Personal tools

MCL coexpression mm9:547: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 6: Line 6:
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!8.60e-11!54;UBERON:0002020!1.28e-10!34;UBERON:0004177!3.83e-10!29;UBERON:0005057!3.83e-10!29;UBERON:0001049!1.16e-09!52;UBERON:0005068!1.16e-09!52;UBERON:0006241!1.16e-09!52;UBERON:0007135!1.16e-09!52;UBERON:0003528!1.18e-09!29;UBERON:0002791!1.18e-09!29;UBERON:0001893!1.18e-09!29;UBERON:0006562!3.85e-09!24;UBERON:0001557!3.85e-09!24;UBERON:0001042!3.85e-09!24;UBERON:0008814!3.85e-09!24;UBERON:0009145!3.85e-09!24;UBERON:0002021!4.41e-09!10;UBERON:0000411!4.41e-09!10;UBERON:0001950!4.41e-09!10;UBERON:0002370!4.75e-09!23;UBERON:0000974!4.75e-09!23;UBERON:0004807!4.75e-09!23;UBERON:0005058!4.75e-09!23;UBERON:0003351!4.75e-09!23;UBERON:0009113!4.75e-09!23;UBERON:0003295!4.75e-09!23;UBERON:0009722!4.75e-09!23;UBERON:0005562!4.75e-09!23;UBERON:0007690!4.75e-09!23;UBERON:0000064!5.80e-09!99;UBERON:0000955!7.37e-09!47;UBERON:0006238!7.37e-09!47;UBERON:0003408!1.40e-08!24;UBERON:0002616!2.53e-08!46;UBERON:0000077!6.40e-08!35;UBERON:0001017!7.28e-08!73;UBERON:0003080!9.90e-08!40;UBERON:0002390!1.12e-07!45;UBERON:0003061!1.12e-07!45;UBERON:0002346!1.40e-07!64;UBERON:0003075!1.40e-07!64;UBERON:0007284!1.40e-07!64;UBERON:0010371!2.26e-07!73;UBERON:0002780!2.60e-07!39;UBERON:0001890!2.60e-07!39;UBERON:0006240!2.60e-07!39;UBERON:0001016!3.21e-07!75;UBERON:0002193!3.24e-07!48;UBERON:0002405!3.24e-07!48
|ontology_enrichment_uberon=UBERON:0000073!8.60e-11!54;UBERON:0002020!1.28e-10!34;UBERON:0004177!3.83e-10!29;UBERON:0005057!3.83e-10!29;UBERON:0001049!1.16e-09!52;UBERON:0005068!1.16e-09!52;UBERON:0006241!1.16e-09!52;UBERON:0007135!1.16e-09!52;UBERON:0003528!1.18e-09!29;UBERON:0002791!1.18e-09!29;UBERON:0001893!1.18e-09!29;UBERON:0006562!3.85e-09!24;UBERON:0001557!3.85e-09!24;UBERON:0001042!3.85e-09!24;UBERON:0008814!3.85e-09!24;UBERON:0009145!3.85e-09!24;UBERON:0002021!4.41e-09!10;UBERON:0000411!4.41e-09!10;UBERON:0001950!4.41e-09!10;UBERON:0002370!4.75e-09!23;UBERON:0000974!4.75e-09!23;UBERON:0004807!4.75e-09!23;UBERON:0005058!4.75e-09!23;UBERON:0003351!4.75e-09!23;UBERON:0009113!4.75e-09!23;UBERON:0003295!4.75e-09!23;UBERON:0009722!4.75e-09!23;UBERON:0005562!4.75e-09!23;UBERON:0007690!4.75e-09!23;UBERON:0000064!5.80e-09!99;UBERON:0000955!7.37e-09!47;UBERON:0006238!7.37e-09!47;UBERON:0003408!1.40e-08!24;UBERON:0002616!2.53e-08!46;UBERON:0000077!6.40e-08!35;UBERON:0001017!7.28e-08!73;UBERON:0003080!9.90e-08!40;UBERON:0002390!1.12e-07!45;UBERON:0003061!1.12e-07!45;UBERON:0002346!1.40e-07!64;UBERON:0003075!1.40e-07!64;UBERON:0007284!1.40e-07!64;UBERON:0010371!2.26e-07!73;UBERON:0002780!2.60e-07!39;UBERON:0001890!2.60e-07!39;UBERON:0006240!2.60e-07!39;UBERON:0001016!3.21e-07!75;UBERON:0002193!3.24e-07!48;UBERON:0002405!3.24e-07!48
|tfbs_overrepresentation_for_novel_motifs=0.244604,2.22107,0.223558,0.279403,0.430128,0.291576,0.370193,0.0778908,0.999815,0.484613,0.331725,0.35958,0.960432,0.381063,0.15081,0,2.35022,1.93366,0.244912,0.842543,0.194751,0.197405,0.38026,0.427399,0.229596,0.405649,0.501183,0.309422,5.55606,0.384773,0.805906,0.653099,0.817922,0.779896,0.151158,0.100057,3.23884,0.356403,0.725176,0.0929685,0.42301,0.301802,0.0142091,0.152251,0.816299,0.270091,0.48361,0.322976,0.0503358,0.517045,0.541299,1.09868,0.366754,0.788877,0.805733,1.00615,0.18067,0.348382,0.218496,0.385607,0.634076,0.438439,0.090369,0.5308,0.397364,0.568642,0.938213,1.28193,0.629645,1.13654,0.208654,0.277751,8.08558,0.838198,2.24015,0.427563,0.0552358,0.473159,0.617814,0.575143,0.279684,0.573903,0.437131,0.0742829,0.72691,0.490197,1.1039,0.0444451,0.488122,1.44275,1.0064,0.731688,1.59777,0.440626,6.2319,0.321665,0.0764965,0.667958,0.483845,0.141268,0.396021,0.652833,0.772062,0.541854,0.54087,0.301427,0.596902,0.855679,1.1054,0.196131,0.238877,0.773781,1.09402,0.336214,1.01331,1.94568,2.93557,0.282562,0.558838,0.123076,0.843435,0.511336,0.407285,0.472327,1.06644,0.621313,0.377415,0.658832,0.936732,0.145259,0.755703,0.273302,0.907893,0.399614,1.03449,0.932479,1.29555,0.303003,0.986296,1.80931,1.41113,0.942814,0.418119,0.66306,1.32358,0.816716,0.486482,1.76978,0.253405,1.98864,0.391484,4.17945,0.790393,0.678898,0.398786,0.869538,0.430798,0.159498,0.242603,0.700333,0.995609,0.726089,0.621734,0.237049,0.531751,0.392164,0.786757,0.941787,0.0345656
}}
}}

Revision as of 18:32, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:115910474..115910570,-p2@Kcnmb4
Mm9::chr10:5151728..5151757,+p5@Syne1
Mm9::chr10:5151777..5151840,+p1@Syne1
Mm9::chr11:75346593..75346610,-p@chr11:75346593..75346610
-
Mm9::chr17:5975802..5975830,+p3@Synj2
Mm9::chr18:33098952..33099051,+p1@Camk4
Mm9::chr18:39679069..39679079,-p@chr18:39679069..39679079
-
Mm9::chr2:117168567..117168632,-p1@Rasgrp1
Mm9::chr2:117168636..117168645,-p4@Rasgrp1
Mm9::chr2:117168651..117168664,-p2@Rasgrp1
Mm9::chr2:117168685..117168702,-p3@Rasgrp1
Mm9::chr2:158493814..158493853,+p@chr2:158493814..158493853
+
Mm9::chr9:112088285..112088295,-p33@Arpp21


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 IDGO nameFDR corrected p-value
GO:0001668phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity0.0427327014737303



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>

Uber Anatomy
Ontology termp-valuen
regional part of nervous system8.60e-1154
gray matter1.28e-1034
hemopoietic organ3.83e-1029
immune organ3.83e-1029
neural tube1.16e-0952
neural rod1.16e-0952
future spinal cord1.16e-0952
neural keel1.16e-0952
brain grey matter1.18e-0929
regional part of telencephalon1.18e-0929
telencephalon1.18e-0929
pharynx3.85e-0924
upper respiratory tract3.85e-0924
chordate pharynx3.85e-0924
pharyngeal arch system3.85e-0924
pharyngeal region of foregut3.85e-0924
occipital lobe4.41e-0910
visual cortex4.41e-0910
neocortex4.41e-0910
thymus4.75e-0923
neck4.75e-0923
respiratory system epithelium4.75e-0923
hemolymphoid system gland4.75e-0923
pharyngeal epithelium4.75e-0923
thymic region4.75e-0923
pharyngeal gland4.75e-0923
entire pharyngeal arch endoderm4.75e-0923
thymus primordium4.75e-0923
early pharyngeal endoderm4.75e-0923
organ part5.80e-0999
brain7.37e-0947
future brain7.37e-0947
gland of gut1.40e-0824
regional part of brain2.53e-0846
mixed endoderm/mesoderm-derived structure6.40e-0835
central nervous system7.28e-0873
anterior neural tube9.90e-0840
hematopoietic system1.12e-0745
blood island1.12e-0745
neurectoderm1.40e-0764
neural plate1.40e-0764
presumptive neural plate1.40e-0764
ecto-epithelium2.26e-0773
regional part of forebrain2.60e-0739
forebrain2.60e-0739
future forebrain2.60e-0739
nervous system3.21e-0775
hemolymphoid system3.24e-0748
immune system3.24e-0748


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)

{{{tfbs_overrepresentation_jaspar}}}

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:547&oldid=2561767"