BMM TB activation IL13
From FANTOM5_SSTAR
Series: | IN_VITRO DIFFERENTIATION SERIES |
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Species: | Mouse (Mus musculus) |
Genomic View: | Zenbu |
Expression table: | FILE |
Link to TET: | TET |
Sample providers : | Frank Brombacher & Harukazu Suzuki |
Germ layer: | mesoderm |
Primary cells or cell line: | primary cells |
Time span: | 120 hours |
Number of time points: | 11 |
Overview |
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The present study was designed uncover the macrophage transcriptom during IFN-g, IL-4 or IL-13 macrophage activation (classical versus alternative), to discriminate differences between IL-4 and IL-13-induced alternative macrophage activation and to uncover the transcriptom dynamics during infection with Mycobacterium tuberculosis HN878 by high throughput transcriptome analysis method, CAGE (cap analysis of gene expression). Helicos CAGE analysis will enable us to construct promoter-based networks of transcriptional regulation in a time course during macrophage activation and during infection in classical and alternative activated macrophages. |
Sample description |
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Experimental Design |
Quality control | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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These are the well established marker of classical and alternative activation. The role of these genes were evaluated in human and mouse model of macrophage activation. Marker gene Expression from CAGE data
References: [1] Bronte, V. and P. Zanovello (2005). "Regulation of immune responses by L-arginine metabolism." Nat Rev Immunol 5(8): 641-54. [2] Chacon-Salinas, R., J. Serafin-Lopez, et al. (2005). "Differential pattern of cytokine expression by macrophages infected in vitro with different Mycobacterium tuberculosis genotypes." Clin Exp Immunol 140(3): 443-9. [3] Davis, A. S., I. Vergne, et al. (2007). "Mechanism of inducible nitric oxide synthase exclusion from mycobacterial phagosomes." PLoS Pathog 3(12): e186. [4] Ehrt, S., D. Schnappinger, et al. (2001). "Reprogramming of the macrophage transcriptome in response to interferon-gamma and Mycobacterium tuberculosis: signaling roles of nitric oxide synthase-2 and phagocyte oxidase." J Exp Med 194(8): 1123-40. [5] El Kasmi, K. C., J. E. Qualls, et al. (2008). "Toll-like receptor-induced arginase 1 in macrophages thwarts effective immunity against intracellular pathogens." Nat Immunol 9(12): 1399-406. [6] Raju, B., Y. Hoshino, et al. (2008). "Gene expression profiles of bronchoalveolar cells in pulmonary TB." Tuberculosis (Edinb) 88(1): 39-51. [7] Varin, A., S. Mukhopadhyay, et al. "Alternative activation of macrophages by IL-4 impairs phagocytosis of pathogens but potentiates microbial-induced signalling and cytokine secretion." Blood 115(2): 353-62. |
Profiled time course samples
Only samples that passed quality controls (Arner et al. 2015) are shown here. The entire set of samples are downloadable from FANTOM5 human / mouse samples
3560-170A1 | macrophage, bone marrow derived | 000hr | pool1 |
3577-170I2 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 002hr | biol_rep1 |
3578-170A3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 004hr | biol_rep1 |
3579-170B3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 006hr | biol_rep1 |
3581-170D3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 024hr | biol_rep1 |
3582-170E3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 028hr | biol_rep1 |
3583-170F3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 036hr | biol_rep1 |
3584-170G3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 048hr | biol_rep1 |
3585-170H3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 072hr | biol_rep1 |
3586-170I3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 120hr | biol_rep1 |
3617-170D7 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 028hr(004h after stimulation) | biol_rep1 |
3618-170E7 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 036hr(012h after stimulation) | biol_rep1 |
3619-170F7 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 048hr(024h after stimulation) | biol_rep1 |
3620-170G7 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 072hr(048h after stimulation) | biol_rep1 |
3621-170H7 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 120hr(096h after stimulation) | biol_rep1 |
3632-171A1 | macrophage, bone marrow derived | 000hr | pool2 |
3649-171I2 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 002hr | biol_rep2 |
3650-171A3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 004hr | biol_rep2 |
3651-171B3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 006hr | biol_rep2 |
3652-171C3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 012hr | biol_rep2 |
3653-171D3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 024hr | biol_rep2 |
3654-171E3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 028hr | biol_rep2 |
3655-171F3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 036hr | biol_rep2 |
3656-171G3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 048hr | biol_rep2 |
3658-171I3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 120hr | biol_rep2 |
3689-171D7 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 028hr(004h after stimulaton) | biol_rep2 |
3690-171E7 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 036hr(012h after stimulation) | biol_rep2 |
3691-171F7 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 048hr(024h after stimulation) | biol_rep2 |
3692-171G7 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 072hr(048h after stimulation) | biol_rep2 |
3693-171H7 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 120hr(096h after stimulation) | biol_rep2 |
3704-172A1 | macrophage, bone marrow derived | 000hr | pool3 |
3724-172C3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 002hr | biol_rep3 |
3725-172D3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 004hr | biol_rep3 |
3726-172E3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 006hr | biol_rep3 |
3727-172F3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 012hr | biol_rep3 |
3728-172G3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 024hr | biol_rep3 |
3729-172H3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 028hr | biol_rep3 |
3730-172I3 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 036hr | biol_rep3 |
3731-172A4 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 048hr | biol_rep3 |
3732-172B4 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 072hr | biol_rep3 |
3733-172C4 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb | 120hr | biol_rep3 |
3982-173A6 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 028hr(004h after stimulation) | biol_rep4 |
3985-173D6 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 072hr(048h after stimulation) | biol_rep4 |
3986-173E6 | macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb | 120hr(096h after stimulation) | biol_rep4 |