Table 4

Members of the Syk kinase pathway up-regulated in DA synovium compared with down-regulation in DA.F344(Cia5a)
Gene Symbol Gene Name Entrez Gene ID Fold DA/Cia5a p-value*
Activating receptors
Fcer1g Fc fragment of IgE, high affinity I, receptor for; gamma polypeptide 25441 2.50 0.0004
Fcgr2a Fc fragment of IgG, low affinity IIa, receptor (CD32) 116591 3.08 0.005
Tcrg T cell receptor gamma locus 24821 3.32 0.0001
Trem2 triggering receptor expressed on myeloid cells 2 301227 2.69 0.0006
Tyrobp Tyro protein tyrosine kinase binding protein 361537 4.80 0.0001
Integrins
Itgam integrin alpha M 25021 3.58 0.0001
Itgav integrin alpha V 296456 1.61 0.0004
Itga5 integrin alpha 5 (fibronectin receptor alpha) 315346 3.47 0.00000001
Itgb2 integrin beta 2 309684 3.44 0.0001
Itgb7 integrin, beta 7 25713 3.86 0.002
c-type lectin receptors
Clec4a1 C-type lectin domain family 4, member a1, Dcir4 362430 2.38 0.001
Clec4a3 C-type lectin domain family 4, member a3, Dcir3 362431 3.00 0.0004
Clec7a C-type lectin domain family 7, member a, Dectin 1 502902 8.48 0.001
Clec11a C-type lectin domain family 11, member a, Scgf 29313 4.24 0.00000008
Syk and Syk-binding and intermediate partners
Ezr** ezrin 54319 2.42 0.0001
Lat linker for activation of T cells 81511 3.83 0.000001
Lcp2 lymphocyte cytosolic protein 2 155918 2.02 0.007
Ptk2b PTK2B protein tyrosine kinase 2 beta 50646 2.54 0.0000002
RhoG ras homolog gene family, member G (rho G) 308875 1.54 0.0008
RhoH ras homolog gene family, member H 305341 2.25 0.001
    Syk
spleen tyrosine kinase 25155 5.43 0.00004
Vav1 vav 1 guanine nucleotide exchange factor 25156 4.60 0.0001
NFκB genes and pathway
Ikbkb inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase beta 84351 1.60 0.0006
Ikbke inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase epsilon 363984 1.64 0.0001
Nfkb1 nuclear factor of kappa light polypeptide gene enhancer in B-cells 1 81736 1.88 0.002
Nfkb2 nuclear factor of kappa light polypeptide gene enhancer in B-cells 2, p49/p100 309452 1.98 0.00003
Cytokine and chemokine transcription§
Ccl2 chemokine (C-C motif) ligand 2 24770 3.95 0.01
Ccl7 chemokine (C-C motif) ligand 7 287561 7.90 0.002
Il1b interleukin 1 beta 24494 5.17 0.002
Ltb lymphotoxin beta (TNF superfamily, member 3) 361795 3.77 0.0002
Cell Proliferation
Cdc2 cell division cycle 2, G1 to S and G2 to M 54237 24.16 0.00002
Ccnb2 cyclin B2 363088 22.95 0.000005
Cks2 CDC28 protein kinase regulatory subunit 2 498709 11.62 0.000006
Prc1 protein regulator of cytokinesis 1 308761 13.08 0.00002
Spc24 SPC24, NDC80 kinetochore complex component, homolog (S. cerevisiae) 363028 14.72 0.000002
Cytoskeletal changes
Actr3 ARP3 actin-related protein 3 homolog (yeast) 81732 1.88 0.0001
Arpc4 actin related protein 2/3 complex, subunit 4 297518 1.61 0.00005
Capzb capping protein (actin filament) muscle Z-line, beta 298584 1.64 0.0003
Coro1b coronin, actin-binding protein, 1B 29474 1.68 0.0001
Myo9b myosin IXb 25486 1.93 0.00003
Tiam2 T-cell lymphoma invasion and metastasis 2 308142 2.61 0.00003
Parva parvin, alpha 57341 2.19 0.00005
Reactive oxygen species production
Cyba cytochrome b-245, alpha polypeptide 79129 2.72 0.00001
Ncf1 neutrophil cytosolic factor 1 114553 6.00 0.0001
Ncf2 neutrophil cytosolic factor 2 364018 4.75 0.0003
Ncf4 neutrophil cytosolic factor 4 500904 2.46 0.004
Rac2¶ ras-related C3 botulinum toxin substrate 2 (small GTP binding protein Rac2) 366957 2.32 0.0007

Syk gene is underlined. * t-test;

§=All four chemokine and cytokine listed genes are NFkB-inducible targets.

** Ezrin is also involved in cytoskeleton regulation.

¶ Rac also regulates NFkB activity, cytoskeleton and cell proliferation.

Brenner and Gulko

Brenner and Gulko BMC Genomics 2012 13:710   doi:10.1186/1471-2164-13-710

Open Data