Table 3.
Downregulated genes in BdkrB2−/− relative to BdkrB2+/+ mice
| Gene Symbol | Entrez ID | Entrez Gene Name | Molecular Function | P value |
|---|---|---|---|---|
| KDM5D | 20592 | lysine (K)-specific demethylase 5D | chromatin modification | 6.52E-03 |
| NUDT16 | 75686 | nudix-type motif 16 | RNA binding; hydrolase activity; metal binding | 2.98E-02 |
| LTA | 16992 | lymphotoxin alpha | cytokine produced by lymphocytes | 4.75E-02 |
| STARD13 | 243362 | StAR-related lipid transfer (START) domain containing 13 | GTPase activator activity, signal transduction | 3.46E-02 |
| RAPGEF5 | 217944 | Rap guanine nucleotide exchange factor (GEF) 5 | small GTPase mediated signal transduction | 1.23E-05 |
| CREG2 | 263764 | cellular repressor of E1A-stimulated genes 2 | N/A | 1.27E-02 |
| DDX23 | 74351 | DEAD (Asp-Glu-Ala-Asp) box polypeptide 23 | Embryogenesis and cellular growth and division | 4.49E-02 |
| NOP56 | 67134 | NOP56 ribonucleoprotein homolog (yeast) | rRNA processing | 3.51E-03 |
| RPS13 | 68052 | ribosomal protein S13 | negative regulation of RNA splicing | 3.53E-08 |
| ADAM23 | 23792 | ADAM metallopeptidase domain 23 | metalloendopeptidase activity | 1.27E-02 |
| MSX2 | 17702 | msh homeobox 2 | DNA binding; transcription factor activity | 3.43E-02 |
| TPCN1 | 252972 | two pore segment channel 1 | voltage-gated ion channel activity | 2.10E-02 |
| BCAT2 | 12036 | branched chain amino-acid transaminase 2, mitochondrial | Catalyzes production of the branched chain amino acids | 2.26E-02 |
| BSDC1 | 100383 | BSD domain containing 1 | protein binding | 2.47E-02 |
| GANC | 76051 | glucosidase, alpha; neutral C | carbohydrate metabolic process | 4.98E-02 |
| CHMP4B | 75608 | chromatin modifying protein 4B | interact with programmed cell death 6 interacting protein | 1.37E-02 |
| SCRIB | 105782 | scribbled homolog (Drosophila) | targeted to epithelial adherens junctions, cell polarization | 4.89E-02 |
| CLK1 | 12747 | CDC-like kinase 1 | governing splice site selection | 4.09E-03 |
| PABPN1 | 54196 | poly(A) binding protein, nuclear 1 | RNA processing; mRNA processing | 3.11E-02 |
| HOXD4 | 15436 | homeobox D4 | morphogenesis in all multicellular organisms | 3.51E-03 |
| TNKS2 | 74493 | tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase 2 | NAD+ ADP-ribosyltransferase activity, regulation of multicellular organism growth | 1.66E-02 |
| DNASE1L2 | 66705 | deoxyribonuclease I-like 2 | DNA binding; endonuclease activity | 4.86E-02 |
| RAF1 | 110157 | v-raf-1 murine leukemia viral oncogene homolog 1 | MAP kinase kinase kinase (MAP3K), control of gene expression involved in the cell division cycle, apoptosis, cell differentiation and cell migration. | 1.70E-02 |
| GAS5 | 14455 | growth arrest-specific 5 (nonprotein coding) | N/A | 2.64E-02 |
| ZXDC | 80292 | ZXD family zinc finger C | positive regulation of transcription | 2.09E-03 |
| PNPLA6 | 50767 | patatin-like phospholipase domain containing 6 | deacetylates intracellular phosphatidylcholine | 4.85E-02 |
| BUB3 | 12237 | budding uninhibited by benzimidazoles 3 homolog (yeast) | spindle checkpoint function, mitotic sister chromatid segregation, cell division | 1.74E-02 |
| MTHFSD | 234814 | methenyltetrahydrofolate synthetase domain containing | folic acid and derivative biosynthetic process | 3.84E-02 |
| CLK4 | 12750 | CDC-like kinase 4 | peptidyl-tyrosine phosphorylation | 2.71E-02 |
| LSM7 | 66094 | LSM7 homolog, U6 small nuclear RNA associated (S. cerevisiae) | nuclear mRNA splicing, via spliceosome | 3.88E-02 |
| RPL11 | 67025 | ribosomal protein L11 | RNA processing; translation; translational elongation | 9.14E-03 |
| NFATC2IP | 18020 | nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2 interacting protein | cytokine production; regulation of transcription | 4.45E-02 |
| IDI1 | 319554 | isopentenyl-diphosphate delta isomerase 1 | cholesterol biosynthetic process | 1.84E-02 |
| C16ORF70 | 234678 | chromosome 16 open reading frame 70 | Golgi to plasma membrane protein transport | 4.47E-02 |
| GRWD1 | 101612 | glutamate-rich WD repeat containing 1 | role in ribosome biogenesis | 1.25E-02 |
| KCTD5 | 69259 | potassium channel tetramerisation domain containing 5 | voltage-gated potassium channel activity | 1.89E-02 |
| DDX51 | 69663 | DEAD (Asp-Glu-Ala-Asp) box polypeptide 51 | rRNA processing | 3.85E-02 |
| GTPBP3 | 70359 | GTP binding protein 3 (mitochondrial) | tRNA modification | 2.32E-02 |
| PCSK7 | 18554 | proprotein convertase subtilisin/kexin type 7 | proprotein convertases, peptide hormone processing | 4.06E-02 |
| RNF168 | 70238 | ring finger protein 168 | double-strand break repair; response to ionizing radiation; chromatin modification; positive regulation of DNA repair; histone H2A K63-linked ubiquitination | 1.27E-02 |
| EDC3 | 353190 | enhancer of mRNA decapping 3 homolog (S. cerevisiae) | associated with mRNA-decapping complex | 2.58E-02 |
| SNIP1 | 76793 | Smad nuclear interacting protein 1 | production of miRNAs involved in gene silencing | 3.39E-02 |
| DDX18 | 66942 | DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 | alteration of RNA secondary structure | 1.12E-04 |
| NANS | 94181 | N-acetylneuraminic acid synthase | lipopolysaccharide biosynthetic process | 3.73E-02 |
| MED29 | 67224 | mediator complex subunit 29 | a multiprotein coactivator of RNA transcription | 4.70E-03 |
| SUPV3L1 | 338359 | suppressor of var1, 3-like 1 (S. cerevisiae) | DNA duplex unwinding | 1.53E-02 |
| EXOSC7 | 66446 | exosome component 7 | 3¢-5¢-exoribonuclease activity, RNA processing | 2.47E-02 |
| TRIM39 | 79263 | tripartite motif-containing 39 | protein binding; zinc ion binding, apoptosis | 3.17E-02 |
| DOCK5 | 68813 | dedicator of cytokinesis 5 | guanyl-nucleotide exchange factor activity | 4.95E-02 |
| DNAJC11 | 230935 | DnaJ (Hsp40) homolog, subfamily C, member 11 | heat shock protein binding | 1.16E-02 |
| TBP | 21374 | TATA box binding protein | Initiation of transcription, regulation of transcription | 1.94E-02 |
| MOXD1 | 59012 | monooxygenase, DBH-like 1 | monooxygenase activity, catecholamine metabolic process | 1.02E-03 |
| DIDO1 | 23856 | death inducer-obliterator 1 | transcription; apoptosis | 4.06E-02 |
| NUP43 | 69912 | nucleoporin 43 kDa | Bidirectional transport of macromolecules | 8.52E-04 |
| KIAA1804 | 234878 | mixed lineage kinase 4 | protein phosphorylation, signal transduction | 4.85E-02 |
| RAD51AP1 | 19362 | RAD51 associated protein 1 | DNA recombination, DNA repair DNA binding | 3.85E-02 |
| HSPA14 | 50497 | heat shock 70 kDa protein 14 | ATP binding, nucleotide binding | 3.99E-03 |
| GPS1 | 1E +08 | G protein pathway suppressor 1 | catalyze deneddylation of proteins | 2.47E-02 |
| PRKAR2A | 19087 | protein kinase, cAMP-dependent, regulatory, type II, alpha | cAMP binding, cAMP-dependent protein kinase regulator activity | 3.91E-02 |
| GPKOW | 209416 | G patch domain and KOW motifs | ribosomal protein, nucleic acid binding | 1.37E-02 |
| TEX9 | 21778 | testis expressed 9 | testis-expressed sequence 9 protein | 3.01E-02 |
| GTPBP3 | 70359 | GTP binding protein 3 (mitochondrial) | GTP catabolic process, tRNA modification | 3.47E-02 |
| ASNS | 27053 | asparagine synthetase (glutamine-hydrolyzing) | asparagine biosynthetic process, cellular amino acid biosynthetic process | 1.65E-02 |
| KLHDC4 | 234825 | kelch domain containing 4 | peptidease activity, hydrolysis of peptide bond | 4.06E-02 |
| MED22 | 20933 | mediator complex subunit 22 | regulation of transcription, DNA directed RNA polymerase | 8.76E-03 |
| CCDC117 | 104479 | coiled-coil domain containing 117 | chromosomal protein | 4.13E-02 |
| HDAC10 | 170787 | histone deacetylase 10 | chromatin modification, histone deacetylation | 2.35E-03 |
| POLR3C | 74414 | polymerase (RNA) III (DNA directed) polypeptide C (62kD) | innate immune response, positive regulation of innate immune response | 1.98E-02 |
| MTRF1L | 108853 | mitochondrial translational release factor 1-like | translation release factor activity | 3.92E-02 |
| RNF34 | 80751 | ring finger protein 34 | ligase activity, metal ion binding, apoptosis, metabolic proces | 4.93E-04 |
| UBP1 | 22221 | upstream binding protein 1 (LBP-1a) | DNA binding, protein binding, angiogenesis, regulation of transcription | 3.94E-02 |
| BCCIP | 66165 | BRCA2 and CDKN1A interacting protein | kinase regulator activity, cell cycle, DNA repair | 4.85E-02 |
| LUC7L2 | 192196 | LUC7-like 2 (S. cerevisiae) | enzyme binding, metal ion binding | 1.89E-02 |
| NOC4L | 100608 | nucleolar complex associated 4 homolog (S. cerevisiae) | nucleolus protein, formation of ribosome | 8.76E-03 |
| PPHLN1 | 223828 | periphilin 1 | keratinization | 2.84E-03 |
| EIF4A3 | 192170 | eukaryotic translation initiation factor 4A3 | ATP-dependent RNA helicase activity, negative regulation of translation | 1.89E-02 |
| NIF3L1 | 65102 | NIF3 NGG1 interacting factor 3-like 1 (S. pombe) | transcription factor binding, positive regulation of transcription | 4.89E-02 |
| FASTKD5 | 380601 | FAST kinase domains 5 | protein kinase activity, apoptosis | 4.45E-02 |
| HAUS3 | 231123 | HAUS augmin-like complex, subunit 3 | cytoskeleton component, cell cycle, cell division | 3.53E-05 |
| PSEN1 | 19164 | presenilin 1 | beta-catenin binding, cadherin binding, activation of MAPKK activity | 1.66E-03 |
| PSMC1 | 19179 | proteasome (prosome, macropain) 26S subunit, ATPase, 1 | hydrolase activity, negative regulation of ubiquitin- protein ligase activity involved in mitotic cell cycle | 4.06E-02 |
| EXO1 | 26909 | exonuclease 1 | 5′-3′ exodeoxyribonuclease activity, DNA recombination, DNA repair | 2.99E-02 |
| CBX2 | 12416 | chromobox homolog 2 | chromatin binding, DNA binding, chromatin assembly or disassembly, chromatin modification | 4.75E-02 |
| DIABLO | 66593 | diablo homolog (Drosophila) | activation of caspase activity, apoptosis | 4.42E-02 |
| EBNA1BP2 | 69072 | EBNA1 binding protein 2 | chromosome segregation, ribosome biogenesis | 1.25E-02 |
| FDPS | 110196 | farnesyl diphosphate synthase | dimethylallyltranstransferase activity, cholesterol biosynthetic proces | 3.00E-02 |
| METTL2B | 52686 | methyltransferase like 2B | methyltransferase activity, metabolic process, methylation | 2.45E-02 |
| PPP1R1A | 58200 | protein phosphatase 1, regulatory (inhibitor) subunit 1A | phosphoprotein phosphatase inhibitor activity, carbohydrate metabolic process | 4.85E-02 |
| SREBF2 | 20788 | sterol regulatory element binding transcription factor 2 | chromatin binding, DNA binding, cholesterol metabolic process | 2.10E-02 |
| RBM4 | 19653 | RNA binding motif protein 4 | mRNA 3′-UTR binding, circadian regulation of gene expression | 1.94E-02 |
| RPP38 | 227522 | ribonuclease P/MRP 38 kDa subunit | hydrolase activity, ribonuclease P activity, tRNA processing | 2.47E-02 |
| USP38 | 74841 | ubiquitin specific peptidase 38 | Process ubiquitin-dependent protein catabolic process | 4.95E-02 |
| TUBG1 | 103733 | tubulin, gamma 1 | GTPase activity, microtubule nucleation | 3.99E-03 |
| MAX | 17187 | MYC associated factor X | negative regulation of gene expression, protein complex assembly | 2.22E-02 |
| DGAT1 | 13350 | diacylglycerol O-acyltransferase 1 | acyltransferase activity, glycerolipid metabolic process | 3.99E-03 |
| POLR2G | 67710 | polymerase (RNA) II (DNA directed) polypeptide G | DNA-directed RNA polymerase activity, RNA splicing, transcription | 3.47E-02 |
| EIF3B | 27979 | eukaryotic translation initiation factor 3, subunit B | nucleic acid binding, regulation of translational initiation | 4.77E-02 |
| SC4MOL | 66234 | sterol-C4-methyl oxidase-like | C-4 methylsterol oxidase activity, iron ion binding, fatty acid biosynthetic process | 4.95E-02 |
| GLRX3 | 30926 | glutaredoxin 3 | electron carrier activity, iron-sulfur cluster binding, cell redox homeostasis | 3.01E-04 |
| TNFRSF19 | 29820 | tumor necrosis factor receptor superfamily, member 19 | receptor activity, positive regulation of I-kappaB kinase/NF-kappaB cascade | 4.85E-02 |
| DOHH | 1E +05 | deoxyhypusine hydroxylase/monooxygenase | oxidation-reduction process, peptidyl-lysine modification to hypusine | 5.49E-03 |
P < 0.05.