Table 2.
Functional classes of genes enriched in the RGP library in comparison to the frequency within the whole set of predicted human genes
| Functional Class (biological process) | Genes | Relative enrichment significance |
| establishment of cellular localization | AP1G1, DYNC1I2, COPZ1, NUP160, KIF5B, RANBP5, PAFAH1B1, FLJ10292, C14orf108, RAN, SET, SGNE1, SSR1, SSR2, BAT1, SEC24C | O = 16a; E = 8.04b; R = 1.99c P = 0.0067d |
| nucleocytoplasmic transport | NUP160, RANBP5, FLJ10292, RAN, SET, BAT1 | O = 6; E = 1.61; R = 3.73; P = 0.0054 |
| organelle organization and biogenesis | ARPC3, DCTN6, MYST2, DDX1, DYNC1I2, XRN2, KIFAP3, DAAM1, POT1, H3F3A, HDAC1, HMGB2, KIF5B, STMN1, PAFAH1B1, ATRX, KLHL4, PXMP3, RAN, SET, SMYD3, WASPIP, ACTL6A, H2AFV, | O = 24; E = 10.92; R = 2.2; P = 0.00022 |
| chromosome organization and biogenesis | MYST2, POT1, H3F3A, HDAC1, HMGB2, ATRX, SET, SMYD3, ACTL6A, H2AFV | O = 10; E = 4.05; R = 2.47; P = 0.0076 |
| microtubule-based process | DYNC1I2, XRN2, KIFAP3, KIF5B, STMN1, PAFAH1B1, RAN | O = 7; E = 2.13; R = 3.29; P = 0.0056 |
| nucleobase biosynthesis | PAICS, PPAT | O = 2; E = 0.12; R = 16.67; P = 0.0064 |
| regulation of protein biosynthesis | DDX1, EIF4B, EIF4G2, PUM2, TLR3, EIF4E2 | O = 6; E = 1.66; R = 3.61; P = 0.0064 |
| DNA metabolism | POLD3, MYST2, XRN2, POT1, H3F3A, HDAC1, HMGB2, NONO, ORC2L, ATRX, RAD23B, RAN, SET, SMYD3, UBE2A, XRCC5, HAT1, ACTL6A, H2AFV | O = 19; E = 8.44; R = 2.25; P = 0.00078 |
| DNA packaging | MYST2, H3F3A, HDAC1, HMGB2, SET, SMYD3, HAT1, ACTL6A, H2AFV | O = 9; E = 3.42; R = 2.63; P = 0.0074 |
| DNA repair | POLD3, XRN2, HMGB2, NONO, ATRX, RAD23B, UBE2A, XRCC5 | O = 8; E = 2.91; R = 2.75; P = 0.0088 |
| response to DNA damage stimulus | POLD3, XRN2, HMGB2, NONO, ZAK, ATRX, RAD23B, UBE2A, XRCC5 | O = 9; E = 3.24; R = 2.78; P = 0.0053 |
| RNA metabolism | SYNCRIP, DDX17, SF3A3, DDX1, DCP2, ELAVL1, XRN2, SF3B1, LSM5, HNRPC, HNRPU, NONO, FLJ10292, RARSL, SNRPG, BAT1, TTF2, SIP1, DDX23 | O = 19; E = 5.8; R = 3.28; P = 5.44-06 |
| RNA processing | SYNCRIP, DDX17, SF3A3, DDX1, XRN2, SF3B1, LSM5, HNRPC, HNRPU, NONO, FLJ10292, SNRPG, BAT1, TTF2, SIP1, DDX23 | O = 16; E = 4.68; R = 3.42; P = 1.84374398023E-05 |
| RNA splicing | SYNCRIP, SF3A3, DDX1, SF3B1, LSM5, HNRPC, NONO, FLJ10292, SNRPG, BAT1, TTF2, SIP1, DDX23 | O = 13; E = 2.01; R = 6.47; P = 1.03E-07 |
| RNA localization | NUP160, FLJ10292, RAN, BAT1 | O = 4; E = 0.64; R = 6.25; P = 0.0037 |
| macromolecule catabolism | YME1L1, DDX1, DCP2, ELAVL1, XRN2, USP33, ARIH1, MDH1, PSMA4, PSMA5, PSMB4, PSMB6, UBE2A, USP8 | O = 14; E = 4.57; R = 3.06 P = 0.00019 |
a: observed number of genes in the category; b: expected number of genes in the category; c: observed/expected ratio; d: p-value of the enrichment significance