Coexpression cluster:C18: Difference between revisions
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|ontology_enrichment_uberon=UBERON:0007023!3.26e-26!115;UBERON:0002193!5.19e-20!112;UBERON:0002390!1.16e-19!102;UBERON:0003061!1.16e-19!102;UBERON:0002371!1.65e-10!80;UBERON:0002405!5.29e-09!115;UBERON:0000178!7.64e-09!15;UBERON:0000179!7.64e-09!15;UBERON:0000463!7.64e-09!15;UBERON:0001474!1.15e-08!86 | |ontology_enrichment_uberon=UBERON:0007023!3.26e-26!115;UBERON:0002193!5.19e-20!112;UBERON:0002390!1.16e-19!102;UBERON:0003061!1.16e-19!102;UBERON:0002371!1.65e-10!80;UBERON:0002405!5.29e-09!115;UBERON:0000178!7.64e-09!15;UBERON:0000179!7.64e-09!15;UBERON:0000463!7.64e-09!15;UBERON:0001474!1.15e-08!86 | ||
|pathway_enrichment=0.000740840164769211;0.0195396593457879;5;78;Phosphatidylinositol signaling system (KEGG):04070!1.45769600430088e-06;0.000102524618969162;8;88;Hematopoietic cell lineage (KEGG):04640!4.88058524526914e-06;0.000280855496386851;9;137;Natural killer cell mediated cytotoxicity (KEGG):04650!6.76325474126258e-14;1.42704675040641e-11;15;108;T cell receptor signaling pathway (KEGG):04660!4.06953100842964e-06;0.000257601312833596;9;134;Measles (KEGG):05162!0.000255538534736242;0.00898643847155784;5;62;Colorectal cancer (KEGG):05210!7.00903663192283e-07;5.54590023500894e-05;6;35;Primary immunodeficiency (KEGG):05340!0.000649672947200961;0.0178801293729656;3;19;Globo Sphingolipid Metabolism (Wikipathways):WP1424!3.16841552905169e-08;3.34267838314954e-06;12;161;B Cell Receptor Signaling Pathway (Wikipathways):WP23!0.00179437716841372;0.0405657409859245;5;95;G Protein Signaling Pathways (Wikipathways):WP35!0.00029667339092283;0.00941965938490728;5;64;IL-4 signaling Pathway (Wikipathways):WP395!0.000297619569823295;0.00941965938490728;6;99;Wnt Signaling Pathway and Pluripotency (Wikipathways):WP399!0.00219812553958726;0.0463804488852913;4;60;Wnt Signaling Pathway (Wikipathways):WP363!7.43848099304586e-05;0.00294284904287377;6;77;IL-2 Signaling Pathway (Wikipathways):WP49!0.00011591503466725;0.00431613040849232;4;28;Interferon type I (Wikipathways):WP585!8.0990075558309e-19;5.12667178284096e-16;20;133;T Cell Receptor Signaling Pathway (Wikipathways):WP69!0.0010365668512521;0.0252364160324069;5;84;DNA damage response (only ATM dependent) (Wikipathways):WP710!3.94850625372275e-10;4.998808917213e-08;23;511;Signaling in Immune system (Reactome):REACT_6900!2.77318604714882e-05;0.00125387626274657;15;466;Hemostasis (Reactome):REACT_604!0.000812486919635611;0.0205721688051737;4;46;Interactions of the immunoglobulin superfamily (IgSF) member proteins (Reactome):REACT_23853!0.000453471671656435;0.0132956492316827;9;246;B Cell Receptor up reg. targets (Netpath):NetPath_12!1.64301595493061e-05;0.00080002238420852;12;291;T Cell Receptor up reg. targets (Netpath):NetPath_11!1.11879444941786e-07;1.01170983783073e-05;18;433;IL-2 up reg. targets (Netpath):NetPath_14!4.77730105459574e-16;1.51201578377955e-13;24;295;IL-2 down reg. targets (Netpath):NetPath_14!3.28462696405158e-05;0.00138611257882977;10;217;IL-4 up reg. targets (Netpath):NetPath_16!7.13456590426207e-06;0.000376348351449824;5;30;{FYN,30} (Static Module):NA!5.46563783320736e-13;8.64937187105065e-11;24;406;{GRB2,414} (Static Module):NA!0.000462092074402873;0.0132956492316827;3;17;{HCLS1,17} (Static Module):NA!0.00206757008877661;0.0451300643515722;3;28;{PLCG2,30} (Static Module):NA!0.00135606317655407;0.0317921478058786;6;132;{RAC1,133} (Static Module):NA | |pathway_enrichment=0.000740840164769211;0.0195396593457879;5;78;Phosphatidylinositol signaling system (KEGG):04070!1.45769600430088e-06;0.000102524618969162;8;88;Hematopoietic cell lineage (KEGG):04640!4.88058524526914e-06;0.000280855496386851;9;137;Natural killer cell mediated cytotoxicity (KEGG):04650!6.76325474126258e-14;1.42704675040641e-11;15;108;T cell receptor signaling pathway (KEGG):04660!4.06953100842964e-06;0.000257601312833596;9;134;Measles (KEGG):05162!0.000255538534736242;0.00898643847155784;5;62;Colorectal cancer (KEGG):05210!7.00903663192283e-07;5.54590023500894e-05;6;35;Primary immunodeficiency (KEGG):05340!0.000649672947200961;0.0178801293729656;3;19;Globo Sphingolipid Metabolism (Wikipathways):WP1424!3.16841552905169e-08;3.34267838314954e-06;12;161;B Cell Receptor Signaling Pathway (Wikipathways):WP23!0.00179437716841372;0.0405657409859245;5;95;G Protein Signaling Pathways (Wikipathways):WP35!0.00029667339092283;0.00941965938490728;5;64;IL-4 signaling Pathway (Wikipathways):WP395!0.000297619569823295;0.00941965938490728;6;99;Wnt Signaling Pathway and Pluripotency (Wikipathways):WP399!0.00219812553958726;0.0463804488852913;4;60;Wnt Signaling Pathway (Wikipathways):WP363!7.43848099304586e-05;0.00294284904287377;6;77;IL-2 Signaling Pathway (Wikipathways):WP49!0.00011591503466725;0.00431613040849232;4;28;Interferon type I (Wikipathways):WP585!8.0990075558309e-19;5.12667178284096e-16;20;133;T Cell Receptor Signaling Pathway (Wikipathways):WP69!0.0010365668512521;0.0252364160324069;5;84;DNA damage response (only ATM dependent) (Wikipathways):WP710!3.94850625372275e-10;4.998808917213e-08;23;511;Signaling in Immune system (Reactome):REACT_6900!2.77318604714882e-05;0.00125387626274657;15;466;Hemostasis (Reactome):REACT_604!0.000812486919635611;0.0205721688051737;4;46;Interactions of the immunoglobulin superfamily (IgSF) member proteins (Reactome):REACT_23853!0.000453471671656435;0.0132956492316827;9;246;B Cell Receptor up reg. targets (Netpath):NetPath_12!1.64301595493061e-05;0.00080002238420852;12;291;T Cell Receptor up reg. targets (Netpath):NetPath_11!1.11879444941786e-07;1.01170983783073e-05;18;433;IL-2 up reg. targets (Netpath):NetPath_14!4.77730105459574e-16;1.51201578377955e-13;24;295;IL-2 down reg. targets (Netpath):NetPath_14!3.28462696405158e-05;0.00138611257882977;10;217;IL-4 up reg. targets (Netpath):NetPath_16!7.13456590426207e-06;0.000376348351449824;5;30;{FYN,30} (Static Module):NA!5.46563783320736e-13;8.64937187105065e-11;24;406;{GRB2,414} (Static Module):NA!0.000462092074402873;0.0132956492316827;3;17;{HCLS1,17} (Static Module):NA!0.00206757008877661;0.0451300643515722;3;28;{PLCG2,30} (Static Module):NA!0.00135606317655407;0.0317921478058786;6;132;{RAC1,133} (Static Module):NA | ||
|tf_chipseq_enrich=BATF#10538;60:1.79101483766939:1.4190884812056e-05:0.00034031729480742!BCL11A#53335;52:1.807857433073:4.18575859566788e-05:0.000758293914957429!EBF1#1879;138:1.50624071669917:7.71941951778191e-07:3.38885437165878e-05!IRF4#3662;57:1.53079316561816:0.00117270436338747:0.00796747794742543!RAD21#5885;116:1.47203913219722:1.88486241647227e-05:0.000427662711088306!SPI1#6688;175:1.75950565440132:6.93607192334722e-14:1.10426282866229e-11!ZEB1#6935;71:1.46945915838923:0.000907421705645427:0.00660695869463906 | |||
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| ||
}} | }} |
Revision as of 13:26, 5 September 2012
Full id: C18_CD4_CD8_thymus_Whole_Peripheral_Natural_blood
Phase1 CAGE Peaks
Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data
p.value | FDR | nGenes | nPathway | Name |
---|---|---|---|---|
0.000740840164769211 | 0.0195396593457879 | 5 | 78 | Phosphatidylinositol signaling system (KEGG):04070 |
1.45769600430088e-06 | 0.000102524618969162 | 8 | 88 | Hematopoietic cell lineage (KEGG):04640 |
4.88058524526914e-06 | 0.000280855496386851 | 9 | 137 | Natural killer cell mediated cytotoxicity (KEGG):04650 |
6.76325474126258e-14 | 1.42704675040641e-11 | 15 | 108 | T cell receptor signaling pathway (KEGG):04660 |
4.06953100842964e-06 | 0.000257601312833596 | 9 | 134 | Measles (KEGG):05162 |
0.000255538534736242 | 0.00898643847155784 | 5 | 62 | Colorectal cancer (KEGG):05210 |
7.00903663192283e-07 | 5.54590023500894e-05 | 6 | 35 | Primary immunodeficiency (KEGG):05340 |
0.000649672947200961 | 0.0178801293729656 | 3 | 19 | Globo Sphingolipid Metabolism (Wikipathways):WP1424 |
3.16841552905169e-08 | 3.34267838314954e-06 | 12 | 161 | B Cell Receptor Signaling Pathway (Wikipathways):WP23 |
0.00179437716841372 | 0.0405657409859245 | 5 | 95 | G Protein Signaling Pathways (Wikipathways):WP35 |
0.00029667339092283 | 0.00941965938490728 | 5 | 64 | IL-4 signaling Pathway (Wikipathways):WP395 |
0.000297619569823295 | 0.00941965938490728 | 6 | 99 | Wnt Signaling Pathway and Pluripotency (Wikipathways):WP399 |
0.00219812553958726 | 0.0463804488852913 | 4 | 60 | Wnt Signaling Pathway (Wikipathways):WP363 |
7.43848099304586e-05 | 0.00294284904287377 | 6 | 77 | IL-2 Signaling Pathway (Wikipathways):WP49 |
0.00011591503466725 | 0.00431613040849232 | 4 | 28 | Interferon type I (Wikipathways):WP585 |
8.0990075558309e-19 | 5.12667178284096e-16 | 20 | 133 | T Cell Receptor Signaling Pathway (Wikipathways):WP69 |
0.0010365668512521 | 0.0252364160324069 | 5 | 84 | DNA damage response (only ATM dependent) (Wikipathways):WP710 |
3.94850625372275e-10 | 4.998808917213e-08 | 23 | 511 | Signaling in Immune system (Reactome):REACT_6900 |
2.77318604714882e-05 | 0.00125387626274657 | 15 | 466 | Hemostasis (Reactome):REACT_604 |
0.000812486919635611 | 0.0205721688051737 | 4 | 46 | Interactions of the immunoglobulin superfamily (IgSF) member proteins (Reactome):REACT_23853 |
0.000453471671656435 | 0.0132956492316827 | 9 | 246 | B Cell Receptor up reg. targets (Netpath):NetPath_12 |
1.64301595493061e-05 | 0.00080002238420852 | 12 | 291 | T Cell Receptor up reg. targets (Netpath):NetPath_11 |
1.11879444941786e-07 | 1.01170983783073e-05 | 18 | 433 | IL-2 up reg. targets (Netpath):NetPath_14 |
4.77730105459574e-16 | 1.51201578377955e-13 | 24 | 295 | IL-2 down reg. targets (Netpath):NetPath_14 |
3.28462696405158e-05 | 0.00138611257882977 | 10 | 217 | IL-4 up reg. targets (Netpath):NetPath_16 |
7.13456590426207e-06 | 0.000376348351449824 | 5 | 30 | {FYN,30} (Static Module):NA |
5.46563783320736e-13 | 8.64937187105065e-11 | 24 | 406 | {GRB2,414} (Static Module):NA |
0.000462092074402873 | 0.0132956492316827 | 3 | 17 | {HCLS1,17} (Static Module):NA |
0.00206757008877661 | 0.0451300643515722 | 3 | 28 | {PLCG2,30} (Static Module):NA |
0.00135606317655407 | 0.0317921478058786 | 6 | 132 | {RAC1,133} (Static Module):NA |
Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data
GO ID | GO name | FDR corrected p-value |
---|---|---|
GO:0007154 | cell communication | 3.02115414940413e-16 |
GO:0007165 | signal transduction | 3.37380803575574e-16 |
GO:0002376 | immune system process | 5.32431786837298e-16 |
GO:0005515 | protein binding | 1.71242651769519e-14 |
GO:0007242 | intracellular signaling cascade | 2.40146483485452e-11 |
GO:0048518 | positive regulation of biological process | 5.99287611314551e-11 |
GO:0032502 | developmental process | 5.99287611314551e-11 |
GO:0048468 | cell development | 1.08895176322003e-10 |
GO:0050789 | regulation of biological process | 2.15159960302347e-10 |
GO:0006955 | immune response | 2.33783785502971e-10 |
GO:0001772 | immunological synapse | 2.33783785502971e-10 |
GO:0048869 | cellular developmental process | 2.33783785502971e-10 |
GO:0030154 | cell differentiation | 2.33783785502971e-10 |
GO:0065007 | biological regulation | 2.37575222244759e-10 |
GO:0042110 | T cell activation | 4.50454204841677e-10 |
GO:0051249 | regulation of lymphocyte activation | 8.00240439296487e-10 |
GO:0050865 | regulation of cell activation | 1.27596730674463e-09 |
GO:0042101 | T cell receptor complex | 1.42233678076536e-09 |
GO:0050863 | regulation of T cell activation | 1.91790513768189e-09 |
GO:0046649 | lymphocyte activation | 2.98428865236934e-09 |
GO:0050794 | regulation of cellular process | 1.47514885966209e-08 |
GO:0045321 | leukocyte activation | 1.5508746376902e-08 |
GO:0051239 | regulation of multicellular organismal process | 1.77626516862642e-08 |
GO:0001775 | cell activation | 7.89484195249007e-08 |
GO:0048856 | anatomical structure development | 8.28736112120009e-08 |
GO:0005737 | cytoplasm | 2.7135028877551e-07 |
GO:0051251 | positive regulation of lymphocyte activation | 5.08612564561031e-07 |
GO:0048731 | system development | 6.42293042438398e-07 |
GO:0008219 | cell death | 7.32964686504579e-07 |
GO:0016265 | death | 7.32964686504579e-07 |
GO:0048523 | negative regulation of cellular process | 7.3675675922367e-07 |
GO:0048513 | organ development | 7.94015647493593e-07 |
GO:0044464 | cell part | 1.17021907239509e-06 |
GO:0006915 | apoptosis | 1.21411571949985e-06 |
GO:0012501 | programmed cell death | 1.34773634562895e-06 |
GO:0048519 | negative regulation of biological process | 2.01352068799183e-06 |
GO:0050870 | positive regulation of T cell activation | 2.96860403859279e-06 |
GO:0044459 | plasma membrane part | 5.70784960717926e-06 |
GO:0005887 | integral to plasma membrane | 6.05099924687726e-06 |
GO:0048522 | positive regulation of cellular process | 6.05099924687726e-06 |
GO:0031226 | intrinsic to plasma membrane | 8.06575782756433e-06 |
GO:0005886 | plasma membrane | 1.09898681106764e-05 |
GO:0032501 | multicellular organismal process | 1.13773532007865e-05 |
GO:0065009 | regulation of a molecular function | 1.92460483645295e-05 |
GO:0007275 | multicellular organismal development | 2.83611463900922e-05 |
GO:0007166 | cell surface receptor linked signal transduction | 3.41011139615051e-05 |
GO:0009653 | anatomical structure morphogenesis | 5.32898883314955e-05 |
GO:0043235 | receptor complex | 6.06563979688626e-05 |
GO:0042981 | regulation of apoptosis | 6.33379314132588e-05 |
GO:0004715 | non-membrane spanning protein tyrosine kinase activity | 6.33379314132588e-05 |
GO:0043067 | regulation of programmed cell death | 6.96646461258726e-05 |
GO:0008283 | cell proliferation | 0.000286298424554311 |
GO:0000074 | regulation of progression through cell cycle | 0.000530588249389242 |
GO:0044424 | intracellular part | 0.000539371544477299 |
GO:0050790 | regulation of catalytic activity | 0.000550451133647213 |
GO:0051726 | regulation of cell cycle | 0.00057983624700299 |
GO:0030098 | lymphocyte differentiation | 0.000581583716198927 |
GO:0009966 | regulation of signal transduction | 0.000588137229251105 |
GO:0030097 | hemopoiesis | 0.000604343100455434 |
GO:0001766 | lipid raft polarization | 0.000618801674028815 |
GO:0043368 | positive T cell selection | 0.000618801674028815 |
GO:0050862 | positive regulation of T cell receptor signaling pathway | 0.000618801674028815 |
GO:0031580 | lipid raft distribution | 0.000618801674028815 |
GO:0048485 | sympathetic nervous system development | 0.000618801674028815 |
GO:0051665 | lipid raft localization | 0.000618801674028815 |
GO:0045059 | positive thymic T cell selection | 0.000618801674028815 |
GO:0007243 | protein kinase cascade | 0.000717419721261678 |
GO:0005622 | intracellular | 0.000733940602970607 |
GO:0048534 | hemopoietic or lymphoid organ development | 0.000818530056775538 |
GO:0002520 | immune system development | 0.00111307431190275 |
GO:0019904 | protein domain specific binding | 0.00122594511127115 |
GO:0030217 | T cell differentiation | 0.00131767466294017 |
GO:0043085 | positive regulation of catalytic activity | 0.00135272456889564 |
GO:0045619 | regulation of lymphocyte differentiation | 0.00152280099378759 |
GO:0044425 | membrane part | 0.00157437727172121 |
GO:0048483 | autonomic nervous system development | 0.00158570824032175 |
GO:0042608 | T cell receptor binding | 0.00158570824032175 |
GO:0050792 | regulation of viral reproduction | 0.00172541099780276 |
GO:0050852 | T cell receptor signaling pathway | 0.00172541099780276 |
GO:0016020 | membrane | 0.00185401499386472 |
GO:0007265 | Ras protein signal transduction | 0.00188052304347513 |
GO:0030159 | receptor signaling complex scaffold activity | 0.00198706166351291 |
GO:0002521 | leukocyte differentiation | 0.00206285356393813 |
GO:0016021 | integral to membrane | 0.00208762251930897 |
GO:0009986 | cell surface | 0.00236330554460812 |
GO:0031224 | intrinsic to membrane | 0.00236330554460812 |
GO:0009897 | external side of plasma membrane | 0.00236330554460812 |
GO:0019058 | viral infectious cycle | 0.00236330554460812 |
GO:0032947 | protein complex scaffold | 0.00253804714200831 |
GO:0031579 | lipid raft organization and biogenesis | 0.002703954949054 |
GO:0006913 | nucleocytoplasmic transport | 0.00276507074811125 |
GO:0042990 | regulation of transcription factor import into nucleus | 0.00279276332026612 |
GO:0042991 | transcription factor import into nucleus | 0.00279276332026612 |
GO:0043028 | caspase regulator activity | 0.00279276332026612 |
GO:0019900 | kinase binding | 0.00281136435159144 |
GO:0051169 | nuclear transport | 0.00281136435159144 |
GO:0045786 | negative regulation of progression through cell cycle | 0.00300459420553757 |
GO:0042306 | regulation of protein import into nucleus | 0.00305859362281567 |
GO:0033157 | regulation of intracellular protein transport | 0.00305859362281567 |
GO:0019899 | enzyme binding | 0.00328721905244186 |
GO:0004713 | protein-tyrosine kinase activity | 0.0033987988050531 |
GO:0022415 | viral reproductive process | 0.0033987988050531 |
GO:0046982 | protein heterodimerization activity | 0.0034285505193633 |
GO:0016043 | cellular component organization and biogenesis | 0.00372045779382843 |
GO:0019992 | diacylglycerol binding | 0.00372045779382843 |
GO:0043231 | intracellular membrane-bound organelle | 0.00372045779382843 |
GO:0045061 | thymic T cell selection | 0.00372045779382843 |
GO:0001784 | phosphotyrosine binding | 0.00372045779382843 |
GO:0043227 | membrane-bound organelle | 0.00372045779382843 |
GO:0060090 | molecular adaptor activity | 0.00384338100801981 |
GO:0051049 | regulation of transport | 0.00394854348243024 |
GO:0032386 | regulation of intracellular transport | 0.00399140882315836 |
GO:0043549 | regulation of kinase activity | 0.00401416339559869 |
GO:0001816 | cytokine production | 0.00435391653899512 |
GO:0051338 | regulation of transferase activity | 0.0044538162031551 |
GO:0030695 | GTPase regulator activity | 0.0044538162031551 |
GO:0050851 | antigen receptor-mediated signaling pathway | 0.00482182965481343 |
GO:0050857 | positive regulation of antigen receptor-mediated signaling pathway | 0.00495244786084559 |
GO:0045309 | protein phosphorylated amino acid binding | 0.00495244786084559 |
GO:0043027 | caspase inhibitor activity | 0.00495244786084559 |
GO:0042346 | positive regulation of NF-kappaB import into nucleus | 0.00495244786084559 |
GO:0050856 | regulation of T cell receptor signaling pathway | 0.00495244786084559 |
GO:0051223 | regulation of protein transport | 0.00511727754777686 |
GO:0043065 | positive regulation of apoptosis | 0.00512644464237651 |
GO:0043068 | positive regulation of programmed cell death | 0.00532699687310931 |
GO:0031098 | stress-activated protein kinase signaling pathway | 0.00542416284729422 |
GO:0046822 | regulation of nucleocytoplasmic transport | 0.00546370832071697 |
GO:0019079 | viral genome replication | 0.00546370832071697 |
GO:0002429 | immune response-activating cell surface receptor signaling pathway | 0.0060005962363886 |
GO:0016773 | phosphotransferase activity, alcohol group as acceptor | 0.00603505139343722 |
GO:0019932 | second-messenger-mediated signaling | 0.00623155979630186 |
GO:0045621 | positive regulation of lymphocyte differentiation | 0.00623155979630186 |
GO:0021543 | pallium development | 0.00623155979630186 |
GO:0048524 | positive regulation of viral reproduction | 0.00623155979630186 |
GO:0031252 | leading edge | 0.00623155979630186 |
GO:0006968 | cellular defense response | 0.00623155979630186 |
GO:0002768 | immune response-regulating cell surface receptor signaling pathway | 0.00623155979630186 |
GO:0002757 | immune response-activating signal transduction | 0.00680017659647682 |
GO:0002764 | immune response-regulating signal transduction | 0.00739788428060438 |
GO:0000045 | autophagic vacuole formation | 0.00783268628795088 |
GO:0042307 | positive regulation of protein import into nucleus | 0.00783268628795088 |
GO:0042993 | positive regulation of transcription factor import into nucleus | 0.00783268628795088 |
GO:0045471 | response to ethanol | 0.00783268628795088 |
GO:0045860 | positive regulation of protein kinase activity | 0.00943796886506135 |
GO:0006917 | induction of apoptosis | 0.00946085925130061 |
GO:0005083 | small GTPase regulator activity | 0.00948231068686304 |
GO:0051056 | regulation of small GTPase mediated signal transduction | 0.00948371086973257 |
GO:0012502 | induction of programmed cell death | 0.00948371086973257 |
GO:0045058 | T cell selection | 0.00948371086973257 |
GO:0016236 | macroautophagy | 0.00948371086973257 |
GO:0033077 | T cell differentiation in the thymus | 0.00948371086973257 |
GO:0019722 | calcium-mediated signaling | 0.00948371086973257 |
GO:0019901 | protein kinase binding | 0.00948371086973257 |
GO:0033674 | positive regulation of kinase activity | 0.00969685614187851 |
GO:0008373 | sialyltransferase activity | 0.00999811053945794 |
GO:0051050 | positive regulation of transport | 0.00999811053945794 |
GO:0016323 | basolateral plasma membrane | 0.0101011359570705 |
GO:0051347 | positive regulation of transferase activity | 0.0103618524728839 |
GO:0030027 | lamellipodium | 0.0105862060225272 |
GO:0050854 | regulation of antigen receptor-mediated signaling pathway | 0.0109210746724898 |
GO:0046824 | positive regulation of nucleocytoplasmic transport | 0.0109210746724898 |
GO:0045580 | regulation of T cell differentiation | 0.0109210746724898 |
GO:0051219 | phosphoprotein binding | 0.0109210746724898 |
GO:0000165 | MAPKKK cascade | 0.0109210746724898 |
GO:0030674 | protein binding, bridging | 0.0123819785029734 |
GO:0051222 | positive regulation of protein transport | 0.0130388714270561 |
GO:0021537 | telencephalon development | 0.0130388714270561 |
GO:0007399 | nervous system development | 0.013090411419121 |
GO:0007498 | mesoderm development | 0.0141592928696855 |
GO:0045859 | regulation of protein kinase activity | 0.0142614550594404 |
GO:0006464 | protein modification process | 0.0144626418449082 |
GO:0006606 | protein import into nucleus | 0.0144677383590702 |
GO:0042348 | NF-kappaB import into nucleus | 0.0148799886113512 |
GO:0045767 | regulation of anti-apoptosis | 0.0148799886113512 |
GO:0042345 | regulation of NF-kappaB import into nucleus | 0.0148799886113512 |
GO:0022402 | cell cycle process | 0.0151433678527892 |
GO:0051170 | nuclear import | 0.0151433678527892 |
GO:0045121 | lipid raft | 0.0151433678527892 |
GO:0048732 | gland development | 0.0151433678527892 |
GO:0005088 | Ras guanyl-nucleotide exchange factor activity | 0.0151433678527892 |
GO:0019955 | cytokine binding | 0.0153913329817886 |
GO:0005634 | nucleus | 0.0162441705617108 |
GO:0043229 | intracellular organelle | 0.0163827126562551 |
GO:0043393 | regulation of protein binding | 0.0163827126562551 |
GO:0007009 | plasma membrane organization and biogenesis | 0.0163827126562551 |
GO:0051668 | localization within membrane | 0.0163827126562551 |
GO:0045069 | regulation of viral genome replication | 0.0163827126562551 |
GO:0043226 | organelle | 0.0163827126562551 |
GO:0005070 | SH3/SH2 adaptor activity | 0.0172787313268853 |
GO:0051240 | positive regulation of multicellular organismal process | 0.0180840917926729 |
GO:0006468 | protein amino acid phosphorylation | 0.0180840917926729 |
GO:0035004 | phosphoinositide 3-kinase activity | 0.0210263517595348 |
GO:0016303 | 1-phosphatidylinositol-3-kinase activity | 0.0210263517595348 |
GO:0004697 | protein kinase C activity | 0.0210263517595348 |
GO:0001565 | phorbol ester receptor activity | 0.0210263517595348 |
GO:0008047 | enzyme activator activity | 0.0219455679750264 |
GO:0016301 | kinase activity | 0.0226433633951797 |
GO:0043687 | post-translational protein modification | 0.0226848280028303 |
GO:0009887 | organ morphogenesis | 0.0232327089348501 |
GO:0015026 | coreceptor activity | 0.0232327089348501 |
GO:0016505 | apoptotic protease activator activity | 0.0232327089348501 |
GO:0046983 | protein dimerization activity | 0.0244353221984984 |
GO:0043412 | biopolymer modification | 0.0249276879220759 |
GO:0042127 | regulation of cell proliferation | 0.0253203716203037 |
GO:0007405 | neuroblast proliferation | 0.0256030910979704 |
GO:0007612 | learning | 0.0256030910979704 |
GO:0046578 | regulation of Ras protein signal transduction | 0.0268316908546204 |
GO:0006952 | defense response | 0.0272977499283912 |
GO:0042035 | regulation of cytokine biosynthetic process | 0.0272977499283912 |
GO:0022405 | hair cycle process | 0.0272977499283912 |
GO:0016504 | protease activator activity | 0.0272977499283912 |
GO:0022404 | molting cycle process | 0.0272977499283912 |
GO:0042303 | molting cycle | 0.0272977499283912 |
GO:0042633 | hair cycle | 0.0272977499283912 |
GO:0042169 | SH2 domain binding | 0.0272977499283912 |
GO:0001942 | hair follicle development | 0.0272977499283912 |
GO:0017038 | protein import | 0.0272977499283912 |
GO:0030173 | integral to Golgi membrane | 0.0279505945540055 |
GO:0010033 | response to organic substance | 0.0291263116764023 |
GO:0042475 | odontogenesis of dentine-containing teeth | 0.0299369893765798 |
GO:0007254 | JNK cascade | 0.0306189656187448 |
GO:0017124 | SH3 domain binding | 0.0306189656187448 |
GO:0007049 | cell cycle | 0.0306189656187448 |
GO:0001920 | negative regulation of receptor recycling | 0.0306189656187448 |
GO:0048270 | methionine adenosyltransferase regulator activity | 0.0306189656187448 |
GO:0048715 | negative regulation of oligodendrocyte differentiation | 0.0306189656187448 |
GO:0014074 | response to purine | 0.0306189656187448 |
GO:0031665 | negative regulation of lipopolysaccharide-mediated signaling pathway | 0.0306189656187448 |
GO:0000093 | mitotic telophase | 0.0306189656187448 |
GO:0032847 | regulation of cellular pH reduction | 0.0306189656187448 |
GO:0051326 | telophase | 0.0306189656187448 |
GO:0021542 | dentate gyrus development | 0.0306189656187448 |
GO:0042421 | norepinephrine biosynthetic process | 0.0306189656187448 |
GO:0048040 | UDP-glucuronate decarboxylase activity | 0.0306189656187448 |
GO:0045226 | extracellular polysaccharide biosynthetic process | 0.0306189656187448 |
GO:0050757 | thymidylate synthase biosynthetic process | 0.0306189656187448 |
GO:0047710 | bis(5'-adenosyl)-triphosphatase activity | 0.0306189656187448 |
GO:0042610 | CD8 receptor binding | 0.0306189656187448 |
GO:0021897 | forebrain astrocyte development | 0.0306189656187448 |
GO:0014065 | phosphoinositide 3-kinase cascade | 0.0306189656187448 |
GO:0031664 | regulation of lipopolysaccharide-mediated signaling pathway | 0.0306189656187448 |
GO:0032089 | NACHT domain binding | 0.0306189656187448 |
GO:0048269 | methionine adenosyltransferase complex | 0.0306189656187448 |
GO:0008831 | dTDP-4-dehydrorhamnose reductase activity | 0.0306189656187448 |
GO:0032845 | negative regulation of homeostatic process | 0.0306189656187448 |
GO:0042415 | norepinephrine metabolic process | 0.0306189656187448 |
GO:0048745 | smooth muscle development | 0.0306189656187448 |
GO:0005896 | interleukin-6 receptor complex | 0.0306189656187448 |
GO:0030887 | positive regulation of myeloid dendritic cell activation | 0.0306189656187448 |
GO:0031000 | response to caffeine | 0.0306189656187448 |
GO:0032848 | negative regulation of cellular pH reduction | 0.0306189656187448 |
GO:0032844 | regulation of homeostatic process | 0.0306189656187448 |
GO:0050760 | negative regulation of thymidylate synthase biosynthetic process | 0.0306189656187448 |
GO:0046379 | extracellular polysaccharide metabolic process | 0.0306189656187448 |
GO:0021896 | forebrain astrocyte differentiation | 0.0306189656187448 |
GO:0050758 | regulation of thymidylate synthase biosynthetic process | 0.0306189656187448 |
GO:0042089 | cytokine biosynthetic process | 0.0307246870244034 |
GO:0007088 | regulation of mitosis | 0.0307246870244034 |
GO:0007257 | activation of JNK activity | 0.0310149234245907 |
GO:0042107 | cytokine metabolic process | 0.031774176070993 |
GO:0009888 | tissue development | 0.0320377026435111 |
GO:0051336 | regulation of hydrolase activity | 0.0329218140380812 |
GO:0043627 | response to estrogen stimulus | 0.0333555742681817 |
GO:0030139 | endocytic vesicle | 0.0333555742681817 |
GO:0005085 | guanyl-nucleotide exchange factor activity | 0.033539445578795 |
GO:0006605 | protein targeting | 0.033539445578795 |
GO:0031228 | intrinsic to Golgi membrane | 0.033539445578795 |
GO:0008081 | phosphoric diester hydrolase activity | 0.0341258282050216 |
GO:0002253 | activation of immune response | 0.0346266505253508 |
GO:0046847 | filopodium formation | 0.0354667517093121 |
GO:0043507 | positive regulation of JNK activity | 0.0354667517093121 |
GO:0007264 | small GTPase mediated signal transduction | 0.0363180984441625 |
GO:0007267 | cell-cell signaling | 0.0376326606252215 |
GO:0045787 | positive regulation of progression through cell cycle | 0.0379976743974622 |
GO:0030035 | microspike biogenesis | 0.0379976743974622 |
GO:0006959 | humoral immune response | 0.0392111390576374 |
GO:0016055 | Wnt receptor signaling pathway | 0.0392111390576374 |
GO:0043506 | regulation of JNK activity | 0.040281593053713 |
GO:0042476 | odontogenesis | 0.040281593053713 |
GO:0042102 | positive regulation of T cell proliferation | 0.040281593053713 |
GO:0043523 | regulation of neuron apoptosis | 0.040281593053713 |
GO:0004672 | protein kinase activity | 0.0409518534064469 |
GO:0008284 | positive regulation of cell proliferation | 0.0414867892711802 |
GO:0006914 | autophagy | 0.0428787294495776 |
GO:0042552 | myelination | 0.0428787294495776 |
GO:0005089 | Rho guanyl-nucleotide exchange factor activity | 0.044675572665027 |
GO:0006796 | phosphate metabolic process | 0.045056560317573 |
GO:0006793 | phosphorus metabolic process | 0.045056560317573 |
GO:0002274 | myeloid leukocyte activation | 0.0451991085876664 |
GO:0007093 | mitotic cell cycle checkpoint | 0.0451991085876664 |
GO:0030111 | regulation of Wnt receptor signaling pathway | 0.0451991085876664 |
GO:0005741 | mitochondrial outer membrane | 0.0474023054815279 |
GO:0051098 | regulation of binding | 0.0481784571403943 |
GO:0042803 | protein homodimerization activity | 0.0487104968420919 |
GO:0050778 | positive regulation of immune response | 0.0487104968420919 |
GO:0005096 | GTPase activator activity | 0.0487104968420919 |
GO:0035023 | regulation of Rho protein signal transduction | 0.0487104968420919 |
GO:0050434 | positive regulation of viral transcription | 0.0487104968420919 |
GO:0004917 | interleukin-7 receptor activity | 0.0487104968420919 |
GO:0032292 | ensheathment of axons in the peripheral nervous system | 0.0487104968420919 |
GO:0019982 | interleukin-7 binding | 0.0487104968420919 |
GO:0004392 | heme oxygenase (decyclizing) activity | 0.0487104968420919 |
GO:0001919 | regulation of receptor recycling | 0.0487104968420919 |
GO:0048713 | regulation of oligodendrocyte differentiation | 0.0487104968420919 |
GO:0004119 | cGMP-inhibited cyclic-nucleotide phosphodiesterase activity | 0.0487104968420919 |
GO:0004915 | interleukin-6 receptor activity | 0.0487104968420919 |
GO:0022409 | positive regulation of cell-cell adhesion | 0.0487104968420919 |
GO:0048853 | forebrain morphogenesis | 0.0487104968420919 |
GO:0015460 | transport accessory protein activity | 0.0487104968420919 |
GO:0019981 | interleukin-6 binding | 0.0487104968420919 |
GO:0016316 | phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity | 0.0487104968420919 |
GO:0022011 | myelination in the peripheral nervous system | 0.0487104968420919 |
GO:0030957 | Tat protein binding | 0.0487104968420919 |
GO:0030885 | regulation of myeloid dendritic cell activation | 0.0487104968420919 |
GO:0043409 | negative regulation of MAPKKK cascade | 0.0487104968420919 |
GO:0051902 | negative regulation of mitochondrial depolarization | 0.0487104968420919 |
GO:0006788 | heme oxidation | 0.0487104968420919 |
GO:0048854 | brain morphogenesis | 0.0487104968420919 |
GO:0006556 | S-adenosylmethionine biosynthetic process | 0.0487104968420919 |
GO:0042609 | CD4 receptor binding | 0.0487104968420919 |
GO:0010039 | response to iron ion | 0.0487104968420919 |
GO:0002684 | positive regulation of immune system process | 0.0487747912033741 |
GO:0045177 | apical part of cell | 0.0487747912033741 |
GO:0051402 | neuron apoptosis | 0.0494912238954312 |
GO:0050671 | positive regulation of lymphocyte proliferation | 0.0494912238954312 |
GO:0032946 | positive regulation of mononuclear cell proliferation | 0.0494912238954312 |
Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br>disease_data<br>
Ontology term | p-value | n |
---|---|---|
adult organism | 3.26e-26 | 115 |
hemolymphoid system | 5.19e-20 | 112 |
hematopoietic system | 1.16e-19 | 102 |
blood island | 1.16e-19 | 102 |
bone marrow | 1.65e-10 | 80 |
immune system | 5.29e-09 | 115 |
blood | 7.64e-09 | 15 |
haemolymphatic fluid | 7.64e-09 | 15 |
organism substance | 7.64e-09 | 15 |
bone element | 1.15e-08 | 86 |
Ontology term | p-value | n |
---|---|---|
hematologic cancer | 2.55e-08 | 51 |
immune system cancer | 2.55e-08 | 51 |
Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data
Novel motifs
JASPAR motifs
Motifs | -log10(p-value) |
---|---|
{{{tfbs_overrepresentation_jaspar}}} |
ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data
(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)
TF | #promoters | Enrichment | p-value | q-value |
---|---|---|---|---|
BATF#10538 | 60 | 1.79101483766939 | 1.4190884812056e-05 | 0.00034031729480742 |
BCL11A#53335 | 52 | 1.807857433073 | 4.18575859566788e-05 | 0.000758293914957429 |
EBF1#1879 | 138 | 1.50624071669917 | 7.71941951778191e-07 | 3.38885437165878e-05 |
IRF4#3662 | 57 | 1.53079316561816 | 0.00117270436338747 | 0.00796747794742543 |
RAD21#5885 | 116 | 1.47203913219722 | 1.88486241647227e-05 | 0.000427662711088306 |
SPI1#6688 | 175 | 1.75950565440132 | 6.93607192334722e-14 | 1.10426282866229e-11 |
ZEB1#6935 | 71 | 1.46945915838923 | 0.000907421705645427 | 0.00660695869463906 |
Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data
"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.