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Table 6 NP vs AC microarray comparison

From: Transcriptional profiling of bovine intervertebral disc cells: implications for identification of normal and degenerate human intervertebral disc cell phenotypes

Gene description Gene symbol AC mean AF mean NP mean Fold change (NP/AC)
brain abundant, membrane attached signal protein 1 BASP1 0.02 57.19 384.21 16167.90
keratin 18 KRT18 0.01 0.04 94.10 15990.45
Tenomodulin TNMD 0.01 241.03 102.36 15087.56
TNF, alpha-induced protein 6 TNFAIP6 0.01 304.98 121.88 8205.96
keratin 8 KRT8 0.09 0.39 714.79 7607.92
hypothetical protein BC012029 LOC152573 0.05 0.18 230.02 4635.12
TNF, alpha-induced protein 6 TNFAIP6 0.19 3649.85 508.71 2648.51
SH3 domain binding glutamic acid-rich protein SH3BGR 0.08 20.83 172.70 2230.52
cadherin 2, type 1, N-cadherin (neuronal) CDH2 0.09 0.22 180.47 1941.17
chordin CHRD 0.03 1.29 57.29 1671.45
Rat sarcoma (ras) homolog gene family, member B RHOB 0.24 0.04 383.01 1627.81
homeobox B8 HOXB8 0.08 9.11 119.75 1591.12
Rho GTPase activating protein 27 ARHGAP27 0.08 0.72 89.24 1072.84
forkhead box F1 FOXF1 0.43 703.54 457.76 1054.86
plakophilin 2 PKP2 0.13 0.48 77.71 603.25
homeobox B6 HOXB6 0.11 58.21 61.73 580.12
adaptor-related protein complex 2, mu 1 subunit AP2M1 0.55 350.92 305.70 557.26
transketolase-like 1 TKTL1 0.89 4.59 478.18 536.27
cytochrome b-245, alpha polypeptide CYBA 0.16 0.77 83.63 513.67
phosphatidylethanolamine-binding protein 4 PEBP4 0.84 113.44 429.31 511.40
forkhead box F2 FOXF2 0.60 416.30 283.89 470.91
Kruppel-like factor 6 KLF6 0.13 0.03 55.84 444.91
optineurin OPTN 0.22 0.36 88.35 407.25
aquaporin 1 (Colton blood group) AQP1 0.42 5.55 144.13 346.12
RAB3B, member RAS oncogene family RAB3B 0.18 0.27 58.47 333.33
similar to sushi domain containing 2 SUSD2 1.05 34.26 300.30 286.96
sclerostin domain containing 1 SOSTDC1 0.28 0.53 79.27 286.23
CD36 molecule (thrombospondin receptor) CD36 0.27 96.74 71.61 262.65
capping protein (actin filament), gelsolin-like CAPG 0.21 12.70 53.11 257.62
similar to zinc finger homeodomain 4 ZFHX4 0.23 160.03 55.13 241.22
neurotrophic tyrosine kinase, receptor, type 2 NTRK2 0.62 248.28 106.60 172.40
synaptosomal-associated protein, 25 kDa SNAP25 0.55 0.81 94.22 171.81
lectin, galactoside-binding, soluble, 1 (galectin 1) LGALS1 0.57 81.20 88.20 155.33
testis derived transcript (3 Lin11, Isl-1 & Mec-3 (LIM) domains) TES 0.38 32.63 55.66 145.10
Related-rat sarcoma viral (r-ras) oncogene homolog RRAS 0.74 0.39 93.40 125.71
sorting nexin family member 30 SNX30 0.74 31.31 89.00 120.18
vanin 1 VNN1 0.69 67.28 82.51 119.73
collagen, type XVIII, alpha 1 COL18A1 1.02 102.46 116.62 114.48
transmembrane protein 100 TMEM100 1.05 1.80 116.48 110.68
macrophage migration inhibitory factor MIF 3.47 1.70 368.05 105.96
ectodermal-neural cortex ENC1 0.74 53.63 75.21 101.74
pleiotrophin PTN 208.08 54.11 1.10 -189.18
cytokine-like 1 CYTL1 11388.79 19.33 29.48 -386.29
retinoic acid receptor responder 1 RARRES1 974.75 156.02 1.98 -491.73
phenylalanine hydroxylase PAH 195.83 0.24 0.32 -612.20
integrin-binding sialoprotein IBSP 300.90 0.06 0.37 -817.30
fibulin 1 FBLN1 199.29 0.22 0.13 -1511.93
collagen, type X, alpha 1 COL10A1 1192.84 7.19 0.79 -1518.56
peptidase inhibitor 15 PI15 478.32 83.74 0.10 -5002.83
  1. IVD specific marker genes. Genes identified by NP vs AC microarray comparison. Mean fluorescence intensity is shown for each cell type (AC, AF and NP) along with calculated fold change values (positive and negative) between NP and AC cells that were greater than 100. Highlighted in bold are genes that were taken forward for qRT-PCR and italicised are genes that were identified in previous array studies [23,24]. AC, articular cartilage; AF, annulus fibrosus; NP, nucleus pulposus; qRT-PCR, quantitative real time polymerase chain reaction.