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. 2008 May 6;34(2):162–184. doi: 10.1152/physiolgenomics.00045.2008

Table 2.

A. Annotation of neutrophil specific gene cluster shown in Figure 7A

Probe ID Gene Description Symbol
102914_s_at B-cell leukemia/lymphoma 2 related protein A1a Bcl2a1a
102424_at chemokine (C-C motif) ligand 3 Ccl3
104388_at chemokine (C-C motif) ligand 9 Ccl9
102718_at chemokine (C-C motif) receptor 5 Ccr5
102719_f_at chemokine (C-C motif) receptor 5 Ccr5
161968_f_at chemokine (C-C motif) receptor 5 Ccr5
101160_at chemokine (C-X-C motif) ligand 2 Cxcl2
101436_at chemokine (C-X-C motif) ligand 9 Cxcl9
101728_at complement component 5a receptor 1 C5ar1
162181_f_at Fc receptor, IgE, high affinity I, gamma polypeptide Fcer1 g
101793_at Fc receptor, IgG, high affinity I Fcgr1
102879_s_at Fc receptor, IgG, high affinity I Fcgr1
101800_at formyl peptide receptor, related sequence 2 Fpr-rs2
102884_at inositol polyphosphate-5-phosphatase D Inpp5d
102353_at integrin beta 2 Itgb2
103486_at interleukin 1 beta Il1b
102218_at interleukin 6 Il6
103266_at leukotriene B4 receptor 1 Ltb4r1
160564_at lipocalin 2 Lcn2
102957_at lymphocyte cytosolic protein 2 Lcp2
102430_at myeloid differentiation primary response gene 88 Myd88
102326_at neutrophil cytosolic factor 2 Ncf2
103662_at neutrophil cytosolic factor 4 Ncf4
101554_at nuclear factor of kappa light chain gene enhancer in B-cells inhibitor, alpha Nfkbia
104149_at nuclear factor of kappa light chain gene enhancer in B-cells inhibitor, alpha Nfkbia
100328_s_at paired-Ig-like receptor A1 Lilrb3
162475_f_at peptidoglycan recognition protein 1 Pglyrp1
102663_at plasminogen activator, urokinase receptor Plaur
103579_at RAS-related C3 botulinum substrate 2 Rac2
103448_at S100 calcium binding protein A8 (calgranulin A) S100a8
103887_at S100 calcium binding protein A9 (calgranulin B) S100a9
161650_at secretory leukocyte peptidase inhibitor Slpi
104692_at selectin, platelet Selp
103488_at selectin, platelet (p-selectin) ligand Selplg
102641_at SFFV proviral integration 1 Sfpi1
103839_at sphingosine kinase 1 Sphk1
100425_at spleen tyrosine kinase Syk
162206_f_at suppressor of cytokine signaling 3 Socs3
92232_at suppressor of cytokine signaling 3 Socs3
104601_at thrombomodulin Thbd
160469_at thrombospondin 1 /// similar to thrombospondin 1 Thbs1
101464_at tissue inhibitor of metalloproteinase 1 Timp1
92369_at transforming growth factor alpha Tgfa
100397_at TYRO protein tyrosine kinase binding protein Tyrobp
B. Annotation of macrophage specific gene cluster shown in Figure 7B
Probe Set ID Gene Title Gene Symbol
Sub-cluster i (up-regulated, 6–12 h post wounding)
101160_at chemokine (C-X-C motif) ligand 2 Cxcl2
101450_at colony stimulating factor 1 (macrophage) Csf1
101554_at nuclear factor of kappa light chain gene enhancer in B-cells inhibitor, alpha Nfkbia
101996_at protein tyrosine phosphatase, nonreceptor type 2 Ptpn2
102218_at interleukin 6 Il6
102239_at B-cell leukemia/lymphoma 3 BclIII
102362_i_at Jun-B oncogene Junb
102363_r_at Jun-B oncogene Junb
102424_at chemokine (C-C motif) ligand 3 Ccl3
102430_at myeloid differentiation primary response gene 88 Myd88
102736_at chemokine (C-C motif) ligand 2 Ccl2
103066_at thymidylate kinase family LPS-inducible member Tyki
103486_at interleukin 1 beta Il1b
103839_at sphingosine kinase 1 Sphk1
104149_at nuclear factor of kappa light chain gene enhancer in B-cells inhibitor, alpha Nfkbia
104155_f_at activating transcription factor 3 Atf3
104156_r_at activating transcription factor 3 Atf3
104388_at chemokine (C-C motif) ligand 9 Ccl9
104406_at prostaglandin E synthase Ptges
104533_at proviral integration site 1 Pim1
104538_at prostaglandin I2 (prostacyclin) synthase Ptgis
104647_at prostaglandin-endoperoxide synthase 2 Ptgs2
104712_at myelocytomatosis oncogene Myc
160894_at CCAAT/enhancer binding protein (C/EBP), delta Cebpd
160933_at interferon gamma induced GTPase Igtp
162206_f_at suppressor of cytokine signaling 3 Socs3
92232_at suppressor of cytokine signaling 3 Socs3
92562_at nuclear factor, erythroid derived 2, like 2 Nfe2l2
92694_at chitinase 3-like 3 Chi3l3
92731_at pentraxin related gene Ptx3
92793_at tumor necrosis factor receptor superfamily, member 1a Tnfrsf1a
92830_s_at zinc finger protein 36 Zfp36
92849_at chemokine (C-C motif) ligand 6 Ccl6
92925_at CCAAT/enhancer binding protein (C/EBP), beta Cebpb
93328_at histidine decarboxylase Hdc
93858_at chemokine (C-X-C motif) ligand 10 Cxcl10
93871_at interleukin 1 receptor antagonist Il1rn
93914_at interleukin 1 receptor, type I Il1r1
93956_at interferon-induced protein with tetratricopeptide repeats 3 Ifit3
94140_at macrophage scavenger receptor 1 Msr1
94142_at colony stimulating factor 3 (granulocyte) Csf3
94146_at chemokine (C-C motif) ligand 4 Ccl4
94224_s_at interferon activated gene 203 Ifi203
94246_at E26 avian leukemia oncogene 2, 3′ domain Ets2
94747_at colony stimulating factor 2 receptor, beta 1, low-affinity (granulocyte-macrophage) Csf2rb1
94748_g_at colony stimulating factor 2 receptor, beta 1, low-affinity (granulocyte-macrophage) Csf2rb1
94755_at interleukin 1 alpha Il1a
94761_at chemokine (C-C motif) ligand 7 Ccl7
94929_at protein tyrosine phosphatase, nonreceptor type 1 Ptpn1
95348_at chemokine (C-X-C motif) ligand 1 Cxcl1
95349_g_at chemokine (C-X-C motif) ligand 1 Cxcl1
96551_at C-type lectin domain family 4, member e Clec4e
96752_at intercellular adhesion molecule Icam1
97106_at mitogen activated protein kinase kinase kinase 8 Map3k8
98088_at CD14 antigen Cd14
98417_at myxovirus (influenza virus) resistance 1 Mx1
98500_at interleukin 1 receptor-like 1 Il1rl1
98501_at interleukin 1 receptor-like 1 Il1rl1
98579_at early growth response 1 Egr1
98773_s_at immunoresponsive gene 1 Irg1
98774_at immunoresponsive gene 1 Irg1
99099_at signal transducer and activator of transcription 3 Stat3
99100_at signal transducer and activator of transcription 3 Stat3
99413_at chemokine (C-C motif) receptor 1 Ccr1
Sub-cluster ii (up-regulated, 24–96 h post wounding)
102330_at allograft inflammatory factor 1 Aif1
93097_at arginase 1, liver Arg1
101521_at baculoviral IAP repeat-containing 5 Birc5
102914_s_at B-cell leukemia/lymphoma 2 related protein A1a Bcl2a1a/
93869_s_at B-cell leukemia/lymphoma 2 related protein A1a Bcl2a1a
100988_at BCL2-like 11 (apoptosis facilitator) Bcl2l11
104023_at Cd300D antigen Cd300a
101878_at CD72 antigen Cd72
93454_at CD93 antigen Cd93
160815_at cDNA sequence BC032204 BC032204
98406_at chemokine (C-C motif) ligand 5 Ccl5
93397_at chemokine (C-C motif) receptor 2 Ccr2
102718_at chemokine (C-C motif) receptor 5 Ccr5
102719_f_at chemokine (C-C motif) receptor 5 Ccr5
161968_f_at chemokine (C-C motif) receptor 5 Ccr5
103210_at colony stimulating factor 2 receptor, beta 2 Csf2rb2
101728_at complement component 5a receptor 1 C5ar1
100300_at cytochrome b-245, beta polypeptide Cybb
103518_at cytotoxic T lymphocyte-associated protein 2 beta Ctla2b
102896_at docking protein 1 Dok1
160901_at FBJ osteosarcoma oncogene Fos
162181_f_at Fc receptor, IgE, high affinity I, gamma polypeptide Fcer1 g
101793_at Fc receptor, IgG, high affinity I Fcgr1
102879_s_at Fc receptor, IgG, high affinity I Fcgr1
92188_s_at feline sarcoma oncogene Fes
94697_at Gardner-Rasheed feline sarcoma viral (Fgr) oncogene Fgr
97384_at glia maturation factor, gamma Gmfg
99597_at guanine nucleotide binding protein, alpha inhibiting 2 Gnai2
99598_g_at guanine nucleotide binding protein, alpha inhibiting 2 Gnai2
93483_at hemopoietic cell kinase Hck
100511_at histocompatibility (minor) HA-1 Hmha1
102884_at inositol polyphosphate-5-phosphatase D Inpp5d
98828_at integrin alpha M Itgam
104308_at integrin alpha X Itgax
102353_at integrin beta 2 Itgb2
104750_at interferon gamma inducible protein 47 Ifi47
93425_at interferon regulatory factor 5 Irf5
104669_at interferon regulatory factor 7 Irf7
98002_at interferon regulatory factor 8 Irf8
103639_at interferon-induced protein with tetratricopeptide repeats 2 Ifit2
100428_at laminin, gamma 2 Lamc2
97507_at lectin, galactoside-binding, soluble, 3 binding protein Lgals3bp
98003_at leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3 Lilrb3
94278_at lymphocyte cytosolic protein 1 Lcp1
102957_at lymphocyte cytosolic protein 2 Lcp2
99071_at macrophage expressed gene 1 /// similar to macrophage expressed gene 1 Mpeg1
94792_at macrophage scavenger receptor 1 Msr1
97203_at MARCKS-like 1 Marcksl1
99957_at matrix metallopeptidase 9 Mmp9
97763_at neutrophil cytosolic factor 1 Ncf1
103614_at nuclear factor of kappa light polypeptide gene enhancer in B-cells 2, p49/p100 Nfkb2
100328_s_at paired-Ig-like receptor A1 Lilrb3
103866_at phosphatidylinositol 3-kinase catalytic delta polypeptide Pik3cd
103299_at phospholipase D family, member 4 Pld4
160801_at PQ loop repeat containing 1 Pqlc1
101881_g_at procollagen, type XVIII, alpha 1 Col18a1
99638_at procollagen, type XVIII, alpha 1 Col18a1
102851_s_at protein tyrosine phosphatase, nonreceptor type 6 Ptpn6
101048_at protein tyrosine phosphatase, receptor type, C Ptprc
103451_at PTK2 protein tyrosine kinase 2 beta Ptk2b
103579_at RAS-related C3 botulinum substrate 2 Rac2
95612_at replication factor C (activator 1) 5 Rfc5
102649_s_at retinoic acid early transcript 1, alpha Raet1a
103448_at S100 calcium binding protein A8 (calgranulin A) S100a8
103887_at S100 calcium binding protein A9 (calgranulin B) S100a9
97519_at secreted phosphoprotein 1 Spp1
103488_at selectin, platelet (p-selectin) ligand Selplg
160836_at (semaphorin) 4D Sema4d
102712_at serum amyloid A 3 Saa3
102641_at SFFV proviral integration 1 Sfpi1
92975_at SH3-domain binding protein 2 Sh3bp2
96562_at solute carrier family 11 Slc11a1
103065_at solute carrier family 20, member 1 Slc20a1
100425_at spleen tyrosine kinase Syk
102012_at src family associated phosphoprotein 2 Skap2
103205_at T-cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3 Tcirg1
92807_at thioredoxin 1 Txn1
98304_at toll-like receptor 6 Tlr6
101918_at transforming growth factor, beta 1 Tgfb1
94928_at tumor necrosis factor receptor superfamily, member 1b Tnfrsf1b
100397_at TYRO protein tyrosine kinase binding protein Tyrobp
99564_at ubiquitin-like, containing PHD and RING finger domains, 1 Uhrf1
99799_at vav 1 oncogene Vav1
103349_at Yamaguchi sarcoma viral (v-yes-1) oncogene homolog Lyn
C. Annotation of endothelial specific gene cluster shown in Figure 7C
Probe Set ID Gene Description Symbol
Sub-cluster i (down-regulated, 12–96 h post wounding)
102703_s_at aquaporin 4 Aqp4
102704_at aquaporin 4 Aqp4
104590_at myocyte enhancer factor 2C Mef2c
104591_g_at myocyte enhancer factor 2C Mef2c
104592_i_at myocyte enhancer factor 2C Mef2c
102720_at endothelial-specific receptor tyrosine kinase Tek
102327_at amine oxidase, copper containing 3 Aoc3
100614_at myoglobin Mb
100494_at fibroblast growth factor 1 Fgf1
103214_at heat shock protein 2 Hspb2
101178_at sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C Sema3c
103001_at vascular endothelial growth factor B Vegfb
101990_at lactate dehydrogenase B Ldhb
103215_g_at heat shock protein 2 Hspb2
100629_at glutathione S-transferase, mu 5 Gstm5
100605_at tropomyosin 2, beta Tpm2
100997_at desmin Des
101521_at baculoviral IAP repeat-containing 5 Birc5
100153_at neural cell adhesion molecule 1 Ncam1
100928_at fibulin 2 Fbln2
Sub-cluster ii (up-regulated, 12–96 h post wounding)
101160_at chemokine (C-X-C motif) ligand 2 Cxcl2
100484_at matrix metallopeptidase 13 Mmp13
102663_at plasminogen activator, urokinase receptor Plaur
101972_at napsin A aspartic peptidase Napsa
103024_at a disintegrin and metallopeptidase domain 8 Adam8
101464_at tissue inhibitor of metalloproteinase 1 Timp1
102798_at adrenomedullin Adm
102025_at chemokine (C-X-C motif) ligand 13 Cxcl13
102957_at lymphocyte cytosolic protein 2 Lcp2
102884_at inositol polyphosphate-5-phosphatase D Inpp5d
102914_s_at B-cell leukemia/lymphoma 2 related protein A1a Bcl2a1a
101728_at complement component 5a receptor 1 C5ar1
104469_at podoplanin Pdpn
104601_at thrombomodulin Thbd
103210_at colony stimulating factor 2 receptor, beta 2, low-affinity (granulocyte-macrophage) Csf2rb2
100425_at spleen tyrosine kinase Syk
103707_at complement component 3a receptor 1 C3ar1
160101_at heme oxygenase (decycling) 1 Hmox1
104701_at basic helix-loop-helix domain containing, class B2 Bhlhb2
103818_at solute carrier family 7 (cationic amino acid transporter, y+ system), member 7 Slc7a7
100428_at laminin, gamma 2 Lamc2
103839_at sphingosine kinase 1 Sphk1
103451_at PTK2 protein tyrosine kinase 2 beta Ptk2b
100308_at procollagen, type VIII, alpha 1 Col8a1
103866_at phosphatidylinositol 3-kinase catalytic delta polypeptide Pik3cd
100134_at endoglin Eng
100970_at thymoma viral proto-oncogene 1 Akt1
100016_at matrix metallopeptidase 11 Mmp11
100915_at myosin, heavy polypeptide 9, nonmuscle Myh9
103462_at dedicator of cyto-kinesis 2 Dock2
101881_g_at procollagen, type XVIII, alpha 1 Col18a1
D. Annotation of fibroblast specific gene cluster shown in Figure 7D
Probe Set ID Gene Description Symbol
Sub-cluster i (up-regulated, 12–96 h post wounding)
100484_at matrix metallopeptidase 13 Mmp13
102712_at serum amyloid A 3 Saa3
101631_at SRY-box containing gene 11 Sox11
101993_at tenascin C Tnc
101464_at tissue inhibitor of metalloproteinase 1 Timp1
102218_at interleukin 6 Il6
100016_at matrix metallopeptidase 11 Mmp11
101918_at transforming growth factor, beta 1 Tgfb1
102021_at interleukin 4 receptor, alpha Il4ra
100884_at aldo-keto reductase family 1, member B8 Akr1b8
100009_r_at SRY-box containing gene 2 Sox2
100277_at inhibin beta-A Inhba
102204_at v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian) Mafb
102195_at mitogen-activated protein kinase kinase kinase kinase 4 Map4k4
101881_g_at procollagen, type XVIII, alpha 1 Col18a1
100581_at cystatin B Cstb
100507_at nephroblastoma overexpressed gene Nov
100019_at versican Vcan
100420_at filaggrin Flg
Sub-cluster ii (down-regulated, 12–96 h post wounding)
102774_at epidermal growth factor Egf
101028_i_at actin, alpha, cardiac Actc1
100003_at ryanodine receptor 1, skeletal muscle Ryr1
100605_at tropomyosin 2, beta Tpm2
102256_at T-box 15 Tbx15
100494_at fibroblast growth factor 1 Fgf1
100879_at actinin alpha 3 Actn3
100068_at aldehyde dehydrogenase family 1, subfamily A1 Aldh1a1
100997_at desmin Des
101892_f_at thymoma viral proto-oncogene 1 interacting protein Aktip
101029_f_at actin, alpha, cardiac Actc1
100566_at insulin-like growth factor binding protein 5 Igfbp5
E. Annotation of pluripotent stem cell specific gene cluster shown in Figure 7E
Probe Set ID Gene Description Symbol
Sub-cluster i (down-regulated, 6–96 h post wounding)
92722_f_at sine oculis-related homeobox 1 homolog (Drosophila) Six1
Sub-cluster ii (up-regulated, 6–96 h post wounding)
160069_at geminin Gmnn
100009_r_at SRY-box containing gene 2 Sox2

Footnote to Tables 2A–E: Probe ID, Affymetrix probe identifications.