Table 1. Genomic gains and losses of genes in the leukocyte genome.
| Gene | Chromosome | Ref.seq | Start | End | Gene size(kb) | Train start | Train end | Frequency (%) | Gene Location | Gain or loss |
|---|---|---|---|---|---|---|---|---|---|---|
| FAM72B | 1 | NM_001100910 | 120279658 | 143991624 | 23711966 | 120640527 | 120657204 | 60 | 1p11.2 | Gain |
| MAST2 | 1 | NM_015112 | 46051093 | 46114083 | 62990 | 46041871 | 46274383 | 60 | 1p34.1 | Loss |
| NBPF15 | 1 | NM_173638 | 146330841 | 148150199 | 1819358 | 146827613 | 146862782 | 60 | 1q21.2 | Gain |
| NBPF16 | 1 | NM_001102663 | 146330841 | 148150199 | 1819358 | 146843980 | 146862891 | 60 | 1q21.2 | Gain |
| NBPF20 | 1 | NM_001037675 | 120279658 | 143991624 | 23711966 | 143326315 | 143540167 | 60 | 1q21.2 | Gain |
| POTEB | 15 | NM_207355 | 18304999 | 20124999 | 1820000 | 19305252 | 19336667 | 50 | 15q26.3 | Gain |
| PPIAL4A | 1 | NM_178230 | 146330841 | 148150199 | 1819358 | 147819626 | 147820286 | 60 | 1q21.1 | Gain |
| PPIAL4E | 1 | NM_001144032 | 146330841 | 148150199 | 1819358 | 146910634 | 146911417 | 60 | 1q21.2 | Gain |
| BCL8 | 15 | NR_027992 | 18304660 | 20080292 | 1775632 | 19134810 | 19221496 | 40 | 15q11.2 | Gain |
| FAM138A | 1 | NR_026818 | 20214 | 239271 | 219057 | 27220 | 28690 | 50 | 1p36.33 | Gain |
| FAM138C | 9 | NR_026822 | 20214 | 239271 | 219057 | 27220 | 28690 | 50 | 9p24.3 | Gain |
| FAM138F | 19 | NR_026820 | 20214 | 239271 | 219057 | 27220 | 28690 | 50 | 19p13.3 | Gain |
| FAM66A | 8 | NR_026789 | 11874577 | 12618127 | 743550 | 12263898 | 12312881 | 40 | 8p23.1 | Gain |
| FAM66E | 8 | NR_027424 | 7169866 | 7903147 | 733281 | 7849944 | 7903687 | 40 | 8p23.1 | Gain |
| FLJ45445 | 7 | NR_028324 | 20214 | 239271 | 219057 | 148015 | 153209 | 50 | 7q32.1 | Loss |
| LOC 100132602 | 14 | NR_028325 | 30634 | 765731 | 735097 | 313754 | 318443 | 60 | 14q11.1 | Gain |
| LOC 100133331 | 1 | NR_028327 | 30634 | 717252 | 686618 | 651002 | 655594 | 60 | 1p36.33 | Gain |
| LOC 727924 | 15 | NR_015416 | 18304660 | 20080292 | 1775632 | 19779395 | 19872450 | 40 | 15q11.2 | Loss |
| *MIR1977 | 1 | NR_031741 | 30634 | 717252 | 686618 | 556050 | 556128 | 60 | MT | Loss |
| CXADRP2 | 15 | NR_024387 | 18304999 | 20124999 | 1820000 | 19267798 | 19270255 | 50 | 15q11.2 | Gain |
| GOLGA8C | 15 | NR_027411 | 18304999 | 20124999 | 1820000 | 19027687 | 19041040 | 50 | 15q11.2 | Loss |
| LOC 646214 | 15 | NR_027053 | 18304999 | 20124999 | 1820000 | 19185890 | 19194116 | 50 | 15q11.2 | Gain |
| NF1P1 | 15 | NR_028506 | 18304999 | 20124999 | 1820000 | 19386652 | 19399284 | 50 | 15q11.2 | Gain |
| OR4N3P | 15 | NR_028067 | 18304999 | 20124999 | 1820000 | 19914825 | 19915757 | 50 | 15q11.2 | Gain |
| ZNF658B | 9 | NR_027861 | 38751600 | 70210086 | 31458486 | 39433819 | 39437188 | 40 | 9p12 | Gain |
| GOLGA6L6 | 15 | NM_001145004 | 18304999 | 20124999 | 1820000 | 18997107 | 19007128 | 50 | 15q11.2 | Loss |
| FAM90A7 | 8 | NM_001136572 | 7244999 | 7804999 | 560000 | 7401070 | 7404644 | 40 | 8p23.1 | Gain |
| DEFB103A | 8 | NM_018661 | 7244999 | 7804999 | 560000 | 7273825 | 7275092 | 40 | 8p23.1 | Gain |
| DEFB103B | 8 | NM_001081551 | 7244999 | 7804999 | 560000 | 7273900 | 7275280 | 40 | 8p23.1 | Gain |
| DEFB104A | 8 | NM_080389 | 7244999 | 7804999 | 560000 | 7315239 | 7320014 | 40 | 8p23.1 | Gain |
| DEFB104B | 8 | NM_001040702 | 7244999 | 7804999 | 560000 | 7315239 | 7320014 | 40 | 8p23.1 | Gain |
| DEFB105A | 8 | NM_152250 | 7244999 | 7804999 | 560000 | 7716939 | 7718770 | 40 | 8p23.1 | Gain |
| DEFB105B | 8 | NM_001040703 | 7244999 | 7804999 | 560000 | 7716939 | 7718770 | 40 | 8p23.1 | Gain |
| DEFB106A | 8 | NM_152251 | 7244999 | 7804999 | 560000 | 7327435 | 7331319 | 40 | 8p23.1 | Gain |
| DEFB106B | 8 | NM_001040704 | 7244999 | 7804999 | 560000 | 7327435 | 7331319 | 40 | 8p23.1 | Gain |
| DEFB107A | 8 | NM_001037668 | 7244999 | 7804999 | 560000 | 7706651 | 7710648 | 40 | 8p23.1 | Gain |
| DEFB107B | 8 | NM_001040705 | 7244999 | 7804999 | 560000 | 7706651 | 7710648 | 40 | 8p23.1 | Gain |
| SPAG11B | 8 | NM_058202 | 7244999 | 7804999 | 560000 | 7292685 | 7308602 | 40 | 8p23.1 | Loss |
| OR4F16 | 1 | NM_001005484 | 34999 | 524999 | 490000 | 58953 | 59871 | 40 | 1p36.33 | Gain |
| OR4F17 | 19 | NM_001005240 | 34999 | 174999 | 140000 | 61678 | 62596 | 90 | 19p13.3 | Gain |
| OR4F29 | 1 | NM_001005221 | 34999 | 524999 | 490000 | 357521 | 358460 | 40 | 1p36.33 | Gain |
| OR4F3 | 5 | NM_001005224 | 34999 | 524999 | 490000 | 357521 | 358460 | 90 | 5q35.3 | Gain |
| OR4F5 | 1 | NM_001005277 | 34999 | 524999 | 490000 | 357521 | 358460 | 40 | 1p36.33 | Gain |
| OR4N4 | 15 | NM_001005241 | 18304999 | 20124999 | 1820000 | 19883836 | 19884787 | 50 | 15q11.2 | Gain |
| OR4M2 | 15 | NM_001004719 | 18304999 | 20124999 | 1820000 | 19869939 | 19870881 | 50 | 15q11.2 | Gain |
| SEC22B | 1 | NM_004892 | 120279658 | 143991624 | 23711966 | 143807763 | 143828279 | 60 | 1q21.1 | Loss |
| BOLA1 | 1 | NM_016074 | 146330841 | 148150199 | 1819358 | 148137778 | 148138971 | 60 | 1q21 | Gain |
| FAM75A5 | 9 | NM_001113541 | 38751600 | 70210086 | 31458486 | 41311106 | 41317364 | 40 | 9p12 | Loss |
| FAM75A7 | 9 | NM_015667 | 38751600 | 70210086 | 31458486 | 41311109 | 41317364 | 40 | 9q12 | Loss |
| HIST2H2AA3 | 1 | NM_003516 | 146330841 | 148150199 | 1819358 | 148089251 | 148089785 | 60 | 1q21.2 | Gain |
| HIST2H2AA4 | 1 | NM_001040874 | 146330841 | 148150199 | 1819358 | 148089251 | 148089785 | 60 | 1q21.2 | Gain |
| HIST2H2AC | 1 | NM_003517 | 146330841 | 148150199 | 1819358 | 148125148 | 148125585 | 60 | 1q21.2 | Gain |
| HIST2H3A | 1 | NM_001005464 | 146330841 | 148150199 | 1819358 | 148090804 | 148091311 | 60 | 1q21.2 | Gain |
| HIST2H3C | 1 | NM_021059 | 146330841 | 148150199 | 1819358 | 148090804 | 148091311 | 60 | 1q21.2 | Gain |
| HIST2H4A | 1 | NM_003548 | 146330841 | 148150199 | 1819358 | 148070844 | 148071240 | 60 | 1q21.2 | Gain |
| HIST2H4B | 1 | NM_001034077 | 146330841 | 148150199 | 1819358 | 148070844 | 148071240 | 60 | 1q21.2 | Gain |
| FAM66D | 8 | NR_027425 | 11874577 | 12618127 | 743550 | 12010699 | 12046107 | 40 | 8p23.1 | Loss |
| GTF2H2D | 5 | NM_001042490 | 68914999 | 70664999 | 1750000 | 68891829 | 68924108 | 40 | 5q13.2 | Loss |
| GTF2H2C | 5 | NM_001098728 | 68914999 | 70664999 | 1750000 | 68891806 | 68924485 | 40 | 5q13.2 | Loss |
| GTF2H2B | 5 | NM_001098729 | 68914999 | 70664999 | 1750000 | 68891824 | 68924485 | 40 | 5q13.2 | Loss |
| TP53TG3B | 16 | NM_001099687 | 32444999 | 32724999 | 280000 | 32592341 | 32596379 | 40 | 16p11.2 | Loss |
| TP53TG3 | 16 | NM_016212 | 32444999 | 32724999 | 280000 | 32592349 | 32595554 | 40 | 16p13 | Loss |
| MSTP2 | 1 | NR_027504 | 16834999 | 16974999 | 140000 | 16844655 | 16849501 | 40 | 1p36.2 | Gain |
| LOC 100132287 | 1 | NR_028322 | 34999 | 524999 | 490000 | 313754 | 318443 | 40 | 1p36.33 | Gain |
| LCE3C | 1 | NM_178434 | 150822555 | 150852635 | 30080 | 150839761 | 150840186 | 60 | 1q21.3 | Loss |
| NAIP | 5 | NM_022892 | 68888924 | 70682363 | 56632 | 70300065 | 70356697 | 50 | 5q13.2 | Gain |
| SMN1 | 5 | NM_022874 | 69386142 | 70704534 | 1318392 | 70256523 | 70284592 | 50 | 5q13.2 | Gain |
| SMN2 | 5 | NM_022877 | 69386142 | 70704534 | 1318392 | 69381105 | 69409177 | 40 | 5q13.2 | Gain |
| DEFB109P1B | 8 | NR_003668 | 7169866 | 7903147 | 733281 | 7885347 | 7892453 | 30 | 8p23.1 | Gain |
| LOC 653391 | 5 | NR_029426 | 68888924 | 70682363 | 1793439 | 68713442 | 69917303 | 40 | 5q13.2 | Gain |
| LOC 653501 | 9 | NR_003528 | 38751600 | 70210086 | 31458486 | 39433813 | 39454526 | 30 | 9p13.1 | Gain |
| BTNL8 | 5 | NM_197975 | 180355922 | 45982 | 18034890 | 180348506 | 180366333 | 20 | 5q35.3 | Loss |
| SPAG11A | 8 | NM_001081552 | 7153912 | 7982049 | 828137 | 7742811 | 7758729 | 60 | 8p27.2 | Gain |
| ZNF705G | 8 | NM_001164457 | 7153912 | 7982049 | 828137 | 7202908 | 7207900 | 50 | 8p23.1 | Gain |
| FAM86B2 | 8 | NM_001137610 | 11874577 | 12618127 | 743550 | 12327496 | 12338223 | 50 | 8p23.1 | Loss |
| FAM90A10 | 8 | NM_001164447 | 7169866 | 7903147 | 733281 | 7663908 | 7666919 | 60 | 8p23.1 | Loss |
| FAM90A13 | 8 | NM_001164456 | 7169866 | 7903147 | 733281 | 7610374 | 7613384 | 60 | 8p23.1 | Loss |
| FAM90A14 | 8 | NM_001164452 | 7169866 | 7903147 | 733281 | 7101835 | 7104845 | 50 | 8p23.1 | Loss |
| FAM90A18 | 8 | NM_001164451 | 6891623 | 7903147 | 1011524 | 7618022 | 7621032 | 40 | 8p23.1 | Loss |
| FAM90A19 | 8 | NM_001164449 | 7153912 | 7982049 | 828137 | 7648613 | 7651623 | 40 | 8p23.1 | Loss |
| FAM90A20 | 8 | NM_001164453 | 6891623 | 7903147 | 1011524 | 7139945 | 7142955 | 40 | 8p23.1 | Loss |
| FAM90A5 | 8 | NM_001164455 | 6891623 | 7903147 | 1011524 | 7132323 | 7135333 | 30 | 8p23.1 | Loss |
*
Ref.seq: The Reference Sequence (RefSeq) collection provides a comprehensive, integrated, non-redundant, well-annotated set of sequences, including genomic DNA, transcripts, and proteins. Frequency: Mutated frequency for genes in the 10 PBMC samples of CGH chips for HBV-HCC patients. *MIR1977 belongs to the MT (mitochondrial) genome.