Search results for the GEO ID: GSE36238  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM884938 | GPL570 |
|
TB_diagnosis_patient:5037
|
Blood
|
time point: Week 0
tissue: blood
patient_id: 5037
sample time: at diagnosis
|
|
| Sample_geo_accession | GSM884938
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884938/suppl/GSM884938.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884939 | GPL570 |
|
TB_week26_patient:5037
|
Blood
|
time point: Week 26
tissue: blood
patient_id: 5037
sample time: at end of treatment
|
|
| Sample_geo_accession | GSM884939
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884939/suppl/GSM884939.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884940 | GPL570 |
|
TB_diagnosis_patient:5118
|
Blood
|
time point: Week 0
tissue: blood
patient_id: 5118
sample time: at diagnosis
|
|
| Sample_geo_accession | GSM884940
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884940/suppl/GSM884940.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884941 | GPL570 |
|
TB_week26_patient:5118
|
Blood
|
time point: Week 26
tissue: blood
patient_id: 5118
sample time: at end of treatment
|
|
| Sample_geo_accession | GSM884941
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884941/suppl/GSM884941.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884942 | GPL570 |
|
TB_diagnosis_patient:5122
|
Blood
|
time point: Week 0
tissue: blood
patient_id: 5122
sample time: at diagnosis
|
|
| Sample_geo_accession | GSM884942
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884942/suppl/GSM884942.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884943 | GPL570 |
|
TB_week26_patient:5122
|
Blood
|
time point: Week 26
tissue: blood
patient_id: 5122
sample time: at end of treatment
|
|
| Sample_geo_accession | GSM884943
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884943/suppl/GSM884943.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884944 | GPL570 |
|
TB_diagnosis_patient:5418
|
Blood
|
time point: Week 0
tissue: blood
patient_id: 5418
sample time: at diagnosis
|
|
| Sample_geo_accession | GSM884944
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884944/suppl/GSM884944.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884945 | GPL570 |
|
TB_week26_patient:5418
|
Blood
|
time point: Week 26
tissue: blood
patient_id: 5418
sample time: at end of treatment
|
|
| Sample_geo_accession | GSM884945
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884945/suppl/GSM884945.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884946 | GPL570 |
|
TB_diagnosis_patient:5600
|
Blood
|
time point: Week 0
tissue: blood
patient_id: 5600
sample time: at diagnosis
|
|
| Sample_geo_accession | GSM884946
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884946/suppl/GSM884946.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884947 | GPL570 |
|
TB_week26_patient:5600
|
Blood
|
time point: Week 26
tissue: blood
patient_id: 5600
sample time: at end of treatment
|
|
| Sample_geo_accession | GSM884947
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884947/suppl/GSM884947.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884948 | GPL570 |
|
TB_diagnosis_patient:5655
|
Blood
|
time point: Week 0
tissue: blood
patient_id: 5655
sample time: at diagnosis
|
|
| Sample_geo_accession | GSM884948
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884948/suppl/GSM884948.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884949 | GPL570 |
|
TB_week26_patient:5655
|
Blood
|
time point: Week 26
tissue: blood
patient_id: 5655
sample time: at end of treatment
|
|
| Sample_geo_accession | GSM884949
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884949/suppl/GSM884949.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884950 | GPL570 |
|
TB_diagnosis_patient:5709
|
Blood
|
time point: Week 0
tissue: blood
patient_id: 5709
sample time: at diagnosis
|
|
| Sample_geo_accession | GSM884950
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884950/suppl/GSM884950.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884951 | GPL570 |
|
TB_week26_patient:5709
|
Blood
|
time point: Week 26
tissue: blood
patient_id: 5709
sample time: at end of treatment
|
|
| Sample_geo_accession | GSM884951
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884951/suppl/GSM884951.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884952 | GPL570 |
|
TB_diagnosis_patient:5754
|
Blood
|
time point: Week 0
tissue: blood
patient_id: 5754
sample time: at diagnosis
|
|
| Sample_geo_accession | GSM884952
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884952/suppl/GSM884952.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884953 | GPL570 |
|
TB_week26_patient:5754
|
Blood
|
time point: Week 26
tissue: blood
patient_id: 5754
sample time: at end of treatment
|
|
| Sample_geo_accession | GSM884953
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884953/suppl/GSM884953.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884954 | GPL570 |
|
TB_diagnosis_patient:5760
|
Blood
|
time point: Week 0
tissue: blood
patient_id: 5760
sample time: at diagnosis
|
|
| Sample_geo_accession | GSM884954
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884954/suppl/GSM884954.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
GSM884955 | GPL570 |
|
TB_week26_patient:5760
|
Blood
|
time point: Week 26
tissue: blood
patient_id: 5760
sample time: at end of treatment
|
|
| Sample_geo_accession | GSM884955
| | Sample_status | Public on Aug 10 2012
| | Sample_submission_date | Mar 02 2012
| | Sample_last_update_date | Aug 10 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tuberculosis patients, samples taken at beginning and end of conventional combination therapy (2HRZE/4HR)
| | Sample_growth_protocol_ch1 | Ex vivo human blood, 5ml mixed in 50ml RNA/DNA Stabilization reagent (Roche Applied Science)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | mRNA Isolation Kit for Blood/Bone Marrow (Roche Applied Science) and Turbo DNA-free™ treatment (Ambion: Applied Biosystems)
| | Sample_label_ch1 | NuGEN Ovation® Whole Blood Solution
| | Sample_label_protocol_ch1 | 3 ng mRNA processed using NuGEN Ovation® Whole Blood Solution
| | Sample_hyb_protocol | Fragmented and biotinylated cDNA was hybridised to Human U133 Plus 2.0 Affymetrix GeneChips at 45C, 60 rpm for 18 hours. GeneChips were washed and stained with an Affymetrix GeneChip Fluidics station 450, protocol EukGE-WS2v4_450.
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | GC-RMA summarised and baseline normalised to median of all arrays using GeneSpring GX11.5
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jackie,,Cliff
| | Sample_contact_email | jackie.cliff@lshtm.ac.uk
| | Sample_contact_department | Immunology and Infection
| | Sample_contact_institute | London School of Hygiene & Tropical Medicine
| | Sample_contact_address | Keppel Street
| | Sample_contact_city | London
| | Sample_contact_zip/postal_code | WC1E 7HT
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM884nnn/GSM884955/suppl/GSM884955.CEL.gz
| | Sample_series_id | GSE36238
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
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