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BMM TB activation IFNg: Difference between revisions

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{{TimeCourse
{{TimeCourse
|TCOverview=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.
|TCOverview=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.
|TCQuality_control=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.<br><br>'''Marker gene Expression from CAGE data'''<br><html><img src
|TCQuality_control=
|TCSample_description='''Experimental Design'''<br><br>The experiment was designed across 11 time points: 0, 2, 4, 6, 12, 24, 28, 36, 48, 72, 120 hours after macrophage stimulation and 4, 12, 24, 48, 72 hours after infection. Bone marrow derived macrophages were generated from 8-12 week old BALB/c male mice (n
|TCSample_description=
|Time_Course=
|Time_Course=
|collaborators=Frank Brombacher
|collaborators=Frank Brombacher

Revision as of 16:41, 3 February 2015

Series:IN_VITRO DIFFERENTIATION SERIES
Species:Mouse (Mus musculus)
Genomic View:Zenbu
Expression table:[{{{tet_config}}} FILE]
Link to TET:[{{{tet_file}}} TET]
Sample providers :Frank Brombacher
Germ layer:{{{germ_layer}}}
Primary cells or cell line:{{{primary_cells}}}
Time span:{{{time_span}}}
Number of time points:{{{number_time_points}}}


Overview

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
Quality control

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


3560-170A1macrophage, bone marrow derived000hrpool1
3567-170H1macrophage, TB infection, stimulated BMDM+IFNg(caMph)002hrbiol_rep1
3568-170I1macrophage, TB infection, stimulated BMDM+IFNg(caMph)004hrbiol_rep1
3569-170A2macrophage, TB infection, stimulated BMDM+IFNg(caMph)006hrbiol_rep1
3570-170B2macrophage, TB infection, stimulated BMDM+IFNg(caMph)012hrbiol_rep1
3571-170C2macrophage, TB infection, stimulated BMDM+IFNg(caMph)024hrbiol_rep1
3572-170D2macrophage, TB infection, stimulated BMDM+IFNg(caMph)028hrbiol_rep1
3573-170E2macrophage, TB infection, stimulated BMDM+IFNg(caMph)036hrbiol_rep1
3574-170F2macrophage, TB infection, stimulated BMDM+IFNg(caMph)048hrbiol_rep1
3576-170H2macrophage, TB infection, stimulated BMDM+IFNg(caMph)120hrbiol_rep1
3612-170H6macrophage, TB infection, stimulated BMDM+IFNg(caMph)028hr(004h after stimulation)biol_rep1
3613-170I6macrophage, TB infection, stimulated BMDM+IFNg(caMph)036hr(012h after stimulation)biol_rep1
3614-170A7macrophage, TB infection, stimulated BMDM+IFNg(caMph)048hr(024h after stimulation)biol_rep1
3615-170B7macrophage, TB infection, stimulated BMDM+IFNg(caMph)072hr(048h after stimulation)biol_rep1
3616-170C7macrophage, TB infection, stimulated BMDM+IFNg(caMph)120hr(096h after stimulation)biol_rep1
3632-171A1macrophage, bone marrow derived000hrpool2
3639-171H1macrophage, TB infection, stimulated BMDM+IFNg(caMph)002hrbiol_rep2
3640-171I1macrophage, TB infection, stimulated BMDM+IFNg(caMph)004hrbiol_rep2
3641-171A2macrophage, TB infection, stimulated BMDM+IFNg(caMph)006hrbiol_rep2
3642-171B2macrophage, TB infection, stimulated BMDM+IFNg(caMph)012hrbiol_rep2
3643-171C2macrophage, TB infection, stimulated BMDM+IFNg(caMph)024hrbiol_rep2
3644-171D2macrophage, TB infection, stimulated BMDM+IFNg(caMph)028hrbiol_rep2
3645-171E2macrophage, TB infection, stimulated BMDM+IFNg(caMph)036hrbiol_rep2
3646-171F2macrophage, TB infection, stimulated BMDM+IFNg(caMph)048hrbiol_rep2
3647-171G2macrophage, TB infection, stimulated BMDM+IFNg(caMph)072hrbiol_rep2
3648-171H2macrophage, TB infection, stimulated BMDM+IFNg(caMph)120hrbiol_rep2
3684-171H6macrophage, TB infection, stimulated BMDM+IFNg(caMph)028hr(004h after stimulation)biol_rep2
3685-171I6macrophage, TB infection, stimulated BMDM+IFNg(caMph)036hr(012h after stimulation)biol_rep2
3686-171A7macrophage, TB infection, stimulated BMDM+IFNg(caMph)048hr(024h after stimulation)biol_rep2
3687-171B7macrophage, TB infection, stimulated BMDM+IFNg(caMph)072hr(048h after stimulation)biol_rep2
3688-171C7macrophage, TB infection, stimulated BMDM+IFNg(caMph)120hr(096h after stimulation)biol_rep2
3704-172A1macrophage, bone marrow derived000hrpool3
3714-172B2macrophage, TB infection, stimulated BMDM+IFNg(caMph)002hrbiol_rep3
3715-172C2macrophage, TB infection, stimulated BMDM+IFNg(caMph)004hrbiol_rep3
3716-172D2macrophage, TB infection, stimulated BMDM+IFNg(caMph)006hrbiol_rep3
3717-172E2macrophage, TB infection, stimulated BMDM+IFNg(caMph)012hrbiol_rep3
3718-172F2macrophage, TB infection, stimulated BMDM+IFNg(caMph)024hrbiol_rep3
3719-172G2macrophage, TB infection, stimulated BMDM+IFNg(caMph)028hrbiol_rep3
3720-172H2macrophage, TB infection, stimulated BMDM+IFNg(caMph)036hrbiol_rep3
3721-172I2macrophage, TB infection, stimulated BMDM+IFNg(caMph)048hrbiol_rep3
3722-172A3macrophage, TB infection, stimulated BMDM+IFNg(caMph)072hrbiol_rep3
3723-172B3macrophage, TB infection, stimulated BMDM+IFNg(caMph)120hrbiol_rep3
3968-173E4macrophage, TB infection, stimulated BMDM+IFNg(caMph)024hrbiol_rep4
3977-173E5macrophage, TB infection, stimulated BMDM+IFNg(caMph)028hr(004h after stimulation)biol_rep4
3978-173F5macrophage, TB infection, stimulated BMDM+IFNg(caMph)036hr(012h after stimulation)biol_rep4
3979-173G5macrophage, TB infection, stimulated BMDM+IFNg(caMph)048hr(024h after stimulation)biol_rep4
3980-173H5macrophage, TB infection, stimulated BMDM+IFNg(caMph)072hr(048h after stimulation)biol_rep4
3981-173I5macrophage, TB infection, stimulated BMDM+IFNg(caMph)120hr(096h after stimulation)biol_rep4
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