Table 3.

Differentially expressed genes

Up-regulated genes				Down-regulated genes
TargetID	Entrez_gene_ID	log2 (Fold change)	P value	TargetID	Entrez_gene_ID	log2 (Fold-change)	P value
HOXB8	3218	6.35	≤0.001	HOXA10	3206	−5.06	≤0.001
HOXB7	3217	6.25	≤0.001	HOXA13	3209	−3.24	≤0.001
HOXB5	3215	5.32	≤0.001	HOXA11	3207	−2.88	≤0.001
FLJ30375	440982	4.83	≤0.001	FAM101A	144347	−2.87	≤0.001
ZIC2	7546	4.31	≤0.001	TINAGL1	64129	−2.86	≤0.001
ZIC4	84107	4.26	≤0.001	ERAP2	64167	−2.82	≤0.001
HS.347185		3.29	≤0.001	EPYC	1833	−2.82	≤0.001
RERG	85004	2.97	≤0.001	BST2	684	−2.80	≤0.001
HS.539440		2.89	≤0.001	MAB21L2	10586	−2.67	0.01
LOC404266	404266	2.85	≤0.001	LOC130576	130576	−2.48	0.04
HOXB3	3213	2.76	≤0.001	TGM2	7052	−2.33	0.01
HLA-A29.1	649853	2.59	0.03	LRRN3	54674	−2.29	0.01
SMOC2	64094	2.53	0.01	PCDH10	57575	−2.26	0.03
LOC644396	644396	2.51	≤0.001	FMO3	2328	−2.24	0.04
CXCL1	2919	2.51	0.01	BEX1	55859	−2.24	0.02
CHAC1	79094	2.48	0.01	SHOX	6473	−2.23	≤0.001
HOXB2	3212	2.47	≤0.001	GPR116	221395	−2.22	0.01
ZNF608	57507	2.41	≤0.001	COMP	1311	−2.19	0.01
CNTNAP3B	389734	2.38	0.01	FMO3	2328	−2.15	0.06
CXCL2	2920	2.36	0.01	HS.562127		−2.13	0.02
FAM134B	54463	2.30	≤0.001	LYPD6	130574	−2.10	0.01
ADH1A	124	2.28	0.08	TSPAN13	27075	−2.09	0.02
EVI2A	2123	2.18	0.01	RELN	5649	−2.06	≤0.001
G0S2	50486	2.16	0.01	TM4SF20	79853	−2.04	0.01
HOXB6	3216	2.16	≤0.001	EMX2	2018	−2.03	0.01
RASIP1	54922	2.14	≤0.001	PCDH10	57575	−2.01	0.06
NGEF	25791	2.09	0.03	PGF	5228	−1.97	≤0.001
MYLC2PL	93408	2.08	≤0.001	LRRN3	54674	−1.96	0.02
HOXA2	3199	2.06	0.01	FLG	2312	−1.96	0.07
FAM134B	54463	2.03	0.01	LOC284757	284757	−1.93	≤0.001
NOPE	57722	2.02	≤0.001	MYL4	4635	−1.90	≤0.001
HOXA2	3199	2.01	≤0.001	HS.556994		−1.85	≤0.001
HOXD4	3233	1.96	≤0.001	PCDH7	5099	−1.83	0.08
HS.569104		1.96	0.01	F3	2152	−1.82	0.05
FGFBP2	83888	1.91	0.01	PITX1	5307	−1.80	0.05
HS.122310		1.88	0.01	TSPAN13	27075	−1.80	0.02
DDX43	55510	1.87	≤0.001	ACTC1	70	−1.80	0.04
WFDC3	140686	1.87	≤0.001	FAM162B	221303	−1.79	0.08
CX3CL1	6376	1.86	0.02	LOC124220	124220	−1.79	0.01
DENND2A	27147	1.85	0.01	SAMD11	148398	−1.78	≤0.001
XG	7499	1.82	0.03	ECHDC3	79746	−1.77	0.05
AFAP1L2	84632	1.82	≤0.001	S100P	6286	−1.75	0.02
PDGFRL	5157	1.81	0.07	MYPN	84665	−1.74	0.02
PAX9	5083	1.80	≤0.001	TGM2	7052	−1.73	0.03
GDF15	9518	1.77	0.03	LMNB1	4001	−1.71	0.06
DDIT4	54541	1.76	0.03	DLX1	1745	−1.70	≤0.001
MEGF10	84466	1.76	0.02	SPINK5L3	153218	−1.70	0.09
SLC7A5	8140	1.75	0.01	HCLS1	3059	−1.69	0.10
FLJ10916	55258	1.74	0.09	CALB2	794	−1.69	≤0.001
TRIB3	57761	1.73	0.03	BARX1	56033	−1.66	0.15
WFDC3	140686	1.70	0.01	TBX15	6913	−1.66	0.01
ZCCHC5	203430	1.70	≤0.001	CDH6	1004	−1.65	0.02
CBS	875	1.68	0.02	MYPN	84665	−1.61	0.01
DCLK1	9201	1.67	≤0.001	TAF13	6884	−1.56	≤0.001
RIMS3	9783	1.67	0.05	EFNB2	1948	−1.54	0.03
EPB41L3	23136	1.66	0.10	ANGPTL7	10218	−1.53	0.03
RPL22L1	200916	1.66	0.03	C2ORF40	84417	−1.52	0.17
NOPE	57722	1.66	0.01	LRRN1	57633	−1.52	0.04
ULBP1	80329	1.66	0.02	NPAS1	4861	−1.51	≤0.001
CH25H	9023	1.65	0.07
ZBTB46	140685	1.65	≤0.001
HMCN1	83872	1.65	0.01
HEY2	23493	1.65	0.09
F2RL2	2151	1.65	0.02
SHISA2	387914	1.65	0.01
SLC7A11	23657	1.64	0.05
PPL	5493	1.63	0.04
HOXD1	3231	1.63	0.02
LSP1	4046	1.62	0.02
HOXB4	3214	1.61	≤0.001
REM1	28954	1.61	0.05
AGTR1	185	1.60	0.02
KCNG1	3755	1.60	0.01
PSAT1	29968	1.59	0.02
LOC285216	285216	1.58	0.01
IGFBP1	3484	1.58	0.02
PRPH2	5961	1.54	0.04
SFRP4	6424	1.54	0.03
GUCA1B	2979	1.54	0.01
MAFB	9935	1.53	0.05
IL18R1	8809	1.53	0.04
ALG11	440138	1.53	0.01
SPATA22	84690	1.53	0.15
MEOX2	4223	1.52	0.01
CNTN1	1272	1.51	0.10
AGTR1	185	1.50	0.01

Genes with a fold-change >1.5 are listed with official NCBI gene symbols, Entrez gene ID numbers, the calculated fold-change, and the associated p value calculated as described. A positive log₂ (fold-change) means that the gene was up-regulated in AIS osteoblasts, and a negative one means that the gene was down-regulated