Personal tools

MCL coexpression mm9:135: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 3: Line 3:
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0987733636723519,0.116346380288332,0,0,0,0,0,0.115808975689988,0.112145192034931,0.154458983811568,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0825867363219064,0,0,0,0,0.113803446464706,0.163608743054207,0.0514050548005424,0.182264238536694,0.247272523425973,0.0819907263755358,0.122046233034924,0,0,0,0,0,0,0,0,0.0285860945550467,0.0523528812100954,0.0388988969149198,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.152465664603217,0.0425379529581421,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0646640766951323,0.0481354699899057,0,0,0,0,0,0,0,0,0,0,0,0.121008441369486,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0738741926906438,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.430438782579648,0.376754964798171,0.331587424856164,0.7512818701593,0.226621173458704,0.399810008829701,0.371076178555103,0.278900414858752,0.280187789078248,0.308675506925909,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0242538736058389,0,0,0,0,0,0,0,0,0,0,0.0352754493378881,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0987733636723519,0.116346380288332,0,0,0,0,0,0.115808975689988,0.112145192034931,0.154458983811568,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0825867363219064,0,0,0,0,0.113803446464706,0.163608743054207,0.0514050548005424,0.182264238536694,0.247272523425973,0.0819907263755358,0.122046233034924,0,0,0,0,0,0,0,0,0.0285860945550467,0.0523528812100954,0.0388988969149198,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.152465664603217,0.0425379529581421,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0646640766951323,0.0481354699899057,0,0,0,0,0,0,0,0,0,0,0,0.121008441369486,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0738741926906438,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.430438782579648,0.376754964798171,0.331587424856164,0.7512818701593,0.226621173458704,0.399810008829701,0.371076178555103,0.278900414858752,0.280187789078248,0.308675506925909,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0242538736058389,0,0,0,0,0,0,0,0,0,0,0.0352754493378881,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0050808;synapse organization and biogenesis;0.00137789429448995;11735,18189!GO:0043062;extracellular structure organization and biogenesis;0.0035257483889904;11735,18189!GO:0005246;calcium channel regulator activity;0.0285057235666322;18189!GO:0042734;presynaptic membrane;0.0285057235666322;18189!GO:0016043;cellular component organization and biogenesis;0.0285057235666322;11735,50997,18189!GO:0016247;channel regulator activity;0.0285057235666322;18189!GO:0015457;auxiliary transport protein activity;0.0285057235666322;18189!GO:0007416;synaptogenesis;0.0299260890401764;18189!GO:0007399;nervous system development;0.0302070969093827;11735,18189!
|gostat_on_MCL_coexpression=GO:0050808;synapse organization and biogenesis;0.00137789429448995;11735,18189!GO:0043062;extracellular structure organization and biogenesis;0.0035257483889904;11735,18189!GO:0005246;calcium channel regulator activity;0.0285057235666322;18189!GO:0042734;presynaptic membrane;0.0285057235666322;18189!GO:0016043;cellular component organization and biogenesis;0.0285057235666322;11735,50997,18189!GO:0016247;channel regulator activity;0.0285057235666322;18189!GO:0015457;auxiliary transport protein activity;0.0285057235666322;18189!GO:0007416;synaptogenesis;0.0299260890401764;18189!GO:0007399;nervous system development;0.0302070969093827;11735,18189!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!1.55e-28!54;UBERON:0002021!8.05e-28!10;UBERON:0000411!8.05e-28!10;UBERON:0001950!8.05e-28!10;UBERON:0001049!2.62e-27!52;UBERON:0005068!2.62e-27!52;UBERON:0006241!2.62e-27!52;UBERON:0007135!2.62e-27!52;UBERON:0002346!5.11e-27!64;UBERON:0003075!5.11e-27!64;UBERON:0007284!5.11e-27!64;UBERON:0000955!1.06e-25!47;UBERON:0006238!1.06e-25!47;UBERON:0002616!6.77e-24!46;UBERON:0001017!2.67e-23!73;UBERON:0010371!6.00e-23!73;UBERON:0002020!1.25e-22!34;UBERON:0001016!1.62e-22!75;UBERON:0003056!5.83e-22!49;UBERON:0002619!5.95e-22!17;UBERON:0003528!2.62e-21!29;UBERON:0002791!2.62e-21!29;UBERON:0001893!2.62e-21!29;UBERON:0004121!6.16e-21!95;UBERON:0000924!6.16e-21!95;UBERON:0006601!6.16e-21!95;UBERON:0003080!8.14e-21!40;UBERON:0000956!2.33e-20!21;UBERON:0001869!2.33e-20!21;UBERON:0000203!2.33e-20!21;UBERON:0002780!4.01e-19!39;UBERON:0001890!4.01e-19!39;UBERON:0006240!4.01e-19!39;UBERON:0010314!5.77e-17!92;UBERON:0000025!2.05e-09!114;UBERON:0004111!1.96e-08!122;UBERON:0000064!1.64e-07!99;UBERON:0003076!5.64e-07!12;UBERON:0003057!5.64e-07!12
}}
}}

Revision as of 16:45, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:101542314..101542317,+p@chr10:101542314..101542317
+
Mm9::chr10:69487700..69487704,+p@chr10:69487700..69487704
+
Mm9::chr11:118351432..118351434,+p@chr11:118351432..118351434
+
Mm9::chr11:87138563..87138575,-p@chr11:87138563..87138575
-
Mm9::chr12:110802874..110802886,+p@chr12:110802874..110802886
+
Mm9::chr12:62817529..62817531,+p@chr12:62817529..62817531
+
Mm9::chr12:68183103..68183110,-p@chr12:68183103..68183110
-
Mm9::chr12:71364422..71364433,-p@chr12:71364422..71364433
-
Mm9::chr12:75991077..75991098,-p@chr12:75991077..75991098
-
Mm9::chr12:83808041..83808052,+p@chr12:83808041..83808052
+
Mm9::chr12:90319824..90319827,+p@chr12:90319824..90319827
+
Mm9::chr13:42885960..42885977,+p@chr13:42885960..42885977
+
Mm9::chr13:83714811..83714842,-p@chr13:83714811..83714842
-
Mm9::chr14:119844844..119844853,+p@chr14:119844844..119844853
+
Mm9::chr15:65967019..65967021,-p@chr15:65967019..65967021
-
Mm9::chr16:37112654..37112669,-p@chr16:37112654..37112669
-
Mm9::chr16:49739336..49739339,+p@chr16:49739336..49739339
+
Mm9::chr16:75399982..75399991,-p@chr16:75399982..75399991
-
Mm9::chr16:81269950..81269959,+p@chr16:81269950..81269959
+
Mm9::chr17:27108920..27108923,+p@chr17:27108920..27108923
+
Mm9::chr17:27109317..27109326,+p@chr17:27109317..27109326
+
Mm9::chr17:49113379..49113392,+p@chr17:49113379..49113392
+
Mm9::chr17:90436147..90436158,-p@chr17:90436147..90436158
-
Mm9::chr17:90436235..90436241,+p@chr17:90436235..90436241
+
Mm9::chr17:90712627..90712639,-p@chr17:90712627..90712639
-
Mm9::chr18:86577926..86577934,+p@chr18:86577926..86577934
+
Mm9::chr19:8742249..8742252,+p@chr19:8742249..8742252
+
Mm9::chr1:125367228..125367232,-p@chr1:125367228..125367232
-
Mm9::chr1:126433179..126433191,-p@chr1:126433179..126433191
-
Mm9::chr1:126584616..126584620,-p@chr1:126584616..126584620
-
Mm9::chr1:130094249..130094253,+p@chr1:130094249..130094253
+
Mm9::chr2:21572063..21572066,+p@chr2:21572063..21572066
+
Mm9::chr2:26967521..26967534,-p@chr2:26967521..26967534
-
Mm9::chr2:62163994..62163996,+p@chr2:62163994..62163996
+
Mm9::chr3:156397709..156397711,+p@chr3:156397709..156397711
+
Mm9::chr3:25768754..25768768,-p@chr3:25768754..25768768
-
Mm9::chr3:80492057..80492068,-p@chr3:80492057..80492068
-
Mm9::chr3:80495059..80495068,-p@chr3:80495059..80495068
-
Mm9::chr4:103349411..103349416,+p@chr4:103349411..103349416
+
Mm9::chr4:103358365..103358370,+p@chr4:103358365..103358370
+
Mm9::chr4:103847759..103847793,+p@chr4:103847759..103847793
+
Mm9::chr4:126885535..126885547,+p@chr4:126885535..126885547
+
Mm9::chr4:138013520..138013534,+p@chr4:138013520..138013534
+
Mm9::chr4:46800475..46800496,+p@chr4:46800475..46800496
+
Mm9::chr4:75748748..75748753,-p@chr4:75748748..75748753
-
Mm9::chr4:76783734..76783735,-p@chr4:76783734..76783735
-
Mm9::chr4:77410279..77410283,-p@chr4:77410279..77410283
-
Mm9::chr4:77502680..77502686,-p@chr4:77502680..77502686
-
Mm9::chr4:77649487..77649490,-p@chr4:77649487..77649490
-
Mm9::chr4:77694800..77694811,-p@chr4:77694800..77694811
-
Mm9::chr4:85034168..85034189,+p@chr4:85034168..85034189
+
Mm9::chr5:19591405..19591419,+p@chr5:19591405..19591419
+
Mm9::chr6:110613417..110613421,+p@chr6:110613417..110613421
+
Mm9::chr6:37157664..37157672,-p@chr6:37157664..37157672
-
Mm9::chr6:39829616..39829621,+p@chr6:39829616..39829621
+
Mm9::chr6:77195239..77195243,+p@chr6:77195239..77195243
+
Mm9::chr6:77428004..77428010,-p@chr6:77428004..77428010
-
Mm9::chr6:80124074..80124083,+p@chr6:80124074..80124083
+
Mm9::chr7:129771954..129771962,+p@chr7:129771954..129771962
+
Mm9::chr7:129772412..129772419,+p@chr7:129772412..129772419
+
Mm9::chr7:151610022..151610026,+p@chr7:151610022..151610026
+
Mm9::chr7:3390811..3390821,+p@chr7:3390811..3390821
+
Mm9::chr7:51615106..51615133,+p@chr7:51615106..51615133
+
Mm9::chr7:6846959..6846962,+p@chr7:6846959..6846962
+
Mm9::chr7:71898163..71898179,+p@chr7:71898163..71898179
+
Mm9::chr7:98375028..98375032,+p@chr7:98375028..98375032
+
Mm9::chr7:98415879..98415883,+p@chr7:98415879..98415883
+
Mm9::chr7:98612377..98612404,+p@chr7:98612377..98612404
+
Mm9::chr7:99596117..99596118,+p@chr7:99596117..99596118
+
Mm9::chr7:99596122..99596143,+p@chr7:99596122..99596143
+
Mm9::chr8:14849922..14849935,+p@chr8:14849922..14849935
+
Mm9::chr8:17270601..17270603,-p@chr8:17270601..17270603
-
Mm9::chr8:30261015..30261059,-p@chr8:30261015..30261059
-
Mm9::chr8:4214085..4214096,-p@chr8:4214085..4214096
-
Mm9::chr9:27993024..27993049,+p@chr9:27993024..27993049
+
Mm9::chr9:28728585..28728593,+p@chr9:28728585..28728593
+
Mm9::chr9:28728673..28728680,+p@chr9:28728673..28728680
+
Mm9::chr9:32072245..32072249,+p@chr9:32072245..32072249
+
Mm9::chr9:37352538..37352543,+p@chr9:37352538..37352543
+
Mm9::chr9:37352646..37352651,+p@chr9:37352646..37352651
+
Mm9::chrX:20439299..20439311,-p@chrX:20439299..20439311
-
Mm9::chrX:58381175..58381184,+p@chrX:58381175..58381184
+
Mm9::chrX:67597813..67597823,-p@chrX:67597813..67597823
-
Mm9::chrX:7229928..7229937,-p@chrX:7229928..7229937
-
Mm9::chrX:84418227..84418237,-p@chrX:84418227..84418237
-


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:0050808synapse organization and biogenesis0.00137789429448995
GO:0043062extracellular structure organization and biogenesis0.0035257483889904
GO:0005246calcium channel regulator activity0.0285057235666322
GO:0042734presynaptic membrane0.0285057235666322
GO:0016043cellular component organization and biogenesis0.0285057235666322
GO:0016247channel regulator activity0.0285057235666322
GO:0015457auxiliary transport protein activity0.0285057235666322
GO:0007416synaptogenesis0.0299260890401764
GO:0007399nervous system development0.0302070969093827



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 system1.55e-2854
occipital lobe8.05e-2810
visual cortex8.05e-2810
neocortex8.05e-2810
neural tube2.62e-2752
neural rod2.62e-2752
future spinal cord2.62e-2752
neural keel2.62e-2752
neurectoderm5.11e-2764
neural plate5.11e-2764
presumptive neural plate5.11e-2764
brain1.06e-2547
future brain1.06e-2547
regional part of brain6.77e-2446
central nervous system2.67e-2373
ecto-epithelium6.00e-2373
gray matter1.25e-2234
nervous system1.62e-2275
pre-chordal neural plate5.83e-2249
regional part of cerebral cortex5.95e-2217
brain grey matter2.62e-2129
regional part of telencephalon2.62e-2129
telencephalon2.62e-2129
ectoderm-derived structure6.16e-2195
ectoderm6.16e-2195
presumptive ectoderm6.16e-2195
anterior neural tube8.14e-2140
cerebral cortex2.33e-2021
cerebral hemisphere2.33e-2021
pallium2.33e-2021
regional part of forebrain4.01e-1939
forebrain4.01e-1939
future forebrain4.01e-1939
structure with developmental contribution from neural crest5.77e-1792
tube2.05e-09114
anatomical conduit1.96e-08122
organ part1.64e-0799
posterior neural tube5.64e-0712
chordal neural plate5.64e-0712


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_mm9:135&oldid=2153454"