GEO DataSets

(Submitter supplied) Infection with Mycobacterium tuberculosis (M. tb) is initiated when an aerosol droplet carrying a few bacilli is inhaled into an alveolus. Alveolar epithelial cells (AEC) (type II and type I) are among the first cells encountered by the infecting bacteria and greatly outnumber macrophages in the alveolus. M. tb replicates dramatically (>20,000 fold) in a “non-migrating” compartment in the lung prior to the development of the cell-mediated immune response in aerosol-infected mice (Wolf AJ, 2008). more...

Organism:

Mycobacterium tuberculosis; Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4057

6 Samples

Download data: GPR

(Submitter supplied) Mycobacterium tuberculosis (M. tb), the cause of tuberculosis (TB), utilizes the blood circulation to spread systemically and establish infection, and the risk of developing active TB (pulmonary and extrapulmonary) is significantly increased in individuals infected with human immunodeficiency virus (HIV). In this work, we have used DNA microarray analysis to investigate the transcriptome of M. tb replicating in human whole blood from both HIV-negative and HIV-positive donors compared to M. more...

Organism:

Mycobacterium tuberculosis H37Rv; Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL4057

24 Samples

Download data: GPR

(Submitter supplied) Intraocular tuberculosis (IOTB) is a significant cause of visual morbidity in TB-endemic countries. However, pathogenesis of Mycobacterium tuberculosis (M. tb) in the ocular compartment is poorly defined. IOTB is paucibacillary in a vast majority of patients although M. tb has been detected in both the retinal pigment epithelial (RPE) cells (Rao et al. 2006) and in the intraocular fluid (IOF) (Aggarwal et al., 2016; Bajgai et al., 2017) in some cases. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL4057

6 Samples

Download data: GPR

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

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL4057

33 Samples

Download data: GPR

(Submitter supplied) During lung infection Mycobacterium tuberculosis (Mtb) resides in macrophages and subverts the bactericidal mechanisms of these professional phagocytes. In this work we have analyzed by DNA microarray technique the global transcription profile of Mtb infecting primary human macrophages in order to identify putative bacterial pathogenic factors that can be relevant for the intracellular survival of Mtb. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL4057

11 Samples

Download data: GPR

(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) In previously published work, we identified three Mycobacterium tuberculosis sigma (s) factor genes responding to heat shock (sigB, sigE and sigH ). Two of them (sigB and sigE ) also responded to SDS exposure. As these responses to stress suggested that the s factors encoded by these genes could be involved in pathogenicity, we are studying their role in physiology and virulence. In this work, we characterize a sigE mutant of M. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL2787

15 Samples

Download data: TXT

(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) In-vivo Gene Signatures of Mycobacterium tuberculosis In C3HeB/FeJ Mice

Organism:

Mycobacterium tuberculosis CDC1551; Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL18320

12 Samples

Download data: GPR

(Submitter supplied) Mycobacterium tuberculosis has the ability to persist within the host in a clinically latent stage. One important condition believed to contribute to latency is reduced access to oxygen but the response of M. tuberculosis to hypoxia is partially characterized. Virtually all dormant models against tuberculosis the vaccine tested in animals used laboratory strains H37Rv or Erdman strains. But major outbreaks of TB occur with the strains that have widely different genotypes and phenotypes compare to H37Rv. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL18388

9 Samples

Download data: TXT

(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) Transcriptional profiling of H37Rv (WT), Mut1 and Comp1 bacteria under aerobic (Aer/0 day, i.e 0 D) and hypoxic conditions (Hyp/5 days standing culture, i.e 5 D). Mut1: H37Rv carrying devR gene disruption by in frame insertion of kanamycin resistance cassette and expressing DevRN-Kan fusion protein. Comp1: Mut1 complemented with low copy number plasmid carrying devR gene expressed from its native constitutive upstream promoter. more...

Organism:

Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL13729

17 Samples

Download data: TXT

(Submitter supplied) We studied M. tuberculosis transcriptome by whole genome microarray for the identification of key pathogenic determinants that are involved in the pathogenesis of intraocular tuberculosis.

Organism:

Mycobacterium tuberculosis; Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL25141

8 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of M.tuberculosis to 10 mM vitamin C at 8 h. This was compared to gene expression profile of untreated M. tuberculosis culture.

Organism:

Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL18055

7 Samples

Download data: TXT

(Submitter supplied) Transcriptional profile comparison among Beijing and non-Beijing M. tuberculosis isolates.

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL8893

6 Samples

Download data: TXT

(Submitter supplied) The innate mechanisms used by Mycobacterium tuberculosis to persist during periods of non-proliferation are central to understanding the physiology of the bacilli during latent disease. We have used whole genome expression profiling to expose adaptive mechanisms initiated by M. tuberculosis in two common models of M. tuberculosis non-proliferation. The first of these models was a standard growth curve in which gene expression changes were followed from exponential growth through the transition to stationary phase. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL5714

54 Samples

Download data: TXT

(Submitter supplied) This is a replication study on human alveolar macrophages (HAMs) from a smaller cohort from South Africa in order to support the RNA data of a relatively larger cohort from the US (Ohio & Texas). In this replication cohort, using full RNA-seq, a substantial portion of significant differentially expressed RNAs overlap with those identified with Ampliseq from the larger cohort over time, yielding similar enriched functional terms, e.g., interferon, interleukin, and IDO1 signaling.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21290

30 Samples

Download data: XLSX

(Submitter supplied) An innovative, high-throughput approach was proposed to identify key gene expression profiles and regulatory polymorphisms affecting innate immunity to TB by studying interactions between M.tb and human alveolar macrophages (AMs). We systematically analyzed interactions of a virulent M.tb strain with freshly isolated human AMs from 28 healthy adult donors, measuring host RNA expression and secreted candidate proteins associated with TB pathogenesis over 72h. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17303

124 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of Mycobacterium tuberculosis H37Rv strains comparing control DMSO treated strains with chelerythrine treated strains. Goal was to determine the effects of chelerythrine against Mycobacterium tuberculosis H37Rv strains.

Organism:

Mycobacterium tuberculosis; Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL10895

2 Samples

Download data: PDF, TXT

(Submitter supplied) Reaeration timecourse from a defined hypoxia model in Mycobacterium tuberculosis. The mechanism by which mycobacteria return to a replicating state upon re-exposure to favorable conditions is not well understood. In this study, we utilized reaeration from a defined hypoxia model to characterize the adaptive response of Mycobacterium tuberculosis (MTB) following a return to favorable growth conditions. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platforms:

GPL10364 GPL4293 GPL5774

33 Samples

Download data: GPR