Table 1. Relative gene expression for... | American Society of Hematology

Table 1.

Relative gene expression for osteoclast-associated genes, chemokines, and chemokine receptors

				Expression, microarray relative units ± 1 SD
Gene name	Alternative names	GenBank accession no.	RAE230 array probe set	Day 0	Day 2	Day 4	Day 6
Control/osteoclast genes
*GAPDH*	—	*NM_017008*	*1367557_s_at*	*9750 ± 2181*	*10 737 ± 1 446*	*11 282 ± 2 216*	*11 111 ± 1 496*
Acid phosphatase 5	TRAP	NM_019144	1367942_at	1212 ± 378	6 677 ± 2 294	12 001 ± 739	10 454 ± 265
*Cathepsin K*	—	*NM_031560*	*1369947_at*	*1789 ± 487*	*8 906 ± 2 818*	*14 564 ± 994*	*12 657 ± 1 475*
RANKL	TRANCE, TNF superfamily member 11	NM_057149	1369282_at	679 ± 209	981 ± 263	484 ± 117	385 ± 59
*OPG*	*Osteoprotegerin, TNF receptor superfamily, member 11b*	*NM_012870*	*1369407_at*	*325 ± 54*	*331 ± 15*	*452 ± 75*	*422 ± 63*
CSF-1 receptor	c-Fms	BI285793	1388784_at	770 ± 99	4 310 ± 1 337	3 127 ± 644	2 462 ± 327
Chemokines/Receptors
*CC chemokines*
CCL1 (NRS)	—	—	—	—	—	—	—
*CCL2*	*MCP-1*	*NM_031530*	*1367973_at*	*189 ± 80*	*456 ± 184*	*534 ± 361*	*257 ± 77*
CCL3	MIP-1α	U22414	1369815_at	420 ± 94	566 ± 46	425 ± 70	429 ± 63
*CCL4*	*MIP-1β*	*NM_053858*	*1370832_at*	*385 ± 103*	*386 ± 34*	*323 ± 42*	*321 ± 36*
CCL5	RANTES	NM_031116	1369983_at	565 ± 83	450 ± 74	532 ± 112	545 ± 120
*CCL6*	*MRP-1α*	*BE095824*	*1389123_at*	*1131 ± 378*	*2 244 ± 720*	*919 ± 247*	*1 358 ± 367*
CCL7	MCP-3	BF419899	1379935_at	117 ± 20	113 ± 10	128 ± 24	93 ± 26
*CCL8 (NRS)*	*MCP-2*	—	—	—	—	—	—
CCL9	MIP-1γ	AI169984	1392172_at	100 ± 94	7 832 ± 2 260	1 898 ± 783	858 ± 385
*CCL11*	*Eotaxin*	*NM_019205*	*1387319_at*	*257 ± 20*	*243 ± 26*	*218 ± 29*	*213 ± 18*
CCL12 (NP)	MCP-5	XM_213425	—	—	—	—	—
*CCL13 (NRS)*	*MCP-4*	—	—	—	—	—	—
CCL15 (NRS)	HCC-2	—	—	—	—	—	—
*CCL17*	*TARC*	*NM_057151*	*1370118_at*	*187 ± 11*	*175 ± 8*	*166 ± 12*	*185 ± 26*
CCL19	ELC, MIP-3β	AA996885	1391925_at	622 ± 195	478 ± 144	517 ± 108	517 ± 196
*CCL20*	*MIP-3α*	*AF053312*	*1369814_at*	*229 ± 23*	*196 ± 22*	*223 ± 13*	*274 ± 50*
CCL21	6CKINE	BI282920	1378015_at	320 ± 26	417 ± 56	374 ± 104	431 ± 49
*CCL22*	*MDC*	*AF432871*	*1370619_at*	*207 ± 12*	*208 ± 23*	*178 ± 34*	*169 ± 44*
CCL25 (NP)	TECK	—	—	—	—	—	—
*CCL26*	*Eotaxin-3*	*BI294084*	*1385309_at*	*662 ± 181*	*742 ± 67*	*804 ± 145*	*636 ± 64*
CCL27	CTACK	XM_342823	1376850_a_at	463 ± 27	390 ± 40	356 ± 66	386 ± 84
CXC chemokines
*CXCL1*	*GROα*	*NM_030845*	*1387316_at*	*96 ± 12*	*115 ± 6*	*123 ± 21*	*108 ± 34*
CXCL2	GROβ, MIP-2α	NM_053647	1368760_at	498 ± 124	406 ± 72	408 ± 47	362 ± 172
*CXCL4*	*Platelet factor 4, PF-4*	*AI169104*	*1371 250_at*	*5004 ± 632*	*5 172 ± 297*	*7 687 ± 566*	*10 210 ± 538*
CXCL5	CXC chemokine LIX, ENA-78	NM_022214	1387648_at	233 ± 100	148 ± 148	156 ± 41	119 ± 72
*CXCL8 (NRS)*	*IL-8*	—	—	—	—	—	—
CXCL9	MIG	AI044222	1382454_at	155 ± 19	137 ± 12	142 ± 30	137 ± 15
*CXCL10*	*CRG-2, IP-10*	*U22520*	*1387969_at*	*173 ± 20*	*152 ± 29*	*171 ± 18*	*190 ± 29*
CXCL11	I-TAC	BF281987	1379365_at	90 ± 21	90 ± 15	86 ± 12	94 ± 19
*CXCL12*	*SDF-1*	*AI171777*	*1369633_at*	*4661 ± 1007*	*5 563 ± 1 201*	*5 371 ± 917*	*5 893 ± 1 062*
CXCL13	BCA-1	AA892854	1398390_at	353 ± 54	351 ± 54	359 ± 66	421 ± 129
*CXCL14*	*BRAK, BOLOKINE*	*AI412979*	*1396129_at*	*505 ± 69*	*838 ± 440*	*493 ± 106*	*675 ± 101*
XCL1	Lymphotactin	NM_134361	1387831_at	53 ± 27	36 ± 44	63 ± 62	64 ± 30
*CX3CL1*	*Fraktalkine*	*NM_134455*	*1368200_at*	*228 ± 112*	*257 ± 29*	*215 ± 69*	*239 ± 53*
Receptors
*CCR1*	*MIP1α-R, RANTES-R*	*NM_020542*	*1370083_at*	*237 ± 74*	*1 122 ± 310*	*829 ± 306*	*523 ± 117*
CCR2	MCP-1 R	NM_021866	1387742_at	135 ± 45	155 ± 27	125 ± 9	115 ± 38
*CCR3*	*Eotaxin R*	*NM_053958*	*1369808_at*	*297 ± 97*	*244 ± 67*	*224 ± 21*	*223 ± 63*
CCR4	—	NM_133532	1369555_at	189 ± 49	187 ± 39	156 ± 19	185 ± 68
*CCR5*	—	*NM_053960*	*1369290_at*	*115 ± 18*	*126 ± 23*	*107 ± 17*	*90 ± 14*
CCR6	GRO/MGSA-R, STRL22	AI045155	1393929_at	1148 ± 126	1 075 ± 142	1 180 ± 122	1 031 ± 168
*CCR7 (NP)*	—	—	—	—	—	—	—
CCR8 (NP)	—	—	—	—	—	—	—
*CCR9 (NP)*	—	—	—	—	—	—	—
CCR10 (NP)	—	—	—	—	—	—	—
*CXCR1*	*IL-8 RA*	*NM_019310*	*1369875_at*	*288 ± 33*	*259 ± 52*	*272 ± 30*	*270 ± 29*
CXCR2	IL-8 RB	NM_017183	1369697_at	241 ± 37	223 ± 20	260 ± 31	242 ± 50
*CXCR3*	*MIG-R, IP-10*	*NM_053415*	*1368192_at*	*312 ± 46*	*312 ± 56*	*356 ± 69*	*318 ± 56*
CXCR4	LCR1, SDF1-R, Fusin	U54791	1389244_x_at	4083 ± 521	4 902 ± 110	3 203 ± 614	4 156 ± 619
*CXCR5*	*Burkitt lymphoma receptor 1*	*NM_053303*	*1369911_at*	*669 ± 104*	*513 ± 65*	*524 ± 106*	*507 ± 63*
*CXCR6 (NRS)*	—	—	—	—	—	—	—
CX3CR1	V28	NM_133534	1369527_at	520 ± 96	411 ± 43	468 ± 96	508 ± 94
*XCR1 (NP)*	*GPR-5*	—	—	—	—	—	—

				Expression, microarray relative units ± 1 SD
Gene name	Alternative names	GenBank accession no.	RAE230 array probe set	Day 0	Day 2	Day 4	Day 6
Control/osteoclast genes
*GAPDH*	—	*NM_017008*	*1367557_s_at*	*9750 ± 2181*	*10 737 ± 1 446*	*11 282 ± 2 216*	*11 111 ± 1 496*
Acid phosphatase 5	TRAP	NM_019144	1367942_at	1212 ± 378	6 677 ± 2 294	12 001 ± 739	10 454 ± 265
*Cathepsin K*	—	*NM_031560*	*1369947_at*	*1789 ± 487*	*8 906 ± 2 818*	*14 564 ± 994*	*12 657 ± 1 475*
RANKL	TRANCE, TNF superfamily member 11	NM_057149	1369282_at	679 ± 209	981 ± 263	484 ± 117	385 ± 59
*OPG*	*Osteoprotegerin, TNF receptor superfamily, member 11b*	*NM_012870*	*1369407_at*	*325 ± 54*	*331 ± 15*	*452 ± 75*	*422 ± 63*
CSF-1 receptor	c-Fms	BI285793	1388784_at	770 ± 99	4 310 ± 1 337	3 127 ± 644	2 462 ± 327
Chemokines/Receptors
*CC chemokines*
CCL1 (NRS)	—	—	—	—	—	—	—
*CCL2*	*MCP-1*	*NM_031530*	*1367973_at*	*189 ± 80*	*456 ± 184*	*534 ± 361*	*257 ± 77*
CCL3	MIP-1α	U22414	1369815_at	420 ± 94	566 ± 46	425 ± 70	429 ± 63
*CCL4*	*MIP-1β*	*NM_053858*	*1370832_at*	*385 ± 103*	*386 ± 34*	*323 ± 42*	*321 ± 36*
CCL5	RANTES	NM_031116	1369983_at	565 ± 83	450 ± 74	532 ± 112	545 ± 120
*CCL6*	*MRP-1α*	*BE095824*	*1389123_at*	*1131 ± 378*	*2 244 ± 720*	*919 ± 247*	*1 358 ± 367*
CCL7	MCP-3	BF419899	1379935_at	117 ± 20	113 ± 10	128 ± 24	93 ± 26
*CCL8 (NRS)*	*MCP-2*	—	—	—	—	—	—
CCL9	MIP-1γ	AI169984	1392172_at	100 ± 94	7 832 ± 2 260	1 898 ± 783	858 ± 385
*CCL11*	*Eotaxin*	*NM_019205*	*1387319_at*	*257 ± 20*	*243 ± 26*	*218 ± 29*	*213 ± 18*
CCL12 (NP)	MCP-5	XM_213425	—	—	—	—	—
*CCL13 (NRS)*	*MCP-4*	—	—	—	—	—	—
CCL15 (NRS)	HCC-2	—	—	—	—	—	—
*CCL17*	*TARC*	*NM_057151*	*1370118_at*	*187 ± 11*	*175 ± 8*	*166 ± 12*	*185 ± 26*
CCL19	ELC, MIP-3β	AA996885	1391925_at	622 ± 195	478 ± 144	517 ± 108	517 ± 196
*CCL20*	*MIP-3α*	*AF053312*	*1369814_at*	*229 ± 23*	*196 ± 22*	*223 ± 13*	*274 ± 50*
CCL21	6CKINE	BI282920	1378015_at	320 ± 26	417 ± 56	374 ± 104	431 ± 49
*CCL22*	*MDC*	*AF432871*	*1370619_at*	*207 ± 12*	*208 ± 23*	*178 ± 34*	*169 ± 44*
CCL25 (NP)	TECK	—	—	—	—	—	—
*CCL26*	*Eotaxin-3*	*BI294084*	*1385309_at*	*662 ± 181*	*742 ± 67*	*804 ± 145*	*636 ± 64*
CCL27	CTACK	XM_342823	1376850_a_at	463 ± 27	390 ± 40	356 ± 66	386 ± 84
CXC chemokines
*CXCL1*	*GROα*	*NM_030845*	*1387316_at*	*96 ± 12*	*115 ± 6*	*123 ± 21*	*108 ± 34*
CXCL2	GROβ, MIP-2α	NM_053647	1368760_at	498 ± 124	406 ± 72	408 ± 47	362 ± 172
*CXCL4*	*Platelet factor 4, PF-4*	*AI169104*	*1371 250_at*	*5004 ± 632*	*5 172 ± 297*	*7 687 ± 566*	*10 210 ± 538*
CXCL5	CXC chemokine LIX, ENA-78	NM_022214	1387648_at	233 ± 100	148 ± 148	156 ± 41	119 ± 72
*CXCL8 (NRS)*	*IL-8*	—	—	—	—	—	—
CXCL9	MIG	AI044222	1382454_at	155 ± 19	137 ± 12	142 ± 30	137 ± 15
*CXCL10*	*CRG-2, IP-10*	*U22520*	*1387969_at*	*173 ± 20*	*152 ± 29*	*171 ± 18*	*190 ± 29*
CXCL11	I-TAC	BF281987	1379365_at	90 ± 21	90 ± 15	86 ± 12	94 ± 19
*CXCL12*	*SDF-1*	*AI171777*	*1369633_at*	*4661 ± 1007*	*5 563 ± 1 201*	*5 371 ± 917*	*5 893 ± 1 062*
CXCL13	BCA-1	AA892854	1398390_at	353 ± 54	351 ± 54	359 ± 66	421 ± 129
*CXCL14*	*BRAK, BOLOKINE*	*AI412979*	*1396129_at*	*505 ± 69*	*838 ± 440*	*493 ± 106*	*675 ± 101*
XCL1	Lymphotactin	NM_134361	1387831_at	53 ± 27	36 ± 44	63 ± 62	64 ± 30
*CX3CL1*	*Fraktalkine*	*NM_134455*	*1368200_at*	*228 ± 112*	*257 ± 29*	*215 ± 69*	*239 ± 53*
Receptors
*CCR1*	*MIP1α-R, RANTES-R*	*NM_020542*	*1370083_at*	*237 ± 74*	*1 122 ± 310*	*829 ± 306*	*523 ± 117*
CCR2	MCP-1 R	NM_021866	1387742_at	135 ± 45	155 ± 27	125 ± 9	115 ± 38
*CCR3*	*Eotaxin R*	*NM_053958*	*1369808_at*	*297 ± 97*	*244 ± 67*	*224 ± 21*	*223 ± 63*
CCR4	—	NM_133532	1369555_at	189 ± 49	187 ± 39	156 ± 19	185 ± 68
*CCR5*	—	*NM_053960*	*1369290_at*	*115 ± 18*	*126 ± 23*	*107 ± 17*	*90 ± 14*
CCR6	GRO/MGSA-R, STRL22	AI045155	1393929_at	1148 ± 126	1 075 ± 142	1 180 ± 122	1 031 ± 168
*CCR7 (NP)*	—	—	—	—	—	—	—
CCR8 (NP)	—	—	—	—	—	—	—
*CCR9 (NP)*	—	—	—	—	—	—	—
CCR10 (NP)	—	—	—	—	—	—	—
*CXCR1*	*IL-8 RA*	*NM_019310*	*1369875_at*	*288 ± 33*	*259 ± 52*	*272 ± 30*	*270 ± 29*
CXCR2	IL-8 RB	NM_017183	1369697_at	241 ± 37	223 ± 20	260 ± 31	242 ± 50
*CXCR3*	*MIG-R, IP-10*	*NM_053415*	*1368192_at*	*312 ± 46*	*312 ± 56*	*356 ± 69*	*318 ± 56*
CXCR4	LCR1, SDF1-R, Fusin	U54791	1389244_x_at	4083 ± 521	4 902 ± 110	3 203 ± 614	4 156 ± 619
*CXCR5*	*Burkitt lymphoma receptor 1*	*NM_053303*	*1369911_at*	*669 ± 104*	*513 ± 65*	*524 ± 106*	*507 ± 63*
*CXCR6 (NRS)*	—	—	—	—	—	—	—
CX3CR1	V28	NM_133534	1369527_at	520 ± 96	411 ± 43	468 ± 96	508 ± 94
*XCR1 (NP)*	*GPR-5*	—	—	—	—	—	—

NRS indicates no sequence for rat in GenBank with sufficient homology to assign identity; NP, no sequence present on the RAE 230 chipset used. mRNA levels were determined by DNA microarray analysis of tibial RNA isolated from toothless (tl/tl) rats on day 0 (3 weeks old), or following 2, 4, and 6 days of CSF-1 injections to induce osteoclast differentiation. Values shown are the mean ± 1 SD of 4 individual animals. GAPDH served as an internal standard. Osteoclast-specific genes include TRAP, cathepsin K, and the CSF-1 receptor (c-Fms). We also show results for the osteoblast-derived osteoclast-inducing factor RANKL and its decoy receptor OPG, which underwent little or no change in this experimental system. TRAP and cathepsin K mRNA levels follow the same time course as osteoclast counts in bone sections. CCL9 and its receptor CCR1 showed by far the greatest responses of all chemokines and receptors and peaked a full 2 days before osteoclast counts, as did CSF-1 receptor levels. Chemokine and receptor identities were assigned based on highest homology to mouse, determined as described in “Results.”

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