Expression of Phosphocitrate-Targeted Genes in Osteoarthritis Menisci

Table 1

Genes classified in the immune response.

Biological process	Gene name	Gene ID	Differ expre^*	Description
Immune response
	CCL20	NM_004591	−103.53	Chemokine (C-C motif) ligand 20
	CCL5	NM_002985	−3.54	Chemokine (C-C motif) ligand 5
	CCR5	NM_000579	−2.03	Chemokine (C-C motif) receptor 5
	CXCL3	NM_002090	−10.03	Chemokine (C-X-C motif) ligand 3
	CXCL5	AK026546	−4.49	Chemokine (C-X-C motif) ligand 5
	CXCL2	M57731	−2.94	Chemokine (C-X-C motif) ligand 2
	CXCL1	NM_001511	−3.01	Chemokine (C-X-C motif) ligand 1
	CXCL9	NM_002416	−2.65	Chemokine (C-X-C motif) ligand 9
	CXCL13	NM_006419	−2.62	Chemokine (C-X-C motif) ligand 13 (B-cell chemoattractant)
	CXCR4	AF348491	−2.63	Chemokine (C-X-C motif) receptor 4
	IGKC	BC005332	−37.44	Netrin 2-like (chicken)
	IL6	NM_000600	−32.07	Interleukin 6 (interferon, beta 2)
	IL8	NM_000584	−8.17	Interleukin 8
	IL23A	M15564	−7.89	Enhancer of polycomb homolog 1 (Drosophila)
	IL24	NM_006850	−3.73	Interleukin 24
	IL15	NM_000585	−3.70	Interleukin 15
	IL7R	BE217880	−3.31	Interleukin 7 receptor
	IL1B	NM_000576	−2.28	Interleukin 1, beta
	IL1RN	BE563442	−2.80	Interleukin 1 receptor antagonist
	MS4A2	NM_000139	−28.91	Membrane-spanning 4-domains, subfamily A, member 2
	FCGR3B	NM_000570	−22.56	Fc fragment of IgG, low affinity IIIb, receptor (CD16b)
	FCGR2B	U90940	−7.13	Fc fragment of IgG, low affinity IIc, receptor for (CD32)
	FCGR1B	L03419	−3.30	Fc fragment of IgG, high affinity Ib, receptor (CD64)
	FCER1A	BC005912	−5.19	Fc fragment of IgE, high affinity I, receptor for; alpha polypeptide
	HLA-C	AW575927	−22.41	Major histocompatibility complex, class I, C
	HLA-F	BE138825	−2.22	Major histocompatibility complex, class I, F
	AQP9	NM_020980	−17.49	Aquaporin 9
	GZMA	NM_006144	−14.63	Granzyme A
	IGHG1	M87789	−14.43	Immunoglobulin heavy constant gamma 1
	LBP	M35533	−11.36	Lipopolysaccharide binding protein
	EREG	NM_001432	−8.60	Epiregulin
	CD86	NM_006889	−7.11	CD86 molecule
	CD74	M28590	−2.76	CD74 molecule
	CD40	NM_001250	−3.68	CD40 molecule, TNF receptor superfamily member 5
	CD1D	NM_001766	−5.17	CD1d molecule
	CD8A	AW006735	−4.99	CD8a molecule
	CD14	NM_000591	−3.25	CD14 molecule
	CD209	AF290886	−2.50	CD209 molecule
	KYNU	BC000879	−6.69	Kynureninase (L-kynurenine hydrolase)
	PTPRC	NM_002838	−5.88	Protein tyrosine phosphatase, receptor type, C
	TLR8	AW872374	−5.55	Toll-like receptor 8
	TLR7	NM_016562	−3.34	Toll-like receptor 7
	TLR5	AF051151	−3.00	Toll-like receptor 5
	TLR4	NM_003266	−2.40	Toll-like receptor 4
	TLR2	NM_003264	−2.20	Toll-like receptor 2
	TLR1	AL050262	−2.66	Toll-like receptor 1
	SLC11A1	L32185	−5.41	Solute carrier family 11, member 1
	CFD	NM_001928	−4.99	Complement factor D (adipsin)
	CFI	BC020718	−3.37	Complement factor I
	CFB	NM_001710	−2.39	Complement factor B
	C3	NM_000064	−2.32	Complement component 3
	CR1	AI052659	−2.24	Complement component (3b/4b) receptor 1 (Knops blood group)
	C1QA	NM_015991	−2.20	Complement component 1, q subcomponent, A chain
	C1QB	NM_000491	−2.10	Complement component 1, q subcomponent, B chain
	C1RL	NM_016546	2.01	Complement component 1, r subcomponent-like
	FYB	BF679849	−4.64	FYN binding protein (FYB-120/130)
	TREM1	NM_018643	−4.52	Triggering receptor expressed on myeloid cells 1
	BMP6	NM_001718	−4.48	Bone morphogenetic protein 6
	INPP5D	U53470	−4.47	Inositol polyphosphate-5-phosphatase, 145 kDa
	LILRB1	NM_006669	−4.33	Leukocyte immunoglobulin-like receptor, subfamily B, member 1
	LILRB2	AF004231	−4.32	Leukocyte immunoglobulin-like receptor, subfamily B, member 2
	LILRB3	AF009634	−4.23	leukocyte immunoglobulin-like receptor, subfamily B, member 3
	LILRB4	U82979	−2.06	Leukocyte immunoglobulin-like receptor, subfamily B, member 4
	LILRB5	NM_006840	−2.31	Leukocyte immunoglobulin-like receptor, subfamily B, member 5
	LILRA2	NM_006866	−2.15	Leukocyte immunoglobulin-like receptor, subfamily A, member 2
	ZEB1	NM_030751	−4.12	Zinc finger E-box binding homeobox 1
	PLA2G7	M80436	−3.95	Platelet-activating factor receptor
	MASP1	AI274095	−3.67	Mannan-binding lectin serine peptidase 1
	EBI2	NM_004951	−3.59	Epstein-Barr virus induced gene 2
	NOD2	NM_022162	−3.57	Nucleotide-binding oligomerization domain containing 2
	LAIR1	NM_021708	−3.54	Leukocyte-associated immunoglobulin-like receptor 1
	HLA-DQA1	BG397856	−3.38	Major histocompatibility complex, class II, DQ alpha 1
	HLA-DQB1	M17955	−2.99	Major histocompatibility complex, class II, DQ beta 1
	HLA-DRA	M60333	−3.22	Major histocompatibility complex, class II, DR alpha
	HLA-DPA1	M27487	−2.83	Major histocompatibility complex, class II, DP alpha 1
	HLA-DPB1	NM_002121	−2.15	Major histocompatibility complex, class II, DP beta 1
	HLA-DRB4	BC005312	−2.81	Major histocompatibility complex, class II, DR beta 4
	HLA-DRB1	AJ297586	−2.72	Major histocompatibility complex, class II, DR beta 3
	HLA-DMB	NM_002118	−2.68	Major histocompatibility complex, class II, DM beta
	HLA-DMA	X76775	−2.19	major histocompatibility complex, class II, DM alpha
	LIF	NM_002309	−3.16	Leukemia inhibitory factor (cholinergic differentiation factor)
	NCF4	NM_000631	−2.88	Neutrophil cytosolic factor 4, 40 kDa
	PAG1	BF589359	−2.86	Phosphoprotein associated with glycosphingolipid microdomains 1
	FYN	AK090692	−2.85	FYN oncogene related to SRC, FGR, YES
	TREM2	NM_018965	−2.84	Triggering receptor expressed on myeloid cells 2
	BST2	NM_004335	−2.84	Bone marrow stromal cell antigen 2
	CTSG	NM_001911	−2.78	Cathepsin G
	CTSS	AK024855	−2.60	Cathepsin S
	MS4A1	AW474852	−2.74	Membrane-spanning 4-domains, subfamily A, member 1
	NCF2	BC001606	−2.70	Neutrophil cytosolic factor 2
	GPR65	NM_003608	−2.68	G protein-coupled receptor 65
	GBP4	BG260886	−2.59	Guanylate binding protein 4
	VAV1	NM_005428	−2.53	Vav 1 guanine nucleotide exchange factor
	LCK	NM_005356	−2.49	Lymphocyte-specific protein tyrosine kinase
	SYK	NM_003177	−2.42	Spleen tyrosine kinase
	LY86	NM_004271	−2.36	Lymphocyte antigen 86
	TNFSF10	U57059	−2.36	Tumor necrosis factor (ligand) superfamily, member 10
	TNFSF13B	AF134715	−2.29	Tumor necrosis factor (ligand) superfamily, member 13b
	IRF8	AI073984	−2.36	Interferon regulatory factor 8
	RELB	NM_006509	−2.33	V-rel reticuloendotheliosis viral oncogene homolog B
	SMAD6	AI628464	−2.25	SMAD family member 6
	MBP	N37023	−2.24	Myelin basic protein
	BCL6	S67779	−2.17	B-cell CLL/lymphoma 6 (zinc finger protein 51)
	IGKC	BG485135	−2.12	Netrin 2-like (chicken)
	CLEC7A	AF313468	−2.12	C-type lectin domain family 7, member A
	LCP2	AI123251	−2.05	Lymphocyte cytosolic protein 2
	IL31RA	AI123586	6.61	Interleukin 31 receptor A
	C4BPA	NM_000715	3.34	Complement component 4 binding protein, alpha
	ULBP2	AA831769	3.07	UL16 binding protein 2
	CLEC4E	NM_014358	2.61	C-type lectin domain family 4, member E
	TNFSF9	NM_003811	2.43	Tumor necrosis factor (ligand) superfamily, member 9
	C7	NM_000587	2.36	Complement component 7
	TGFB2	NM_003238	2.36	Transforming growth factor, beta 2
	FAS	X83493	2.36	Fas (TNF receptor superfamily, member 6)
	LAG3	NM_002286	2.26	Lymphocyte-activation gene 3
	IL27RA	NM_004843	2.20	Interleukin 27 receptor, alpha
	CD276	NM_025240	2.19	CD276 molecule
	IL26	NM_018402	2.03	Interleukin 26
	OAS1	NM_016816	2.02	2,5-oligoadenylate synthetase 1, 40/46 kDa

Negative number indicates decreased expression and positive number indicates increased expression (fold change) in PC-treated OA meniscal explants compared with untreated OA meniscal explants.