GEO DataSets

Analysis of macrophage cell line J774A.1 infected with pathogenic mycobacteria BCG and H37Ra and non-pathogenic M. smegmatis under high multiplicity of infection (MOI = 50). Results provide insight into the molecular response of macrophage host cells to pathogenic and non-pathogenic mycobacteria.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 4 infection, 4 species sets

Platform:

GPL1261

Series:

GSE45675

4 Samples

Download data: CEL, CHP

(Submitter supplied) This experiment is to compare the transcription patterns of mouse macrophages (J774A.1) infected with BCG, H37Ra and M. smegmatis under high multiplicity of infection (MOI). Through the global transcriptome profiling study, we define a pathogen specific host gene expression pattern and indicate that SRC likely plays a central role in regulating multiple unique signaling pathways activated by MTB infection. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS5634

Platform:

GPL1261

4 Samples

Download data: CEL, CHP

(Submitter supplied) We present an infection study with pathogenic and non-pathogenic mycobacterial strains that have vastly different characteristics. The early/late host response to infection with these detergent-free cultured strains will be analysed through Ampliseq and further validated through qPCR in an attempt to provide information on the subtleties which may ultimately contribute to the virulent phenotype. Proceeding to the next objective of the study is to knock-down (siRNA)/knock-up (saRNA) selected differentially expressed mRNA to study their role in the intracellular survival of M. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17303

84 Samples

Download data: TXT, XLS

(Submitter supplied) The W-Beijing family of Mycobacterium tuberculosis (Mtb) strains is known for its high-prevalence and -virulence, as well as for its genetic diversity, as recently reported by our laboratories and others. However, little is known about how the immune system responds to these strains. To explore this issue, here we used reverse engineering and genome-wide expression profiling of human macrophage-like THP-1 cells infected by different Mtb strains of the W-Beijing family, as well as by the reference laboratory strain H37Rv. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4258

Platform:

GPL570

40 Samples

Download data: CEL

Temporal analysis of macrophage-like THP-1 cell line infected by Mycobacterium tuberculosis (Mtb) W-Beijing strains and H37Rv. Mtb W-Beijing sublineages are highly virulent, prevalent and genetically diverse. Results provide insight into host macrophage immune response to Mtb W-Beijing strains.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 3 infection, 13 strain, 4 time sets

Platform:

GPL570

Series:

GSE29628

40 Samples

Download data: CEL

(Submitter supplied) We use the Tlr2 mutant of zebrafish embryos model to study the transcriptome response to Mycobacterium marinum infection. We injected M.marinum into the caudal vein at 28 hours post fertilization and took samples at 4 days post infection.

Organism:

Danio rerio

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18413

12 Samples

Download data: XLSX

(Submitter supplied) As macrophages are the primary site of Mtb infection and are sites of vitamin D signaling, we have used these cells to understand the molecular mechanisms underlying modulation of the immune response by the hormonal form of vitamin D, 1,25-dihydroxyvitamin D (1,25D). Microarrays were used to measure the changes in gene expression induced by 1,25D treatment of H37Rv-infected THP-1 cells

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4781

Platform:

GPL6244

12 Samples

Download data: CEL, XLSX

Analysis of Mtb H37Rv-infected THP-1 macrophages treated with the hormonal form of vitamin D (1,25D). Macrophages are the primary site of Mtb infection and are sites of 1,25D signaling. Results provide insight into the molecular basis of the 1,25D-enhanced macrophage response to Mtb infection.

Organism:

Homo sapiens

Type:

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

Platform:

GPL6244

Series:

GSE52819

12 Samples

Download data: CEL

(Submitter supplied) The innate immune system provides the first response to pathogen infection and orchestrates the activation of the adaptive immune system. Though a large component of the innate immune response is common to all infections, pathogen-specific innate immune responses have been documented as well. The innate immune response is thought to be especially critical for fighting infection with Mycobacterium tuberculosis (MTB), the causative agent of tuberculosis (TB). more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

156 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of Mycobacterium tuberculosis mRNA enriched from host-pathogen samples from in vivo alveolar macrophages (Mus musculus).

Organism:

Mycobacterium tuberculosis; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL25252 GPL22688

6 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of Mycobacterium tuberculosis mRNA enriched from host-pathogen samples from in vitro bone marrow derived macrophages (Mus musculus).

Organism:

Mus musculus; Mycobacterium tuberculosis

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19057 GPL25252 GPL22688

36 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling (RNA-seq) of Mycobacterium tuberculosis during transitions between normoxia and hypoxia.

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22688

81 Samples

Download data: TXT

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

Organism:

Mycolicibacterium smegmatis

Type:

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

Platform:

GPL25202

8 Samples

Download data: CSV

(Submitter supplied) Study of the DNA binding sites of the transcriptional regulator MSMEG_0916 through chromatin immunoprecipitation couple with deep sequenicng (ChIP-seq) and induced or uninduced overexpression of MSMEG_0916 in Mycobacterium smegmatis

Organism:

Mycolicibacterium smegmatis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25202

2 Samples

Download data: CSV

(Submitter supplied) Comparison of transcriptional differences (RNA-seq) between induced and uninduced overexpression of MSMEG_0916 in Mycobacterium smegmatis

Organism:

Mycolicibacterium smegmatis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25202

6 Samples

Download data: TXT

(Submitter supplied) Increasing experimental evidence supports that Mycobacterium tuberculosis (Mtb) has evolved strategies to survive within the lysosomes from activated macrophages, which may represent a reservoir for persistent mycobacteria. To further our knowledge in Mtb response to the lysosomal environment, we profiled the global transcriptional activity of Mtb in a lysosomal in vitro exposure (LivE) model. At inhibitory conditions of lysosomal SF (iLivE), which did not kill but arrested mycobacterial replication thereby mimicking persistence, Mtb expresses a unique transcriptome, where genes involved in general stress response, metabolic reprogramming, cell wall remodeling, respiration, oxidative stress and dormancy response were found to be significantly modulated. more...

Organism:

Mycobacterium tuberculosis CDC1551

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20114

15 Samples

Download data: TXT

(Submitter supplied) Mycobacterial transcripts were identified in exosomes released from M.tb infected RAW264.7 macrophages that were not present in uninfected exosomes suggesting export of mycobacterial RNA via exosomes Mycobacterial RNA was used as positive control and RNA from exosomes released from uninfected macrophages was used as negative control

Organism:

Mycobacterium tuberculosis; Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by array

Platform:

GPL18228

4 Samples

Download data: PAIR

(Submitter supplied) Investigation to study mRNA transcripts present in exosomes from M.tb infected cells and how they compare to those derived from uninfected cells. Transcripts were also studied in donor macrophages as controls The gene expression study identified unique transcripts as well as differentially expressed transcripts present in exosomes released from infected macrophages

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL10572

12 Samples

Download data: PAIR, TXT

(Submitter supplied) Macrophages play an essential role in the early immune response to Mycobacterium tuberculosis and are the cell type preferentially infected in vivo. Primary macrophages and macrophage-like cell lines are commonly used as infection models, although the physiological relevance of cell lines, particularly for host-pathogen interaction studies, is debatable. Here we use high-throughput RNA-sequencing to analyse transcriptome dynamics of two macrophage models in response to M. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

36 Samples

Download data: TXT

(Submitter supplied) The emergence of multidrug resistant (MDR) Mycobacterium tuberculosis (Mtb) strains, resistant to the frontline anti-tubercular drugs rifampicin and isoniazid, forces treatment with less effective and toxic second-line drugs and stands to derail TB control efforts. However, the immune response to MDR Mtb infection remains poorly understood. Here, we determined the RNA transcriptional profile of in vitro generated macrophages to infection with either drug susceptible Mtb HN878 or MDR Mtb W_7642 infection.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

14 Samples

Download data: TXT