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avrg: GSE58827: Dynamics of the Mouse Liver

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Results for T

Z-value: 1.01

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Transcription factors associated with T

Gene Symbol Gene ID Gene Info
ENSMUSG00000062327.4 brachyury, T-box transcription factor T

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
Tmm10_v2_chr17_+_8434423_8434423-0.483.1e-03Click!

Activity profile of T motif

Sorted Z-values of T motif

Network of associatons between targets according to the STRING database.

First level regulatory network of T

PNG image of the network

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Log-likelihood per target  Total log-likelihood Term Description
1.4 5.4 GO:0034653 diterpenoid catabolic process(GO:0016103) retinoic acid catabolic process(GO:0034653)
1.1 4.3 GO:0000711 meiotic DNA repair synthesis(GO:0000711) female meiosis sister chromatid cohesion(GO:0007066)
1.0 7.3 GO:0042905 9-cis-retinoic acid biosynthetic process(GO:0042904) 9-cis-retinoic acid metabolic process(GO:0042905)
0.9 2.6 GO:0031335 regulation of sulfur amino acid metabolic process(GO:0031335)
0.7 2.2 GO:0015866 ADP transport(GO:0015866)
0.6 1.9 GO:1902524 positive regulation of protein K48-linked ubiquitination(GO:1902524)
0.5 2.7 GO:0042908 xenobiotic transport(GO:0042908)
0.5 1.5 GO:0045013 carbon catabolite repression of transcription(GO:0045013) negative regulation of transcription by glucose(GO:0045014)
0.5 8.3 GO:0052695 cellular glucuronidation(GO:0052695)
0.4 1.8 GO:0070178 D-serine metabolic process(GO:0070178)
0.4 1.8 GO:0006548 histidine catabolic process(GO:0006548)
0.4 3.6 GO:0042573 retinoic acid metabolic process(GO:0042573)
0.3 2.7 GO:0090074 negative regulation of protein homodimerization activity(GO:0090074)
0.3 1.0 GO:1901053 sarcosine metabolic process(GO:1901052) sarcosine catabolic process(GO:1901053)
0.3 1.9 GO:0043102 amino acid salvage(GO:0043102) L-methionine salvage(GO:0071267)
0.3 8.4 GO:0080184 response to phenylpropanoid(GO:0080184)
0.3 0.8 GO:0032474 otolith morphogenesis(GO:0032474)
0.2 1.7 GO:0008078 mesodermal cell migration(GO:0008078)
0.2 1.3 GO:0051790 short-chain fatty acid biosynthetic process(GO:0051790)
0.2 0.9 GO:0015867 ATP transport(GO:0015867)
0.2 1.2 GO:0042373 vitamin K metabolic process(GO:0042373)
0.2 0.7 GO:0035519 protein K29-linked ubiquitination(GO:0035519)
0.2 1.7 GO:0034983 peptidyl-lysine deacetylation(GO:0034983)
0.2 2.2 GO:0035845 photoreceptor cell outer segment organization(GO:0035845)
0.1 1.3 GO:0097501 stress response to metal ion(GO:0097501)
0.1 0.8 GO:0006741 NADP biosynthetic process(GO:0006741)
0.1 2.0 GO:1904262 negative regulation of TORC1 signaling(GO:1904262)
0.1 2.1 GO:0048672 positive regulation of collateral sprouting(GO:0048672)
0.1 1.6 GO:0006857 oligopeptide transport(GO:0006857)
0.1 2.1 GO:0042178 xenobiotic catabolic process(GO:0042178)
0.1 0.5 GO:0006421 asparaginyl-tRNA aminoacylation(GO:0006421)
0.1 0.6 GO:0060011 Sertoli cell proliferation(GO:0060011)
0.1 1.7 GO:0090161 Golgi ribbon formation(GO:0090161)
0.1 0.3 GO:0060796 regulation of transcription involved in primary germ layer cell fate commitment(GO:0060796)
0.1 0.4 GO:0045716 positive regulation of low-density lipoprotein particle receptor biosynthetic process(GO:0045716)
0.1 0.6 GO:0000395 mRNA 5'-splice site recognition(GO:0000395)
0.1 0.8 GO:0001574 ganglioside biosynthetic process(GO:0001574)
0.1 0.5 GO:0015871 choline transport(GO:0015871)
0.1 0.6 GO:0070314 G1 to G0 transition(GO:0070314)
0.1 0.5 GO:0033227 dsRNA transport(GO:0033227)
0.1 0.6 GO:2000189 positive regulation of cholesterol homeostasis(GO:2000189)
0.1 0.9 GO:0046415 urate metabolic process(GO:0046415)
0.1 1.1 GO:0021520 spinal cord motor neuron cell fate specification(GO:0021520)
0.0 1.0 GO:0060575 intestinal epithelial cell differentiation(GO:0060575)
0.0 0.2 GO:0003349 epicardium-derived cardiac endothelial cell differentiation(GO:0003349)
0.0 0.2 GO:0070318 positive regulation of G0 to G1 transition(GO:0070318)
0.0 0.6 GO:0035814 negative regulation of renal sodium excretion(GO:0035814)
0.0 0.4 GO:0021902 commitment of neuronal cell to specific neuron type in forebrain(GO:0021902)
0.0 0.4 GO:2000318 positive regulation of T-helper 17 type immune response(GO:2000318)
0.0 0.1 GO:0098974 postsynaptic actin cytoskeleton organization(GO:0098974)
0.0 0.2 GO:0002457 T cell antigen processing and presentation(GO:0002457)
0.0 0.6 GO:0060272 embryonic skeletal joint morphogenesis(GO:0060272)
0.0 0.5 GO:0036159 inner dynein arm assembly(GO:0036159)
0.0 0.6 GO:0071786 endoplasmic reticulum tubular network organization(GO:0071786)
0.0 0.1 GO:0043461 proton-transporting ATP synthase complex assembly(GO:0043461) proton-transporting ATP synthase complex biogenesis(GO:0070272)
0.0 0.3 GO:0071763 nuclear membrane organization(GO:0071763)
0.0 0.8 GO:0071218 cellular response to misfolded protein(GO:0071218)
0.0 0.4 GO:0007128 meiotic prophase I(GO:0007128) prophase(GO:0051324)
0.0 1.9 GO:0019369 arachidonic acid metabolic process(GO:0019369)
0.0 0.3 GO:0009162 deoxyribonucleoside monophosphate metabolic process(GO:0009162)
0.0 0.4 GO:0060391 positive regulation of SMAD protein import into nucleus(GO:0060391)
0.0 0.5 GO:0033539 fatty acid beta-oxidation using acyl-CoA dehydrogenase(GO:0033539)
0.0 0.9 GO:0042036 negative regulation of cytokine biosynthetic process(GO:0042036)
0.0 0.1 GO:0015676 vanadium ion transport(GO:0015676) lead ion transport(GO:0015692)
0.0 0.9 GO:0060765 regulation of androgen receptor signaling pathway(GO:0060765)
0.0 0.2 GO:0048633 positive regulation of skeletal muscle tissue growth(GO:0048633)
0.0 0.2 GO:2000645 negative regulation of receptor catabolic process(GO:2000645)
0.0 0.7 GO:0015985 energy coupled proton transport, down electrochemical gradient(GO:0015985) ATP synthesis coupled proton transport(GO:0015986)
0.0 1.0 GO:0019432 triglyceride biosynthetic process(GO:0019432)
0.0 0.3 GO:0048934 peripheral nervous system neuron differentiation(GO:0048934) peripheral nervous system neuron development(GO:0048935)
0.0 0.2 GO:0007343 egg activation(GO:0007343)
0.0 0.1 GO:0071725 response to diacyl bacterial lipopeptide(GO:0071724) response to triacyl bacterial lipopeptide(GO:0071725) cellular response to diacyl bacterial lipopeptide(GO:0071726) cellular response to triacyl bacterial lipopeptide(GO:0071727)
0.0 0.8 GO:0061003 positive regulation of dendritic spine morphogenesis(GO:0061003)
0.0 0.5 GO:0043252 sodium-independent organic anion transport(GO:0043252)
0.0 0.8 GO:0070232 regulation of T cell apoptotic process(GO:0070232)
0.0 0.2 GO:0043402 glucocorticoid mediated signaling pathway(GO:0043402)
0.0 0.2 GO:0001672 regulation of chromatin assembly or disassembly(GO:0001672)
0.0 1.7 GO:0060349 bone morphogenesis(GO:0060349)
0.0 0.2 GO:0051205 protein insertion into membrane(GO:0051205)
0.0 0.5 GO:1902108 regulation of mitochondrial membrane permeability involved in apoptotic process(GO:1902108)
0.0 0.1 GO:0006348 chromatin silencing at telomere(GO:0006348)
0.0 0.1 GO:0015074 DNA integration(GO:0015074)
0.0 0.0 GO:0035627 ceramide transport(GO:0035627)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
1.1 4.3 GO:0000802 transverse filament(GO:0000802)
0.3 1.2 GO:1902636 kinociliary basal body(GO:1902636)
0.1 0.5 GO:0045251 mitochondrial electron transfer flavoprotein complex(GO:0017133) electron transfer flavoprotein complex(GO:0045251)
0.1 1.1 GO:0019907 cyclin-dependent protein kinase activating kinase holoenzyme complex(GO:0019907)
0.1 1.4 GO:0031209 SCAR complex(GO:0031209)
0.1 0.6 GO:0031983 vesicle lumen(GO:0031983)
0.1 1.0 GO:0036038 MKS complex(GO:0036038)
0.1 0.6 GO:0097136 Bcl-2 family protein complex(GO:0097136)
0.1 1.7 GO:0070971 endoplasmic reticulum exit site(GO:0070971)
0.1 0.7 GO:0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)(GO:0000276)
0.0 0.5 GO:0036156 inner dynein arm(GO:0036156)
0.0 0.9 GO:0005779 integral component of peroxisomal membrane(GO:0005779)
0.0 0.1 GO:0070826 paraferritin complex(GO:0070826)
0.0 0.5 GO:0033391 chromatoid body(GO:0033391)
0.0 0.6 GO:0071782 endoplasmic reticulum tubular network(GO:0071782)
0.0 3.0 GO:0072562 blood microparticle(GO:0072562)
0.0 1.3 GO:0099501 synaptic vesicle membrane(GO:0030672) exocytic vesicle membrane(GO:0099501)
0.0 0.4 GO:0005685 U1 snRNP(GO:0005685)
0.0 0.6 GO:0035145 exon-exon junction complex(GO:0035145)
0.0 0.4 GO:0031588 nucleotide-activated protein kinase complex(GO:0031588)
0.0 0.6 GO:0055038 recycling endosome membrane(GO:0055038)
0.0 6.3 GO:0005743 mitochondrial inner membrane(GO:0005743)
0.0 0.8 GO:0010494 cytoplasmic stress granule(GO:0010494)
0.0 0.1 GO:0046696 lipopolysaccharide receptor complex(GO:0046696)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
3.6 10.9 GO:0018479 benzaldehyde dehydrogenase (NAD+) activity(GO:0018479)
1.8 5.4 GO:0008401 retinoic acid 4-hydroxylase activity(GO:0008401)
1.0 3.1 GO:0015228 coenzyme A transmembrane transporter activity(GO:0015228) adenosine 3',5'-bisphosphate transmembrane transporter activity(GO:0071077) AMP transmembrane transporter activity(GO:0080122)
0.9 2.6 GO:0016206 catechol O-methyltransferase activity(GO:0016206)
0.6 1.8 GO:0016855 racemase and epimerase activity, acting on amino acids and derivatives(GO:0016855) racemase activity, acting on amino acids and derivatives(GO:0036361) amino-acid racemase activity(GO:0047661)
0.4 2.7 GO:0008559 xenobiotic-transporting ATPase activity(GO:0008559)
0.3 1.0 GO:0008480 sarcosine dehydrogenase activity(GO:0008480)
0.3 1.3 GO:0004315 3-oxoacyl-[acyl-carrier-protein] synthase activity(GO:0004315)
0.3 12.3 GO:0015020 glucuronosyltransferase activity(GO:0015020)
0.3 1.2 GO:0004090 carbonyl reductase (NADPH) activity(GO:0004090)
0.2 1.6 GO:0015198 oligopeptide transporter activity(GO:0015198)
0.2 2.3 GO:0001594 trace-amine receptor activity(GO:0001594)
0.2 6.6 GO:1900750 glutathione binding(GO:0043295) oligopeptide binding(GO:1900750)
0.2 1.0 GO:0008195 phosphatidate phosphatase activity(GO:0008195)
0.2 2.7 GO:0048273 mitogen-activated protein kinase p38 binding(GO:0048273)
0.2 1.0 GO:0008172 S-methyltransferase activity(GO:0008172)
0.2 0.5 GO:0004816 asparagine-tRNA ligase activity(GO:0004816)
0.1 1.2 GO:0002046 opsin binding(GO:0002046)
0.1 1.7 GO:0070403 NAD+ binding(GO:0070403)
0.1 2.7 GO:0004364 glutathione transferase activity(GO:0004364)
0.1 0.6 GO:0044547 DNA topoisomerase binding(GO:0044547)
0.1 0.8 GO:0001665 alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity(GO:0001665)
0.1 0.5 GO:0051033 nucleic acid transmembrane transporter activity(GO:0051032) RNA transmembrane transporter activity(GO:0051033)
0.1 0.4 GO:0035614 snRNA stem-loop binding(GO:0035614)
0.1 0.5 GO:0015220 choline transmembrane transporter activity(GO:0015220)
0.1 2.0 GO:0070330 aromatase activity(GO:0070330)
0.1 0.9 GO:1901702 urate transmembrane transporter activity(GO:0015143) salt transmembrane transporter activity(GO:1901702)
0.1 0.2 GO:0036033 mediator complex binding(GO:0036033)
0.1 0.2 GO:0004711 ribosomal protein S6 kinase activity(GO:0004711)
0.1 0.7 GO:0045236 CXCR chemokine receptor binding(GO:0045236)
0.1 0.5 GO:0015217 ATP transmembrane transporter activity(GO:0005347) ADP transmembrane transporter activity(GO:0015217)
0.1 0.6 GO:0030306 ADP-ribosylation factor binding(GO:0030306)
0.0 0.2 GO:0031849 olfactory receptor binding(GO:0031849)
0.0 1.0 GO:0051787 misfolded protein binding(GO:0051787)
0.0 0.1 GO:0098918 structural constituent of synapse(GO:0098918) structural constituent of postsynaptic actin cytoskeleton(GO:0098973)
0.0 1.3 GO:0005385 zinc ion transmembrane transporter activity(GO:0005385)
0.0 0.8 GO:0003951 NAD+ kinase activity(GO:0003951)
0.0 0.9 GO:0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen(GO:0016702)
0.0 0.6 GO:0051400 BH domain binding(GO:0051400)
0.0 1.8 GO:0016836 hydro-lyase activity(GO:0016836)
0.0 0.2 GO:0032453 histone demethylase activity (H3-K4 specific)(GO:0032453)
0.0 0.2 GO:0043423 3-phosphoinositide-dependent protein kinase binding(GO:0043423)
0.0 0.1 GO:0015639 cadmium ion transmembrane transporter activity(GO:0015086) lead ion transmembrane transporter activity(GO:0015094) vanadium ion transmembrane transporter activity(GO:0015100) ferrous iron uptake transmembrane transporter activity(GO:0015639)
0.0 0.6 GO:0070006 metalloaminopeptidase activity(GO:0070006)
0.0 0.2 GO:0052629 phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity(GO:0052629)
0.0 1.5 GO:0001205 transcriptional activator activity, RNA polymerase II distal enhancer sequence-specific binding(GO:0001205)
0.0 0.9 GO:0050681 androgen receptor binding(GO:0050681)
0.0 0.5 GO:0015347 sodium-independent organic anion transmembrane transporter activity(GO:0015347)
0.0 0.4 GO:0004679 AMP-activated protein kinase activity(GO:0004679)
0.0 0.5 GO:0008569 ATP-dependent microtubule motor activity, minus-end-directed(GO:0008569)
0.0 1.4 GO:0048365 Rac GTPase binding(GO:0048365)
0.0 0.8 GO:0061631 ubiquitin conjugating enzyme activity(GO:0061631)
0.0 1.0 GO:0004715 non-membrane spanning protein tyrosine kinase activity(GO:0004715)
0.0 1.0 GO:0005544 calcium-dependent phospholipid binding(GO:0005544)
0.0 0.2 GO:0004128 cytochrome-b5 reductase activity, acting on NAD(P)H(GO:0004128)
0.0 0.0 GO:0034191 apolipoprotein A-I receptor binding(GO:0034191)
0.0 3.5 GO:0061630 ubiquitin protein ligase activity(GO:0061630)
0.0 0.2 GO:0017160 Ral GTPase binding(GO:0017160)
0.0 0.3 GO:0005521 lamin binding(GO:0005521)
0.0 0.2 GO:0004435 phosphatidylinositol phospholipase C activity(GO:0004435)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 4.4 ST PHOSPHOINOSITIDE 3 KINASE PATHWAY PI3K Pathway
0.1 2.3 PID LIS1 PATHWAY Lissencephaly gene (LIS1) in neuronal migration and development
0.1 1.7 PID HDAC CLASSIII PATHWAY Signaling events mediated by HDAC Class III
0.0 2.7 PID ARF6 TRAFFICKING PATHWAY Arf6 trafficking events
0.0 2.2 PID HNF3A PATHWAY FOXA1 transcription factor network
0.0 1.4 PID ECADHERIN NASCENT AJ PATHWAY E-cadherin signaling in the nascent adherens junction
0.0 0.4 PID FRA PATHWAY Validated transcriptional targets of AP1 family members Fra1 and Fra2
0.0 1.8 PID NFAT TFPATHWAY Calcineurin-regulated NFAT-dependent transcription in lymphocytes
0.0 2.0 PID CMYB PATHWAY C-MYB transcription factor network
0.0 0.8 PID ERBB1 INTERNALIZATION PATHWAY Internalization of ErbB1

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
1.2 7.3 REACTOME ETHANOL OXIDATION Genes involved in Ethanol oxidation
0.3 2.7 REACTOME RECYCLING OF BILE ACIDS AND SALTS Genes involved in Recycling of bile acids and salts
0.2 5.4 REACTOME CYTOCHROME P450 ARRANGED BY SUBSTRATE TYPE Genes involved in Cytochrome P450 - arranged by substrate type
0.2 1.6 REACTOME TRANSPORT OF ORGANIC ANIONS Genes involved in Transport of organic anions
0.2 6.6 REACTOME GLUTATHIONE CONJUGATION Genes involved in Glutathione conjugation
0.1 2.6 REACTOME PHASE II CONJUGATION Genes involved in Phase II conjugation
0.1 0.9 REACTOME FACILITATIVE NA INDEPENDENT GLUCOSE TRANSPORTERS Genes involved in Facilitative Na+-independent glucose transporters
0.1 4.3 REACTOME MEIOTIC SYNAPSIS Genes involved in Meiotic Synapsis
0.1 1.0 REACTOME METABOLISM OF POLYAMINES Genes involved in Metabolism of polyamines
0.1 1.0 REACTOME SYNTHESIS OF PE Genes involved in Synthesis of PE
0.1 1.3 REACTOME ZINC TRANSPORTERS Genes involved in Zinc transporters
0.0 1.5 REACTOME REGULATION OF GENE EXPRESSION IN BETA CELLS Genes involved in Regulation of gene expression in beta cells
0.0 0.7 REACTOME FORMATION OF ATP BY CHEMIOSMOTIC COUPLING Genes involved in Formation of ATP by chemiosmotic coupling
0.0 0.5 REACTOME REGULATION OF RHEB GTPASE ACTIVITY BY AMPK Genes involved in Regulation of Rheb GTPase activity by AMPK
0.0 0.5 REACTOME SYNTHESIS OF PC Genes involved in Synthesis of PC
0.0 0.9 REACTOME PEROXISOMAL LIPID METABOLISM Genes involved in Peroxisomal lipid metabolism
0.0 2.3 REACTOME L1CAM INTERACTIONS Genes involved in L1CAM interactions
0.0 0.6 REACTOME MRNA 3 END PROCESSING Genes involved in mRNA 3'-end processing
0.0 0.2 REACTOME SYNTHESIS OF PIPS AT THE LATE ENDOSOME MEMBRANE Genes involved in Synthesis of PIPs at the late endosome membrane
0.0 0.2 REACTOME MTORC1 MEDIATED SIGNALLING Genes involved in mTORC1-mediated signalling