Supplementary table 1: A list of the 23 MMP, 4 TIMP, 50 ADAM(TS) and 158 growth factor genes with their corresponding probe sets on the Affymetrix Human Genome U133 Plus 2.0 Array. The probe sets with an intensity > log2(50) in at least 10% of the samples are coloured red.
Gene Title Gene Symbol Probe Set ID (Affymetrix Human Genome U133 Plus 2.0 Array)
MMP genes
matrix metallopeptidase 1 (interstitial collagenase) MMP1 204475_at
matrix metallopeptidase 2 (gelatinase A, 72kDa gelatinase, 72kDa type IV collagenase)
MMP2 201069_at, 1566678_at matrix metallopeptidase 3 (stromelysin 1, progelatinase) MMP3 205828_at
matrix metallopeptidase 7 (matrilysin, uterine) MMP7 204259_at
matrix metallopeptidase 8 (neutrophil collagenase) MMP8 207329_at, 231688_at matrix metallopeptidase 9 (gelatinase B, 92kDa gelatinase, 92kDa type IV
collagenase)
MMP9 203936_s_at
matrix metallopeptidase 10 (stromelysin 2) MMP10 205680_at
matrix metallopeptidase 11 (stromelysin 3) MMP11 203876_s_at, 203878_s_at, 203877_at, 213602_s_at
matrix metallopeptidase 12 (macrophage elastase) MMP12 204580_at
matrix metallopeptidase 13 (collagenase 3) MMP13 205959_at
matrix metallopeptidase 14 (membrane-inserted) MMP14 160020_at, 202827_s_at, 202828_s_at, 217279_x_at
matrix metallopeptidase 15 (membrane-inserted) MMP15 203365_s_at, 243883_at
matrix metallopeptidase 16 (membrane-inserted) MMP16 207012_at, 207013_s_at, 208166_at, 208167_s_at
matrix metallopeptidase 17 (membrane-inserted) MMP17 206234_s_at
matrix metallopeptidase 19 MMP19 204574_s_at, 204575_s_at, 227106_at
matrix metallopeptidase 20 (enamelysin) MMP20 207599_at
matrix metallopeptidase 21 MMP21 1552592_at
matrix metallopeptidase 23A (pseudogene) /// matrix metallopeptidase 23B MMP23A ///
MMP23B
207118_s_at
matrix metallopeptidase 24 (membrane-inserted) MMP24 208387_s_at, 213171_s_at, 221953_s_at, 49679_s_at
matrix metallopeptidase 25 MMP25 207890_s_at, 207289_at
matrix metallopeptidase 26 MMP26 220541_at
matrix metallopeptidase 27 MMP27 220783_at
matrix metallopeptidase 28 MMP28 219909_at, 222937_s_at, 224207_x_at, 239272_at, 239273_s_at
TIMP genes
TIMP metallopeptidase inhibitor 1 TIMP1 201666_at
TIMP metallopeptidase inhibitor 2 TIMP2 203167_at, 224560_at, 231579_s_at
TIMP metallopeptidase inhibitor 3 (Sorsby fundus dystrophy, pseudoinflammatory)
TIMP3 201147_s_at, 201148_s_at, 201149_s_at, 201150_s_at
TIMP metallopeptidase inhibitor 4 TIMP4 206243_at
ADAM genes
ADAM metallopeptidase domain 2 (fertilin beta) ADAM2 207664_at
ADAM metallopeptidase domain 3A (cyritestin 1) ADAM3A 216276_s_at, 217090_at
ADAM metallopeptidase domain 5 pseudogene ADAM5P 216998_s_at, 217003_s_at
ADAM metallopeptidase domain 6 ADAM6 237909_at
ADAM metallopeptidase domain 7 ADAM7 211238_at, 211239_s_at
ADAM metallopeptidase domain 8 ADAM8 205180_s_at, 205179_s_at
ADAM metallopeptidase domain 9 (meltrin gamma) ADAM9 1555326_a_at, 202381_at, 1570042_a_at
ADAM metallopeptidase domain 10 ADAM10 202604_x_at, 214895_s_at
ADAM metallopeptidase domain 11 ADAM11 207880_at, 239837_at
ADAM metallopeptidase domain 12 (meltrin alpha) ADAM12 202952_s_at, 204943_at, 213790_at
ADAM metallopeptidase domain 15 ADAM15 1555896_a_at, 217007_s_at
ADAM metallopeptidase domain 17 (tumor necrosis factor, alpha, converting enzyme)
ADAM17 205745_x_at, 205746_s_at, 237897_at
ADAM metallopeptidase domain 18 ADAM18 1568970_at, 207597_at
ADAM metallopeptidase domain 19 (meltrin beta) ADAM19 209765_at, 221128_at
ADAM metallopeptidase domain 20 ADAM20 207423_s_at
ADAM metallopeptidase domain 21 ADAM21 1552579_a_at
ADAM metallopeptidase domain 21 /// ADAM metallopeptidase domain 21 pseudogene
ADAM21 ///
ADAM21P
207665_at
ADAM metallopeptidase domain 22 ADAM22 1555024_at, 206615_s_at, 206616_s_at, 208226_x_at, 208227_x_at,
208237_x_at
ADAM metallopeptidase domain 23 ADAM23 206046_at
ADAM metallopeptidase domain 28 ADAM28 205997_at, 208269_s_at, 208268_at
ADAM metallopeptidase domain 29 ADAM29 221337_s_at
ADAM metallopeptidase domain 30 ADAM30 221446_at, 243520_x_at
ADAM metallopeptidase domain 32 ADAM32 1552266_at
ADAM metallopeptidase domain 33 ADAM33 233868_x_at, 232570_s_at
ADAM-like, decysin 1 ADAMDEC1 206134_at
ADAM metallopeptidase with thrombospondin type 1 motif, 1 ADAMTS1 222162_s_at, 222486_s_at ADAM metallopeptidase with thrombospondin type 1 motif, 2 ADAMTS2 214454_at, 214535_s_at ADAM metallopeptidase with thrombospondin type 1 motif, 3 ADAMTS3 214913_at
ADAM metallopeptidase with thrombospondin type 1 motif, 4 ADAMTS4 1555380_at
ADAM metallopeptidase with thrombospondin type 1 motif, 5 (aggrecanase-2) ADAMTS5 235368_at, 1558636_s_at, 219935_at, 229357_at ADAM metallopeptidase with thrombospondin type 1 motif, 6 ADAMTS6 1570351_at, 220866_at, 237411_at
ADAM metallopeptidase with thrombospondin type 1 motif, 7 ADAMTS7 220705_s_at, 220706_at, 228911_at
ADAM metallopeptidase with thrombospondin type 1 motif, 8 ADAMTS8 220676_at, 220677_s_at, 235649_at
ADAM metallopeptidase with thrombospondin type 1 motif, 9 ADAMTS9 226814_at, 1554697_at, 220287_at, 233785_at ADAM metallopeptidase with thrombospondin type 1 motif, 10 ADAMTS10 230341_x_at, 232133_at
ADAM metallopeptidase with thrombospondin type 1 motif, 12 ADAMTS12 221421_s_at
ADAM metallopeptidase with thrombospondin type 1 motif, 13 ADAMTS13 220208_at, 223844_at ADAM metallopeptidase with thrombospondin type 1 motif, 14 ADAMTS14 230167_at
ADAM metallopeptidase with thrombospondin type 1 motif, 15 ADAMTS15 1553427_at ADAM metallopeptidase with thrombospondin type 1 motif, 16 ADAMTS16 238125_at
ADAM metallopeptidase with thrombospondin type 1 motif, 17 ADAMTS17 1552725_s_at, 1552726_at, 1552727_s_at ADAM metallopeptidase with thrombospondin type 1 motif, 18 ADAMTS18 1553234_at, 230040_at, 242823_at ADAM metallopeptidase with thrombospondin type 1 motif, 19 ADAMTS19 1553179_at, 1553180_at
ADAM metallopeptidase with thrombospondin type 1 motif, 20 ADAMTS20 1553409_at, 220717_at
ADAMTS-like 1 ADAMTSL1 1552457_a_at, 1552808_at, 224371_at, 229585_at, 237217_at,
239909_at
ADAMTS-like 2 ADAMTSL2 206629_at
ADAMTS-like 3 ADAMTSL3 1559748_at, 213974_at
ADAMTS-like 4 ADAMTSL4 220578_at, 226071_at
ADAMTS-like 5 ADAMTSL5 242200_at
Growth factor genes
agrin AGRN 212285_s_at, 217410_at, 217419_x_at, 212283_at
angiotensinogen (serpin peptidase inhibitor, clade A, member 8) AGT 202834_at
ameloblastin (enamel matrix protein) AMBN 221114_at
amelogenin (amelogenesis imperfecta 1, X-linked) AMELX 208410_x_at
anti-Mullerian hormone AMH 206516_at
angiopoietin 1 ANGPT1 1552939_at, 205608_s_at, 205609_at
angiopoietin 2 ANGPT2 205572_at, 211148_s_at, 236034_at, 237261_at
angiopoietin 4 ANGPT4 221134_at
angiopoietin-like 1 ANGPTL1 224339_s_at, 231773_at, 239183_at
angiopoietin-like 2 ANGPTL2 213001_at, 213004_at, 219514_at
angiopoietin-like 3 ANGPTL3 219803_at, 231684_at, 243799_x_at
angiopoietin-like 4 ANGPTL4 221009_s_at, 223333_s_at
angiopoietin-like 6 ANGPTL6 223967_at
angiopoietin-like 7 ANGPTL7 206423_at
amphiregulin AREG 205239_at
artemin ARTN 210237_at, 207675_x_at, 216052_x_at
brain-derived neurotrophic factor BDNF 206382_s_at, 239367_at
bone morphogenetic protein 1 BMP1 202701_at, 205574_x_at, 206725_x_at, 207595_s_at
bone morphogenetic protein 2 BMP2 205289_at, 205290_s_at
bone morphogenetic protein 3 BMP3 208244_at
bone morphogenetic protein 4 BMP4 211518_s_at
bone morphogenetic protein 5 BMP5 205431_s_at
bone morphogenetic protein 6 BMP6 206176_at, 215042_at, 241141_at
bone morphogenetic protein 7 BMP7 211260_at, 209590_at, 209591_s_at, 211259_s_at
bone morphogenetic protein 8a BMP8A 220203_at, 207866_at, 220204_s_at
bone morphogenetic protein 8b BMP8B 207865_s_at
bone morphogenetic protein 10 BMP10 208292_at
bone morphogenetic protein 15 BMP15 221332_at
betacellulin BTC 207326_at
CD320 molecule CD320 218529_at
cerebral dopamine neurotrophic factor CDNF 1568696_at
cat eye syndrome chromosome region, candidate 1 CECR1 219505_at
cardiotrophin-like cytokine factor 1 CLCF1 219500_at
C-type lectin domain family 11, member A CLEC11A 205131_x_at, 210783_x_at, 211709_s_at
ciliary neurotrophic factor CNTF 208597_at
colony stimulating factor 1 (macrophage) CSF1 207082_at, 210557_x_at, 211839_s_at
colony stimulating factor 2 (granulocyte-macrophage) CSF2 210228_at, 210229_s_at
colony stimulating factor 3 (granulocyte) CSF3 207442_at
chondroitin sulfate proteoglycan 5 (neuroglycan C) CSPG5 205344_at, 39966_at
connective tissue growth factor CTGF 209101_at
dickkopf homolog 1 (Xenopus laevis) DKK1 204602_at
epidermal growth factor (beta-urogastrone) EGF 206254_at
erythropoietin EPO 207257_at, 217254_s_at
epiregulin EREG 205767_at, 1569583_at
endothelial cell-specific molecule 1 ESM1 208394_x_at
fibrosin FBRS 218255_s_at, 242217_s_at
fibroblast growth factor 1 (acidic) FGF1 1552721_a_at, 205117_at, 208240_s_at
fibroblast growth factor 2 (basic) FGF2 204421_s_at, 204422_s_at
fibroblast growth factor 3 (murine mammary tumor virus integration site (v-int- 2) oncogene homolog)
FGF3 214571_at
fibroblast growth factor 4 FGF4 1552982_a_at
fibroblast growth factor 5 FGF5 208378_x_at, 210310_s_at, 210311_at
fibroblast growth factor 6 FGF6 208417_at
fibroblast growth factor 7 (keratinocyte growth factor) /// keratinocyte growth factor-like protein 1 /// keratinocyte growth factor-like protein 2
FGF7 /// KGFLP1 /// KGFLP2
205782_at, 1554741_s_at
fibroblast growth factor 8 (androgen-induced) FGF8 208449_s_at
fibroblast growth factor 9 (glia-activating factor) FGF9 206404_at, 239178_at
fibroblast growth factor 10 FGF10 231762_at
fibroblast growth factor 11 FGF11 227271_at, 231803_at
fibroblast growth factor 12 FGF12 207501_s_at, 214589_at
fibroblast growth factor 13 FGF13 205110_s_at
fibroblast growth factor 14 FGF14 221310_at, 230231_at, 230288_at, 231523_at
fibroblast growth factor 16 FGF16 221374_at
fibroblast growth factor 17 FGF17 221376_at
fibroblast growth factor 18 FGF18 206986_at, 206987_x_at, 211029_x_at, 211485_s_at, 214284_s_at
fibroblast growth factor 19 FGF19 223761_at
fibroblast growth factor 20 FGF20 220394_at
fibroblast growth factor 21 FGF21 221433_at
Fibroblast growth factor 22 FGF22 1566814_at, 221315_s_at
fibroblast growth factor 23 FGF23 221166_at
c-fos induced growth factor (vascular endothelial growth factor D) FIGF 206742_at
fms-related tyrosine kinase 3 ligand FLT3LG 206980_s_at, 210607_at
growth differentiation factor 1 GDF1 206397_x_at
growth differentiation factor 2 GDF2 221136_at
growth differentiation factor 3 GDF3 220053_at
growth differentiation factor 5 GDF5 206614_at
growth differentiation factor 9 GDF9 221314_at
growth differentiation factor 10 GDF10 206159_at
growth differentiation factor 11 GDF11 216854_at, 216860_s_at, 226232_at, 226234_at
growth differentiation factor 15 GDF15 221577_x_at, 221576_at, 229868_s_at
glial cell derived neurotrophic factor GDNF 221359_at
growth hormone 1 /// growth hormone 2 GH1 /// GH2 205840_x_at, 206885_x_at, 206886_x_at, 211151_x_at, 206195_x_at, 211508_s_at, 202493_x_at, 206475_x_at, 208356_x_at, 208357_x_at, 211739_x_at, 208068_x_at, 208069_x_at, 203807_x_at, 207770_x_at, 208341_x_at, 208342_x_at, 205958_x_at, 207285_x_at, 208293_x_at, 208294_x_at, 208295_x_at
gastrokine 1 GKN1 220191_at
glia maturation factor, beta GMFB 202543_s_at, 202544_at
glia maturation factor, gamma GMFG 204220_at
glucose phosphate isomerase GPI 208308_s_at
granulin GRN 200678_x_at, 211284_s_at, 216041_x_at
heparin-binding EGF-like growth factor HBEGF 203821_at, 38037_at, 222076_at, 244857_at
hepatoma-derived growth factor (high-mobility group protein 1-like) HDGF 200896_x_at, 216484_x_at
hepatoma-derived growth factor, related protein 3 HDGFRP3 209524_at, 209526_s_at, 216693_x_at, 221976_s_at, 228266_s_at hepatocyte growth factor (hepapoietin A; scatter factor) HGF 209961_s_at, 210755_at, 210997_at, 210998_s_at
insulin-like growth factor 1 (somatomedin C) IGF1 211577_s_at, 209540_at, 209541_at, 209542_x_at
insulin-like growth factor 2 (somatomedin A) IGF2 202409_at, 202410_x_at, 210881_s_at
inhibin, alpha INHA 210141_s_at
inhibin, beta A INHBA 210511_s_at, 204926_at
inhibin, beta B INHBB 205258_at
inhibin, beta C INHBC 207687_at
inhibin, beta E INHBE 210587_at
jagged 1 (Alagille syndrome) JAG1 209098_s_at, 209099_x_at, 216268_s_at, 231183_s_at, 209097_s_at,
229924_s_at
jagged 2 JAG2 209784_s_at, 32137_at
keratinocyte growth factor-like protein 2 KGFLP2 231031_at, 205782_at, 1554741_s_at
KIT ligand KITLG 226534_at, 207029_at, 211124_s_at
lacritin LACRT 224540_at
left-right determination factor 1 LEFTY1 206268_at
left-right determination factor 2 LEFTY2 206012_at
leptin LEP 207092_at
leukemia inhibitory factor (cholinergic differentiation factor) LIF 205266_at
metastasis associated in colon cancer 1 MACC1 1559361_at, 1566764_at, 1566766_a_at, 232151_at
mesencephalic astrocyte-derived neurotrophic factor MANF 202655_at
midkine (neurite growth-promoting factor 2) MDK 209035_at
melanoma inhibitory activity MIA 206560_s_at
macrophage stimulating 1 (hepatocyte growth factor-like) MST1 205614_x_at, 216320_x_at
myostatin MSTN 207145_at
Norrie disease (pseudoglioma) NDP 206022_at
neuron derived neurotrophic factor NENF 214075_at, 218407_x_at
nerve growth factor (beta polypeptide) NGF 206814_at
nodal homolog (mouse) NODAL 230916_at, 237896_at
nephroblastoma overexpressed gene NOV 204501_at, 214321_at
neuregulin 1 NRG1 208232_x_at, 206237_s_at, 206343_s_at, 208230_s_at, 208231_at,
208241_at
neuregulin 2 NRG2 206879_s_at, 208062_s_at
neuregulin 3 NRG3 229233_at
neuregulin 4 NRG4 242426_at
neurturin NRTN 210683_at
neurotrophin 3 NTF3 206706_at
neurotrophin 4 NTF4 231785_at
nudix (nucleoside diphosphate linked moiety X)-type motif 6 NUDT6 230329_s_at, 220183_s_at
osteoglycin OGN 218730_s_at, 222722_at
oxidative stress induced growth inhibitor 1 OSGIN1 219475_at
oncostatin M OSM 214637_at, 230170_at
26 serine protease P11 206605_at
platelet-derived growth factor alpha polypeptide PDGFA 205463_s_at, 216867_s_at, 229830_at platelet-derived growth factor beta polypeptide (simian sarcoma viral (v-sis)
oncogene homolog)
PDGFB 216061_x_at, 204200_s_at, 216055_at
platelet derived growth factor C PDGFC 218718_at, 222719_s_at
platelet derived growth factor D PDGFD 219304_s_at, 222860_s_at
placental growth factor PGF 209652_s_at
prokineticin 1 PROK1 229124_at
persephin PSPN 221373_x_at
pleiotrophin PTN 209465_x_at, 209466_x_at, 211737_x_at
rabaptin, RAB GTPase binding effector protein 1 RABEP1 225064_at, 225092_at, 203223_at, 214552_s_at rabaptin, RAB GTPase binding effector protein 2 RABEP2 219057_at, 74694_s_at, 77508_r_at
regenerating islet-derived 1 alpha REG1A 209752_at
teratocarcinoma-derived growth factor 1 /// teratocarcinoma-derived growth factor 3, pseudogene
TDGF1 /// TDGF3 206286_s_at
trefoil factor 1 TFF1 205009_at
trefoil factor 2 TFF2 214476_at
trefoil factor 3 (intestinal) TFF3 204623_at
transforming growth factor, alpha TGFA 205016_at, 211258_s_at, 205015_s_at
transforming growth factor, beta 1 TGFB1 203085_s_at, 203084_at
transforming growth factor, beta 2 TGFB2 209908_s_at, 209909_s_at, 220406_at, 220407_s_at, 228121_at
transforming growth factor, beta 3 TGFB3 1555540_at, 209747_at
thrombopoietin THPO 211154_at, 211155_s_at, 211831_s_at
thymidine phosphorylase TYMP 204858_s_at
vascular endothelial growth factor A VEGFA 210512_s_at, 210513_s_at, 211527_x_at, 212171_x_at
vascular endothelial growth factor B VEGFB 203683_s_at
vascular endothelial growth factor C VEGFC 209946_at
VGF nerve growth factor inducible VGF 205586_x_at
WNT1 inducible signaling pathway protein 3 WISP3 210861_s_at
