Table 2.
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.