Search results for the GEO ID: GSE16098 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM402875 | GPL570 |
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PBMC Total RNA
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Peripheral Blood Mononuclear Cells
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cell type: PBMC
|
none
|
Sample_geo_accession | GSM402875
| Sample_status | Public on Oct 13 2009
| Sample_submission_date | May 13 2009
| Sample_last_update_date | May 13 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were co-cultured with mock or p30-lentivirus producer 293T cells for 48 hours prior to harvest.
| Sample_growth_protocol_ch1 | PBMCs were isolated and maintained in RPMI/20% fetal calf serum + Interleukin-2 prior to lentivirus infection
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Trizol as per manufacturer's instructions; cytoplasmic RNA was isolated following fractionation in a hypotonic lysis buffer (10mM HEPES pH7.9, 1mM MgCl2, 0.5mM CaCl2), followed by 0.27% NP-40 for 30 seconds, subsequent extraction with chloroform, and precipitation with isopropanol.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotin labeled cRNA was prepared from 4.5ug Total RNA using the standard Affymetrix target preparation protocol ( GeneChip Expression Analysis Technical Manaual, 2001, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HumanU133 plus 2.0 3' expression arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 using the EukGE-WS2v4 fluidics profile.
| Sample_scan_protocol | A single pass scan of the GeneChips was performed using the Affymetrix GeneChip Scanner 3000 7G.
| Sample_data_processing | The GeneChip data was analyzed using the Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings with all probe sets scaled to 500 and a normalization value of 1.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Christophe,,Nicot
| Sample_contact_email | cnicot@kumc.edu
| Sample_contact_department | Pathology and Lab Medicine
| Sample_contact_institute | University of Kansas Medical Center
| Sample_contact_address | 3901 Rainbow Blvd.
| Sample_contact_city | Kansas City
| Sample_contact_state | KS
| Sample_contact_zip/postal_code | 66160
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402875/suppl/GSM402875.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402875/suppl/GSM402875.CHP.gz
| Sample_series_id | GSE16098
| Sample_data_row_count | 54675
| |
|
GSM402876 | GPL570 |
|
PBMC Cytoplasmic RNA
|
Peripheral Blood Mononuclear Cells
|
cell type: PBMC
|
none
|
Sample_geo_accession | GSM402876
| Sample_status | Public on Oct 13 2009
| Sample_submission_date | May 13 2009
| Sample_last_update_date | May 13 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were co-cultured with mock or p30-lentivirus producer 293T cells for 48 hours prior to harvest.
| Sample_growth_protocol_ch1 | PBMCs were isolated and maintained in RPMI/20% fetal calf serum + Interleukin-2 prior to lentivirus infection
| Sample_molecule_ch1 | cytoplasmic RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Trizol as per manufacturer's instructions; cytoplasmic RNA was isolated following fractionation in a hypotonic lysis buffer (10mM HEPES pH7.9, 1mM MgCl2, 0.5mM CaCl2), followed by 0.27% NP-40 for 30 seconds, subsequent extraction with chloroform, and precipitation with isopropanol.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotin labeled cRNA was prepared from 4.5ug Total RNA using the standard Affymetrix target preparation protocol ( GeneChip Expression Analysis Technical Manaual, 2001, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HumanU133 plus 2.0 3' expression arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 using the EukGE-WS2v4 fluidics profile.
| Sample_scan_protocol | A single pass scan of the GeneChips was performed using the Affymetrix GeneChip Scanner 3000 7G.
| Sample_data_processing | The GeneChip data was analyzed using the Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings with all probe sets scaled to 500 and a normalization value of 1.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Christophe,,Nicot
| Sample_contact_email | cnicot@kumc.edu
| Sample_contact_department | Pathology and Lab Medicine
| Sample_contact_institute | University of Kansas Medical Center
| Sample_contact_address | 3901 Rainbow Blvd.
| Sample_contact_city | Kansas City
| Sample_contact_state | KS
| Sample_contact_zip/postal_code | 66160
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402876/suppl/GSM402876.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402876/suppl/GSM402876.CHP.gz
| Sample_series_id | GSE16098
| Sample_data_row_count | 54675
| |
|
GSM402877 | GPL570 |
|
PBMC p30 Total RNA
|
Peripheral Blood Mononuclear Cells
|
cell type: PBMC
|
none
|
Sample_geo_accession | GSM402877
| Sample_status | Public on Oct 13 2009
| Sample_submission_date | May 13 2009
| Sample_last_update_date | May 13 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were co-cultured with mock or p30-lentivirus producer 293T cells for 48 hours prior to harvest.
| Sample_growth_protocol_ch1 | PBMCs were isolated and maintained in RPMI/20% fetal calf serum + Interleukin-2 prior to lentivirus infection
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Trizol as per manufacturer's instructions; cytoplasmic RNA was isolated following fractionation in a hypotonic lysis buffer (10mM HEPES pH7.9, 1mM MgCl2, 0.5mM CaCl2), followed by 0.27% NP-40 for 30 seconds, subsequent extraction with chloroform, and precipitation with isopropanol.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotin labeled cRNA was prepared from 4.5ug Total RNA using the standard Affymetrix target preparation protocol ( GeneChip Expression Analysis Technical Manaual, 2001, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HumanU133 plus 2.0 3' expression arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 using the EukGE-WS2v4 fluidics profile.
| Sample_scan_protocol | A single pass scan of the GeneChips was performed using the Affymetrix GeneChip Scanner 3000 7G.
| Sample_data_processing | The GeneChip data was analyzed using the Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings with all probe sets scaled to 500 and a normalization value of 1.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Christophe,,Nicot
| Sample_contact_email | cnicot@kumc.edu
| Sample_contact_department | Pathology and Lab Medicine
| Sample_contact_institute | University of Kansas Medical Center
| Sample_contact_address | 3901 Rainbow Blvd.
| Sample_contact_city | Kansas City
| Sample_contact_state | KS
| Sample_contact_zip/postal_code | 66160
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402877/suppl/GSM402877.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402877/suppl/GSM402877.CHP.gz
| Sample_series_id | GSE16098
| Sample_data_row_count | 54675
| |
|
GSM402878 | GPL570 |
|
PBMC p30 Cytoplasmic RNA
|
Peripheral Blood Mononuclear Cells
|
cell type: PBMC
|
none
|
Sample_geo_accession | GSM402878
| Sample_status | Public on Oct 13 2009
| Sample_submission_date | May 13 2009
| Sample_last_update_date | May 13 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Cells were co-cultured with mock or p30-lentivirus producer 293T cells for 48 hours prior to harvest.
| Sample_growth_protocol_ch1 | PBMCs were isolated and maintained in RPMI/20% fetal calf serum + Interleukin-2 prior to lentivirus infection
| Sample_molecule_ch1 | cytoplasmic RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Trizol as per manufacturer's instructions; cytoplasmic RNA was isolated following fractionation in a hypotonic lysis buffer (10mM HEPES pH7.9, 1mM MgCl2, 0.5mM CaCl2), followed by 0.27% NP-40 for 30 seconds, subsequent extraction with chloroform, and precipitation with isopropanol.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotin labeled cRNA was prepared from 4.5ug Total RNA using the standard Affymetrix target preparation protocol ( GeneChip Expression Analysis Technical Manaual, 2001, Affymetrix)
| Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HumanU133 plus 2.0 3' expression arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 using the EukGE-WS2v4 fluidics profile.
| Sample_scan_protocol | A single pass scan of the GeneChips was performed using the Affymetrix GeneChip Scanner 3000 7G.
| Sample_data_processing | The GeneChip data was analyzed using the Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings with all probe sets scaled to 500 and a normalization value of 1.0.
| Sample_platform_id | GPL570
| Sample_contact_name | Christophe,,Nicot
| Sample_contact_email | cnicot@kumc.edu
| Sample_contact_department | Pathology and Lab Medicine
| Sample_contact_institute | University of Kansas Medical Center
| Sample_contact_address | 3901 Rainbow Blvd.
| Sample_contact_city | Kansas City
| Sample_contact_state | KS
| Sample_contact_zip/postal_code | 66160
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402878/suppl/GSM402878.CEL.gz
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402878/suppl/GSM402878.CHP.gz
| Sample_series_id | GSE16098
| Sample_data_row_count | 54675
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