Rafehi et al., Supplementary Tables 1 - 3

Table 1: The 20 most up and down regulated genes in keratinocyte cells treated with hydroxytyrosol at 20 µM
UP / Refseq ID / Fold Change / Gene / Description / Location / Family / Diseases
1 / NM_002133 / 15.46 / HMOX1 / heme oxygenase (decycling) 1 / Cytoplasm / enzyme / Atherosclerosis, Carcinoma, DNA damage, Diabetes, Wounds [1-5]
2 / NM_005980 / 10.59 / S100P / S100 calcium binding protein P / Cytoplasm / other / Carcinoma, Neoplasms [6,7]
3 / NM_004864 / 8.78 / GDF15 / growth differentiation factor 15 / Extracellular Space / growth factor / Carcinoma, DNA damage [8,9]
4 / NM_004753 / 6.67 / DHRS3 / dehydrogenase/reductase (SDR family) member 3 / Cytoplasm / enzyme / Carcinoma [10]
5 / NM_005564 / 6.20 / LCN2 / lipocalin 2 / Extracellular Space / transporter / Carcinoma, Inflammation [11,12]
6 / NR_033343 / 5.76 / PSCA (includes EG:8000)* / prostate stem cell antigen / Plasma Membrane / other / Prostatic Neoplasms [13]
7 / NM_014059 / 5.31 / C13ORF15 / chromosome 13 open reading frame 15 / Cytoplasm / other / Neoplasms [14]
8 / NM_001012964 / 4.42 / KLK6* / kallikrein-related peptidase 6 / Extracellular Space / peptidase / Neoplasms, Carcinoma [15,16]
9 / NM_199001 / 4.32 / C9ORF169 / chromosome 9 open reading frame 169 / unknown / other
10 / NM_003841 / 4.27 / TNFRSF10C / tumor necrosis factor receptor superfamily, member 10c, decoy without an intracellular domain / Plasma Membrane / transmembrane receptor / Diabetes, Neoplasms [17,18]
11 / NM_002032 / 4.20 / FTH1 / ferritin, heavy polypeptide 1 / Cytoplasm / enzyme / Infections, Neoplasms [19,20]
12 / NR_003070 / 4.16 / SNORD89 (includes EG:692205) / small nucleolar RNA, C/D box 89 / unknown / other
13 / NR_002201 / 4.00 / FTHL3 / ferritin, heavy polypeptide-like 3 / unknown / other
14 / NM_004878 / 3.88 / PTGES / prostaglandin E synthase / Cytoplasm / enzyme / Carcinoma [20,21]
15 / NM_020169 / 3.67 / LXN / latexin / Cytoplasm / other
16 / NM_005420 / 3.58 / SULT1E1 / sulfotransferase family 1E, estrogen-preferring, member 1 / Cytoplasm / enzyme / Carcinoma, Neoplasms [22,23]
17 / NM_001498 / 3.57 / GCLC / glutamate-cysteine ligase, catalytic subunit / Cytoplasm / enzyme / Diabetes [24]
18 / NR_000010 / 3.56 / SNORD4A (includes EG:26773) / small nucleolar RNA, C/D box 4A / unknown / other
19 / NR_002562 / 3.56 / SNORD28 / small nucleolar RNA, C/D box 28 / unknown / other
20 / NM_003662 / 3.53 / PIR* / pirin (iron-binding nuclear protein) / Nucleus / transcription regulator
DOWN
1 / NR_030635 / -5.05 / MIR939 / microRNA 939 / unknown / microRNA
2 / NR_030386 / -4.67 / MIR663 / microRNA 663 / unknown / microRNA
3 / NR_002592 / -3.59 / SNORD96A (includes EG:619571) / small nucleolar RNA, C/D box 96A / unknown / other
4 / NM_004625 / -3.58 / WNT7A / wingless-type MMTV integration site family, member 7A / Extracellular Space / other / Wounds [25]
5 / NM_005947 / -3.45 / MT1B / metallothionein 1B / Cytoplasm / other / Diabetes, Leukemia-Lymphoma, Adult T-Cell, Prostatic Neoplasms [26-28]
6 / NR_031735 / -3.37 / MIR1914 / microRNA 1914 / unknown / microRNA
7 / NR_002312 / -3.27 / RPPH1 (includes EG:85495) / ribonuclease P RNA component H1 / unknown / other
8 / NM_000933 / -3.24 / PLCB4* / phospholipase C, beta 4 / Cytoplasm / enzyme
9 / NM_001013653 / -3.21 / LRRC26 / leucine rich repeat containing 26 / Cytoplasm / other
10 / NR_003286 / -3.19 / RN18S1 / RNA, 18S ribosomal 1 / unknown / other
11 / NM_000598 / -2.86 / IGFBP3* / insulin-like growth factor binding protein 3 / Extracellular Space / other / Atherosclerosis, Carcinoma [29,30]
12 / NM_001168682 / -2.85 / SAP25 (includes EG:100316904) / sin3A-binding protein 25 / unknown / other
13 / NR_002591 / -2.81 / SNORD95 (includes EG:619570) / small nucleolar RNA, C/D box 95 / unknown / other
14 / NR_030290 / -2.81 / MIR564 / microRNA 564 / unknown / microRNA
15 / NR_004392 / -2.81 / RNY3 (includes EG:6085) / RNA, Ro-associated Y3 / unknown / other / Lung Neoplasms, Prostatic Neoplasms [28,31]
16 / NM_000916 / -2.80 / OXTR / oxytocin receptor / Plasma Membrane / G-protein coupled receptor / Lung Neoplasms, Non-Small-Cell Lung Carcinoma, Hyperplasia [32,33]
17 / NM_001850 / -2.73 / COL8A1* / collagen, type VIII, alpha 1 / Extracellular Space / other / Keratoconus [34]
18 / NR_001445 / -2.72 / RN7SK / RNA, 7SK small nuclear / Nucleus / other
19 / NR_003285 / -2.71 / RN5-8S1 / RNA, 5.8S ribosomal 1 / unknown / other
20 / NM_018670 / -2.65 / MESP1 / mesoderm posterior 1 homolog (mouse) / unknown / other
Table 2: The 20 most up and down regulated genes in K562 cells treated with hydroxytyrosol at 20 µM
UP / Refseq ID / Gene / fold change / Description / Location / Family / Disease
1 / NM_016378 / VCX2 / 3.95 / variable charge, X-linked 2 / unknown / other
2 / NR_003048 / SNORD23 (includes EG:692091) / 3.42 / small nucleolar RNA, C/D box 23 / unknown / other
3 / NR_003704 / SNORA84 / 3.34 / small nucleolar RNA, H/ACA box 84 / unknown / other
4 / NR_030754 / MIR622 / 3.28 / microRNA 622 / unknown / microRNA / Colonic Neoplasms [35]
5 / NR_004424 / RNU1-7 / 3.19 / RNA, U1 small nuclear 7 / unknown / other
6 / NR_023317 / RNU7 (includes EG:100147744) / 3.19 / RNA, U7 small nuclear / unknown / other
7 / NR_030362 / MIR632 (includes EG:693217) / 2.73 / microRNA 632 / unknown / microRNA
8 / NR_031694 / MIR1281 / 2.50 / microRNA 1281 / unknown / microRNA
9 / NR_031660 / MIR1259 / 2.28 / microRNA 1259 / unknown / microRNA
10 / NM_012404 / ANP32D / 2.28 / acidic (leucine-rich) nuclear phosphoprotein 32 family, member D / unknown / other
11 / NR_002960 / SNORA20 (includes EG:677806) / 2.21 / small nucleolar RNA, H/ACA box 20 / unknown / other
12 / NR_030377 / MIR647 / 2.19 / microRNA 647 / unknown / microRNA
13 / NR_003051 / RMRP (includes EG:6023) / 2.07 / RNA component of mitochondrial RNA processing endoribonuclease / Cytoplasm / other / Anemia [36]
14 / NM_080746 / RPL10L / 2.01 / ribosomal protein L10-like / Nucleus / other
15 / NR_002984 / SNORA56 / 2.00 / small nucleolar RNA, H/ACA box 56 / unknown / other
16 / NR_024562 / LOC100128675* / 1.98 / hypothetical LOC100128675 / unknown / other
17 / NM_205845 / AKR1C2* / 1.97 / aldo-keto reductase family 1, member C2 (dihydrodiol dehydrogenase 2; bile acid binding protein; 3-alpha hydroxysteroid dehydrogenase, type III) / Cytoplasm / enzyme / Carcinoma, Neoplasms, Obesity, Wounds [37-40]
18 / NM_001818 / AKR1C4 / 1.97 / aldo-keto reductase family 1, member C4 (chlordecone reductase; 3-alpha hydroxysteroid dehydrogenase, type I; dihydrodiol dehydrogenase 4) / Cytoplasm / enzyme / Breast Neoplasms [41]
19 / NR_003938 / SNORD81 / 1.95 / small nucleolar RNA, C/D box 81 / unknown / other
20 / NR_003938 / SNORD81 / 1.95 / small nucleolar RNA, C/D box 81 / unknown / other
DOWN
1 / NR_028373 / RNU6-42 / -2.57 / RNA, U6 small nuclear 42 / unknown / other
2 / NR_002957 / SNORA15 (includes EG:677803) / -2.56 / small nucleolar RNA, H/ACA box 15 / unknown / other
3 / NR_002922 / SNORA13 / -2.56 / small nucleolar RNA, H/ACA box 13 / unknown / other
4 / NR_002752 / RNU6-2 / -2.50 / RNA, U6 small nuclear 2 / Nucleus / other / Non-Small-Cell Lung Carcinoma [42]
5 / NR_004427 / RNU1-2 / -2.47 / RNA, U1 small nuclear 2 / Nucleus / other
6 / NR_030296 / MIR570 / -2.43 / microRNA 570 / unknown / microRNA
7 / NR_003687 / SNORD19B / -2.38 / small nucleolar RNA, C/D box 19B / unknown / other
8 / NR_003041 / SNORD13 (includes EG:692084) / -2.35 / small nucleolar RNA, C/D box 13 / unknown / other
9 / NR_001456 / SNORD38A (includes EG:94162) / -2.33 / small nucleolar RNA, C/D box 38A / unknown / other
10 / NR_004383 / SNAR-G1 / -2.29 / small ILF3/NF90-associated RNA G1 / unknown / other
11 / NR_003026 / SNORA1 / -2.20 / small nucleolar RNA, H/ACA box 1 / unknown / other
12 / NR_002573 / U58 / -2.20 / U58 small nucleolar RNA / unknown / other
13 / NR_031735 / MIR1914 / -2.20 / microRNA 1914 / unknown / microRNA
14 / NR_002591 / SNORD95 (includes EG:619570) / -2.20 / small nucleolar RNA, C/D box 95 / unknown / other
15 / NR_002953 / SNORA11 / -2.10 / small nucleolar RNA, H/ACA box 11 / unknown / other
16 / NR_004391 / RNY1 / -2.09 / RNA, Ro-associated Y1 / unknown / other / Lung Neoplasm, Prostatic Neoplasms [31]
17 / NR_031608 / MIR663B / -2.02 / microRNA 663b / unknown / microRNA
18 / NR_000006 / SNORD21 / -1.98 / small nucleolar RNA, C/D box 21 / unknown / other
19 / NR_031741 / MIR1977 / -1.95 / microRNA 1977 / unknown / other
20 / NR_002575 / SNORA27 / -1.95 / small nucleolar RNA, H/ACA box 27 / unknown / other
Table 3: The 20 most up and down regulated genes in K562 cells treated with hydroxytyrosol at 20 µM
UP / Refseq ID / Gene / Fold change / Description / Location / Family / Disease
1 / NM_019058 / DDIT4 / 13.02 / DNA-damage-inducible transcript 4 / Cytoplasm / other / Carcinoma, Neoplasms [43,44]
2 / NM_001818 / AKR1C4 / 9.38 / aldo-keto reductase family 1, member C4 (chlordecone reductase; 3-alpha hydroxysteroid dehydrogenase, type I; dihydrodiol dehydrogenase 4) / Cytoplasm / enzyme / Breast Neoplasms [41]
3 / NM_205845 / AKR1C2* / 8.78 / aldo-keto reductase family 1, member C2 (dihydrodiol dehydrogenase 2; bile acid binding protein; 3-alpha hydroxysteroid dehydrogenase, type III) / Cytoplasm / enzyme / Carcinoma, Neoplasms, Wounds [37-39]
4 / NM_001353 / AKR1C1 / 8.49 / aldo-keto reductase family 1, member C1 (dihydrodiol dehydrogenase 1; 20-alpha (3-alpha)-hydroxysteroid dehydrogenase) / Cytoplasm / enzyme / Carcinoma, Neoplasms, Obesity [45,46,40]
5 / NM_032621 / BEX2* / 7.42 / brain expressed X-linked 2 / Nucleus / other / Leukaemia, Neoplasms [47,48]
6 / NM_003739 / AKR1C3 / 6.76 / aldo-keto reductase family 1, member C3 (3-alpha hydroxysteroid dehydrogenase, type II) / Cytoplasm / enzyme / Carcinoma, Leukaemia, Neoplasms, Metabolic disorders [49-52]
7 / NM_031479 / INHBE / 6.59 / inhibin, beta E / Extracellular Space / growth factor
8 / NM_014331 / SLC7A11 / 6.27 / solute carrier family 7, (cationic amino acid transporter, y+ system) member 11 / Plasma Membrane / transporter
9 / NR_004424 / RNU1-7 / 5.62 / RNA, U1 small nuclear 7 / unknown / other / Pancreatic ductal carcinoma [53]
10 / NM_006623 / PHGDH / 5.35 / phosphoglycerate dehydrogenase / Cytoplasm / enzyme / Tubercolosis [54]
11 / NM_031459 / SESN2 / 5.30 / sestrin 2 / Cytoplasm / other / Breast Neoplasms [55]
12 / NM_002089 / CXCL2 / 5.23 / chemokine (C-X-C motif) ligand 2 / Extracellular Space / cytokine / Neoplasms, Metastasis [56,57]
13 / NM_004864 / GDF15 / 5.14 / growth differentiation factor 15 / Extracellular Space / growth factor / Carcinoma, DNA damage [8,9]
14 / NR_004402 / RNU1-8 / 5.11 / RNA, U1 small nuclear 8 / unknown / other
15 / NM_052966 / FAM129A / 4.98 / family with sequence similarity 129, member A / unknown / other / Neoplasms [58]
16 / NM_001902 / CTH* / 4.88 / cystathionase (cystathionine gamma-lyase) / Cytoplasm / enzyme / Hypertension [59]
17 / NM_002966 / S100A10 / 4.84 / S100 calcium binding protein A10 / Cytoplasm / other
18 / NM_002090 / CXCL3 / 4.66 / chemokine (C-X-C motif) ligand 3 / Extracellular Space / cytokine
19 / NR_031671 / MIR1267 / 4.60 / microRNA 1267 / unknown / microRNA
20 / NM_000584 / IL8 / 4.56 / interleukin 8 / Extracellular Space / cytokine
DOWN
1 / NM_021066 / HIST1H2AJ / -3.65 / histone cluster 1, H2aj / Nucleus / other / Major Depressive Disorder [60]
2 / NM_001130964 / PLCD1* / -3.15 / phospholipase C, delta 1 / Cytoplasm / enzyme / Carcinoma, Neoplasms, Bipolar disorder [61-63]
3 / NM_004925 / AQP3 / -2.99 / aquaporin 3 (Gill blood group) / Plasma Membrane / transporter / Carcinoma, Neoplasms Inflammation [64,65]
4 / NR_031706 / MIR1306 (includes EG:100302197) / -2.94 / microRNA 1306 / unknown / microRNA
5 / NM_001885 / CRYAB / -2.81 / crystallin, alpha B / Nucleus / other / Carcinoma, Neoplasms, Dilated Cardiomyopathy [66-68]
6 / NR_029683 / MIR142 (includes EG:406934) / -2.80 / microRNA 142 / unknown / microRNA
7 / NM_033334 / NR6A1* / -2.79 / nuclear receptor subfamily 6, group A, member 1 / Nucleus / ligand-dependent nuclear receptor / Choriocarcinoma [69]
8 / NM_015086 / DDN / -2.77 / dendrin / Plasma Membrane / other / Nephrotic Syndrome [70]
9 / NM_001010865 / EME2 / -2.76 / essential meiotic endonuclease 1 homolog 2 (S. pombe) / unknown / other / Colorectal Neoplasms [71]
10 / NR_001453 / SNORD14C / -2.72 / small nucleolar RNA, C/D box 14C / unknown / other
11 / NM_001018016 / MUC1* / -2.72 / mucin 1, cell surface associated / Plasma Membrane / other / Carcinoma, DNA damage, Inflammation, Wounds [72-75]
12 / NR_003703 / SCARNA27 / -2.69 / small Cajal body-specific RNA 27 / unknown / other
13 / NR_027709 / C10ORF110* / -2.69 / chromosome 10 open reading frame 110 / unknown / other
14 / NR_004383 / SNAR-G1 / -2.67 / small ILF3/NF90-associated RNA G1 / unknown / other
15 / NM_004104 / FASN / -2.63 / fatty acid synthase / Cytoplasm / enzyme / DNA Damage Carcinoma, Neoplasms, Obesity [76-79]
16 / NM_001142621 / TGFBRAP1* / -2.62 / transforming growth factor, beta receptor associated protein 1 / Cytoplasm / other / Chronic Hepatitis C [80]
17 / NR_002560 / SNORD31 / -2.61 / small nucleolar RNA, C/D box 31 / unknown / other
18 / NR_028373 / RNU6-42 / -2.53 / RNA, U6 small nuclear 42 / unknown / other
19 / NM_001927 / DES / -2.52 / desmin / Cytoplasm / other / Neoplasms, Cardiomyopathies [81,82]
20 / NR_002963 / SNORA24 (includes EG:677809) / -2.52 / small nucleolar RNA, H/ACA box 24 / unknown / other

References

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