Citation: if you use MAGeCKFlute in published research, please cite: Binbin Wang, Mei Wang, Wubing Zhang. “Integrative analysis of pooled CRISPR genetic screens using MAGeCKFlute.” Nature Protocols (2019), doi: 10.1038/s41596-018-0113-7.t

Load the data for enrichment analysis

Enrichment analysis methods

MAGeCKFlute incorporates three enrichment methods, including Over-Representation Test (ORT), Gene Set Enrichment Analysis (GSEA), and Hypergeometric test (HGT). Here, ORT and GSEA are borrowed from R package clusterProfiler.

Hypergeometric test

##                                                ID
## REACTOME_72163                     REACTOME_72163
## REACTOME_6791226                 REACTOME_6791226
## KEGG_hsa03040                       KEGG_hsa03040
## GO_VIRAL_GENE_EXPRESSION GO_VIRAL_GENE_EXPRESSION
## REACTOME_9010553                 REACTOME_9010553
## GO_RNA_3_END_PROCESSING   GO_RNA_3_END_PROCESSING
##                                                                            Description
## REACTOME_72163                                           mRNA Splicing - Major Pathway
## REACTOME_6791226         Major pathway of rRNA processing in the nucleolus and cytosol
## KEGG_hsa03040                                                              Spliceosome
## GO_VIRAL_GENE_EXPRESSION                                         VIRAL GENE EXPRESSION
## REACTOME_9010553                           Regulation of expression of SLITs and ROBOs
## GO_RNA_3_END_PROCESSING                                           RNA 3 END PROCESSING
##                                NES       pvalue     p.adjust GeneRatio BgRatio
## REACTOME_72163           -16.13486 1.679967e-28 2.309955e-25    49/183 183/183
## REACTOME_6791226         -15.58513 2.793384e-24 1.920452e-21    45/186 186/186
## KEGG_hsa03040            -13.07523 5.633499e-18 2.582021e-15    34/149 149/149
## GO_VIRAL_GENE_EXPRESSION -13.33898 1.272698e-17 4.374899e-15    38/191 191/191
## REACTOME_9010553         -13.51965 8.280930e-17 2.277256e-14    35/171 171/177
## GO_RNA_3_END_PROCESSING  -12.46675 2.695796e-16 6.177866e-14    32/148 148/148
##                                                                                                                                                                                                                                                                                                 geneID
## REACTOME_72163           10772/7536/23020/55339/23517/1479/25804/5094/5433/3192/9343/57819/56949/6632/1665/3312/1660/10262/9775/51585/51593/23451/6426/4686/3191/5430/29894/56259/22938/8175/27339/6428/27316/23398/5434/10286/10523/6625/54883/7307/5435/51340/10992/84950/5438/6626/5440/27258/10713
## REACTOME_6791226                              81887/6122/9045/5394/55127/23481/6193/92856/23517/83732/6202/79050/10969/84916/51388/6188/6224/9136/5393/6187/6207/6194/6222/79897/56915/6205/11056/6209/55720/2091/6234/11340/54512/6135/4691/54555/23521/57418/6168/51602/23160/51013/6232/118460/6147
## KEGG_hsa03040                                                                                             10772/23020/25804/3192/9343/57819/56949/6632/1665/3312/55119/10262/9775/23451/6426/4686/1659/56259/22938/8175/27339/6428/27316/9984/10286/10523/6625/7307/51340/10992/84950/6626/27258/10713
## GO_VIRAL_GENE_EXPRESSION                                                                            6122/9150/9045/8661/6193/5094/5433/6202/6188/6224/6187/4927/25920/6207/6194/1660/6222/6598/5702/6205/1025/6209/5430/22938/6234/6135/2959/5434/23521/6168/5435/23435/6232/5438/23279/7936/5440/6147
## REACTOME_9010553                                                                                                      6122/9045/5684/6193/6923/5692/6202/5686/6188/6224/5695/5691/5689/9978/6187/5708/6207/6194/6222/5688/9775/5714/5718/5702/10213/6205/6209/4686/6234/8453/6135/23521/6168/6232/6147
## GO_RNA_3_END_PROCESSING                                                                                            3028/55339/1479/134353/5433/51728/10212/5393/80145/60528/170506/56915/9775/1025/51585/6426/4686/55656/54931/29894/2091/580/6428/11340/114034/54512/9984/64852/7307/7936/6626/118460
##                                                                                                                                                                                                                                                                                                                                     geneName
## REACTOME_72163           SRSF10/SF1/SNRNP200/WDR33/SKIV2L2/CSTF3/LSM4/PCBP2/POLR2D/HNRNPU/EFTUD2/LSM2/XAB2/SNRPD/DHX15/HSPA8/DHX9/SF3B4/EIF4A3/PCF11/SRRT/SF3B1/SRSF1/NCBP1/HNRNPL/POLR2A/CPSF1/CTNNBL1/SNW1/SF3A2/PRPF19/SRSF3/RBMX/PPWD1/POLR2E/BCAS2/CHERP/SNRNP70/CWC25/U2AF1/POLR2F/CRNKL1/SF3B2/PRPF38A/POLR2I/SNRPA/POLR2K/LSM3/USP39
## REACTOME_6791226                                            LAS1L/RPL3/RPL14/EXOSC10/HEATR1/PES1/RPS5/IMP4/SKIV2L2/RIOK1/RPS8/NOC4L/EBNA1BP2/CIRH1A/NIP7/RPS3/RPS20/RRP9/EXOSC9/RPS2/RPS13/RPS6/RPS18/RPP21/EXOSC5/RPS11/DDX52/RPS15/TSR1/FBL/RPS28/EXOSC8/EXOSC4/RPL11/NCL/DDX49/RPL13A/WDR18/RPL37A/NOP58/WDR43/EXOSC1/RPS27/EXOSC6/RPL23A
## KEGG_hsa03040                                                                                                          SRSF10/SNRNP200/LSM4/HNRNPU/EFTUD2/LSM2/XAB2/SNRPD/DHX15/HSPA8/PRPF38B/SF3B4/EIF4A3/SF3B1/SRSF1/NCBP1/DHX8/CTNNBL1/SNW1/SF3A2/PRPF19/SRSF3/RBMX/THOC1/BCAS2/CHERP/SNRNP70/U2AF1/CRNKL1/SF3B2/PRPF38A/SNRPA/LSM3/USP39
## GO_VIRAL_GENE_EXPRESSION                                                                              RPL3/CTDP1/RPL14/EIF3/RPS5/PCBP2/POLR2D/RPS8/RPS3/RPS20/RPS2/NUP88/COBRA1/RPS13/RPS6/DHX9/RPS18/SMARCB1/PSMC3/RPS11/CDK9/RPS15/POLR2A/SNW1/RPS28/RPL11/GTF2B/POLR2E/RPL13A/RPL37A/POLR2F/TARDBP/RPS27/POLR2I/NUP160/RDBP/POLR2K/RPL23A
## REACTOME_9010553                                                                                                             RPL3/RPL14/PSMA3/RPS5/TCEB2/PSMB4/RPS8/PSMA5/RPS3/RPS20/PSMB7/PSMB3/PSMB1/RBX1/RPS2/PSMD2/RPS13/RPS6/RPS18/PSMA7/EIF4A3/PSMD8/PSMD12/PSMC3/PSMD14/RPS11/RPS15/NCBP1/RPS28/CUL2/RPL11/RPL13A/RPL37A/RPS27/RPL23A
## GO_RNA_3_END_PROCESSING                                                                                                               HSD17B10/WDR33/CSTF3/LSM11/POLR2D/POLR3K/DDX39/EXOSC9/THOC7/ELAC2/DHX36/EXOSC5/EIF4A3/CDK9/PCF11/SRSF1/NCBP1/INTS8/RG9MTD1/CPSF1/FBL/BARD1/SRSF3/EXOSC8/TOE1/EXOSC4/THOC1/TUT1/U2AF1/RDBP/SNRPA/EXOSC6
##                          Count
## REACTOME_72163              49
## REACTOME_6791226            45
## KEGG_hsa03040               34
## GO_VIRAL_GENE_EXPRESSION    38
## REACTOME_9010553            35
## GO_RNA_3_END_PROCESSING     32
##                                                                                    ID
## GO_VIRAL_GENE_EXPRESSION                                     GO_VIRAL_GENE_EXPRESSION
## GO_RNA_3_END_PROCESSING                                       GO_RNA_3_END_PROCESSING
## GO_TRNA_METABOLIC_PROCESS                                   GO_TRNA_METABOLIC_PROCESS
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION
## GO_MITOCHONDRIAL_GENE_EXPRESSION                     GO_MITOCHONDRIAL_GENE_EXPRESSION
## GO_RIBOSOMAL_LARGE_SUBUNIT_BIOGENESIS           GO_RIBOSOMAL_LARGE_SUBUNIT_BIOGENESIS
##                                                                        Description
## GO_VIRAL_GENE_EXPRESSION                                     VIRAL GENE EXPRESSION
## GO_RNA_3_END_PROCESSING                                       RNA 3 END PROCESSING
## GO_TRNA_METABOLIC_PROCESS                                   TRNA METABOLIC PROCESS
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION DNA TEMPLATED TRANSCRIPTION TERMINATION
## GO_MITOCHONDRIAL_GENE_EXPRESSION                     MITOCHONDRIAL GENE EXPRESSION
## GO_RIBOSOMAL_LARGE_SUBUNIT_BIOGENESIS           RIBOSOMAL LARGE SUBUNIT BIOGENESIS
##                                                  NES       pvalue     p.adjust
## GO_VIRAL_GENE_EXPRESSION                   -13.33898 1.609382e-16 1.541788e-13
## GO_RNA_3_END_PROCESSING                    -12.46675 2.400144e-15 1.058686e-12
## GO_TRNA_METABOLIC_PROCESS                  -14.96196 3.315299e-15 1.058686e-12
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION -11.23635 2.044689e-14 4.897031e-12
## GO_MITOCHONDRIAL_GENE_EXPRESSION           -12.22970 2.658660e-14 5.093993e-12
## GO_RIBOSOMAL_LARGE_SUBUNIT_BIOGENESIS      -10.52934 8.146541e-14 1.231939e-11
##                                            GeneRatio BgRatio
## GO_VIRAL_GENE_EXPRESSION                      38/191 191/191
## GO_RNA_3_END_PROCESSING                       32/148 148/148
## GO_TRNA_METABOLIC_PROCESS                     35/178 178/178
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION     22/74   74/74
## GO_MITOCHONDRIAL_GENE_EXPRESSION              32/160 160/160
## GO_RIBOSOMAL_LARGE_SUBUNIT_BIOGENESIS          21/71   71/71
##                                                                                                                                                                                                                                                     geneID
## GO_VIRAL_GENE_EXPRESSION                                6122/9150/9045/8661/6193/5094/5433/6202/6188/6224/6187/4927/25920/6207/6194/1660/6222/6598/5702/6205/1025/6209/5430/22938/6234/6135/2959/5434/23521/6168/5435/23435/6232/5438/23279/7936/5440/6147
## GO_RNA_3_END_PROCESSING                                                3028/55339/1479/134353/5433/51728/10212/5393/80145/60528/170506/56915/9775/1025/51585/6426/4686/55656/54931/29894/2091/580/6428/11340/114034/54512/9984/64852/7307/7936/6626/118460
## GO_TRNA_METABOLIC_PROCESS                  7407/54938/3028/55226/3035/8565/348180/10056/51520/1615/51637/51067/57176/25973/51728/112858/79587/60528/79897/27304/285381/10248/51367/90353/2193/51504/55140/54931/29894/4677/283989/57505/112970/92935/55699
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION                                                                                       2068/55339/64425/1479/134353/84172/51728/9013/1660/25885/51585/10419/4686/5430/29894/2967/5434/7270/404672/5435/6908/5440
## GO_MITOCHONDRIAL_GENE_EXPRESSION                                65005/3028/10102/3035/116540/85476/26164/63875/51067/26284/65003/60528/5018/63931/55168/26589/90480/28973/28998/29093/51335/6182/54931/3396/64981/7019/57505/55699/116541/51081/51021/5442
## GO_RIBOSOMAL_LARGE_SUBUNIT_BIOGENESIS                                                                                               81887/6122/9045/23481/56342/4839/10969/51388/23195/54475/26156/65003/3692/51491/51187/6135/57418/9875/23560/55651/6147
##                                                                                                                                                                                                                                                                          geneName
## GO_VIRAL_GENE_EXPRESSION                   RPL3/CTDP1/RPL14/EIF3/RPS5/PCBP2/POLR2D/RPS8/RPS3/RPS20/RPS2/NUP88/COBRA1/RPS13/RPS6/DHX9/RPS18/SMARCB1/PSMC3/RPS11/CDK9/RPS15/POLR2A/SNW1/RPS28/RPL11/GTF2B/POLR2E/RPL13A/RPL37A/POLR2F/TARDBP/RPS27/POLR2I/NUP160/RDBP/POLR2K/RPL23A
## GO_RNA_3_END_PROCESSING                                                    HSD17B10/WDR33/CSTF3/LSM11/POLR2D/POLR3K/DDX39/EXOSC9/THOC7/ELAC2/DHX36/EXOSC5/EIF4A3/CDK9/PCF11/SRSF1/NCBP1/INTS8/RG9MTD1/CPSF1/FBL/BARD1/SRSF3/EXOSC8/TOE1/EXOSC4/THOC1/TUT1/U2AF1/RDBP/SNRPA/EXOSC6
## GO_TRNA_METABOLIC_PROCESS                                       VARS/SYS/HSD17B10/NAT10/HARS/YARS/CTU2/FARSB/LARS/DARS/C14orf166/YARS2/VARS2/PARS2/POLR3K/TP53RK/CARS2/ELAC2/RPP21/MOCS3/DPH3/POP7/POP5/CTU1/FARSA/TRMT112/ELP3/RG9MTD1/CPSF1/NARS/TSEN54/AARS2/KTI12/MARS2/IARS2
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION                                                                                              ERCC2/WDR33/POLR1E/CSTF3/LSM11/POLR1B/POLR3K/TAF1C/DHX9/POLR1A/PCF11/PRMT5/NCBP1/POLR2A/CPSF1/GTF2H3/POLR2E/TTF1/GTF2H5/POLR2F/TBP/POLR2K
## GO_MITOCHONDRIAL_GENE_EXPRESSION                             MRPL9/HSD17B10/TSFM/HARS/MRPL53/GFM1/GTPBP5/MRPL17/YARS2/ERAL1/MRPL11/ELAC2/OXA1L/MRPS14/MRPS18A/MRPL46/GADD45GIP1/MRPS18B/MRPL13/MRPL22/NGRN/MRPL12/RG9MTD1/ICT1/MRPL34/TFAM/AARS2/IARS2/MRPL54/MRPS7/MRPS16/POLRMT
## GO_RIBOSOMAL_LARGE_SUBUNIT_BIOGENESIS                                                                                                                LAS1L/RPL3/RPL14/PES1/PPAN/NOL1/EBNA1BP2/NIP7/MDN1/NLE1/RSL1D1/MRPL11/EIF6/NOP16/RSL24D1/RPL11/WDR18/URB1/GTPBP4/NHP2/RPL23A
##                                            Count
## GO_VIRAL_GENE_EXPRESSION                      38
## GO_RNA_3_END_PROCESSING                       32
## GO_TRNA_METABOLIC_PROCESS                     35
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION    22
## GO_MITOCHONDRIAL_GENE_EXPRESSION              32
## GO_RIBOSOMAL_LARGE_SUBUNIT_BIOGENESIS         21

Over-representation test

##                                                  ID
## REACTOME_72163                       REACTOME_72163
## REACTOME_6791226                   REACTOME_6791226
## KEGG_hsa03040                         KEGG_hsa03040
## GO_VIRAL_GENE_EXPRESSION   GO_VIRAL_GENE_EXPRESSION
## REACTOME_9010553                   REACTOME_9010553
## GO_TRNA_METABOLIC_PROCESS GO_TRNA_METABOLIC_PROCESS
##                                                                             Description
## REACTOME_72163                                            mRNA Splicing - Major Pathway
## REACTOME_6791226          Major pathway of rRNA processing in the nucleolus and cytosol
## KEGG_hsa03040                                                               Spliceosome
## GO_VIRAL_GENE_EXPRESSION                                          VIRAL GENE EXPRESSION
## REACTOME_9010553                            Regulation of expression of SLITs and ROBOs
## GO_TRNA_METABOLIC_PROCESS                                        TRNA METABOLIC PROCESS
##                                 NES       pvalue     p.adjust GeneRatio
## REACTOME_72163            -16.13486 8.710479e-29 3.180196e-25    49/566
## REACTOME_6791226          -15.58513 1.690300e-24 3.085643e-21    45/566
## KEGG_hsa03040             -13.07523 6.231834e-18 7.584142e-15    34/566
## GO_VIRAL_GENE_EXPRESSION  -13.33898 9.917202e-18 9.051926e-15    38/566
## REACTOME_9010553          -13.51965 7.848460e-17 5.730946e-14    35/566
## GO_TRNA_METABOLIC_PROCESS -14.96196 2.940048e-16 1.663592e-13    35/566
##                             BgRatio
## REACTOME_72163            183/15323
## REACTOME_6791226          186/15323
## KEGG_hsa03040             149/15323
## GO_VIRAL_GENE_EXPRESSION  191/15323
## REACTOME_9010553          171/15323
## GO_TRNA_METABOLIC_PROCESS 178/15323
##                                                                                                                                                                                                                                                                                                  geneID
## REACTOME_72163            10772/7536/23020/55339/23517/1479/25804/5094/5433/3192/9343/57819/56949/6632/1665/3312/1660/10262/9775/51585/51593/23451/6426/4686/3191/5430/29894/56259/22938/8175/27339/6428/27316/23398/5434/10286/10523/6625/54883/7307/5435/51340/10992/84950/5438/6626/5440/27258/10713
## REACTOME_6791226                               81887/6122/9045/5394/55127/23481/6193/92856/23517/83732/6202/79050/10969/84916/51388/6188/6224/9136/5393/6187/6207/6194/6222/79897/56915/6205/11056/6209/55720/2091/6234/11340/54512/6135/4691/54555/23521/57418/6168/51602/23160/51013/6232/118460/6147
## KEGG_hsa03040                                                                                              10772/23020/25804/3192/9343/57819/56949/6632/1665/3312/55119/10262/9775/23451/6426/4686/1659/56259/22938/8175/27339/6428/27316/9984/10286/10523/6625/7307/51340/10992/84950/6626/27258/10713
## GO_VIRAL_GENE_EXPRESSION                                                                             6122/9150/9045/8661/6193/5094/5433/6202/6188/6224/6187/4927/25920/6207/6194/1660/6222/6598/5702/6205/1025/6209/5430/22938/6234/6135/2959/5434/23521/6168/5435/23435/6232/5438/23279/7936/5440/6147
## REACTOME_9010553                                                                                                       6122/9045/5684/6193/6923/5692/6202/5686/6188/6224/5695/5691/5689/9978/6187/5708/6207/6194/6222/5688/9775/5714/5718/5702/10213/6205/6209/4686/6234/8453/6135/23521/6168/6232/6147
## GO_TRNA_METABOLIC_PROCESS                                                               7407/54938/3028/55226/3035/8565/348180/10056/51520/1615/51637/51067/57176/25973/51728/112858/79587/60528/79897/27304/285381/10248/51367/90353/2193/51504/55140/54931/29894/4677/283989/57505/112970/92935/55699
##                                                                                                                                                                                                                                                                                                                                     geneName
## REACTOME_72163            SRSF10/SF1/SNRNP200/WDR33/MTREX/CSTF3/LSM4/PCBP2/POLR2D/HNRNPU/EFTUD2/LSM2/XAB2/SNRPD1/DHX15/HSPA8/DHX9/SF3B4/EIF4A3/PCF11/SRRT/SF3B1/SRSF1/NCBP1/HNRNPL/POLR2A/CPSF1/CTNNBL1/SNW1/SF3A2/PRPF19/SRSF3/RBMX/PPWD1/POLR2E/BCAS2/CHERP/SNRNP70/CWC25/U2AF1/POLR2F/CRNKL1/SF3B2/PRPF38A/POLR2I/SNRPA/POLR2K/LSM3/USP39
## REACTOME_6791226                                                LAS1L/RPL3/RPL14/EXOSC10/HEATR1/PES1/RPS5/IMP4/MTREX/RIOK1/RPS8/NOC4L/EBNA1BP2/UTP4/NIP7/RPS3/RPS20/RRP9/EXOSC9/RPS2/RPS13/RPS6/RPS18/RPP21/EXOSC5/RPS11/DDX52/RPS15/TSR1/FBL/RPS28/EXOSC8/EXOSC4/RPL11/NCL/DDX49/RPL13A/WDR18/RPL37A/NOP58/WDR43/EXOSC1/RPS27/EXOSC6/RPL23A
## KEGG_hsa03040                                                                                                         SRSF10/SNRNP200/LSM4/HNRNPU/EFTUD2/LSM2/XAB2/SNRPD1/DHX15/HSPA8/PRPF38B/SF3B4/EIF4A3/SF3B1/SRSF1/NCBP1/DHX8/CTNNBL1/SNW1/SF3A2/PRPF19/SRSF3/RBMX/THOC1/BCAS2/CHERP/SNRNP70/U2AF1/CRNKL1/SF3B2/PRPF38A/SNRPA/LSM3/USP39
## GO_VIRAL_GENE_EXPRESSION                                                                             RPL3/CTDP1/RPL14/EIF3A/RPS5/PCBP2/POLR2D/RPS8/RPS3/RPS20/RPS2/NUP88/NELFB/RPS13/RPS6/DHX9/RPS18/SMARCB1/PSMC3/RPS11/CDK9/RPS15/POLR2A/SNW1/RPS28/RPL11/GTF2B/POLR2E/RPL13A/RPL37A/POLR2F/TARDBP/RPS27/POLR2I/NUP160/NELFE/POLR2K/RPL23A
## REACTOME_9010553                                                                                                              RPL3/RPL14/PSMA3/RPS5/ELOB/PSMB4/RPS8/PSMA5/RPS3/RPS20/PSMB7/PSMB3/PSMB1/RBX1/RPS2/PSMD2/RPS13/RPS6/RPS18/PSMA7/EIF4A3/PSMD8/PSMD12/PSMC3/PSMD14/RPS11/RPS15/NCBP1/RPS28/CUL2/RPL11/RPL13A/RPL37A/RPS27/RPL23A
## GO_TRNA_METABOLIC_PROCESS                                                                                              VARS1/SARS2/HSD17B10/NAT10/HARS1/YARS1/CTU2/FARSB/LARS1/DARS1/RTRAF/YARS2/VARS2/PARS2/POLR3K/TP53RK/CARS2/ELAC2/RPP21/MOCS3/DPH3/POP7/POP5/CTU1/FARSA/TRMT112/ELP3/TRMT10C/CPSF1/NARS1/TSEN54/AARS2/KTI12/MARS2/IARS2
##                           Count
## REACTOME_72163               49
## REACTOME_6791226             45
## KEGG_hsa03040                34
## GO_VIRAL_GENE_EXPRESSION     38
## REACTOME_9010553             35
## GO_TRNA_METABOLIC_PROCESS    35
##                                                                                    ID
## GO_VIRAL_GENE_EXPRESSION                                     GO_VIRAL_GENE_EXPRESSION
## GO_TRNA_METABOLIC_PROCESS                                   GO_TRNA_METABOLIC_PROCESS
## GO_RNA_3_END_PROCESSING                                       GO_RNA_3_END_PROCESSING
## GO_MITOCHONDRIAL_GENE_EXPRESSION                     GO_MITOCHONDRIAL_GENE_EXPRESSION
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION
## GO_DNA_TEMPLATED_TRANSCRIPTION_ELONGATION   GO_DNA_TEMPLATED_TRANSCRIPTION_ELONGATION
##                                                                        Description
## GO_VIRAL_GENE_EXPRESSION                                     VIRAL GENE EXPRESSION
## GO_TRNA_METABOLIC_PROCESS                                   TRNA METABOLIC PROCESS
## GO_RNA_3_END_PROCESSING                                       RNA 3 END PROCESSING
## GO_MITOCHONDRIAL_GENE_EXPRESSION                     MITOCHONDRIAL GENE EXPRESSION
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION DNA TEMPLATED TRANSCRIPTION TERMINATION
## GO_DNA_TEMPLATED_TRANSCRIPTION_ELONGATION   DNA TEMPLATED TRANSCRIPTION ELONGATION
##                                                  NES       pvalue     p.adjust
## GO_VIRAL_GENE_EXPRESSION                   -13.33898 3.588697e-17 9.445451e-14
## GO_TRNA_METABOLIC_PROCESS                  -14.96196 9.604968e-16 8.448533e-13
## GO_RNA_3_END_PROCESSING                    -12.46675 9.629787e-16 8.448533e-13
## GO_MITOCHONDRIAL_GENE_EXPRESSION           -12.22970 1.015077e-14 6.679206e-12
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION -11.23635 2.764538e-14 1.455253e-11
## GO_DNA_TEMPLATED_TRANSCRIPTION_ELONGATION  -11.23327 6.621957e-14 2.904832e-11
##                                            GeneRatio   BgRatio
## GO_VIRAL_GENE_EXPRESSION                      38/545 191/14168
## GO_TRNA_METABOLIC_PROCESS                     35/545 178/14168
## GO_RNA_3_END_PROCESSING                       32/545 148/14168
## GO_MITOCHONDRIAL_GENE_EXPRESSION              32/545 160/14168
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION    22/545  74/14168
## GO_DNA_TEMPLATED_TRANSCRIPTION_ELONGATION     26/545 111/14168
##                                                                                                                                                                                                                                                     geneID
## GO_VIRAL_GENE_EXPRESSION                                6122/9150/9045/8661/6193/5094/5433/6202/6188/6224/6187/4927/25920/6207/6194/1660/6222/6598/5702/6205/1025/6209/5430/22938/6234/6135/2959/5434/23521/6168/5435/23435/6232/5438/23279/7936/5440/6147
## GO_TRNA_METABOLIC_PROCESS                  7407/54938/3028/55226/3035/8565/348180/10056/51520/1615/51637/51067/57176/25973/51728/112858/79587/60528/79897/27304/285381/10248/51367/90353/2193/51504/55140/54931/29894/4677/283989/57505/112970/92935/55699
## GO_RNA_3_END_PROCESSING                                                3028/55339/1479/134353/5433/51728/10212/5393/80145/60528/170506/56915/9775/1025/51585/6426/4686/55656/54931/29894/2091/580/6428/11340/114034/54512/9984/64852/7307/7936/6626/118460
## GO_MITOCHONDRIAL_GENE_EXPRESSION                                65005/3028/10102/3035/116540/85476/26164/63875/51067/26284/65003/60528/5018/63931/55168/26589/90480/28973/28998/29093/51335/6182/54931/3396/64981/7019/57505/55699/116541/51081/51021/5442
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION                                                                                       2068/55339/64425/1479/134353/84172/51728/9013/1660/25885/51585/10419/4686/5430/29894/2967/5434/7270/404672/5435/6908/5440
## GO_DNA_TEMPLATED_TRANSCRIPTION_ELONGATION                                                                       9150/2068/10102/64425/6923/5433/3192/84172/9013/25920/25885/23168/1025/55140/8178/4686/5430/9984/2967/5434/404672/5435/5438/6908/7936/5440
##                                                                                                                                                                                                                                                                           geneName
## GO_VIRAL_GENE_EXPRESSION                   RPL3/CTDP1/RPL14/EIF3A/RPS5/PCBP2/POLR2D/RPS8/RPS3/RPS20/RPS2/NUP88/NELFB/RPS13/RPS6/DHX9/RPS18/SMARCB1/PSMC3/RPS11/CDK9/RPS15/POLR2A/SNW1/RPS28/RPL11/GTF2B/POLR2E/RPL13A/RPL37A/POLR2F/TARDBP/RPS27/POLR2I/NUP160/NELFE/POLR2K/RPL23A
## GO_TRNA_METABOLIC_PROCESS                                    VARS1/SARS2/HSD17B10/NAT10/HARS1/YARS1/CTU2/FARSB/LARS1/DARS1/RTRAF/YARS2/VARS2/PARS2/POLR3K/TP53RK/CARS2/ELAC2/RPP21/MOCS3/DPH3/POP7/POP5/CTU1/FARSA/TRMT112/ELP3/TRMT10C/CPSF1/NARS1/TSEN54/AARS2/KTI12/MARS2/IARS2
## GO_RNA_3_END_PROCESSING                                                  HSD17B10/WDR33/CSTF3/LSM11/POLR2D/POLR3K/DDX39A/EXOSC9/THOC7/ELAC2/DHX36/EXOSC5/EIF4A3/CDK9/PCF11/SRSF1/NCBP1/INTS8/TRMT10C/CPSF1/FBL/BARD1/SRSF3/EXOSC8/TOE1/EXOSC4/THOC1/PAPD2/U2AF1/NELFE/SNRPA/EXOSC6
## GO_MITOCHONDRIAL_GENE_EXPRESSION                             MRPL9/HSD17B10/TSFM/HARS1/MRPL53/GFM1/MTG2/MRPL17/YARS2/ERAL1/MRPL11/ELAC2/OXA1L/MRPS14/MRPS18A/MRPL46/GADD45GIP1/MRPS18B/MRPL13/MRPL22/NGRN/MRPL12/TRMT10C/MRPL58/MRPL34/TFAM/AARS2/IARS2/MRPL54/MRPS7/MRPS16/POLRMT
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION                                                                                               ERCC2/WDR33/POLR1E/CSTF3/LSM11/POLR1B/POLR3K/TAF1C/DHX9/POLR1A/PCF11/PRMT5/NCBP1/POLR2A/CPSF1/GTF2H3/POLR2E/TTF1/GTF2H5/POLR2F/TBP/POLR2K
## GO_DNA_TEMPLATED_TRANSCRIPTION_ELONGATION                                                                           CTDP1/ERCC2/TSFM/POLR1E/ELOB/POLR2D/HNRNPU/POLR1B/TAF1C/NELFB/POLR1A/RTF1/CDK9/ELP3/ELL/NCBP1/POLR2A/THOC1/GTF2H3/POLR2E/GTF2H5/POLR2F/POLR2I/TBP/NELFE/POLR2K
##                                            Count
## GO_VIRAL_GENE_EXPRESSION                      38
## GO_TRNA_METABOLIC_PROCESS                     35
## GO_RNA_3_END_PROCESSING                       32
## GO_MITOCHONDRIAL_GENE_EXPRESSION              32
## GO_DNA_TEMPLATED_TRANSCRIPTION_TERMINATION    22
## GO_DNA_TEMPLATED_TRANSCRIPTION_ELONGATION     26

Gene set enrichment analysis

## Warning in fgsea(pathways = geneSets, stats = geneList, nperm = nPerm, minSize = minGSSize, : There are ties in the preranked stats (4.53% of the list).
## The order of those tied genes will be arbitrary, which may produce unexpected results.
##                                                                                                                      ID
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                                               GO_CELLULAR_KETONE_METABOLIC_PROCESS
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                                         GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS
## GO_RESPONSE_TO_INTERLEUKIN_1                                                               GO_RESPONSE_TO_INTERLEUKIN_1
## GO_NUCLEAR_EXPORT                                                                                     GO_NUCLEAR_EXPORT
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN     GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN
##                                                                                                          Description
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                                               CELLULAR KETONE METABOLIC PROCESS
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER TRANSCRIPTION INITIATION FROM RNA POLYMERASE II PROMOTER
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                                         REGULATION OF MRNA CATABOLIC PROCESS
## GO_RESPONSE_TO_INTERLEUKIN_1                                                               RESPONSE TO INTERLEUKIN 1
## GO_NUCLEAR_EXPORT                                                                                     NUCLEAR EXPORT
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN     ANTIGEN PROCESSING AND PRESENTATION OF PEPTIDE ANTIGEN
##                                                                   NES
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                        -1.862316
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER -1.719328
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                     -2.153827
## GO_RESPONSE_TO_INTERLEUKIN_1                                -1.856251
## GO_NUCLEAR_EXPORT                                           -2.043254
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN   -1.978882
##                                                                   pvalue
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                        0.0005058169
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER 0.0005058169
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                     0.0005068424
## GO_RESPONSE_TO_INTERLEUKIN_1                                0.0005068424
## GO_NUCLEAR_EXPORT                                           0.0005070994
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN   0.0005081301
##                                                              p.adjust
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                        0.0159763
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER 0.0159763
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                     0.0159763
## GO_RESPONSE_TO_INTERLEUKIN_1                                0.0159763
## GO_NUCLEAR_EXPORT                                           0.0159763
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN   0.0159763
##                                                                                                                                                                                                                                                                                                                                                                                                                                              geneID
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                                                                                                                                                                                                            231/2739/5719/5682/23198/2531/5709/10229/10197/5704/8660/5706/5713/57546/5705/5690/27235/5710/9861/5685/5694/5687/51805/10213/7167/5702/5686/5692/5695/5708/5718/5688/5714/2821/2475/5689/5684/5691
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER                                                                                                                                                                              6877/51616/2961/892/5704/1024/5706/29079/6722/5432/5436/5705/902/112869/5430/6879/126382/5435/112950/9477/2959/5702/404672/1025/6873/5438/5440/90390/51003/9441/2068/83860/5434/170506/2967/5433/6880/6908
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                                                                     6418/90806/8125/1432/5719/5682/23198/23435/9698/1994/22894/8570/5709/10197/55095/5704/5706/5713/79068/51594/5436/5705/56339/23404/5690/5976/29883/5710/5073/9861/5685/5694/5687/1869/56915/10213/5702/5393/5686/3312/51013/3842/5692/5695/5708/118460/1660/23019/5718/5688/5714/2475/170506/54512/5689/57721/3192/54464/11340/5684/5691
## GO_RESPONSE_TO_INTERLEUKIN_1                                                                                                                                                                                                                               5719/5682/23198/1906/5709/10197/5704/5706/5713/7334/5705/7528/5690/5976/5710/9861/5685/5694/5687/10213/5702/5686/5692/5695/5708/5718/27316/5688/5714/6885/5689/9978/23291/5684/5691/6880
## GO_NUCLEAR_EXPORT                                           10189/6432/9939/79902/10768/6059/5903/10657/811/7884/8683/8189/57122/51512/9147/53981/3921/81608/56943/9972/55746/7175/29072/3181/11097/11261/55781/79228/23212/6396/23293/160419/1434/2733/23511/11338/9818/22794/23144/9785/55341/5976/5310/65083/5905/10250/81929/6428/6209/5781/6426/9984/57510/9775/29894/23381/23279/9887/4686/80145/7307/1660/5784/7295/55339/4927/580/5433/3692
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN                                                                                            811/3109/10332/10120/5707/10437/1785/5719/5682/23198/2210/5709/3832/10121/6396/10197/5704/1062/2923/5706/5713/1639/3796/5705/10540/10671/51164/84516/5690/5710/11004/9861/5685/5694/5687/10213/11258/829/5702/5686/81930/1778/5692/5695/5708/5718/9493/5688/5714/1213/832/24137/5689/5684/5691
##                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    geneName
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                                                                                                                                                                                                                           AKR1B1/GLO1/PSMD13/PSMA1/PSME4/KDSR/PSMD3/COQ7/PSME3/PSMC4/IRS2/PSMC6/PSMD7/PDP2/PSMC5/PSMB2/COQ2/PSMD4/PSMD6/PSMA4/PSMB6/PSMA6/COQ3/PSMD14/TPI1/PSMC3/PSMA5/PSMB4/PSMB7/PSMD2/PSMD12/PSMA7/PSMD8/GPI/MTOR/PSMB1/PSMA3/PSMB3
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER                                                                                                                                                                                               TAF5/TAF9B/GTF2E2/CCNC/PSMC4/CDK8/PSMC6/MED4/SRF/POLR2C/POLR2G/PSMC5/CCNH/SGF29/POLR2A/TAF7/NR2C2AP/POLR2F/MED8/MED20/GTF2B/PSMC3/GTF2H5/CDK9/TAF2/POLR2I/POLR2K/MED30/MED31/MED26/ERCC2/TAF3/POLR2E/DHX36/GTF2H3/POLR2D/TAF9/TBP
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                                                               SET/ANGEL2/ANP32A/MAPK14/PSMD13/PSMA1/PSME4/TARDBP/PUM1/ELAVL1/DIS3/KHSRP/PSMD3/PSME3/SAMD4B/PSMC4/PSMC6/PSMD7/FTO/NBAS/POLR2G/PSMC5/METTL3/EXOSC2/PSMB2/UPF1/CNOT7/PSMD4/PARN/PSMD6/PSMA4/PSMB6/PSMA6/E2F1/EXOSC5/PSMD14/PSMC3/EXOSC9/PSMA5/HSPA8/EXOSC1/TNPO1/PSMB4/PSMB7/PSMD2/EXOSC6/DHX9/CNOT1/PSMD12/PSMA7/PSMD8/MTOR/DHX36/EXOSC4/PSMB1/METTL14/HNRNPU/XRN1/EXOSC8/PSMA3/PSMB3
## GO_RESPONSE_TO_INTERLEUKIN_1                                                                                                                                                                                                                                          PSMD13/PSMA1/PSME4/EDN1/PSMD3/PSME3/PSMC4/PSMC6/PSMD7/UBE2N/PSMC5/YY1/PSMB2/UPF1/PSMD4/PSMD6/PSMA4/PSMB6/PSMA6/PSMD14/PSMC3/PSMA5/PSMB4/PSMB7/PSMD2/PSMD12/RBMX/PSMA7/PSMD8/MAP3K7/PSMB1/RBX1/FBXW11/PSMA3/PSMB3/TAF9
## GO_NUCLEAR_EXPORT                                           ALYREF/SRSF7/RBM8A/NUP85/AHCYL1/ABCE1/RANBP2/KHDRBS1/CALR/SLBP/SRSF9/SYMPK/NUP107/GTSE1/NEMF/CPSF2/RPSA/FIP1L1/ENY2/NUP153/NUP133/TPR/SETD2/HNRNPA2B1/NUP42/CHP1/RIOK2/THOC6/RRS1/SEC13/SMG6/C12orf50/CSE1L/GLE1/NUP188/U2AF2/NUP58/CASC3/ZC3H3/DHX38/LSG1/UPF1/PKD1/NOL6/RANGAP1/SRRM1/SEH1L/SRSF3/RPS15/PTPN11/SRSF1/THOC1/XPO5/EIF4A3/CPSF1/SMG5/NUP160/SMG7/NCBP1/THOC7/U2AF1/DHX9/PTPN14/TXN/WDR33/NUP88/BARD1/POLR2D/EIF6
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN                                                                               CALR/HLA-DMB/CLEC4M/ACTR1B/PSMD1/IFI30/DNM2/PSMD13/PSMA1/PSME4/FCGR1B/PSMD3/KIF11/ACTR1A/SEC13/PSME3/PSMC4/CENPE/PDIA3/PSMC6/PSMD7/DCTN1/KIF2A/PSMC5/DCTN2/DCTN6/DCTN4/DCTN5/PSMB2/PSMD4/KIF2C/PSMD6/PSMA4/PSMB6/PSMA6/PSMD14/DCTN3/CAPZA1/PSMC3/PSMA5/KIF18A/DYNC1H1/PSMB4/PSMB7/PSMD2/PSMD12/KIF23/PSMA7/PSMD8/CLTC/CAPZB/KIF4A/PSMB1/PSMA3/PSMB3
##                                                             Count
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                           38
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER    38
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                        61
## GO_RESPONSE_TO_INTERLEUKIN_1                                   36
## GO_NUCLEAR_EXPORT                                              69
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN      55
## Warning in fgsea(pathways = geneSets, stats = geneList, nperm = nPerm, minSize = minGSSize, : There are ties in the preranked stats (4.53% of the list).
## The order of those tied genes will be arbitrary, which may produce unexpected results.
##                                                                                                                      ID
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                                               GO_CELLULAR_KETONE_METABOLIC_PROCESS
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER
## GO_NUCLEAR_EXPORT                                                                                     GO_NUCLEAR_EXPORT
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                                         GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS
## GO_RESPONSE_TO_INTERLEUKIN_1                                                               GO_RESPONSE_TO_INTERLEUKIN_1
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN     GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN
##                                                                                                          Description
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                                               CELLULAR KETONE METABOLIC PROCESS
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER TRANSCRIPTION INITIATION FROM RNA POLYMERASE II PROMOTER
## GO_NUCLEAR_EXPORT                                                                                     NUCLEAR EXPORT
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                                         REGULATION OF MRNA CATABOLIC PROCESS
## GO_RESPONSE_TO_INTERLEUKIN_1                                                               RESPONSE TO INTERLEUKIN 1
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN     ANTIGEN PROCESSING AND PRESENTATION OF PEPTIDE ANTIGEN
##                                                                   NES
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                        -1.854297
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER -1.711924
## GO_NUCLEAR_EXPORT                                           -2.037830
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                     -2.145244
## GO_RESPONSE_TO_INTERLEUKIN_1                                -1.850951
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN   -1.973646
##                                                                   pvalue
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                        0.0005089059
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER 0.0005089059
## GO_NUCLEAR_EXPORT                                           0.0005091650
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                     0.0005094244
## GO_RESPONSE_TO_INTERLEUKIN_1                                0.0005094244
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN   0.0005096840
##                                                               p.adjust
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                        0.01956945
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER 0.01956945
## GO_NUCLEAR_EXPORT                                           0.01956945
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                     0.01956945
## GO_RESPONSE_TO_INTERLEUKIN_1                                0.01956945
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN   0.01956945
##                                                                                                                                                                                                                                                                                                                                                                                                                                              geneID
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                                                                                                                                                                                                            231/2739/5719/5682/23198/2531/5709/10229/10197/5704/8660/5706/5713/57546/5705/5690/27235/5710/9861/5685/5694/5687/51805/10213/7167/5702/5686/5692/5695/5708/5718/5688/5714/2821/2475/5689/5684/5691
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER                                                                                                                                                                              6877/51616/2961/892/5704/1024/5706/29079/6722/5432/5436/5705/902/112869/5430/6879/126382/5435/112950/9477/2959/5702/404672/1025/6873/5438/5440/90390/51003/9441/2068/83860/5434/170506/2967/5433/6880/6908
## GO_NUCLEAR_EXPORT                                           10189/6432/9939/79902/10768/6059/5903/10657/811/7884/8683/8189/57122/51512/9147/53981/3921/81608/56943/9972/55746/7175/29072/3181/11097/11261/55781/79228/23212/6396/23293/160419/1434/2733/23511/11338/9818/22794/23144/9785/55341/5976/5310/65083/5905/10250/81929/6428/6209/5781/6426/9984/57510/9775/29894/23381/23279/9887/4686/80145/7307/1660/5784/7295/55339/4927/580/5433/3692
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                                                                     6418/90806/8125/1432/5719/5682/23198/23435/9698/1994/22894/8570/5709/10197/55095/5704/5706/5713/79068/51594/5436/5705/56339/23404/5690/5976/29883/5710/5073/9861/5685/5694/5687/1869/56915/10213/5702/5393/5686/3312/51013/3842/5692/5695/5708/118460/1660/23019/5718/5688/5714/2475/170506/54512/5689/57721/3192/54464/11340/5684/5691
## GO_RESPONSE_TO_INTERLEUKIN_1                                                                                                                                                                                                                               5719/5682/23198/1906/5709/10197/5704/5706/5713/7334/5705/7528/5690/5976/5710/9861/5685/5694/5687/10213/5702/5686/5692/5695/5708/5718/27316/5688/5714/6885/5689/9978/23291/5684/5691/6880
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN                                                                                            811/3109/10332/10120/5707/10437/1785/5719/5682/23198/2210/5709/3832/10121/6396/10197/5704/1062/2923/5706/5713/1639/3796/5705/10540/10671/51164/84516/5690/5710/11004/9861/5685/5694/5687/10213/11258/829/5702/5686/81930/1778/5692/5695/5708/5718/9493/5688/5714/1213/832/24137/5689/5684/5691
##                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    geneName
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                                                                                                                                                                                                                           AKR1B1/GLO1/PSMD13/PSMA1/PSME4/KDSR/PSMD3/COQ7/PSME3/PSMC4/IRS2/PSMC6/PSMD7/PDP2/PSMC5/PSMB2/COQ2/PSMD4/PSMD6/PSMA4/PSMB6/PSMA6/COQ3/PSMD14/TPI1/PSMC3/PSMA5/PSMB4/PSMB7/PSMD2/PSMD12/PSMA7/PSMD8/GPI/MTOR/PSMB1/PSMA3/PSMB3
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER                                                                                                                                                                                               TAF5/TAF9B/GTF2E2/CCNC/PSMC4/CDK8/PSMC6/MED4/SRF/POLR2C/POLR2G/PSMC5/CCNH/SGF29/POLR2A/TAF7/NR2C2AP/POLR2F/MED8/MED20/GTF2B/PSMC3/GTF2H5/CDK9/TAF2/POLR2I/POLR2K/MED30/MED31/MED26/ERCC2/TAF3/POLR2E/DHX36/GTF2H3/POLR2D/TAF9/TBP
## GO_NUCLEAR_EXPORT                                           ALYREF/SRSF7/RBM8A/NUP85/AHCYL1/ABCE1/RANBP2/KHDRBS1/CALR/SLBP/SRSF9/SYMPK/NUP107/GTSE1/NEMF/CPSF2/RPSA/FIP1L1/ENY2/NUP153/NUP133/TPR/SETD2/HNRNPA2B1/NUP42/CHP1/RIOK2/THOC6/RRS1/SEC13/SMG6/C12orf50/CSE1L/GLE1/NUP188/U2AF2/NUP58/CASC3/ZC3H3/DHX38/LSG1/UPF1/PKD1/NOL6/RANGAP1/SRRM1/SEH1L/SRSF3/RPS15/PTPN11/SRSF1/THOC1/XPO5/EIF4A3/CPSF1/SMG5/NUP160/SMG7/NCBP1/THOC7/U2AF1/DHX9/PTPN14/TXN/WDR33/NUP88/BARD1/POLR2D/EIF6
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                                                               SET/ANGEL2/ANP32A/MAPK14/PSMD13/PSMA1/PSME4/TARDBP/PUM1/ELAVL1/DIS3/KHSRP/PSMD3/PSME3/SAMD4B/PSMC4/PSMC6/PSMD7/FTO/NBAS/POLR2G/PSMC5/METTL3/EXOSC2/PSMB2/UPF1/CNOT7/PSMD4/PARN/PSMD6/PSMA4/PSMB6/PSMA6/E2F1/EXOSC5/PSMD14/PSMC3/EXOSC9/PSMA5/HSPA8/EXOSC1/TNPO1/PSMB4/PSMB7/PSMD2/EXOSC6/DHX9/CNOT1/PSMD12/PSMA7/PSMD8/MTOR/DHX36/EXOSC4/PSMB1/METTL14/HNRNPU/XRN1/EXOSC8/PSMA3/PSMB3
## GO_RESPONSE_TO_INTERLEUKIN_1                                                                                                                                                                                                                                          PSMD13/PSMA1/PSME4/EDN1/PSMD3/PSME3/PSMC4/PSMC6/PSMD7/UBE2N/PSMC5/YY1/PSMB2/UPF1/PSMD4/PSMD6/PSMA4/PSMB6/PSMA6/PSMD14/PSMC3/PSMA5/PSMB4/PSMB7/PSMD2/PSMD12/RBMX/PSMA7/PSMD8/MAP3K7/PSMB1/RBX1/FBXW11/PSMA3/PSMB3/TAF9
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN                                                                               CALR/HLA-DMB/CLEC4M/ACTR1B/PSMD1/IFI30/DNM2/PSMD13/PSMA1/PSME4/FCGR1B/PSMD3/KIF11/ACTR1A/SEC13/PSME3/PSMC4/CENPE/PDIA3/PSMC6/PSMD7/DCTN1/KIF2A/PSMC5/DCTN2/DCTN6/DCTN4/DCTN5/PSMB2/PSMD4/KIF2C/PSMD6/PSMA4/PSMB6/PSMA6/PSMD14/DCTN3/CAPZA1/PSMC3/PSMA5/KIF18A/DYNC1H1/PSMB4/PSMB7/PSMD2/PSMD12/KIF23/PSMA7/PSMD8/CLTC/CAPZB/KIF4A/PSMB1/PSMA3/PSMB3
##                                                             Count
## GO_CELLULAR_KETONE_METABOLIC_PROCESS                           38
## GO_TRANSCRIPTION_INITIATION_FROM_RNA_POLYMERASE_II_PROMOTER    38
## GO_NUCLEAR_EXPORT                                              69
## GO_REGULATION_OF_MRNA_CATABOLIC_PROCESS                        61
## GO_RESPONSE_TO_INTERLEUKIN_1                                   36
## GO_ANTIGEN_PROCESSING_AND_PRESENTATION_OF_PEPTIDE_ANTIGEN      55

Visualize enrichment results.