Cia5dregulates a new fibroblast-like synoviocyte invasion-associated gene expression signature

Laragione, Teresina; Brenner, Max; Li, Wentian; Gulko, Pércio S

doi:10.1186/ar2476

Arthritis Research & Therapy

Table 2 Genes with reduced expression in synovial fibroblasts from DA.F344 (Cia5d) compared with highly invasive DA, including those associated with cancer-phenotypes and estrogen signaling

From: Cia5dregulates a new fibroblast-like synoviocyte invasion-associated gene expression signature

Gene Symbol^d	Definition^a	Accession number	DA mean	Cia5d mean	Fold change	P value^b	Overall rank^c
Cancer, Cell Cycle, DNA replication, recombination and repair
*Trim16_predicted* ^e	Tripartite motif protein 16 (predicted)	XM_220552.3	262.14	82.27	-3.2	0.0033	23
*Cxcl10*	Chemokine (C-X-C motif) ligand 10 ^f	NM_139089.1	1218.54	434.48	-2.8	0.0001	2
Dnmbp	Similar to Dynamin binding protein (Scaffold protein Tuba)	XM_219860.3	739.97	385.61	-1.9	0.0088	62
*Vil2*	Villin 2 (Ezrin) ^f	NM_019357.1	1642.95	984.09	-1.7	0.0023	15
Nras	Neuroblastoma RAS viral (v-ras) oncogene homolog^f	XM_579607.1	910.25	601.06	-1.5	0.0087	60
Brms1l_predicted	Breast cancer metastasis-suppressor 1-like (predicted)	XM_216712.3	187.93	125.37	-1.5	0.0094	64
Hnrpd ^e	Heterogeneous nuclear ribonucleoprotein D (AU-rich element RNA binding protein 1, 37 kDa)	NM_024404.1	2909.16	1959.49	-1.5	0.0010	8
Rpa2	Replication protein A2	NM_021582.1	1583.81	1154.73	-1.4	0.0074	48
Ube2d3	Ubiquitin-conjugating enzyme E2D 3	NM_031237.1	123.48	99.45	-1.2	0.0017	10
Lsm8_predicted ^e	LSM8 homolog, U6 small nuclear RNA associated (S. cerevisiae) (predicted)	XM_216102.3	3766.75	3121.49	-1.2	0.0024	16
Smc1l1	Structural maintenance of chromosomes 1 like 1 (S. cerevisiae)	NM_031683.1	4648.45	3923.73	-1.2	0.0044	30
Rpa3_predicted	Replication protein A3 (predicted)	XM_216097.3	4013.83	3410.52	-1.2	0.0022	14
Cell Signaling
Stip1	Stress-induced phosphoprotein 1 (Stip1)	NM_138911.2	3478.09	2568.75	-1.4	0.0028	18
Ubiquitination
Usp24_predicted	Ubiquitin specific protease 24 (predicted)	XM_233260.3	111.07	74.14	-1.5	0.0037	25
Stub1_predicted	STIP1 homology and U-Box containing protein 1 (predicted)	XM_213270.3	4967.20	4164.69	-1.2	0.0034	24
Ribosomal Proteins
Rps6	Ribosomal protein S6 (Rps6)	NM_017160.1	29305.46	24538.18	-1.2	0.0085	57
LOC300278	Similar to 40S ribosomal protein S9	XM_213106.3	28115.69	26209.24	-1.1	0.0086	59
LOC367102	Similar to 40S ribosomal protein S9	XM_345948.2	25678.47	23353.32	-1.1	0.0043	28
Others
Trpv2	Transient receptor potential cation channel, subfamily V, member 2	NM_017207.1	177.90	92.25	-1.9	0.0075	49
Gins3_predicted ^e	GINS complex subunit 3 (Psf3 homolog)	XM_226235.2	171.57	89.64	-1.9	0.0010	6
LOC499310	Similar to cell division cycle associated 5	XM_574612.1	450.69	270.81	-1.7	0.0061	44
LOC298186	Similar to hypothetical protein FLJ33868 (predicted)	XM_238399.3	271.10	177.29	-1.5	0.0070	46
Terf1_predicted	Telomeric repeat binding factor 1 (predicted)	XM_238387.3	98.95	66.02	-1.5	0.0048	34
LOC308004	Similar to hypothetical protein FLJ13188 (predicted)	XM_217663.3	573.01	383.19	-1.5	0.0083	56
LOC310177	Similar to RIKEN cDNA 0610040D20	XM_226872.2	85.32	58.03	-1.5	0.0044	29
LOC297821	Similar to F23N19.9 (predicted)	XM_232684.3	1680.52	1185.76	-1.4	0.0052	36
LOC308443	Similar to CDNA sequence BC028440	XM_218345.2	426.63	301.59	-1.4	0.0059	41
Anp32b	Acidic nuclear phosphoprotein 32 family, member B	NM_131911.2	454.58	323.06	-1.4	0.0082	55
Ranbp6_predicted	RAN binding protein 6 (predicted)	XM_219796.2	309.74	222.79	-1.4	0.0031	22
LOC297903	Similar to RIKEN cDNA 6720467C03 (predicted)	XM_216357.3	1493.92	1088.11	-1.4	0.0075	50
Qdpr	Quinoid dihydropteridine reductase	NM_022390.1	983.32	728.72	-1.3	0.0045	33
Rnf134_predicted	Ring finger protein 134 (predicted)	XM_219963.3	952.04	717.85	-1.3	0.0059	42
LOC316731	Similar to hypothetical protein FLJ23017 (predicted)	XM_237515.3	74.86	58.48	-1.3	0.0094	65
LOC309197	Similar to hypothetical protein	XM_219560.3	1413.35	1112.64	-1.3	0.0050	35
LOC316732	Similar to RIKEN cDNA 4931400A14 (predicted)	XM_244261.3	251.40	201.41	-1.2	0.0062	45
Bin2_predicted	Bridging integrator 2 (predicted)	XM_578696.1	57.42	47.13	-1.2	0.0076	51

^aEstrogen; ER, estrogen-induced, or estrogen-receptor signaling or degradation are marked in bold. ^bt test. ^cOrder (logistic regression) in the list of 66 genes differentially expressed between DA and DA.F344(Cia5d). ^dCancer and invasion associated genes are in italics. ^eDifferentially expressed in prostate, breast, colon or pharyngeal cancers. ^fKnown to induce transcription or activation of gelatinases.

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