Search results for the GEO ID: GSE20677  |
(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 |
GSM518597 | GPL570 |
|
PBMCs_Control_1
|
PBMCs
|
cell type: PBMCs
treatment group: control
|
Gene expression data from control PBMCs
|
| Sample_geo_accession | GSM518597
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518597/suppl/GSM518597.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518598 | GPL570 |
|
PBMCs_AuNP_24hr_1
|
PBMCs
|
cell type: PBMCs
treatment group: treated with AuNP EGFP oligonucleotide complex for 24 hours
|
Gene expression data from PBMCs treated with AuNP EGFP oligonucleotide complex for 24 hours
|
| Sample_geo_accession | GSM518598
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518598/suppl/GSM518598.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518599 | GPL570 |
|
PBMCs_AuNP_48hr_1
|
PBMCs
|
cell type: PBMCs
treatment group: treated with AuNP EGFP oligonucleotide complex for 48 hours
|
Gene expression data from PBMCs treated with AuNP EGFP oligonucleotide complex for 48 hours
|
| Sample_geo_accession | GSM518599
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518599/suppl/GSM518599.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518600 | GPL570 |
|
PBMCs_Control_2
|
PBMCs
|
cell type: PBMCs
treatment group: control
|
Gene expression data from control PBMCs
|
| Sample_geo_accession | GSM518600
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518600/suppl/GSM518600.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518601 | GPL570 |
|
PBMCs_AuNP_24hr_2
|
PBMCs
|
cell type: PBMCs
treatment group: treated with AuNP EGFP oligonucleotide complex for 24 hours
|
Gene expression data from PBMCs treated with AuNP EGFP oligonucleotide complex for 24 hours
|
| Sample_geo_accession | GSM518601
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518601/suppl/GSM518601.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518602 | GPL570 |
|
PBMCs_AuNP_48hr_2
|
PBMCs
|
cell type: PBMCs
treatment group: treated with AuNP EGFP oligonucleotide complex for 48 hours
|
Gene expression data from PBMCs treated with AuNP EGFP oligonucleotide complex for 48 hours
|
| Sample_geo_accession | GSM518602
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518602/suppl/GSM518602.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518603 | GPL570 |
|
PBMCs_Oligo
|
PBMCs
|
cell type: PBMCs
treatment group: treated with Oligofectamine without oligonucleotide
|
Gene expression data from PBMCs treated with Oligofectamine without oligonucleotide
|
| Sample_geo_accession | GSM518603
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518603/suppl/GSM518603.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518604 | GPL570 |
|
PBMCs_Oligo_GFP
|
PBMCs
|
cell type: PBMCs
treatment group: treated with Oligofectamine with EGFP oligonucleotide
|
Gene expression data from PBMCs treated with Oligofectamine with EGFP oligonucleotide
|
| Sample_geo_accession | GSM518604
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518604/suppl/GSM518604.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518605 | GPL570 |
|
PBMCs_HIV
|
PBMCs
|
cell type: PBMCs
treatment group: infected with HIV
|
Gene expression data from PBMCs infected with HIV
|
| Sample_geo_accession | GSM518605
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518605/suppl/GSM518605.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518606 | GPL570 |
|
293T_Control
|
293T Embryonic Kidney cell
|
cell type: Embryonic Kidney cell
cell line: 293T
treatment group: control
|
Gene expression data from control 293T cells
|
| Sample_geo_accession | GSM518606
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518606/suppl/GSM518606.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518607 | GPL570 |
|
293T_AuNP_6hr
|
293T Embryonic Kidney cell
|
cell type: Embryonic Kidney cell
cell line: 293T
treatment group: treated with AuNP EGFP oligonucleotide complex for 6 hours
|
Gene expression data from 293T cells treated with AuNP EGFP oligonucleotide complex for 6 hours
|
| Sample_geo_accession | GSM518607
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518607/suppl/GSM518607.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518608 | GPL570 |
|
293T_AuNP_24hr
|
293T Embryonic Kidney cell
|
cell type: Embryonic Kidney cell
cell line: 293T
treatment group: treated with AuNP EGFP oligonucleotide complex for 24 hours
|
Gene expression data from 293T cells treated with AuNP EGFP oligonucleotide complex for 24 hours
|
| Sample_geo_accession | GSM518608
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518608/suppl/GSM518608.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM518609 | GPL570 |
|
293T_AuNP_48hr
|
293T Embryonic Kidney cell
|
cell type: Embryonic Kidney cell
cell line: 293T
treatment group: treated with AuNP EGFP oligonucleotide complex for 48 hours
|
Gene expression data from 293T cells treated with AuNP EGFP oligonucleotide complex for 48 hours
|
| Sample_geo_accession | GSM518609
| | Sample_status | Public on Mar 09 2010
| | Sample_submission_date | Mar 08 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24—well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll—Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l—glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe—level analysis were performed using FlexArray with the GC—Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded. Full processed data results (SAM analysis) are available as a supplementary file on the Series record.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM518nnn/GSM518609/suppl/GSM518609.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM535541 | GPL570 |
|
PBMC_Control_3
|
PBMCs
|
cell type: PBMCs
treatment group: control
|
Gene expression data from control PBMCs
|
| Sample_geo_accession | GSM535541
| | Sample_status | Public on Apr 22 2010
| | Sample_submission_date | Apr 21 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24-well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll-Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l-glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe-level analysis were performed using FlexArray with the GC-Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM535nnn/GSM535541/suppl/GSM535541.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM535542 | GPL570 |
|
PBMC_AuNP_24hr_3
|
PBMCs
|
cell type: PBMCs
treatment group: treated with AuNP EGFP oligonucleotide complex for 24 hours
|
Gene expression data from PBMCs treated with AuNP EGFP oligonucleotide complex for 24 hours
|
| Sample_geo_accession | GSM535542
| | Sample_status | Public on Apr 22 2010
| | Sample_submission_date | Apr 21 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24-well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll-Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l-glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe-level analysis were performed using FlexArray with the GC-Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM535nnn/GSM535542/suppl/GSM535542.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
GSM535543 | GPL570 |
|
PBMC_AuNP_48hr_3
|
PBMCs
|
cell type: PBMCs
treatment group: treated with AuNP EGFP oligonucleotide complex for 48 hours
|
Gene expression data from PBMCs treated with AuNP EGFP oligonucleotide complex for 48 hours
|
| Sample_geo_accession | GSM535543
| | Sample_status | Public on Apr 22 2010
| | Sample_submission_date | Apr 21 2010
| | Sample_last_update_date | Apr 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells were seeded at 50% confluent in 24-well plates and treated with 10nM AuNP for 6-, 24, and 48hr and washed twice with PBS
| | Sample_growth_protocol_ch1 | PBMCs derived from healthy donors were isolated on Ficoll-Paque gradient, and PBMC and 293T cells were grown in 5% CO2 at 37°C in RPMI1640 medium and DMEM (Invitrogen) with 10% fetal bovine serum supplemented with 100 U/ml penicillin, 100 μg/ml streptomycin, and 200 μM l-glutamine, respectivley.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA were extracted from cells by using Qiagen RNeasy kit
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2.2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 35 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Agilent GeneArray Scanner.
| | Sample_data_processing | Normalization for biological and technical replicates and probe-level analysis were performed using FlexArray with the GC-Robust Multichip Average (RMA) option. Probe sets whose absolute expression value did not exceed 5.0 for all arrays were excluded.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eunyoung,,Kim
| | Sample_contact_email | e-kim@northwestern.edu
| | Sample_contact_phone | 312-503-4671
| | Sample_contact_fax | 312-908-2528
| | Sample_contact_department | Feinberg School of Medicine
| | Sample_contact_institute | Northwestern University
| | Sample_contact_address | 303 E Superior Street
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60611
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM535nnn/GSM535543/suppl/GSM535543.CEL.gz
| | Sample_series_id | GSE20677
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
