Clone IDa | Reference Sequence No. (mRNA)b | Gene (mRNA)b | Rankc | AcH4 ChIPd NB4 | AcH4 ChIPd PBL | AcH4 Change after ATRA in NB4e |
---|---|---|---|---|---|---|
BF.27.G7 | NM_000965 | RARB | 1 | 0 | 0 | ++ |
BF.7.C6 | NM_020654 | SENP7 | 1 | + | ++ | ++ |
BF.15.F12 | NM_006627 | POP4 | 1 | (+) | ++ | ++ |
BF.1.E11 | NM_016474 | LOC51244 | 1 | + | ++ | ++ |
SC.15.D4 | NM_006812 | OS-9 | 1 | (+) | ++ | ++ |
BF.41.B6 | NM_019592 | RNF20 | 1 | n.d. | ++ | ++ |
SC.11.H2 | NM_024745 | SHCBP1 | 1 | 0 | 0 | ++ |
BF.53.E12 | NM_004871 | GOSR1 | 1 | ++ | ++ | ++ |
BF.25.G10 | NM_006299 | ZNF193 | 1 | (+) | ++ | ++ |
BF.25.G12 | NM_014060 | MCT-1 | 1 | n.d. | ++ | ++ |
BF.16.F5 | NM_006837 | COPS5 | 1 | 0 | ++ | ++ |
SC.1.A6 | NM_033028 | BBS4 | 1 | + | ++ | ++ |
BF.20.B5 | NM_016221 | DCTN4 | 1 | + | ++ | ++ |
BF.10.B2 | NM_024544 | FLJ12875 | 1 | n.d. | ++ | ++ |
BF.46.C1 | NM_004436 | ENSA | 1 | (+) | ++ | ++ |
BF.13.G8 | (BC006361) | (BC006361) | 1 | ++ | ++ | ++ |
SC.13.D7 | NM_144997 | BHD | 1 | (+) | ++ | ++ |
BF.13.D9 | NM_080668; NM_006782 | MGC16386; ZFPL1 | 1 | + | ++ | ++ |
BF.52.E9 | NM_012432 | SETDB1 | 1 | + | ++ | ++ |
BF.28.H9 | (AL050047) | (AL050047) | 1 | + | ++ | ++ |
BF.8.B1 | NM_032870 | DKFZp564B0769 | 1 | + | ++ | ++ |
SC.5.H5 | NM_006354; NM_05718 | TADA3L; ARPC4 | 1 | 0 | + | ++ |
BF.47.C5 | NM_018294 | FLJ10998 | 1 | + | ++ | ++ |
BF.30.D1 | (AK054753); (BC033454) | (AK054753); (BC033454) | 1 | (+) | ++ | ++ |
SC.3.D5 | NM_001161 | NUDT2 | 1 | (+) | n.d. | ++ |
SC.13.A1 | NM_004114 | FGF13 | 1 | 0 | 0 | ++ |
BF.47.C2 | NM_013451 | FER1L3 | 1 | n.d. | n.d. | ++ |
BF.25.D5 | NM_003860; NM_032325 | BCRP1; MGC11102 | 1 | 0 | ++ | ++ |
BF.17.C8 | NM_015509 | DKFZP566B183 | 1 | n.d. | + | ++ |
BF.6.H2 | NM_032986 | SEC23B | 1 | 0 | ++ | ++ |
BF.43.A9 | NM_003545 | H4FJ | 1 | + | ++ | ++ |
BF.25.H8 | NM_018433 | TSGA | 1 | n.d. | (+) | ++ |
BF.31.H12 | NM_003366 | UQCRC2 | 1 | + | ++ | ++ |
BF.50.A7 | NM_014396 | VPS41 | 1 | n.d. | + | ++ |
SC.7.C8 | N_152316 | FLJ38968 | 1 | + | ++ | ++ |
BF.9.H10 | NM_012091 | ADAT1 | 1 | n.d. | (+) | ++ |
SC.9.B12 | NM_013360 | ZNF222 | 1 | + | ++ | ++ |
BF.26.C3 | NM_004259 | RECQL5 | 1 | n.d. | ++ | ++ |
BF.5.E1 | NM_174916 | UBR1 | 1 | (+) | ++ | ++ |
BF.21.E3 | NM_145808 | V-1 | 1 | (+) | ++ | ++ |
BF.7.C7 | NM_017774 | FLJ20342 | 1 | (+) | ++ | ++ |
BF.47.A2 | NM_080598 | BAT1 | 1 | ++ | ++ | ++ |
BF.27.A11 | (BC010181); NM_138381 | (BC010181); MGC15763 | 1 | 0 | ++ | ++ |
BF.25.C3 | NM_152281 | FLJ11752 | 1 | (+) | ++ | ++ |
SC.3.B11 | (AK091554) | (AK091554) | 1 | 0 | ++ | ++ |
BF.31.F2 | NM_032998 | DEDD | 1 | 0 | ++ | ++ |
BF.27.H9 | NM_021210; (AF331638) | MUM2; (AF331638) | 1 | ++ | ++ | ++ |
BF.4.H9 | NM_015416 | DKFZP586A011 | 1 | (+) | ++ | ++ |
BF.50.B6 | NM_015847 | MBD1 | 1 | + | ++ | ++ |
BF.2.F11 | (BC035870) | (BC035870) | 1 | 0 | n.d. | ++ |
BF.37.H3 | NM_033109 | OLD35 | 1 | n.d. | + | ++ |
BF.1.E6 | NM_002907; NM_016072 | RECQL; CGI-141 | 1 | 0 | ++ | ++ |
SC.13.G3 | NM_016291 | IP6K2 | 1 | ++ | ++ | ++ |
BF.10.A3 | NM_153485 | NUP155 | 1 | ++ | ++ | ++ |
SC.1.B1 | NM_153825 | SLA/LP | 1 | + | + | ++ |
BF.23.H9 | NM_005857 | ZMPSTE24 | 1 | (+) | ++ | ++ |
BF.43.D9 | NM_020963 | MOV10 | 1 | (+) | ++ | ++ |
BF.8.D11 | NM_001240 | CCNT1 | 1 | n.d. | ++ | ++ |
SC.2.D12 | NM_020647 | JPH1 | 1 | (+) | + | ++ |
BF.51.H4 | NM_005119 | TRAP150 | 1 | (+) | ++ | ++ |
BF.2.C1 | (BC006981); NM_018392 | (BC006981); FLJ11331 | 1 | n.d. | ++ | ++ |
BF.25.D8 | NM_025115 | FLJ23263 | 1 | n.d. | n.d. | ++ |
BF.37.H6 | NM_014065; NM_024800 | HT001; NEK11 | 1 | + | ++ | ++ |
BF.29.B12 | (AI858053) | (AI858053) | 1 | n.d. | ++ | ++ |
BF.13.B1 | NM_003171 | SUPV3L1 | 1 | (+) | + | ++ |
BF.3.A3 | NM_004954 | MARK2 | 1 | 0 | + | ++ |
BF.1.C10 | NM_032986 | SEC23B | 1 | (+) | ++ | ++ |
BF.9.A4 | NM_032141 | DKFZP434K1421 | 1 | 0 | ++ | ++ |
BF.38.H9 | (BC038401) | (BC038401) | 1 | + | ++ | ++ |
BF.28.G11 | NM_006503 | PSMC4 | 1 | 0 | ++ | ++ |
BF.35.E2 | NM_023012; NM_014708 | FLJ11021; KNTC1 | 1 | + | ++ | ++ |
BF.46.A3 | NM_002907; NM_016072 | RECQL;CGI-141 | 1 | (+) | ++ | ++ |
BF.50.E6 | NM_004786 | TXNL | 1 | (+) | ++ | ++ |
BF.29.B2 | NM_004890; NM_015099 | SPAG7; CAMTA2 | 1 | n.d. | (+) | ++ |
BF.54.A1 | NM_006811 | TDE1 | 1 | n.d. | + | ++ |
SC.1.D12 | NM_006965 | ZNF24 | 1 | + | ++ | ++ |
BF.12.F11 | NM_024784 | FLJ223392 | 1 | (+) | + | ++ |
BF.40.B2 | (AB018313) | (AB018313) | 1 | (+) | ++ | ++ |
BF.41.G8 | NM_006367 | CAP | 1 | 0 | ++ | ++ |
SC.7.A10 | NM_002904; NM_006929 | RDBP; SKIV2L | 1 | (+) | ++ | ++ |
SC.11.C4 | NM_016100 | NAT5 | 1 | + | ++ | ++ |
BF.53.C4 | NM_013330; NM_003666 | NME7; BLZF1 | 1 | 0 | ++ | ++ |
BF.36.E2 | NM_018993 | RIN2 | 1 | n.d. | (+) | ++ |
BF.31.G5 | NM_005830 | MRPS31 | 1 | + | ++ | ++ |
BF.19.D6 | NM_002437 | MPV17 | 1 | n.d. | + | ++ |
BF.7.C11 | NM_002791 | PSMA6 | 1 | (+) | + | ++ |
BF.26.H1 | NM_004287 | GOSR2 | 1 | + | ++ | ++ |
BF.34.E12 | NM_007217; NM_005025 | PDCD10; SERPINI1 | 1 | (+) | ++ | ++ |
BF.3.A9 | NM_005000 | NDUFA5 | 1 | (+) | ++ | ++ |
BF.8.G8 | NM_003528; NM_003517 | H2BFQ; H2AFQ | 1 | 0 | ++ | ++ |
SC.11.E9 | NM_004270 | CRSP9 | 1 | + | ++ | ++ |
SC.12.G12 | NM_024033 | MGC5242 | 1 | n.d. | n.d. | ++ |
BF.50.B4 | NM_018035 | FLJ10241 | 1 | n.d. | + | ++ |
BF.43.B2 | NM_017917 | C14orf10 | 1 | + | ++ | ++ |
BF.2.C11 | NM_022917 | NOL6 | 1 | 0 | ++ | ++ |
BF.32.D8 | NM_014046 | MRPS18B | 1 | n.d. | (+) | ++ |
BF.9.E2 | NM_015453 | DKFZP434F091 | 1 | (+) | ++ | ++ |
BF.39.B2 | NM_015497 | DKFZP564G2022 | 1 | (+) | + | ++ |
BF.22.A1 | NM_015626 | WSB1 | 1 | + | ++ | ++ |
BF.25.G4 | NM_014142; NM_006023 | NUDT5; C10orf7 | 1 | 0 | ++ | ++ |
BF.5.D6 | NM_015412 | DKFZP434F2021 | 1 | (+) | + | ++ |
BF.20.F7 | NM_014043 | DKFZP564O123 | 1 | (+) | ++ | ++ |
SC.3.H4 | NM_022911 | SLC26A6 | 1 | ++ | + | ++ |
SC.1.C4 | NM_002552 | ORC4L | 1 | n.d. | ++ | ++ |
BF.20.H12 | NM_176812 | C20orf178 | 1 | n.d. | (+) | ++ |
BF.46.E2 | NM_021237 | SELK | 1 | n.d. | ++ | ++ |
BF.21.H10 | NM_133370 | KIAA1966 | 1 | n.d. | ++ | ++ |
BF.53.B4 | NM_003664 | AP3B1 | 1 | (+) | ++ | ++ |
BF.38.H11 | NM_003756 | EIF3S3 | 1 | n.d. | ++ | ++ |
BF.34.H10 | NM_004487 | GOLGB1 | 1 | n.d. | + | ++ |
BF.18.C12 | NM_005131 | THOC1 | 1 | ++ | ++ | ++ |
BF.20.E7 | (BE731865) | (BE731865) | 2 | ++ | ++ | ++ |
BF.35.G10 | NM_002110 | HCK | 2 | n.d. | + | ++ |
SC.15.D6 | (AA047509) | (AA047509) | 2 | 0 | ++ | ++ |
BF.47.B3 | NM_001983 | ERCC1 | 2 | n.d. | n.d. | ++ |
BF.17.B7 | NM_005522 | HOXA1 | 2 | n.d. | n.d. | ++ |
BF.36.H12 | NM_007367 | RALY | 2 | (+) | + | ++ |
BF.39.C2 | (AI792049) | (AI792049) | 2 | + | ++ | ++ |
BF.47.B12 | (BQ642510) | (BQ642510) | 2 | n.d. | n.d. | ++ |
BF.32.H1 | (BE730036) | (BE730036) | 2 | + | ++ | ++ |
BF.35.E1 | NM_001294 | CLPTM1 | 2 | n.d. | ++ | ++ |
BF.40.D3 | (AK057799) | (AK057799) | 2 | n.d. | n.d. | ++ |
BF.21.G6 | NM_006021 | DLEU2 | 2 | (+) | + | ++ |
BF.47.C4 | NM_003517 | H2AFQ | 2 | + | ++ | ++ |
BF.8.G6 | NM_007043 | HRB2 | 2 | n.d. | + | ++ |
BF.29.A7 | NM_024667 | FLJ12750 | 2 | ++ | ++ | ++ |
BF.40.A10 | NM_002788 | PSMA3 | 2 | (+) | (+) | ++ |
BF.34.E6 | (AB028987) | (AB028987) | 2 | ++ | ++ | ++ |
BF.6.G5 | (BC038401) | (BC038401) | 2 | + | ++ | ++ |
BF.31.E1 | NM_032236 | FLJ23277 | 2 | + | ++ | ++ |
BF.43.D4 | (BC026108) | (BC026108) | 2 | (+) | ++ | ++ |
BF.52.D7 | (BQ224764) | (BQ224764) | 2 | (+) | ++ | ++ |
n.d., no data available; PBL, peripheral blood lymphocyte.
↵ a Clone ID as it appears in CpG island database.
↵ b Reference sequence of gene(s) closely associated with analyzed clone.
↵ c Rank based on clone's position with respect to the associated gene TS: rank 1 clones are within 500 bp of TS; rank 2 clones are within 1000 bp of TS.
↵ d Histone 4 (H4) acetylation stage in a genome based on AcH4ChIP/IP ratio: ++, high acetylation (ratio > 2); +, medium acetylation (ratio 2-1.5); (+), low (ratio 1.5-1.25); 0, acetylation does not over-reach average acetylation of Alu repeats.
↵ e Change of H4 acetylation after treatment of NB4 cells with ATRA based on NB4ATRA AcH4ChIP/ NB4 AcH4ChIP ratio: ++, high increase (ratio > 1.5).