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Series GSE99980 Query DataSets for GSE99980
Status Public on Jun 13, 2019
Title TNF-induced gene-expressions in Nfkb2-/- MEFs and its derivatives
Organism Mus musculus
Experiment type Expression profiling by array
Summary As such, TNF triggers the canonical NF-?B pathway to induce a nuclear NF-?B activity composed of the RelA:p50 dimer in WT cells. Nfkb2 encodes p100, which regulates the activity of the RelB NF-?B heterodimers during immune cell-differentiation via the noncanonical pathway. Our biochemical analyses revealed that an absence of p100 instead repositions RelB under the control of the TNF-activated canonical pathway. Indeed, chronic TNF treatment of Nfkb2-/- cells activates the RelA:p50 dimer and an additional RelB:p50 dimer. On the other hand, TNF stimulation of Relb-/-Nfkb2-/- and Rela-/-Nfkb2-/- MEFs exclusively activated the RelA:p50 dimer and the RelB:p50 dimer, respectively. We treated this panel of knockout MEFs with TNF for 6h before being subjected to microarray mRNA analysis. We also included in our analysis WT MEFs and Rela-/-Relb-/-Rel-/- MEFs, which served as a negative control. Our analyses revealed overlapping and distinct gene-expression specificities of RelA:p50 and RelB:p50 dimers activated in mutant cells in response to TNF.
Overall design Total RNA isolated from biological replicate samples comprising of untreated and 6h TNF (10ng/ml) treated WT, Nfkb2-/-, Rela-/-Nfkb2-/-, Relb-/-Nfkb2-/-and Rela-/-Relb-/-Rel-/- MEFs were analyzed for global gene expression levels
Contributor(s) Basak S, Roy P, Chatterjee B, Sarkar UA
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Submission date Jun 13, 2017
Last update date Jul 25, 2021
Contact name Soumen Basak
Organization name National Institute of Immunology
Department Infection and immunity
Lab Systems Immunology Laboratory
Street address Aruna Asaf Ali Marg
City New Delhi
State/province Delhi
ZIP/Postal code 110067
Country India
Platforms (1)
GPL6885 Illumina MouseRef-8 v2.0 expression beadchip
Samples (20)
GSM1677124 WT untreated replicate 1
GSM1677125 WT untreated replicate 2
GSM1677126 WT 6h TNF replicate 1
BioProject PRJNA390927

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE99980_Non-normalized_data.txt.gz 3.2 Mb (ftp)(http) TXT
GSE99980_RAW.tar 3.1 Mb (http)(custom) TAR
Processed data included within Sample table

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