MCL coexpression mm9:361: Difference between revisions
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{{MCL_coexpression_mm9 | 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activity;0.030392264285323;19270,245474!GO:0045175;basal protein localization;0.030392264285323;50884!GO:0030950;establishment and/or maintenance of actin cytoskeleton polarity;0.030392264285323;50884!GO:0003922;GMP synthase (glutamine-hydrolyzing) activity;0.030392264285323;229363!GO:0003921;GMP synthase activity;0.030392264285323;229363!GO:0032879;regulation of localization;0.030392264285323;50884!GO:0030952;establishment and/or maintenance of cytoskeleton polarity;0.030392264285323;50884!GO:0032880;regulation of protein localization;0.030392264285323;50884!GO:0016835;carbon-oxygen lyase activity;0.0321103085972842;19270,245474!GO:0007509;mesoderm migration;0.037392542559238;50884!GO:0008078;mesodermal cell migration;0.037392542559238;50884!GO:0007354;zygotic determination of anterior/posterior axis, embryo;0.037392542559238;50884!GO:0006421;asparaginyl-tRNA aminoacylation;0.037392542559238;70223!GO:0016874;ligase activity;0.0391467307563428;229363,70223,12234!GO:0005173;stem cell factor receptor binding;0.0418606881635714;114715!GO:0006177;GMP biosynthetic process;0.0418606881635714;229363!GO:0006399;tRNA metabolic process;0.0418606881635714;245474,70223!GO:0048570;notochord morphogenesis;0.0418606881635714;50884!GO:0046037;GMP metabolic process;0.0418606881635714;229363!GO:0048617;embryonic foregut morphogenesis;0.0418606881635714;50884!GO:0010172;embryonic body morphogenesis;0.0418606881635714;50884!GO:0000154;rRNA modification;0.0418606881635714;245474!GO:0030519;snoRNP binding;0.0418606881635714;245474!GO:0007440;foregut morphogenesis;0.0418606881635714;50884!GO:0000578;embryonic axis specification;0.0418606881635714;50884!GO:0031119;tRNA pseudouridine synthesis;0.0418606881635714;245474!GO:0008595;determination of anterior/posterior axis, embryo;0.0418606881635714;50884!GO:0010171;body morphogenesis;0.0418606881635714;50884!GO:0007351;tripartite regional subdivision;0.0418606881635714;50884!GO:0007350;blastoderm segmentation;0.0440654891570662;50884!GO:0048611;embryonic ectodermal gut development;0.0440654891570662;50884!GO:0048613;embryonic ectodermal gut morphogenesis;0.0440654891570662;50884!GO:0006400;tRNA modification;0.0440654891570662;245474!GO:0030903;notochord development;0.0440654891570662;50884!GO:0045176;apical protein localization;0.0440654891570662;50884!GO:0016829;lyase activity;0.0440654891570662;19270,245474!GO:0042074;cell migration involved in gastrulation;0.0440654891570662;50884!GO:0050821;protein stabilization;0.0440654891570662;50884!GO:0048558;embryonic gut morphogenesis;0.0440654891570662;50884!GO:0016884;carbon-nitrogen ligase activity, with glutamine as amido-N-donor;0.0440654891570662;229363!GO:0004730;pseudouridylate synthase activity;0.0440654891570662;245474!GO:0016879;ligase activity, forming carbon-nitrogen bonds;0.0440654891570662;229363,12234!GO:0043170;macromolecule metabolic process;0.0440654891570662;19270,245596,54678,50884,76594,245474,56397,70223,12234!GO:0048340;paraxial mesoderm morphogenesis;0.0440654891570662;50884!GO:0000188;inactivation of MAPK activity;0.0440654891570662;114715!GO:0031647;regulation of protein stability;0.0440654891570662;50884!GO:0001522;pseudouridine synthesis;0.0440654891570662;245474!GO:0048557;embryonic digestive tract morphogenesis;0.0440654891570662;50884!GO:0008105;asymmetric protein localization;0.0440654891570662;50884!GO:0044238;primary metabolic process;0.0440654891570662;50884,76594,245474,56397,70223,12234,19270,229363,245596,54678!GO:0044237;cellular metabolic process;0.0440654891570662;50884,76594,245474,56397,70223,12234,19270,229363,245596,54678!GO:0007439;ectodermal gut development;0.0440654891570662;50884!GO:0009168;purine ribonucleoside monophosphate biosynthetic process;0.0440654891570662;229363!GO:0009127;purine nucleoside monophosphate biosynthetic process;0.0440654891570662;229363!GO:0048567;ectodermal gut morphogenesis;0.0440654891570662;50884!GO:0048547;gut morphogenesis;0.0451697183144582;50884!GO:0009167;purine ribonucleoside monophosphate metabolic process;0.0451697183144582;229363!GO:0009126;purine nucleoside monophosphate metabolic process;0.0451697183144582;229363!GO:0009948;anterior/posterior axis specification;0.0451697183144582;50884!GO:0048546;digestive tract morphogenesis;0.0491768801296322;50884!GO:0048339;paraxial mesoderm development;0.0491768801296322;50884!GO:0035050;embryonic heart tube development;0.0491768801296322;50884!GO:0048566;embryonic gut development;0.0491768801296322;50884!GO:0009156;ribonucleoside monophosphate biosynthetic 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| |||
| | |||
}} |
Latest revision as of 15:10, 17 September 2013
Phase1 CAGE Peaks
Short description | |
---|---|
Mm9::chr14:12385975..12385998,+ | p4@Ptprg |
Mm9::chr14:12386013..12386028,+ | p6@Ptprg |
Mm9::chr18:35862724..35862735,- | p3@Dnajc18 |
Mm9::chr18:35862738..35862753,- | p1@Dnajc18 |
Mm9::chr18:38761259..38761273,+ | p2@Arhgap26 |
Mm9::chr18:64676201..64676219,- | p2@Nars |
Mm9::chr19:45438234..45438321,+ | p1@Btrc |
Mm9::chr2:116946596..116946618,+ | p2@Spred1 |
Mm9::chr2:116946787..116946885,+ | p1@Spred1 |
Mm9::chr2:121692654..121692733,+ | p1@Casc4 |
Mm9::chr2:80421372..80421385,- | p5@Nckap1 |
Mm9::chr2:80421391..80421423,- | p2@Nckap1 |
Mm9::chr2:80421429..80421450,- | p3@Nckap1 |
Mm9::chr3:63780031..63780057,+ | p2@Gmps |
Mm9::chr7:25039763..25039831,+ | p1@Zfp108 |
Mm9::chr7:99890142..99890225,+ | p1@Rab30 |
Mm9::chrX:108810678..108810736,- | p1@Hdx |
Mm9::chrX:131252469..131252480,+ | p2@Armcx1 |
Mm9::chrX:131252482..131252557,+ | p1@Armcx1 |
Mm9::chrX:133275818..133275846,- | p1@Morf4l2 |
Mm9::chrX:72341224..72341261,+ | p2@Dkc1 |
Mm9::chrX:92906980..92907024,+ | p2@Zc3h12b |
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
GO ID | GO name | FDR corrected p-value |
---|---|---|
GO:0016836 | hydro-lyase activity | 0.030392264285323 |
GO:0045175 | basal protein localization | 0.030392264285323 |
GO:0030950 | establishment and/or maintenance of actin cytoskeleton polarity | 0.030392264285323 |
GO:0003922 | GMP synthase (glutamine-hydrolyzing) activity | 0.030392264285323 |
GO:0003921 | GMP synthase activity | 0.030392264285323 |
GO:0032879 | regulation of localization | 0.030392264285323 |
GO:0030952 | establishment and/or maintenance of cytoskeleton polarity | 0.030392264285323 |
GO:0032880 | regulation of protein localization | 0.030392264285323 |
GO:0016835 | carbon-oxygen lyase activity | 0.0321103085972842 |
GO:0007509 | mesoderm migration | 0.037392542559238 |
GO:0008078 | mesodermal cell migration | 0.037392542559238 |
GO:0007354 | zygotic determination of anterior/posterior axis, embryo | 0.037392542559238 |
GO:0006421 | asparaginyl-tRNA aminoacylation | 0.037392542559238 |
GO:0016874 | ligase activity | 0.0391467307563428 |
GO:0005173 | stem cell factor receptor binding | 0.0418606881635714 |
GO:0006177 | GMP biosynthetic process | 0.0418606881635714 |
GO:0006399 | tRNA metabolic process | 0.0418606881635714 |
GO:0048570 | notochord morphogenesis | 0.0418606881635714 |
GO:0046037 | GMP metabolic process | 0.0418606881635714 |
GO:0048617 | embryonic foregut morphogenesis | 0.0418606881635714 |
GO:0010172 | embryonic body morphogenesis | 0.0418606881635714 |
GO:0000154 | rRNA modification | 0.0418606881635714 |
GO:0030519 | snoRNP binding | 0.0418606881635714 |
GO:0007440 | foregut morphogenesis | 0.0418606881635714 |
GO:0000578 | embryonic axis specification | 0.0418606881635714 |
GO:0031119 | tRNA pseudouridine synthesis | 0.0418606881635714 |
GO:0008595 | determination of anterior/posterior axis, embryo | 0.0418606881635714 |
GO:0010171 | body morphogenesis | 0.0418606881635714 |
GO:0007351 | tripartite regional subdivision | 0.0418606881635714 |
GO:0007350 | blastoderm segmentation | 0.0440654891570662 |
GO:0048611 | embryonic ectodermal gut development | 0.0440654891570662 |
GO:0048613 | embryonic ectodermal gut morphogenesis | 0.0440654891570662 |
GO:0006400 | tRNA modification | 0.0440654891570662 |
GO:0030903 | notochord development | 0.0440654891570662 |
GO:0045176 | apical protein localization | 0.0440654891570662 |
GO:0016829 | lyase activity | 0.0440654891570662 |
GO:0042074 | cell migration involved in gastrulation | 0.0440654891570662 |
GO:0050821 | protein stabilization | 0.0440654891570662 |
GO:0048558 | embryonic gut morphogenesis | 0.0440654891570662 |
GO:0016884 | carbon-nitrogen ligase activity, with glutamine as amido-N-donor | 0.0440654891570662 |
GO:0004730 | pseudouridylate synthase activity | 0.0440654891570662 |
GO:0016879 | ligase activity, forming carbon-nitrogen bonds | 0.0440654891570662 |
GO:0043170 | macromolecule metabolic process | 0.0440654891570662 |
GO:0048340 | paraxial mesoderm morphogenesis | 0.0440654891570662 |
GO:0000188 | inactivation of MAPK activity | 0.0440654891570662 |
GO:0031647 | regulation of protein stability | 0.0440654891570662 |
GO:0001522 | pseudouridine synthesis | 0.0440654891570662 |
GO:0048557 | embryonic digestive tract morphogenesis | 0.0440654891570662 |
GO:0008105 | asymmetric protein localization | 0.0440654891570662 |
GO:0044238 | primary metabolic process | 0.0440654891570662 |
GO:0044237 | cellular metabolic process | 0.0440654891570662 |
GO:0007439 | ectodermal gut development | 0.0440654891570662 |
GO:0009168 | purine ribonucleoside monophosphate biosynthetic process | 0.0440654891570662 |
GO:0009127 | purine nucleoside monophosphate biosynthetic process | 0.0440654891570662 |
GO:0048567 | ectodermal gut morphogenesis | 0.0440654891570662 |
GO:0048547 | gut morphogenesis | 0.0451697183144582 |
GO:0009167 | purine ribonucleoside monophosphate metabolic process | 0.0451697183144582 |
GO:0009126 | purine nucleoside monophosphate metabolic process | 0.0451697183144582 |
GO:0009948 | anterior/posterior axis specification | 0.0451697183144582 |
GO:0048546 | digestive tract morphogenesis | 0.0491768801296322 |
GO:0048339 | paraxial mesoderm development | 0.0491768801296322 |
GO:0035050 | embryonic heart tube development | 0.0491768801296322 |
GO:0048566 | embryonic gut development | 0.0491768801296322 |
GO:0009156 | ribonucleoside monophosphate biosynthetic process | 0.0491768801296322 |
Relative expression of the co-expression cluster over median <br>Analyst:
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><br>uberon_data<br><br>
TFBS overrepresentation<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) |
---|---|
MA0003.1 | 3.88361 |
MA0004.1 | 0.444991 |
MA0006.1 | 0.789557 |
MA0007.1 | 0.421767 |
MA0009.1 | 2.10566 |
MA0014.1 | 1.9467 |
MA0017.1 | 0.0678809 |
MA0019.1 | 0.329708 |
MA0024.1 | 0.445298 |
MA0025.1 | 0.694475 |
MA0027.1 | 2.07936 |
MA0028.1 | 0.825855 |
MA0029.1 | 0.426655 |
MA0030.1 | 0.43227 |
MA0031.1 | 0.402033 |
MA0038.1 | 0.243815 |
MA0040.1 | 0.494317 |
MA0041.1 | 0.10094 |
MA0042.1 | 0.0939798 |
MA0043.1 | 0.569356 |
MA0046.1 | 0.514989 |
MA0048.1 | 1.15341 |
MA0050.1 | 0.169675 |
MA0051.1 | 0.250459 |
MA0052.1 | 0.501416 |
MA0055.1 | 0.83588 |
MA0056.1 | 0 |
MA0057.1 | 0.327386 |
MA0058.1 | 0.303016 |
MA0059.1 | 0.0968666 |
MA0060.1 | 1.20594 |
MA0061.1 | 0.618873 |
MA0063.1 | 0 |
MA0066.1 | 0.235725 |
MA0067.1 | 0.798606 |
MA0068.1 | 1.42842 |
MA0069.1 | 0.501715 |
MA0070.1 | 0.493176 |
MA0071.1 | 0.974672 |
MA0072.1 | 0.485733 |
MA0073.1 | 0.220189 |
MA0074.1 | 0.209912 |
MA0076.1 | 0.0767377 |
MA0077.1 | 0.466808 |
MA0078.1 | 0.275441 |
MA0081.1 | 0.717402 |
MA0083.1 | 0.568641 |
MA0084.1 | 1.11388 |
MA0087.1 | 0.530004 |
MA0088.1 | 1.98379 |
MA0089.1 | 0 |
MA0090.1 | 0.124244 |
MA0091.1 | 0.153118 |
MA0092.1 | 0.124428 |
MA0093.1 | 0.496926 |
MA0095.1 | 0 |
MA0098.1 | 0 |
MA0100.1 | 1.10548 |
MA0101.1 | 0.101635 |
MA0103.1 | 0.0728209 |
MA0105.1 | 1.47579 |
MA0106.1 | 0.281418 |
MA0107.1 | 0.526347 |
MA0108.2 | 0.348212 |
MA0109.1 | 0 |
MA0111.1 | 0.132626 |
MA0113.1 | 0.259904 |
MA0114.1 | 0.145706 |
MA0115.1 | 0.571881 |
MA0116.1 | 0.0563303 |
MA0117.1 | 0.542889 |
MA0119.1 | 0.333984 |
MA0122.1 | 0.560692 |
MA0124.1 | 0.748494 |
MA0125.1 | 0.67944 |
MA0130.1 | 0 |
MA0131.1 | 1.56694 |
MA0132.1 | 0 |
MA0133.1 | 0 |
MA0135.1 | 0.602346 |
MA0136.1 | 0.637057 |
MA0139.1 | 1.40989 |
MA0140.1 | 0.201717 |
MA0141.1 | 0.0822433 |
MA0142.1 | 0.389844 |
MA0143.1 | 0.27232 |
MA0144.1 | 0.344625 |
MA0145.1 | 0.564602 |
MA0146.1 | 0.387238 |
MA0147.1 | 0.0420513 |
MA0148.1 | 0.470482 |
MA0149.1 | 0.104621 |
MA0062.2 | 1.1429 |
MA0035.2 | 0.205003 |
MA0039.2 | 1.11708 |
MA0138.2 | 0.319705 |
MA0002.2 | 0.0910543 |
MA0137.2 | 0.581412 |
MA0104.2 | 0.103917 |
MA0047.2 | 0.243248 |
MA0112.2 | 0.371859 |
MA0065.2 | 0.0491972 |
MA0150.1 | 0.833976 |
MA0151.1 | 0 |
MA0152.1 | 0.243327 |
MA0153.1 | 0.617506 |
MA0154.1 | 0.571068 |
MA0155.1 | 0.438423 |
MA0156.1 | 0.263883 |
MA0157.1 | 0.363212 |
MA0158.1 | 0 |
MA0159.1 | 0.392761 |
MA0160.1 | 0.475244 |
MA0161.1 | 0 |
MA0162.1 | 3.75527 |
MA0163.1 | 2.0793 |
MA0164.1 | 0.224368 |
MA0080.2 | 0.528447 |
MA0018.2 | 0.654151 |
MA0099.2 | 0.844851 |
MA0079.2 | 1.21639 |
MA0102.2 | 1.16504 |
MA0258.1 | 0.131525 |
MA0259.1 | 0.626539 |
MA0442.1 | 0 |