Table 2.
Gene targets methylated in 77% or more of primary SCLCs.
| chr | start.peak | end.peak | hgnc_symbol | description |
|---|---|---|---|---|
| 6 | 27647872 | 27648246 | ||
| 1 | 91189238 | 91189687 | BARHL2 | BarH-like homeobox 2 [Source:HGNC Symbol;Acc:954] |
| 10 | 124901911 | 124902685 | HMX2 | H6 family homeobox 2 [Source:HGNC Symbol;Acc:5018] |
| 15 | 53087134 | 53087683 | ONECUT1 | one cut homeobox 1 [Source:HGNC Symbol;Acc:8138] |
| 9 | 100611180 | 100611554 | FOXE1 | forkhead box E1 (thyroid transcription factor 2) [Source:HGNC Symbol;Acc:3806] |
| 17 | 59529794 | 59530268 | TBX4 | T-box 4 [Source:HGNC Symbol;Acc:11603] |
| 1 | 214153078 | 214153777 | PROX1 | prospero homeobox 1 [Source:HGNC Symbol;Acc:9459] |
| 14 | 95239173 | 95240547 | GSC | goosecoid homeobox [Source:HGNC Symbol;Acc:4612] |
| 21 | 38068981 | 38069055 | SIM2 | single-minded homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:10883] |
| 6 | 117584283 | 117584857 | VGLL2 | vestigial like 2 (Drosophila) [Source:HGNC Symbol;Acc:20232] |
| 14 | 37124350 | 37124799 | PAX9 | paired box 9 [Source:HGNC Symbol;Acc:8623] |
| 2 | 177004205 | 177004604 | ||
| 14 | 36991675 | 36992549 | NKX2-1 | NK2 homeobox 1 [Source:HGNC Symbol;Acc:11825] |
| 1 | 197879403 | 197880252 | LHX9 | LIM homeobox 9 [Source:HGNC Symbol;Acc:14222] |
| 11 | 32455050 | 32455624 | WT1-AS | WT1 antisense RNA (non-protein coding) [Source:HGNC Symbol;Acc:18135] |
| 13 | 112719925 | 112720174 | SOX1 | SRY (sex determining region Y)-box 1 [Source:HGNC Symbol;Acc:11189] |
| 21 | 38069706 | 38069780 | SIM2 | single-minded homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:10883] |
| 2 | 176956605 | 176956754 | HOXD13 | homeobox D13 [Source:HGNC Symbol;Acc:5136] |
| 9 | 129566330 | 129566704 | ZBTB43 | zinc finger and BTB domain containing 43 [Source:HGNC Symbol;Acc:17908] |
| 3 | 172167182 | 172167256 | GHSR | growth hormone secretagogue receptor [Source:HGNC Symbol;Acc:4267] |
| 1 | 230777303 | 230777452 | COG2 | component of oligomeric golgi complex 2 [Source:HGNC Symbol;Acc:6546] |
| 3 | 27765097 | 27765996 | EOMES | eomesodermin [Source:HGNC Symbol;Acc:3372] |
| 20 | 30639265 | 30639939 | HCK | hemopoietic cell kinase [Source:HGNC Symbol;Acc:4840] |
| 3 | 183274057 | 183274331 | KLHL6 | kelch-like 6 (Drosophila) [Source:HGNC Symbol;Acc:18653] |
| 12 | 114846668 | 114847217 | TBX5 | T-box 5 [Source:HGNC Symbol;Acc:11604] |
| 4 | 122685401 | 122685475 | Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E7ENT1] | |
| 2 | 182547581 | 182547655 | ||
| 20 | 44880344 | 44880693 | CDH22 | cadherin 22, type 2 [Source:HGNC Symbol;Acc:13251] |
| 9 | 21402751 | 21403100 | IFNA12P | interferon, alpha 12, pseudogene [Source:HGNC Symbol;Acc:5443] |
| 7 | 97360940 | 97362189 | TAC1 | tachykinin, precursor 1 [Source:HGNC Symbol;Acc:11517] |
| 2 | 223162732 | 223163206 | CCDC140 | coiled-coil domain containing 140 [Source:HGNC Symbol;Acc:26514] |
| 7 | 129422815 | 129423514 | ||
| 2 | 192711381 | 192711755 | ||
| 6 | 27107272 | 27107346 | HIST1H4I | histone cluster 1, H4i [Source:HGNC Symbol;Acc:4793] |
| 2 | 176969205 | 176970504 | HOXD11 | homeobox D11 [Source:HGNC Symbol;Acc:5134] |
| 19 | 9608951 | 9609250 | ZNF560 | zinc finger protein 560 [Source:HGNC Symbol;Acc:26484] |
| 7 | 27282651 | 27282900 | EVX1 | even-skipped homeobox 1 [Source:HGNC Symbol;Acc:3506] |
| 2 | 223163332 | 223163406 | PAX3 | paired box 3 [Source:HGNC Symbol;Acc:8617] |
| 7 | 27282951 | 27283025 | EVX1 | even-skipped homeobox 1 [Source:HGNC Symbol;Acc:3506] |
| 7 | 8474326 | 8475225 | NXPH1 | neurexophilin 1 [Source:HGNC Symbol;Acc:20693] |
| 4 | 174452351 | 174452925 | Nbla00301 (NBLA00301), non-coding RNA [Source:RefSeq DNA;Acc:NR_003679] | |
| 4 | 13545178 | 13545427 | NKX3-2 | NK3 homeobox 2 [Source:HGNC Symbol;Acc:951] |
| X | 111325120 | 111325194 | TRPC5 | transient receptor potential cation channel, subfamily C, member 5 [Source:HGNC Symbol;Acc:12337] |
| 6 | 100911555 | 100911904 | SIM1 | single-minded homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:10882] |
| 14 | 29243250 | 29243899 | C14orf23 | chromosome 14 open reading frame 23 [Source:HGNC Symbol;Acc:19828] |
| 5 | 172660770 | 172660844 | NKX2-5 | NK2 transcription factor related, locus 5 (Drosophila) [Source:HGNC Symbol;Acc:2488] |
| 2 | 220196257 | 220197006 | RESP18 | regulated endocrine-specific protein 18 homolog (rat) [Source:HGNC Symbol;Acc:33762] |
| 9 | 126776030 | 126776479 | LHX2 | LIM homeobox 2 [Source:HGNC Symbol;Acc:6594] |
| 1 | 165323302 | 165323951 | LMX1A | LIM homeobox transcription factor 1, alpha [Source:HGNC Symbol;Acc:6653] |
| 2 | 119603031 | 119603180 | EN1 | engrailed homeobox 1 [Source:HGNC Symbol;Acc:3342] |
| 12 | 63543634 | 63544008 | AVPR1A | arginine vasopressin receptor 1A [Source:HGNC Symbol;Acc:895] |
| 8 | 97170050 | 97170499 | GDF6 | growth differentiation factor 6 [Source:HGNC Symbol;Acc:4221] |
| 1 | 47694839 | 47695213 | TAL1 | T-cell acute lymphocytic leukemia 1 [Source:HGNC Symbol;Acc:11556] |
| 13 | 84453425 | 84453824 | SLITRK1 | SLIT and NTRK-like family, member 1 [Source:HGNC Symbol;Acc:20297] |
| 4 | 174448251 | 174448725 | HAND2 | heart and neural crest derivatives expressed 2 [Source:HGNC Symbol;Acc:4808] |
| 2 | 176977280 | 176977729 | HOXD10 | homeobox D10 [Source:HGNC Symbol;Acc:5133] |
| 5 | 37835994 | 37836168 | GDNF | glial cell derived neurotrophic factor [Source:HGNC Symbol;Acc:4232] |
| 9 | 37029751 | 37030525 | PAX5 | paired box 5 [Source:HGNC Symbol;Acc:8619] |
| 14 | 29247325 | 29247499 | C14orf23 | chromosome 14 open reading frame 23 [Source:HGNC Symbol;Acc:19828] |
| 7 | 8483051 | 8483825 | NXPH1 | neurexophilin 1 [Source:HGNC Symbol;Acc:20693] |
| 6 | 154360508 | 154360857 | OPRM1 | opioid receptor, mu 1 [Source:HGNC Symbol;Acc:8156] |
| 20 | 58569381 | 58569455 | CDH26 | cadherin 26 [Source:HGNC Symbol;Acc:15902] |
| 9 | 21968201 | 21968875 | C9orf53 | chromosome 9 open reading frame 53 [Source:HGNC Symbol;Acc:23831] |
| 16 | 49311725 | 49312274 | CBLN1 | cerebellin 1 precursor [Source:HGNC Symbol;Acc:1543] |
| 8 | 9756191 | 9756540 | MIR124-1 | microRNA 124-1 [Source:HGNC Symbol;Acc:31502] |
| 5 | 170741921 | 170741995 | TLX3 | T-cell leukemia homeobox 3 [Source:HGNC Symbol;Acc:13532] |
| 20 | 21488326 | 21488925 | NKX2-2 | NK2 homeobox 2 [Source:HGNC Symbol;Acc:7835] |
| 5 | 170743496 | 170744170 | TLX3 | T-cell leukemia homeobox 3 [Source:HGNC Symbol;Acc:13532] |
| 5 | 172672295 | 172672844 | Y RNA [Source:RFAM;Acc:RF00019] | |
| 2 | 177027180 | 177027529 | HOXD4 | homeobox D4 [Source:HGNC Symbol;Acc:5138] |
| 4 | 85402627 | 85403376 | NKX6-1 | NK6 homeobox 1 [Source:HGNC Symbol;Acc:7839] |
| 15 | 96911497 | 96912071 | MIR1469 | microRNA 1469 [Source:HGNC Symbol;Acc:35378] |
| 15 | 89949372 | 89949871 | MIR9-3 | microRNA 9-3 [Source:HGNC Symbol;Acc:31646] |
| 3 | 50377447 | 50378846 | RASSF1A (*) | Ras association (RalGDS/AF-6) domain family member 1 [Source:HGNC Symbol;Acc:9882] |
(*)
indicates a previously validated gene with a lower threshold for normal tissues than used for the other regions.