Table 8 The integrative analysis—CNVs and RNA expression data [10] is observed together
CNVs | RNA expression | |||||||
|---|---|---|---|---|---|---|---|---|
Gene name | Chr number | Start | End | Area length | CNV p value | Copy number fold change | logFC | FDR |
Loss | ||||||||
INSR | Chr19 | 7119459 | 7294011 | 174,552 | 3.18E-11 | −6.64 | −3.36 | 9.67E-31 |
NFIX | Chr19 | 13106583 | 13201204 | 94,621 | 0 | −10.82 | −2.45 | 1.63E-17 |
FARSA | Chr19 | 13034964 | 13044558 | 9,594 | 0 | −10.82 | −2.62 | 1.96E-16 |
RAD23A | Chr19 | 13056627 | 13063667 | 7,040 | 0 | −10.82 | −2.40 | 4.46E-16 |
GINS4 | Chr8 | 41386724 | 41399418 | 12,694 | 8.28E-05 | −3.94 | −2.79 | 1.31E-15 |
GADD45GIP1 | Chr19 | 13064971 | 13068050 | 3,079 | 0 | −10.82 | −2.82 | 3.67E-15 |
IFIH1 | Chr2 | 163123588 | 163175218 | 51,630 | 0 | −10.11 | 2.20 | 3.69E-14 |
RPL31 | Chr2 | 101618690 | 101622885 | 4,195 | 0 | −9.39 | −2.05 | 5.08E-13 |
PLEKHG4B | Chr5 | 156185 | 181790 | 25,605 | 1.08E-05 | −4.40 | −2.17 | 1.58E-12 |
ZNF358 | Chr19 | 7581003 | 7581135 | 132 | 3.18E-11 | −6.64 | −2.59 | 2.56E-11 |
ARHGEF18 | Chr19 | 7459998 | 7532004 | 72,006 | 3.18E-11 | −6.64 | −1.96 | 1.44E-10 |
STX10 | Chr19 | 13255223 | 13260987 | 57,64 | 0 | −10.82 | −2.55 | 1.96E-10 |
COL5A3 | Chr19 | 10102679 | 10121147 | 18,468 | 4.14E-04 | −3.53 | −1.92 | 5.45E-10 |
MGAT4A | Chr2 | 99242185 | 99347589 | 105,404 | 0 | −10.22 | 1.87 | 9.95E-10 |
Gain | ||||||||
SLC40A1 | Chr2 | 190428309 | 190428951 | 642 | 1.83E-05 | 4.28 | 2.22 | 1.05E-14 |
KIT | Chr4 | 55524094 | 55603446 | 79,352 | 1.69E-06 | 4.79 | 2.54 | 1.17E-13 |
PTPLAD2 | Chr9 | 21008019 | 21031635 | 23,616 | 7.73E-14 | 7.48 | 3.02 | 4.49E-13 |
ATP8A1 | Chr4 | 42571177 | 42629126 | 57,949 | 1.83E-07 | 5.22 | 2.65 | 4.54E-10 |
FOCAD | Chr9 | 20658308 | 20993327 | 335,019 | 7.73E-14 | 7.48 | 1.94 | 9.12E-08 |
FAM200B | Chr4 | 15683351 | 15692070 | 8,719 | 3.54E-05 | 4.14 | 1.83 | 8.59E-07 |
SLIT2 | Chr4 | 20255234 | 20512189 | 256,955 | 4.16E-05 | 4.10 | 1.35 | 1.73E-05 |
MLLT3 | Chr9 | 20353522 | 20622514 | 268,992 | 7.73E-14 | 7.48 | 1.94 | 2.19E-05 |
LCORL | Chr4 | 17887690 | 18023483 | 135,793 | 4.16E-05 | 4.10 | 1.40 | 5.04E-05 |