Search results for the GEO ID: GSE12839  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM322309 | GPL96 |
|
PBMCs_IL12_paired_rep1 (HG-U133A)
|
PBMCs, IL12, Sample 541
|
Gender: male, Race: Asian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322309
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322309/suppl/GSM322309.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322310 | GPL96 |
|
PBMCs_Control_paired_rep1 (HG-U133A)
|
PBMCs, Control, Sample 541
|
Gender: male, Race: Asian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322310
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322310/suppl/GSM322310.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322311 | GPL96 |
|
PBMCs_IL12_paired_rep2 (HG-U133A)
|
PBMCs, IL12, Sample 546
|
Gender: female, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322311
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322311/suppl/GSM322311.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322312 | GPL96 |
|
PBMCs_Control_paired_rep2 (HG-U133A)
|
PBMCs, Control, Sample 546
|
Gender: female, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322312
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322312/suppl/GSM322312.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322313 | GPL96 |
|
PBMCs_IL12_paired_rep3 (HG-U133A)
|
PBMCs, IL12, Sample 1193
|
Gender: male, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322313
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322313/suppl/GSM322313.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322314 | GPL96 |
|
PBMCs_Control_paired_rep3 (HG-U133A)
|
PBMCs, Control, Sample 1193
|
Gender: male, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322314
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322314/suppl/GSM322314.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322315 | GPL96 |
|
PBMCs_IL12_paired_rep4 (HG-U133A)
|
PBMCs, IL12, Sample 2115
|
Gender: male, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322315
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322315/suppl/GSM322315.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322316 | GPL96 |
|
PBMCs_Control_paired_rep4 (HG-U133A)
|
PBMCs, Control, Sample 2115
|
Gender: male, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322316
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322316/suppl/GSM322316.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322317 | GPL96 |
|
PBMCs_IL12_paired_rep5 (HG-U133A)
|
PBMCs, IL12, Sample 635
|
Gender: male, Race: Black
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322317
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322317/suppl/GSM322317.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322318 | GPL96 |
|
PBMCs_Control_paired_rep5 (HG-U133A)
|
PBMCs, Control, Sample 635
|
Gender: male, Race: Black
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322318
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322318/suppl/GSM322318.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322319 | GPL96 |
|
PBMCs_IL12_paired_rep6 (HG-U133A)
|
PBMCs, IL12, Sample 1769
|
Gender: male, Race: Black
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322319
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322319/suppl/GSM322319.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322320 | GPL96 |
|
PBMCs_Control_paired_rep6 (HG-U133A)
|
PBMCs, Control, Sample 1769
|
Gender: male, Race: Black
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322320
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322320/suppl/GSM322320.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322321 | GPL96 |
|
PBMCs_IL12_paired_rep7 (HG-U133A)
|
PBMCs, IL12, Sample 1775
|
Gender: female, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322321
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322321/suppl/GSM322321.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322322 | GPL96 |
|
PBMCs_Control_paired_rep7 (HG-U133A)
|
PBMCs, Control, Sample 1775
|
Gender: female, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322322
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322322/suppl/GSM322322.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22283
| | |
|
GSM322323 | GPL97 |
|
PBMCs_IL12_paired_rep1 (HG-U133B)
|
PBMCs, IL12, Sample 541
|
Gender: male, Race: Asian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322323
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322323/suppl/GSM322323.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322324 | GPL97 |
|
PBMCs_Control_paired_rep1 (HG-U133B)
|
PBMCs, Control, Sample 541
|
Gender: male, Race: Asian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322324
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322324/suppl/GSM322324.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322325 | GPL97 |
|
PBMCs_IL12_paired_rep2 (HG-U133B)
|
PBMCs, IL12, Sample 546
|
Gender: female, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322325
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322325/suppl/GSM322325.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322326 | GPL97 |
|
PBMCs_Control_paired_rep2 (HG-U133B)
|
PBMCs, Control, Sample 546
|
Gender: female, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322326
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322326/suppl/GSM322326.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322327 | GPL97 |
|
PBMCs_IL12_paired_rep3 (HG-U133B)
|
PBMCs, IL12, Sample 1193
|
Gender: male, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322327
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322327/suppl/GSM322327.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322328 | GPL97 |
|
PBMCs_Control_paired_rep3 (HG-U133B)
|
PBMCs, Control, Sample 1193
|
Gender: male, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322328
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322328/suppl/GSM322328.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322329 | GPL97 |
|
PBMCs_IL12_paired_rep4 (HG-U133B)
|
PBMCs, IL12, Sample 2115
|
Gender: male, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322329
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322329/suppl/GSM322329.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322330 | GPL97 |
|
PBMCs_Control_paired_rep4 (HG-U133B)
|
PBMCs, Control, Sample 2115
|
Gender: male, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322330
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322330/suppl/GSM322330.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322331 | GPL97 |
|
PBMCs_IL12_paired_rep5 (HG-U133B)
|
PBMCs, IL12, Sample 635
|
Gender: male, Race: Black
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322331
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322331/suppl/GSM322331.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322332 | GPL97 |
|
PBMCs_Control_paired_rep5 (HG-U133B)
|
PBMCs, Control, Sample 635
|
Gender: male, Race: Black
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322332
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322332/suppl/GSM322332.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322333 | GPL97 |
|
PBMCs_IL12_paired_rep6 (HG-U133B)
|
PBMCs, IL12, Sample 1769
|
Gender: male, Race: Black
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322333
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322333/suppl/GSM322333.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322334 | GPL97 |
|
PBMCs_Control_paired_rep6 (HG-U133B)
|
PBMCs, Control, Sample 1769
|
Gender: male, Race: Black
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322334
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322334/suppl/GSM322334.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322335 | GPL97 |
|
PBMCs_IL12_paired_rep7 (HG-U133B)
|
PBMCs, IL12, Sample 1775
|
Gender: female, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322335
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322335/suppl/GSM322335.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
| | |
|
GSM322336 | GPL97 |
|
PBMCs_Control_paired_rep7 (HG-U133B)
|
PBMCs, Control, Sample 1775
|
Gender: female, Race: Caucasian
|
PBMC's were isolated from 7 healthy NIH blood bank donors.
|
| Sample_geo_accession | GSM322336
| | Sample_status | Public on Nov 14 2008
| | Sample_submission_date | Sep 18 2008
| | Sample_last_update_date | Nov 14 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_growth_protocol_ch1 | as described in Wendy T. Watford, et al., Tpl2 kinase regulates T cell interferon gamma production and host resistance to Toxoplasma gondii. Journal of Experimental Medicine.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cytokine-stimulated cells were lysed in RNeasy lysis buffer (Qiagen, Valencia, CA) and total RNA was isolated with the Qiagen RNeasy Midi kit using the standard protocol. RNA was purified using Trizol (Invitrogen Life Technologies, Carlsbad, CA) and chloroform, followed by ethanol precipitation.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the BioArray High Yield RNA transcript labeling kit (Enzo Life Sciences, Inc., Farmingdale, NY) Affymetrix).
| | Sample_hyb_protocol | cRNA was hybridized to Affymetrix Human Genome-U133A and HG-U133B microarray chips according to the manufacturer’s instructions. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station Model 400.
| | Sample_scan_protocol | GeneChips were scanned by the HP-Affymetrix GeneArray Scanner using the manufacturer's protocol.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5 (MAS5) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean (2% trim at bottom and at top) target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL97
| | Sample_contact_name | Alan,E.,Berger
| | Sample_contact_email | alanberger@alum.mit.edu
| | Sample_contact_phone | 410 550-5089
| | Sample_contact_laboratory | JHBMC Lowe Family Genomics Core
| | Sample_contact_department | School of Medicine
| | Sample_contact_institute | Johns Hopkins University
| | Sample_contact_address | 5200 Eastern Ave. Room 664
| | Sample_contact_city | Baltimore
| | Sample_contact_state | MD
| | Sample_contact_zip/postal_code | 21224
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM322nnn/GSM322336/suppl/GSM322336.CEL.gz
| | Sample_series_id | GSE12839
| | Sample_data_row_count | 22645
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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" |
Enter the group name here: |
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