KLF2 - morinlab/LLMPP GitHub Wiki


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KLF2

Overview

KLF2 (Kruppel-like factor 2) is a transcription factor involved in the regulation of various cellular processes, including apoptosis, proliferation, and differentiation. Mutations in KLF2 have been identified in various B-cell lymphomas including DLBCL.1 KLF2 mutations are among the most common mutations in splenic marginal zone lymphoma (SMZL).2 KLF2 is one of a number of genes affected by aberrant somatic hypermutation in B-cell lymphomas, which complicates the interpretation of mutations at this locus. These mutations are associated with the BN2 genetic subgroup of DLBCL.3 KLF2 mutations have been shown to impair the ability of KLF2 to suppress NF-κB activation by TLR, BCR, BAFFR, and TNFR signaling, thereby promoting lymphomagenesis. This implicates KLF2 as a tumor suppressor in B-cell lymphomas.2 Contradictory to this, the mutation pattern in DLBCL implies selective pressure to retain a full-length protein.

History

%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
timeline
    title Publication timing
      2011-07-31 : Pasqualucci : DLBCL
      2017-07-27 : Jallades : MZL
      2019-08-20 : Desch : PMBL
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Relevance tier by entity

Entity Tier Description
MZL 1 high-confidence MZL gene[@jalladesExomeSequencingIdentifies2017]
PMBL 2 relevance in PMBL/cHL/GZL not firmly established[@deschGenotypingCirculatingTumor2020]
DLBCL 1-a aSHM target and high-confidence DLBCL gene[@pasqualucciAnalysisCodingGenome2011]
FL 1-a aSHM target and high-confidence FL gene

Mutation incidence in large patient cohorts (GAMBL reanalysis)

Entity source frequency (%)
DLBCL GAMBL genomes 8.60
DLBCL Schmitz cohort 7.02
DLBCL Reddy cohort 2.10
DLBCL Chapuy cohort 2.99
FL GAMBL genomes 2.31

Mutation pattern and selective pressure estimates

Entity aSHM Significant selection dN/dS (missense) dN/dS (nonsense)
BL Yes No 2.274 0
DLBCL Yes No 3.067 0
FL Yes No 9.318 0

aSHM regions

chr_name hg19_start hg19_end region regulatory_comment
chr19 16434978 16439011 TSS intron

KLF2 Hotspots

Chromosome Coordinate (hg19) ref>alt HGVSp
chr19 16436719 G>C K256N
chr19 16436723 A>G K258E
chr19 16436726 C>G R259G
chr19 16436726 C>T R259C
chr19 16436755 CA>TC T269P
chr19 16436769 C>T T273I
chr19 16436772 G>A C274Y
chr19 16436775 G>A S275N
chr19 16436775 G>C S275T
chr19 16436784 G>A G278D

View coding variants in ProteinPaint hg19 or hg38

View all variants in GenomePaint hg19 or hg38

KLF2 Expression

References

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