Table 3.
Gene difference between patients that died versus lived.
| Gene expression | Alternative splicing | Alternative transcription |
|---|---|---|
| Top 5 increase (gene (fold change)) in patients that died versus lived | ||
| NPC1L1 (8.1) | ITGB2 (3.7) | NCF2 (8.7) |
| VWA3B (5.7) | DPYD (3.6) | STX3 (8.4) |
| ABCB11 (5.5) | SMCHD1 (3.4) | YWHAB (8.2) |
| OR6C4 (5.1) | NF2 (2.9) | MAP2K6 (7.8) |
| UGT2A3 (4.7) | LRRK2 (2.9) | N4BP1 (7.3) |
| Gene expression | Alternative splicing | Alternative transcription |
|---|---|---|
| Top 5 decrease (gene (fold change)) in patients that died versus lived | ||
| ABCA4 (− 8.4) | VPS13B (− 3.8) | STEAP4 (− 10.6) |
| GJB6 (− 7.3) | STRN4 (− 3.3) | IQGAP1 (− 8.7) |
| CACNA2D (− 7.2) | HLA-C (− 3.2) | TAP2 (− 8.6) |
| RNF17 (− 6.2) | FMR1 (− 3.2) | PRRC2B (− 8.4) |
| CTCFL (− 6.1) | HLA-E (− 3.1) | SNX10 (− 8.4) |
| Gene expression + alternative splicing | Gene expression + alternative transcription | Alternative splicing + alternative transcription |
|---|---|---|
| Significant in both categories in patients that died versus lived | ||
| ABCA13 | ABCB11, ADARB2, ADGRD1, ASIC1, ATP2C2, CCL2, CNR1, CNTNAP2, DLG2, EPS8, FAM107A, GBP1, GBP5, HESX1, KCNMA1, MPP2, MRO, MSR1, NRP1, NRP2, PRLR, SLC1A, SLC1A3, STAC, STEAP3, TGFBI, VWA3B | ANKMY1, CCDC32, CXCR2, DUSP18, FAM214B, FGF11, FMR1, IQGAP1, KDM5D, KLC4, LGALS3BP, MBNL1, NF2, SLC24A1, TAF1C, TCF3, ZDHHC24, ZSCAN18 |
| Gene expression | Alternative splicing | Alternative transcription |
|---|---|---|
| Top 5 Gene Ontology (GO) term analysis (pathway (fold change)—contributing genes if less than 10) | ||
|
Protein Homotrimerization (19.8)—SLC1A2, ASIC1, HLA-G, SCARA5 Negative regulation of interleukin-10 Production (16.5)—MMP8, CD274, PDCD1LG2, IL23R Protein trimerization (16.5)—SLC1A2, ASIC1, HLA-G, SCARA5 Retinal ganglion cell axon guidance (16.5)—NRP1, NRCAM, EPHB2, POU4F3 Axonal fasciculation (12.9)—NRP1, NRCAM, EPHB2, CNR1 |
None |
RNA Polymerase I Preinitiation Complex Assembly (7.9)—TAF1C, BAZ2A, PIH1D1, SMARCA4, UBTF, SMARCB1 Regulation of RNA splicing (2.5)—34 genes Regulation of mRNA Splicing, via spliceosome (2.3)—23 genes Regulation of mRNA Processing (2.2)—29 genes Purine containing compound biosynthetic process (2.1)—32 genes |