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. 2019 Apr 25;33(8):8759–8770. doi: 10.1096/fj.201802213RR

Figure 2.

Figure 2

The clinically relevant targets from the CRISPR screen are enriched in the cell cycle pathway. A) Volcano plot showing significantly overexpressed genes (red) and underexpressed genes (green) between 70 HCC tumors and 37 nontumor samples. Significantly differentially expressed genes were indicated in the 2 upper lateral quadrants with absolute FC >2 and q < 0.05. B) Top: Venn diagram showing 13 clinically relevant targets by overlapping 795 common hits from the depletion screen with 423 significantly overexpressed genes in HCC tumors. Bottom: ingenuity pathway analysis showing all 13 clinically relevant targets (in bold) that participated in the interplay of cell cycle and cell death and survival networks. C) KEGG pathway enrichment analysis showing significant enrichment in cell cycle among the 13 clinically relevant targets. D) Pearson correlation matrix of the 13 clinically relevant targets showing a tight cluster of MAD2L1, CCNA2, NCAPG, and BUB1B (black box) in the HCC microarray dataset shown in A. ANXA2, annexin A2; APC, adenomatous polyposis coli; ASPM, abnormal spindle microtubule assembly; AURKA, aurora kinase A; CDC7, cell division cycle 7; CUL3, Cullin 3; DDX50, DExD-box helicase 50; DYNC1I2, dynein cytoplasmic 1 intermediate chain 2; ESR1, estrogen receptor 1; HIST1H4C, histone cluster 1 H4 family Member C; HTATSF1, HIV-1 tat specific factor 1; KIF23, kinesin family member 23; LIG1, DNA ligase 1; KCTD6, potassium channel tetramerization domain containing 6; MRPS9, mitochondrial ribosomal protein S9; NT, nontumor; NUP205, nucleoporin 205; OIP5, Opa interacting protein 5; PRIM1, DNA primase subunit 1; PSPC1, paraspeckle component 1; PWP1, PWP1 homolog, endonuclein; RB1, RB transcriptional corepressor 1; RBM, RNA binding motif protein; RPL, ribosomal protein L; RPS12, ribosomal protein S12; RRBP1, ribosome binding protein 1; SARS2, seryl-TRNA synthetase 2; SEC31A, SEC31 homolog A, COPII Coat Complex component; SNRPB, small nuclear ribonucleoprotein polypeptides B and B1; T, tumor; TECR, trans-2,3-enoyl-CoA reductase; TTC5, tetratricopeptide repeat domain 5; WDR18, WD repeat domain 18; ZNF320, zinc finger protein 320.