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     See license terms at www.gsea-msigdb.org/gsea/license_terms_list. Please note that certain gene sets have special access terms.
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<MSIGDB BUILD_DATE="Jan 29, 2026" VERSION="2026.1.Hs" NAME="export">
    <GENESET STANDARD_NAME="TIAN_TNF_SIGNALING_NOT_VIA_NFKB" SYSTEMATIC_NAME="M14666" HISTORICAL_NAMES="" PMID="15722553" AUTHORS="Tian B,Nowak DE,Jamaluddin M,Wang S,Brasier AR" GEOID="GSE2624" EXACT_SOURCE="Table 3" GENESET_LISTING_URL="" EXTERNAL_DETAILS_URL="" CHIP="HUMAN_SEQ_ACCESSION" CONTRIBUTOR="Arthur Liberzon" CONTRIBUTOR_ORG="MSigDB Team" DESCRIPTION_BRIEF="Genes modulated in HeLa cells (cervical carcinoma) by TNF [GeneID=7124] not via NFKB pathway." DESCRIPTION_FULL="Tumor necrosis factor (TNF) is a pro-inflammatory cytokine that controls expression of inflammatory genetic networks. Although the nuclear factor-kappaB (NF-kappaB) pathway is crucial for mediating cellular TNF responses, the complete spectrum of NF-kappaB-dependent genes is unknown. In this study, we used a tetracycline-regulated cell line expressing an NF-kappaB inhibitor to systematically identify NF-kappaB-dependent genes. A microarray data set generated from a time course of TNF stimulation in the presence or absence of NF-kappaB signaling was analyzed. We identified 50 unique genes that were regulated by TNF (Pr(F)&lt;0.001) and demonstrated a change in signal intensity of+/-3-fold relative to control. Of these, 28 were NF-kappaB-dependent, encoding proteins involved in diverse cellular activities. Quantitative real-time PCR assays of eight characterized NF-kappaB-dependent genes and five genes not previously known to be NF-kappaB-dependent (Gro-beta and-gamma, IkappaBepsilon, interleukin (IL)-7R, and Naf-1) were used to determine whether they were directly or indirectly NF-kappaB regulated. Expression of constitutively active enhanced green fluorescent.NF-kappaB/Rel A fusion protein transactivated all but IL-6 and IL-7R in the absence of TNF stimulation. Moreover, TNF strongly induced all 12 genes in the absence of new protein synthesis. High probability NF-kappaB sites in novel genes were predicted by binding site analysis and confirmed by electrophoretic mobility shift assay. Chromatin immunoprecipitation assays show the endogenous IkappaBalpha/epsilon, Gro-beta/gamma, and Naf-1 promoters directly bound NF-kappaB/Rel A in TNF-stimulated cells. Together, these studies systematically identify the direct NF-kappaB-dependent gene network downstream of TNF signaling, extending our knowledge of biological processes regulated by this pathway." TAGS="" MEMBERS="AF010316,AF050110,AF079529,AL021977,AL080156,J04111,L11329,L13740,L37882,L49169,M11717,M27826,M29039,M68891,S79639,S81914,U44975,U70426,U83981,U96876,X52541,X96401" MEMBERS_SYMBOLIZED="DUSP2,EGR1,EXT1,FOSB,FZD2,GATA2,HSPA1A,IER3,INSIG1,JUN,JUNB,KLF10,KLF6,MNT,NR4A1,PDE8B,PLA2G6,PPP1R15A,PTGES,RGS16,TIPARP,TPTEP1" MEMBERS_EZID="1316,1844,1958,2131,2354,23645,2535,25976,2624,3164,3303,3638,3725,3726,387590,4335,6004,7071,8398,8622,8870,9536" MEMBERS_MAPPING="AF010316,PTGES,9536|AF050110,KLF10,7071|AF079529,PDE8B,8622|AL021977,PLA2G6,8398|AL080156,TIPARP,25976|J04111,JUN,3725|L11329,DUSP2,1844|L13740,NR4A1,3164|L37882,FZD2,2535|L49169,FOSB,2354|M11717,HSPA1A,3303|M27826,TPTEP1,387590|M29039,JUNB,3726|M68891,GATA2,2624|S79639,EXT1,2131|S81914,IER3,8870|U44975,KLF6,1316|U70426,RGS16,6004|U83981,PPP1R15A,23645|U96876,INSIG1,3638|X52541,EGR1,1958|X96401,MNT,4335" FILTERED_BY_SIMILARITY="" FOUNDER_NAMES="" REFINEMENT_DATASETS="" VALIDATION_DATASETS="" CATEGORY_CODE="C2" ORGANISM="Homo sapiens" SUB_CATEGORY_CODE="CGP"/>
</MSIGDB>
