GEO DataSets

(Submitter supplied) Polyamines, crucial molecules involved in cell proliferation and growth, play a pivotal role in cancer development and progression. Within the tumor microenvironment, macrophages, key components of the immune system, exhibit a complex relationship with polyamines. Evidence suggests that polyamines can modulate macrophage polarization, influencing their functional phenotypes. Here, we detected the gene DNA methylation changes in spermine-stimulated human macrophages isolated from PBMCs and TAMs.

Organism:

Yersinia enterocolitica; Toxoplasma gondii; Salmonella enterica subsp. enterica serovar Typhimurium; Mammarenavirus choriomeningitidis; Orthohantavirus puumalaense; Campylobacter jejuni; Francisella tularensis subsp. novicida; Yersinia pestis; Staphylococcus aureus; Mycobacterium avium subsp. paratuberculosis; Cowpox virus; Escherichia coli O157:H7; Francisella tularensis subsp. mediasiatica; Paslahepevirus balayani; Leptospira interrogans; Rickettsia typhi; Mycobacterium tuberculosis variant bovis; Mycobacterium tuberculosis; Mycobacterium tuberculosis variant microti; Mycobacterium canetti; Orthohantavirus seoulense; Yersinia pseudotuberculosis; Rickettsia prowazekii; Bartonella quintana; Mycobacterium avium; Homo sapiens; Streptobacillus moniliformis; Bartonella henselae; Francisella tularensis subsp. tularensis; Francisella tularensis subsp. holarctica

Type:

Methylation profiling by array

Platform:

GPL21445

4 Samples

Download data: IDAT, TXT

(Submitter supplied) Mycobacterium avium subsp. paratuberculosis (MAP) carries MAP3773c, a putative metal regulator, on its genome which is absent in other mycobacteria. Homologues of this gene in enterobacteria have roles in global iron regulation and homeostasis. The role of MAP3773c in regulating intracellular iron in MAP is poorly understood. Functional analysis of DEGs in ΔMAP3773c revealed that pantothenate (Pan) biosynthesis, polysaccharide biosynthesis, sugar metabolism and N-acetyltransferase enhanced intracellular survival genes were downregulated at 30 minutes post-iron starvation whereas ATP-binding cassette (ABC) type metal transporters, putative siderophore biosynthesis, arginine and proline metabolism, PPE, PE family and mammalian cell entry (MCE) genes were upregulated at that same time point. more...

Organism:

Mycobacterium avium subsp. paratuberculosis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33823

20 Samples

Download data: TXT

(Submitter supplied) Background: Mycobacterium avium is an opportunistic pathogen that requires complex multidrug treatment. Macrolides, like clarithromycin, are the cornerstone of treatment, but even macrolide-based treatment regimens have suboptimal outcomes. Combining transcriptomic profiling of macrophages and mycobacteria in an in vitro infection model may increase our understanding of the host-pathogen interaction and the effect of antibiotic treatment. more...

Organism:

Mycobacterium avium subsp. hominissuis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32656

6 Samples

Download data: XLSX

(Submitter supplied) Background: Mycobacterium avium complex (MAC) bacteria cause opportunistic infections in humans. Treatment yields cure rates of 60% and is comprised of a macrolide, a rifamycin and ethambutol; and in severe cases amikacin. Mechanisms of antibiotic tolerance remain mostly unknown. To elucidate these mechanisms, we studied the transcriptomic response to antibiotics and investigated the contribution of efflux and amikacin modification to susceptibility. more...

Organism:

Mycobacterium avium subsp. hominissuis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32656

36 Samples

Download data: XLSX

(Submitter supplied) Host-pathogen interactions of Mycobacterium avium subsp. paratuberculosis infection at transcriptomic level were investigated in an in vitro macrophage infection model by dual RNA-seq analysis.

Organism:

Mycobacterium avium subsp. paratuberculosis K-10; Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL32083 GPL24676 GPL32084

6 Samples

Download data: XLSX

(Submitter supplied) Transcriptional profiling of M. avium subsp. paratuberculosis inside bovine monocyte-derived macrophages (MDMs; in vitro infection) during phagosome acidification at 30 min post-infection. M. avium subsp. paratuberculosis profiles from bafilomcyin A1 (acidification inhibitor) treated and untreated monocyte-derived macrophages were compared.

Organism:

Mycobacterium avium subsp. paratuberculosis K-10

Type:

Expression profiling by array

Platform:

GPL22195

3 Samples

Download data: TXT

(Submitter supplied) To compare the transcriptional profile of K-10 and phoPR in the log phase, and to find out the effects of phoPR on MAP gene expression.

Organism:

Mycobacterium avium subsp. paratuberculosis K-10

Type:

Expression profiling by array

Platform:

GPL15269

6 Samples

Download data: TXT

(Submitter supplied) A microarray was developed to screen rodent samples for pathogens of zoonotic importance In the work described here, a homologue to Yersinia pestis was found in rodent samples after screening with the microarray

Organism:

Bartonella quintana; Staphylococcus aureus; Mycobacterium avium; Rattus norvegicus; Cowpox virus; Escherichia coli O157:H7; Francisella tularensis subsp. holarctica; Yersinia enterocolitica; Rickettsia prowazekii; Rickettsia typhi; Mycobacterium tuberculosis variant bovis; Toxoplasma gondii; Apodemus sylvaticus; Salmonella enterica subsp. enterica serovar Typhimurium; Leptospira interrogans; Francisella tularensis subsp. novicida; Yersinia pseudotuberculosis; Mycobacterium avium subsp. paratuberculosis; Mycobacterium tuberculosis; Mus musculus; Streptobacillus moniliformis; Bartonella henselae; Francisella tularensis subsp. tularensis; Paslahepevirus balayani; Campylobacter jejuni; Yersinia pestis; Mycobacterium tuberculosis variant microti; Rattus rattus; Mycobacterium canetti; Francisella tularensis subsp. mediasiatica; Mammarenavirus choriomeningitidis; Orthohantavirus puumalaense; Orthohantavirus seoulense

Type:

Genome variation profiling by array

Platform:

GPL21445

65 Samples

Download data: TXT

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

Organism:

Klebsiella pneumoniae; Porphyromonas gingivalis; Mycobacterium avium subsp. paratuberculosis; Mycobacterium tuberculosis; Homo sapiens; Mus musculus; Human alphaherpesvirus 1; Human betaherpesvirus 5; Human herpesvirus 4 strain B95-8; Human immunodeficiency virus 1; Human herpesvirus 4 type 1; Coxsackievirus B4 (strain E2); Helicobacter pylori; Yersinia enterocolitica; Chlamydia trachomatis; Mycobacterium tuberculosis variant bovis; Human alphaherpesvirus 2; Hepatitis C virus isolate HC-J6; Coxsackievirus B4; Coxsackievirus A20; Porphyromonas gingivalis W83; Mycobacterium avium subsp. paratuberculosis K-10; Escherichia coli; Shigella flexneri; Haemophilus influenzae; Staphylococcus aureus; Lactobacillus delbrueckii subsp. bulgaricus; Mycobacterium avium; Human betaherpesvirus 6; human gammaherpesvirus 4; Human T-cell leukemia virus type I; Coxsackievirus A9; Human herpesvirus 4 type 2; Chlamydia pneumoniae; Human poliovirus 3 strain Sabin; Betapolyomavirus macacae; Proteus mirabilis; Streptococcus pyogenes; Mycobacterium gordonae; Trypanosoma cruzi; Caprine arthritis encephalitis virus; Human T-cell lymphotrophic virus type 1 (isolate MT-2); Human adenovirus 12; Human endogenous retrovirus K; Human Endogenous Retrovirus IDDMK1,2-22; Torque teno virus; Prochlorococcus marinus str. MIT 9202; Human rotavirus MP409; Paraburkholderia fungorum; Staphylococcus aureus A9635; Hepacivirus hominis

Type:

Protein profiling by protein array

Platforms:

GPL19700 GPL19692 GPL19701

29 Samples

Download data: XLSX

(Submitter supplied) The aim of the array was to determine the BXD2 mouse sera IgG and IgM reactivity profile to linear peptide epitopes. Pooled sera from three 6-9 month old BXD2 mice was diluted at 1:200 for IgG specific analysis or 1:1000 for IgM specific analysis and incubated on a PEPperPRINT peptide microarray platform printed with peptide autoantigens

Organism:

Helicobacter pylori; Shigella flexneri; Yersinia enterocolitica; Human alphaherpesvirus 2; Hepatitis C virus isolate HC-J6; Human T-cell leukemia virus type I; Coxsackievirus A20; Torque teno virus; Prochlorococcus marinus str. MIT 9202; Paraburkholderia fungorum; Porphyromonas gingivalis W83; Mycobacterium avium subsp. paratuberculosis K-10; Staphylococcus aureus A9635; Escherichia coli; Klebsiella pneumoniae; Proteus mirabilis; Porphyromonas gingivalis; Staphylococcus aureus; Mycobacterium avium subsp. paratuberculosis; Mycobacterium gordonae; Mus musculus; Human betaherpesvirus 6; Human immunodeficiency virus 1; Human herpesvirus 4 type 2; Human herpesvirus 4 type 1; Human endogenous retrovirus K; Chlamydia pneumoniae; Human poliovirus 3 strain Sabin; Chlamydia trachomatis; Streptococcus pyogenes; Mycobacterium tuberculosis variant bovis; Mycobacterium tuberculosis; Trypanosoma cruzi; Homo sapiens; Human herpesvirus 4 strain B95-8; Human T-cell lymphotrophic virus type 1 (isolate MT-2); Coxsackievirus B4; Human adenovirus 12; Human Endogenous Retrovirus IDDMK1,2-22; Human rotavirus MP409; Hepacivirus hominis; Haemophilus influenzae; Lactobacillus delbrueckii subsp. bulgaricus; Mycobacterium avium; Human alphaherpesvirus 1; Human betaherpesvirus 5; human gammaherpesvirus 4; Coxsackievirus A9; Coxsackievirus B4 (strain E2); Betapolyomavirus macacae

Type:

Protein profiling by protein array

Platform:

GPL19701

2 Samples

Download data: XLSX

(Submitter supplied) The aim of the array was to determine the B6 mouse sera IgG and IgM reactivity profile to linear peptide epitopes. Pooled sera from three 6-9 month old B6 mice was diluted at 1:200 for IgG specific analysis or 1:1000 for IgM specific analysis and incubated on a PEPperPRINT peptide microarray platform printed with peptide autoantigens

Organism:

Helicobacter pylori; Proteus mirabilis; Yersinia enterocolitica; Porphyromonas gingivalis; Mycobacterium gordonae; Human alphaherpesvirus 2; Hepatitis C virus isolate HC-J6; Human herpesvirus 4 type 1; Coxsackievirus A20; Torque teno virus; Paraburkholderia fungorum; Porphyromonas gingivalis W83; Mycobacterium avium subsp. paratuberculosis K-10; Haemophilus influenzae; Lactobacillus delbrueckii subsp. bulgaricus; Mycobacterium avium; Mycobacterium tuberculosis; Homo sapiens; Human alphaherpesvirus 1; Human betaherpesvirus 5; human gammaherpesvirus 4; Human herpesvirus 4 strain B95-8; Human T-cell leukemia virus type I; Coxsackievirus A9; Prochlorococcus marinus str. MIT 9202; Coxsackievirus B4 (strain E2); Staphylococcus aureus A9635; Betapolyomavirus macacae; Chlamydia trachomatis; Streptococcus pyogenes; Mycobacterium tuberculosis variant bovis; Trypanosoma cruzi; Human betaherpesvirus 6; Human T-cell lymphotrophic virus type 1 (isolate MT-2); Coxsackievirus B4; Human adenovirus 12; Human endogenous retrovirus K; Human Endogenous Retrovirus IDDMK1,2-22; Human rotavirus MP409; Hepacivirus hominis; Escherichia coli; Klebsiella pneumoniae; Shigella flexneri; Staphylococcus aureus; Mycobacterium avium subsp. paratuberculosis; Mus musculus; Human immunodeficiency virus 1; Human herpesvirus 4 type 2; Chlamydia pneumoniae; Human poliovirus 3 strain Sabin

Type:

Protein profiling by protein array

Platform:

GPL19701

2 Samples

Download data: XLSX

(Submitter supplied) Understanding the pathogenic mechanisms and host responses to Johne's disease, caused by Mycboacterium avium subspecies paratuberculosis (MAP), is complicated by a number of challenges of the disease progression and lack of ex vivo models to study the disease. We describe novel cell culture passage model which mimics the course of infection in vivo. Using this model we determined that cell culture passaged MAP develops an inflammatory phenotype initiating higher levels of pro-inflammatory cytokines and chemokines compared to levels initiated by non-passaged MAP. more...

Organism:

Mycobacterium avium subsp. paratuberculosis; Mycobacterium avium subsp. avium

Type:

Expression profiling by array

Platform:

GPL3433

18 Samples

Download data: GPR

(Submitter supplied) During initial colonization of the airways, MAH form microaggregates composed of 3-20 bacteria on human respiratory epithelial cells, which provides an environment for phenotypic changes leading to efficient mucosal invasion. DNA microarray was employed to identify genes associated with the microaggregate phenotype.

Organism:

Mycobacterium avium 104

Type:

Expression profiling by array

Platform:

GPL18288

6 Samples

Download data: CEL, CHP

(Submitter supplied) Deep sequencing was implemented to study the transcriptional landscape of Mycobacterium avium TMC724. High-resolution transcriptome analysis identified the transcription start points for 652 genes. One third of these coincided with the start codons and therefore belong to leaderless transcripts, whereas the rest of the transcripts had 5' UTRs with the mean length of 83 nt. In addition, the 5' UTRs of 6 genes contained SAM-IV and Ykok types of riboswitches. more...

Organism:

Mycobacterium avium

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17051

1 Sample

Download data: TXT

(Submitter supplied) Comparing the transcriptomic responses between the Mycobacterium avium subspecies paratuberculosis (MAP) leuD mutant with the parent strain K-10 under different environmental stresses: nutrition, temperature, anaerobic conditions, high- and low- pH conditions.

Organism:

Mycobacterium avium subsp. paratuberculosis; Mycobacterium avium subsp. paratuberculosis K-10

Type:

Expression profiling by array

Platform:

GPL15269

24 Samples

Download data: TXT

(Submitter supplied) Once entering the cell, M. avium subsp.paratuberculosis is known to survive harsh microenvironments, especially those inside activated macrophages. To improve our understanding of M. avium subsp.paratuberculosis pathogenesis, we examined the phagosome maturation associated with transcriptional responses of M. avium subsp.paratuberculosis during macrophage infection. Monitoring cellular markers, only live M. more...

Organism:

Mycobacterium avium subsp. paratuberculosis K-10

Type:

Expression profiling by array

Platform:

GPL16529

10 Samples

Download data: PAIR

(Submitter supplied) Mycobacterium avium subspecies paratuberculosis (a.k.a. M. paratuberculosis) causes Johne’s disease, an enteric infection in cattle and other ruminants, greatly afflicting the dairy industry worldwide. Once inside the cell, M. paratuberculosis is known to survive harsh microenvironments, especially those inside activated macrophages. To improve our understanding of M. paratuberculosis pathogenesis, we examined the phagosome maturation associated with transcriptional responses of M. more...

Organism:

Mycobacterium avium subsp. paratuberculosis K-10

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16429

4 Samples

Download data: XLS

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

Organism:

Mycolicibacterium smegmatis MC2 155; Mycobacterium avium subsp. paratuberculosis K-10; Mycobacterium tuberculosis H37Rv; Mycobacterium avium subsp. paratuberculosis

Type:

Expression profiling by array

Platforms:

GPL14590 GPL14591 GPL14580

3 Samples

Download data: GPR

(Submitter supplied) Transcriptional profile of chemically generated Mycobacterium avium subspecies paratuberculosis cell wall deficient forms, comparing untreated control cells (bacillary forms) and cell wall deficient cells.

Organism:

Mycobacterium avium subsp. paratuberculosis K-10; Mycobacterium avium subsp. paratuberculosis

Type:

Expression profiling by array

Platform:

GPL14590

1 Sample

Download data: GPR

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

Organism:

Mycobacterium avium subsp. paratuberculosis; Mycobacterium avium subsp. paratuberculosis K-10

Type:

Expression profiling by array

Platform:

GPL14590

2 Samples

Download data: GPR