSM844240_422MG_1_003A-11H1_D7RT_UNS.CHP.gz
| Sample_series_id | GSE34206
| Sample_data_row_count | 45101
| |
|
GSM844241 | GPL1261 |
|
Tumor Macrophage Irradiated d7 rep2
|
Tumor macrophage
|
cell type: tumor macrophage
treatment: irradiated
time: day 7
tumor source: Panc02 cell line
genetic background: C57BL/6
|
|
Sample_geo_accession | GSM844241
| Sample_status | Public on Dec 07 2011
| Sample_submission_date | Dec 06 2011
| Sample_last_update_date | Dec 15 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Mus musculus
| Sample_taxid_ch1 | 10090
| Sample_treatment_protocol_ch1 | Three daily 20Gy treatment fractions were given using an Elekta Synergy linear accelerator (Atlanta, GA) with 6MV photons incorporating a half beam block to minimize dose to the torso
| Sample_growth_protocol_ch1 | Tumors were innoculated s.c. in the right leg below the knee at a dose of 2x105 Panc02 cells and allowed to establish for 14-17 days before initiation of treatment. At harvest, the tumor was dissected into approximately 2mm fragments followed by agitation in 1mg/mL collagenase (Invitrogen), 100µg/mL hyaluronidase (Sigma), and 20mg/mL DNase (Sigma) in PBS for 1hr at room temperature. The digest was filtered through 100µm nylon mesh to remove macroscopic debris. Cell suspensions were stained with antibodies specific for CD11b, IA (MHC class II) and Gr1 and CD11b+ IA+ cells were FACS sorted using a BD FACSAria Cell Sorter to greater than 98% purity.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was prepared from FACS sorted CD11b+IA+ cells using a PrepEase RNA Spin Kit (Affymetrix, Cleveland, OH).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | NuGEN Nano Ovation v.2 w/ Encore protocol
| Sample_hyb_protocol | Mouse Genome 430 2.0 GeneChip array (3’IVT array assay)
| Sample_scan_protocol | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_data_processing | Image processing and expression analysis were performed using Affymetrix GeneChip Command Console (AGCC) v. 2.0.0.1029 and Affymetrix Expression Console v. 1.1 software, respectively.
| Sample_platform_id | GPL1261
| Sample_contact_name | Michael,,Gough
| Sample_contact_department | Earle A Chiles Research Institute
| Sample_contact_institute | Providence Cancer Center
| Sample_contact_address | 4805 NE Glisan St
| Sample_contact_city | Portland
| Sample_contact_state | OR
| Sample_contact_zip/postal_code | 97213
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844241/suppl/GSM844241_437MG_1_004A-11H1_D7RT.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM844nnn/GSM844241/suppl/GSM844241_437MG_1_004A-11H1_D7RT.mas5.GS.chp.gz
| Sample_series_id | GSE34206
| Sample_data_row_count | 45101
| |
|
|
|
Make groups for comparisons |
(2 groups will be compared at a time) |
|
Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|