!Series_title Identification of Tuberculosis Susceptibility Genes with Human Macrophage Gene Expression Profiles !Series_geo_accession GSE11199 !Series_status Public on Feb 23 2009 !Series_submission_date Apr 17 2008 !Series_last_update_date Apr 14 2011 !Series_pubmed_id 19057661 !Series_summary "Although host genetics influences susceptibility to tuberculosis, few genes determining disease outcome have been identified. We hypothesized that macrophages from individuals with different clinical manifestations of tuberculosis infection would have distinct gene expression profiles, and that polymorphisms in these genes may also be associated with susceptibility to TB." !Series_summary "We measured gene expression levels of >38,500 genes from ex vivo Mtb- stimulated macrophages in 12 subjects with 3 clinical phenotypes: latent, pulmonary and meningeal tuberculosis (n=4 per group). After identifying differentially expressed genes, we confirmed these results in 34 additional subjects by real-time PCR. We also used a case-control study design to examine whether polymorphisms in differentially regulated genes were associated with susceptibility to these different clinical forms of TB." !Series_summary "We compared gene expression profiles in Mtb-stimulated and unstimulated macrophages and identified 1608 and 199 genes that were differentially expressed by >2 and >5-fold, respectively. Using cluster analysis, we identified gene expression patterns that distinguished the different clinical forms of tuberculosis. In an independent sample set of 34 individuals and a subset of highly regulated genes, 90% of the microarray results were confirmed by RT-PCR, including expression levels of CCL1, which distinguished the 3 clinical groups. Furthermore, 6 single nucleotide polymorphisms (SNPs) in CCL1 were found to be associated with TB in a case-control genetic association study with 273 TB cases and 188 controls. To our knowledge, this is the first identification of CCL1 as a gene involved in host susceptibility to TB and the first study to combine microarray and DNA polymorphism studies to identify genes associated with TB susceptibility. These results suggest that genome-wide studies can provide an unbiased method to identify critical macrophage response genes that are associated with different clinical outcomes and that variation in innate immune response genes regulate susceptibility to tuberculosis. " !Series_summary "Keywords: tuberculosis, tuberculous meningitis, macrophage, gene expression, microarray" !Series_overall_design "Latent TB (LTB) subjects were healthy nursing staff members who had worked at a tuberculosis hospital, for more than 20 years and were positive in ESAT-6 and CFP-10- specific IFN-?üş ELISPOT assays. All subjects with pulmonary (PTB) and meningeal (TBM) disease had been treated and were free of symptoms at the time of venipuncture. Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours. RNA expression was analyzed using a Human Genome U133 Plus 2.0 Array (Affymetrix, USA) which contains probe sets for 47,000 transcripts including 38,500 well-characterized human genes." !Series_type Expression profiling by array !Series_sample_id GSM280331 GSM280332 GSM280333 GSM280334 GSM280335 GSM280336 GSM280337 GSM280338 GSM280339 GSM280340 GSM280341 GSM280342 GSM280343 GSM280344 GSM280345 GSM280346 GSM280347 GSM280348 GSM280349 GSM280350 GSM280351 GSM280352 GSM280353 GSM280354 !Series_contact_name "Sarah,J,Dunstan" !Series_contact_email sdunstan@oucru.org !Series_contact_phone 84 8 9241761 !Series_contact_fax 84 8 9238904 !Series_contact_department Hospital for Tropical Diseases !Series_contact_institute "1. Oxford University Clinical Research Unit" !Series_contact_address "190 Ben Ham Tu, Quan 5" !Series_contact_city Ho Chi Minh City !Series_contact_zip/postal_code 5 !Series_contact_country Viet Nam !Series_supplementary_file ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/series/GSE11199/GSE11199_RAW.tar !Series_platform_id GPL570 !Series_platform_taxid 9606 !Series_sample_taxid 9606 !Sample_title LTB1 stim LTB1 unstim PTB3 stim PTB3 unstim TBM2 stim TBM2 unstim LTB2 stim LTB2 unstim PTB1 stim PTB1 unstim TBM3 stim TBM3 unstim LTB3 stim LTB3 unstim LTB4 stim LTB4 unstim PTB2 stim PTB2 unstim PTB4 stim PTB4 unstim TBM1 stim TBM1 unstim TBM4 stim TBM4 unstim !Sample_geo_accession GSM280331 GSM280332 GSM280333 GSM280334 GSM280335 GSM280336 GSM280337 GSM280338 GSM280339 GSM280340 GSM280341 GSM280342 GSM280343 GSM280344 GSM280345 GSM280346 GSM280347 GSM280348 GSM280349 GSM280350 GSM280351 GSM280352 GSM280353 GSM280354 !Sample_status Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 Public on Feb 23 2009 !Sample_submission_date Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 Apr 08 2008 !Sample_last_update_date Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 Feb 23 2009 !Sample_type RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA RNA !Sample_channel_count 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 !Sample_source_name_ch1 "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" "macrophage, ex vivio stimulation TB extract for 4 hrs" "macrophage, ex vivo stimulation with media (control)" !Sample_organism_ch1 Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens Homo sapiens !Sample_characteristics_ch1 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage 5 day monocyte-derived macrophage !Sample_characteristics_ch1 Latent Latent Pulmonary Pulmonary meningeal tuberculosis meningeal tuberculosis Latent Latent Pulmonary Pulmonary meningeal tuberculosis meningeal tuberculosis Latent Latent Latent Latent Pulmonary Pulmonary Pulmonary Pulmonary meningeal tuberculosis meningeal tuberculosis meningeal tuberculosis meningeal tuberculosis !Sample_treatment_protocol_ch1 "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." "MDMs were stimulated ex-vivo with either 5 ??g/ml of whole cell lysate of M. tuberculosis H37Rv (obtained from the Mycobacteria Research laboratories at Colorado State University, USA) or PBS control for 4 hours." !Sample_growth_protocol_ch1 "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." "Peripheral Blood Mononuclear Cells (PBMCs) were separated from heparinized whole blood by Lymphoprep (Asix-Shield, Norway) gradient centrifugation according to the manufacturer's protocol. 20 ml of blood was slowly added to the tube containing 20ml of Lymphoprep and spun at 2800 rpm for 24 minutes at room temperature with low brake. The PBMC layer was transferred to a new tube and washed 3 times with cold PBS 3% fetal calf serum (FCS) to remove platelets. To derive monocytes, 1-1.5x107 PBMCs were plated in a well of a 6-well plate (Nunc, Denmark) in RPMI-1640 (Sigma, Germany) with 10% heat-inactivated fetal calf serum (FCS; Sigma, Germany), 2mM L-glutamine and 100 units of penicillin for 2 hours at 370C. Non-adhered cells were washed off 3 times with PBS 3 % FCS. The cells were plated in RPMI media for 5 days at 370C 5% CO2 to make monocyte-derived macrophages (MDMs)." !Sample_molecule_ch1 total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA total RNA !Sample_extract_protocol_ch1 "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." "Cells grown in a monolayer were treated with Trizol (Invitrogen, USA) to extract RNA. 1 ml of Trizol was added to a well of a 6-well plate to disrupt cells, dissolve cell components and release RNA. Cell suspension was transferred to a tube and 0.2 ml of chloroform was added to separate the solution into an aqueous phase and an organic phase by centrifugation at 10,000 rpm for 15 minutes. The aqueous phase which contains RNA was transferred to a new tube. Isopropanol was added next with an equal volume to precipitate the RNA by centrifugation at 12,000 for 10 minutes. Then the supernatant was removed and the RNA pellet was washed with 75% ethanol, dried, dissolved in RNase- free water and stored at -80oC." !Sample_label_ch1 biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin biotin !Sample_label_protocol_ch1 Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual Standard Affymetrix IVT labeling protocol. See Affymetrix Expression Analysis Technical Manual !Sample_taxid_ch1 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 9606 !Sample_hyb_protocol "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" "Following fragmentation, ten micrograms of adjusted cRNA fromeach sample was hybridized for 16 hours at 45 deg C to Affymetrix GeneChip" !Sample_scan_protocol Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. Scanning was performed using the Affymetrix GeneChip 3000 Scanner. Images were processed into CEL files with the Affymetrix GCOS software. !Sample_description "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." "Gene expression of monocyte derived macrophages (MDMs) from subjects with three clinical forms of TB including LTB, PTB and TBM (n = 4 in each group) was examined by microarray. MDMs were stimulated either with a whole cell lysate of M. tuberculosis H37Rv or PBS for 4 hours." !Sample_data_processing Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor Raw CEL intensity data were RMA normalized using R/Bioconductor !Sample_platform_id GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 GPL570 !Sample_contact_name "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" "Sarah,J,Dunstan" !Sample_contact_email sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org sdunstan@oucru.org !Sample_contact_phone 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 84 8 9241761 !Sample_contact_fax 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 84 8 9238904 !Sample_contact_department Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases Hospital for Tropical Diseases !Sample_contact_institute "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" "1. Oxford University Clinical Research Unit" !Sample_contact_address "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" "190 Ben Ham Tu, Quan 5" !Sample_contact_city Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City Ho Chi Minh City !Sample_contact_zip/postal_code 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 !Sample_contact_country Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam Viet Nam !Sample_supplementary_file ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280331/GSM280331.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280332/GSM280332.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280333/GSM280333.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280334/GSM280334.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280335/GSM280335.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280336/GSM280336.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280337/GSM280337.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280338/GSM280338.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280339/GSM280339.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280340/GSM280340.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280341/GSM280341.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280342/GSM280342.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280343/GSM280343.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280344/GSM280344.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280345/GSM280345.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280346/GSM280346.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280347/GSM280347.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280348/GSM280348.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280349/GSM280349.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280350/GSM280350.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280351/GSM280351.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280352/GSM280352.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280353/GSM280353.CEL.gz ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples/GSM280nnn/GSM280354/GSM280354.CEL.gz !Sample_data_row_count 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 54675 !series_matrix_table_begin ID_REF GSM280331 GSM280332 GSM280333 GSM280334 GSM280335 GSM280336 GSM280337 GSM280338 GSM280339 GSM280340 GSM280341 GSM280342 GSM280343 GSM280344 GSM280345 GSM280346 GSM280347 GSM280348 GSM280349 GSM280350 GSM280351 GSM280352 GSM280353 GSM280354 1007_s_at 7.172261627 7.319120724 7.321613373 7.31420083 7.139133635 7.057300917 7.776867124 7.766310331 7.461514743 7.483965444 7.457636076 7.44289182 7.047100615 7.162484811 7.520019449 7.273927228 8.032546558 7.564753155 7.919167996 7.641734016 7.458213145 7.580049892 7.75006157 7.622299651 1053_at 5.251088218 5.338481798 5.487147588 5.567036468 5.295165684 4.995038929 5.285894424 5.320662016 5.310224762 5.460811658 5.466435631 5.42912189 5.506235885 5.109751156 5.480428688 5.283944515 5.498325429 5.290748831 5.541117542 5.762467428 5.502991418 5.367074735 5.228631718 5.045853124 117_at 6.051131077 5.922790638 5.700553626 5.913266242 5.442634182 5.568328461 4.964602115 5.966128083 5.112000485 5.505536958 5.003189158 5.145484955 5.136526044 5.349586158 5.530883086 6.495296346 5.22444478 5.279768204 5.250243839 5.917037197 5.397089218 5.620651928 5.42377861 5.634898138 121_at 8.043315253 8.018645699 8.074789793 7.993528801 7.568867181 7.442078619 7.514540961 8.404526228 7.59690485 7.509687259 7.961035586 7.845809491 7.948909453 8.033456865 7.793142224 7.945501375 7.668277239 7.486930217 7.741137911 7.919178138 7.676736762 7.730510276 7.680488608 7.95243142 1255_g_at 2.971467806 2.812389206 3.111925529 3.125925865 2.908381275 2.850475486 2.890790049 3.529560743 3.289393573 3.190512856 3.107949642 2.89779555 3.04814523 3.120234879 2.932081921 2.979958659 3.130719768 3.016934952 3.076316687 2.93543353 3.06636203 3.102981837 3.041866927 3.049568445 1294_at 7.348955755 7.494122554 8.222057518 8.688639387 8.391967518 8.481509502 7.236065516 7.907320249 7.910317652 8.149800765 7.657175428 8.08593851 7.056968855 7.219766043 6.905152387 7.687760387 7.361877429 7.7766083 7.86489629 8.215568607 7.781276115 8.196714603 7.580635679 8.074215075 1316_at 4.964883799 5.172598243 4.685733058 4.988739504 4.903324891 4.582164653 4.756373759 6.16860201 4.744555541 5.132160527 5.00554313 5.276872782 4.778353183 5.528255583 4.939442288 4.960850699 5.086881336 5.381312403 4.835257942 4.868118594 4.678772141 4.973392466 4.988442668 5.2162622 1320_at 3.761466478 3.897043829 4.092523485 3.931842607 3.92390528 3.776537493 3.760844029 3.979600811 4.059812278 3.928586021 3.843937143 3.81541637 3.849281118 4.133782893 4.026355915 3.841258572 3.769245676 3.934068644 3.932741023 3.77549571 4.033547128 4.051215198 3.844826803 3.88772847 1405_i_at 11.23414529 10.35844547 11.18066151 10.17524473 12.40911327 11.01100959 11.45836849 9.962509644 11.63264149 9.994073989 12.09694437 11.11080807 10.41885327 5.999408533 11.09734316 9.849839851 12.12909761 11.06029978 11.80267026 10.30177415 11.88215242 11.09493652 11.74708565 10.69987673 1431_at 3.087167002 3.203911928 3.038671227 3.086930939 3.116606045 3.227977554 3.148246092 3.460205491 3.010933292 3.252929951 3.093719712 3.354983361 3.033678243 3.374963181 3.298551056 3.224169145 3.187219106 3.233671377 3.154405972 3.239201498 3.224801131 3.133826613 3.396489068 3.254462144 1438_at 4.058614061 4.199750228 4.080495256 4.066891154 4.13106786 4.398511027 4.155843221 4.202319256 4.056988297 4.294066293 3.871265482 4.050915982 4.111035203 4.202883273 3.922031848 4.0022979 4.299789057 4.615694739 4.044702156 3.955276421 4.214925073 4.169745072 4.068495168 4.172001483 1487_at 6.352720871 6.359103585 6.890119988 7.095872013 6.495292046 6.367149973 6.011444763 6.106177736 6.619510117 6.691952077 6.547026734 6.589928246 6.496618938 6.528644755 6.269064094 6.517837037 6.800605994 6.399998022 6.879130826 6.92669691 6.608019728 6.978089639 6.19078795 6.545534709 1494_f_at 5.065073666 4.817892146 4.825928582 4.690796411 4.648778306 4.855994164 4.86404006 5.512706745 4.807049733 5.169311776 4.840593324 5.003277484 4.837769187 5.309521054 5.654459203 4.987107489 5.001629369 5.032899854 5.034013958 4.964627902 5.097975359 5.009337882 4.837274959 4.805231209 1552256_a_at 6.458924967 7.882257469 6.558919335 7.524596699 6.868594958 7.512010579 6.269071192 6.728896515 6.225435119 6.43557606 6.571410041 7.814008549 6.788903496 7.233589913 6.704005374 7.473998051 6.186682209 6.661046944 6.250709501 7.075242072 6.576596385 8.49596341 6.60839114 7.364653555 1552257_a_at 6.690987059 6.475882849 7.519508055 7.769157664 6.80236442 6.893584663 6.020803572 5.231130962 6.820732336 7.0181422 7.101041117 7.200718647 6.461649545 6.494913329 6.205812918 6.899888431 6.851010111 6.792133999 6.977691929 7.751939101 7.007216799 7.769562679 6.632494073 7.069561554 1552258_at 4.002024557 3.940839089 3.930184508 3.787063429 3.427974833 3.633449073 3.822872106 3.598124655 3.734730622 3.656544372 3.710260674 3.677981444 3.836491855 3.8541264 3.624770049 3.807422961 3.932346795 3.746191474 4.030313961 3.815244584 3.982490442 3.961566698 3.527710558 3.845785053 1552261_at 4.322530899 4.32862205 4.857694553 4.523958162 4.477783876 4.485357773 4.43606268 5.134462834 4.594626036 4.601634452 4.781537145 4.40633185 4.509914562 4.544676503 4.540877621 4.279149378 4.454963501 4.518041486 4.512784786 4.553208924 4.997137312 4.367437343 4.463376114 4.601018133 1552263_at 7.020247649 6.42502682 7.134178476 7.038593166 7.596904285 7.098956668 7.918903131 5.098106708 7.803853419 7.306329081 8.389862066 7.911452148 7.420064012 6.953074842 8.12476198 7.379485725 8.120392833 6.315382845 7.111013928 7.27259415 6.700391071 7.088331759 7.199249145 6.026006769 1552264_a_at 7.300274443 6.64920884 7.842753973 7.589351397 7.475156372 6.652314558 7.1574274 6.049974868 7.432217766 7.228951092 7.55644031 6.906948631 7.174533366 6.529071884 7.607551489 7.091661161 7.562167437 6.266578755 6.890184313 6.900187792 6.774614443 6.944095811 6.848042282 5.750953551 1552266_at 3.662441548 4.048959474 3.457481879 3.647153656 3.754421719 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