GEO DataSets

(Submitter supplied) Alveolar macrophages (AMs) are major targets of Mycobacterium tuberculosis (Mtb) infection, critical during the progression of active tuberculosis (TB). The complex immunopathology of TB generates diverse microenvironments in the lung, which shape immune responses by AMs. In the current study, we perform whole genome microarray transcriptional profiling on RNA isolated from AMs from TB patients (AMsTB) compared to AMs from control subjects (AMsCT) using bronchoalveolar lavage (BAL). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

7 Samples

Download data: TXT

(Submitter supplied) Mycobacterium tuberculosis (Mtb) infects alveolar macrophages (AMs) causing pulmonary tuberculosis (PTB), the more frequent form of the disease. Less frequently, Mtb disseminates to many other organs and tissues resulting in different extrapulmonary forms of TB. Nevertheless, very few studies have addressed the global mRNA response of human AMs, in particular from humans with the active form of the disease. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

43 Samples

Download data: TXT

(Submitter supplied) The aim of this study was to measure the immune response of alveolar macrophages (AMs) from mice lacking Nrf2 in LysM- or CD11c-expressing cells to intracellular Mtb infection in vivo. We characterized the transcriptional profile of murine Mtb-infected AMs after aerosol infection by sorting cells from bronchoalveolar lavage fluid and performing low-input RNA-sequencing.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

12 Samples

Download data: TSV

(Submitter supplied) The aim of this study was to measure the immune response of alveolar macrophages (AMs) to intracellular Mtb infection in vivo. We characterized the transcriptional profile of murine Mtb-infected AMs after aerosol infection by sorting cells from bronchoalveolar lavage fluid and performing low-input RNA-sequencing. To determine the effect of the transcription factor Nrf2 on this response we also measured the transcriptional profiles of AMs from mice lacking Nrf2.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

54 Samples

Download data: TSV

(Submitter supplied) Pyrazinamide (PZA) is one of the first line antibiotics used for the treatment of tuberculosis (TB). we have used human monocyte and a mouse model of pulmonary TB to investigate whether treatment with PZA, in addition to its known anti-mycobacterial properties, modulate the host immune response during Mycobacterium tuberculosis (Mtb) infection.

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS4967

Platform:

GPL6246

16 Samples

Download data: CEL

Analysis of lung from B6D2F1 females infected with Mycobacterium tuberculosis and treated with pyrazinamide (PZA) at 28 days post infection (dpi); samples collected at 42 and 63 dpi. Results provide insight molecular mechanisms underlying PZA modulation of host immune response during Mtb infection.

Organism:

Mus musculus

Type:

Expression profiling by array, transformed count, 2 agent, 2 infection, 3 time sets

Platform:

GPL6246

Series:

GSE48027

16 Samples

Download data: CEL

(Submitter supplied) Human alveolar macrophages (HAM) are primary bacterial niche and immune response cells during Mycobacterium tuberculosis (M.tb) infection, and human blood monocyte-derived macrophages (MDM) are a model for investigating M.tb-macrophage interactions. Here, we use a targeted RNA-Seq method to measure transcriptome-wide changes in RNA expression patterns of freshly obtained HAM (used within 6 h) and 6 day cultured MDM upon M.tb infection over time (2, 24 and 72 h), in both uninfected and infected cells from three donors each. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL17303

36 Samples

Download data: TXT

(Submitter supplied) 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. 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). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS3540

Platform:

GPL570

24 Samples

Download data: CEL

Ex vivo analysis of macrophages from individuals with a history of latent, pulmonary and meningeal tuberculosis (TB) following treatment with cell lysates of Mycobacterium tuberculosis H37Rv. Results provide insight into the molecular basis of susceptibility to TB.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 agent, 3 disease state sets

Platform:

GPL570

Series:

GSE11199

24 Samples

Download data: CEL

(Submitter supplied) Identification of blood biomarkers that prospectively predict Mycobacterium tuberculosis treatment response.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

914 Samples

Download data: CSV, TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL24676 GPL20301

212 Samples

Download data

(Submitter supplied) Persons living with HIV (PLWH) are at increased risk of tuberculosis (TB). HIV-associated TB is mainly the result of recent infection with Mycobacterium tuberculosis (Mtb) followed by rapid progression to disease. Alveolar macrophages (AM) are the first cells of the innate immune system that engage Mtb, but how HIV and antiretroviral therapy (ART) impact on the anti-mycobacterial response of AM is not known. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

100 Samples

Download data: TXT

(Submitter supplied) Persons living with HIV (PLWH) are at increased risk of tuberculosis (TB). HIV-associated TB is mainly the result of recent infection with Mycobacterium tuberculosis (Mtb) followed by rapid progression to disease. Alveolar macrophages (AM) are the first cells of the innate immune system that engage Mtb, but how HIV and antiretroviral therapy (ART) impact on the anti-mycobacterial response of AM is not known. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24676

30 Samples

Download data: TXT

(Submitter supplied) Persons living with HIV (PLWH) are at increased risk of tuberculosis (TB). HIV-associated TB is mainly the result of recent infection with Mycobacterium tuberculosis (Mtb) followed by rapid progression to disease. Alveolar macrophages (AM) are the first cells of the innate immune system that engage Mtb, but how HIV and antiretroviral therapy (ART) impact on the anti-mycobacterial response of AM is not known. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20301

82 Samples

Download data: TXT

(Submitter supplied) Whole-genome expression profiling on a cohort of TB patients. Tuberculosis patients above 15 years of age were recruited from an outpatient tuberculosis clinic in central Jakarta (Indonesia). Randomly selected control subjects with the same sex and age (+/-10%) were recruited from neighboring households, with first degree relatives excluded.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6883

71 Samples

Download data: TXT

(Submitter supplied) We report the phenotype of human lung ILC2 and ILC3 populations from individuals with tuberculosis (TB) and non-TB cancer controls. We find that ILC2s demonstrate moderate transcriptional differences in TB infection, whereas ILC3s demonstrate large differences.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

24 Samples

Download data: TXT

(Submitter supplied) Over the last several years, scRNA-seq has proven an invaluable tool for dissecting the role of the immune environment in many diseases. However, for infectious disease studies, the absence of information regarding the transcriptional status of the infecting agent reduces our functional appreciation of the roles of different immune effector cells in determining control versus progression of disease. more...

Organism:

Homo sapiens; Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

4 related Platforms

24 Samples

Download data: CSV, RDS, TSV

(Submitter supplied) In our rabbit model of pulmonary tuberculosis, infection with Mtb HN878, a hyper-virulent W-Beijing strain, results in progressive cavitary disease. However, infection of rabbit lungs with Mtb CDC1551, a hyper-immunogenic strain is effectively controlled overtime, establishing latent Mtb infection. Using these two Mtb strains, we tested the hypothesis that the initial host response in the lungs within hours of infection determines later outcome. more...

Organism:

Oryctolagus cuniculus

Type:

Expression profiling by array

Platform:

GPL13288

8 Samples

Download data: TXT

(Submitter supplied) The differential expression of the long non-coding RNAs (lncRNAs) in the sputa from patients with Tuberculosis (TB) as (TB positive), community acquired pneumonia (CAP) and healthy individuals (CG) using lncRNA microarray scanning were evaluated. It was found that there were 2116 specific lncRNAs differentially expressed in the TB positive samples (1102 up-regulated and 1014 down-regulated), which accounted for 6.96% of total lncRNAs.

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL16956

9 Samples

Download data: TXT

(Submitter supplied) This longitudinal dataset was generated to assess changes in whole blood gene expression following low dose Mycobacterium tuberculosis infection of Cynomolgus macaques. In addition to changes in mRNA transcript abundance, changes in circulating immune cell populations were also assessed using both complete blood counts (CBC) and using flow cytometry. Disease severity was determined using both clinical diagnosis (active vs. more...

Organism:

Homo sapiens; Macaca fascicularis

Type:

Expression profiling by array

Platform:

GPL10558

470 Samples

Download data: TXT