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MCL coexpression mm9:310: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0.055070113547423,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0118216574128583,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.035202928666058,1.16634720980688,1.01924236818323,1.09864867715926,0.656335006687276,1.10560791765994,0,0,0,0,0,0.00450846790957537,0.229126297154297,0.18440492317299,0.187851281963206,0.30460546191316,0.194137048382478,0,0,0,0.531070089863674,0.685041203424323,0.0767151235804777,0.103807782330171,0.0888728720123763,0.109123086691028,0.158886068781892,0.125410958215438,0.129850362348878,0.0119519548953858,0,0.0754810338909,0.0892020436121397,0.201976684819149,0.167173527440445,0.131492242390828,0.106932678779961,0.0939251254928708,0.0752915237218914,0.0764722564738793,0.152287014265237,0.172361582440384,0,0.0158196551188907,0,0,0,0,0,0,0,0,0,0,0.0998184172516369,0,0,0,0,0,0,0,0,0,0.0163347936360048,0,0,0,0.0482820047261801,0,0,0,0,0,0,0,0,0.111524892460631,0.0797455792814942,0,0,0,0,0.0606187686764715,0.0765552211653049,0.114126735408367,0.0696031033168343,0.0433433224925046,0.143151907118368,0.0652962901395099,0.0438871819959951,0,0,0,0.0697780171824802,0.0898705446131073,0.0719048733411253,0.114588096764985,0.0944906627908513,0.0638386338766093,0.0643339036485596,0.0346875105146374,0,0,0,0.0081911752528061,0,0,0,0.0788315948399074,0,0,0,0,0,0,0.015070339025847,0,0.00233150193700966,0,0,0,0,0,0,0,0,0,0.102593174710261,0.150373517227954,0,0,0,0.00687906287434665,0,0,0,0,0,0,0,0,0,0,0,0,0.0496607367237308,0.0234910315133595,0,0,0,0.0222312594113811,0,0,0,0.0103747336588277,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0345906816709774,0.0293361777120366,0,0,0,0,0.0763464167751715,0.0914641362800683,0,0,0,0,0,0,0,0,0,0,0,0.0992575684980309,0.0288216590713588,0.0355847379748454,0.042591468988957,0.0110656948797366,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0719044921483595,0.150885517879741,0.0807835351053761,0.101369427228017,0.141050998109045,0.120910660233855,0.286896103856254,0.0540288213421369,0,0,0,0,0.0121406059579025,0,0.00418111471036131,0,0.0738741926906438,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0691464475647109,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00696268039035666,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00769854306636345,0,0,0,0,0,0.0688732037536692,0,0,0,0.0788803310556245,0,0,0.0428854115575944,0.145825435924841,0.0684580848992459,0.0773465043408035,0.0709509021908485,0,0,0.081359932135904,0.010027113822846,0,0,0.0196455196028344,0.0388749848471105,0.0287224103779109,0.0472245945615809,0.00758303103297175,0.0476191773904887,0.0140925469837791,0,0.0764702160109658,0.0565777012070054,0.056376699265577,0.00137562735405759,0.0386701282459582,0.0438474322863328,0.0358789786559309,0.107406965401072,0,0.0553034373508932,0.0440909896023284,0.107885315233444,0.0315606893466336,0.0506284326429643,0.0625582350728301,0.0520315924683041,0.136412877324794,0.0142677941185571,0.0845301845292944,0.0593592565930236,0,0
|coexpression_dpi_cluster_scores_median=0.055070113547423,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0118216574128583,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.035202928666058,1.16634720980688,1.01924236818323,1.09864867715926,0.656335006687276,1.10560791765994,0,0,0,0,0,0.00450846790957537,0.229126297154297,0.18440492317299,0.187851281963206,0.30460546191316,0.194137048382478,0,0,0,0.531070089863674,0.685041203424323,0.0767151235804777,0.103807782330171,0.0888728720123763,0.109123086691028,0.158886068781892,0.125410958215438,0.129850362348878,0.0119519548953858,0,0.0754810338909,0.0892020436121397,0.201976684819149,0.167173527440445,0.131492242390828,0.106932678779961,0.0939251254928708,0.0752915237218914,0.0764722564738793,0.152287014265237,0.172361582440384,0,0.0158196551188907,0,0,0,0,0,0,0,0,0,0,0.0998184172516369,0,0,0,0,0,0,0,0,0,0.0163347936360048,0,0,0,0.0482820047261801,0,0,0,0,0,0,0,0,0.111524892460631,0.0797455792814942,0,0,0,0,0.0606187686764715,0.0765552211653049,0.114126735408367,0.0696031033168343,0.0433433224925046,0.143151907118368,0.0652962901395099,0.0438871819959951,0,0,0,0.0697780171824802,0.0898705446131073,0.0719048733411253,0.114588096764985,0.0944906627908513,0.0638386338766093,0.0643339036485596,0.0346875105146374,0,0,0,0.0081911752528061,0,0,0,0.0788315948399074,0,0,0,0,0,0,0.015070339025847,0,0.00233150193700966,0,0,0,0,0,0,0,0,0,0.102593174710261,0.150373517227954,0,0,0,0.00687906287434665,0,0,0,0,0,0,0,0,0,0,0,0,0.0496607367237308,0.0234910315133595,0,0,0,0.0222312594113811,0,0,0,0.0103747336588277,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0345906816709774,0.0293361777120366,0,0,0,0,0.0763464167751715,0.0914641362800683,0,0,0,0,0,0,0,0,0,0,0,0.0992575684980309,0.0288216590713588,0.0355847379748454,0.042591468988957,0.0110656948797366,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0719044921483595,0.150885517879741,0.0807835351053761,0.101369427228017,0.141050998109045,0.120910660233855,0.286896103856254,0.0540288213421369,0,0,0,0,0.0121406059579025,0,0.00418111471036131,0,0.0738741926906438,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0691464475647109,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00696268039035666,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00769854306636345,0,0,0,0,0,0.0688732037536692,0,0,0,0.0788803310556245,0,0,0.0428854115575944,0.145825435924841,0.0684580848992459,0.0773465043408035,0.0709509021908485,0,0,0.081359932135904,0.010027113822846,0,0,0.0196455196028344,0.0388749848471105,0.0287224103779109,0.0472245945615809,0.00758303103297175,0.0476191773904887,0.0140925469837791,0,0.0764702160109658,0.0565777012070054,0.056376699265577,0.00137562735405759,0.0386701282459582,0.0438474322863328,0.0358789786559309,0.107406965401072,0,0.0553034373508932,0.0440909896023284,0.107885315233444,0.0315606893466336,0.0506284326429643,0.0625582350728301,0.0520315924683041,0.136412877324794,0.0142677941185571,0.0845301845292944,0.0593592565930236,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000117!9.33e-16!23;CL:0000337!9.33e-16!23;CL:0000221!1.25e-15!44;CL:0000133!1.25e-15!44;CL:0002319!5.64e-15!43;CL:0000055!2.57e-12!49;CL:0000540!2.44e-09!33;CL:0000047!2.44e-09!33;CL:0000031!2.44e-09!33;CL:0000404!2.44e-09!33;CL:0002453!2.09e-08!8;CL:0000333!2.88e-07!10;CL:0000095!2.88e-07!10;CL:0000243!2.88e-07!10;CL:0000123!2.88e-07!10;CL:0000125!2.88e-07!10;CL:0000030!2.88e-07!10;CL:0000339!2.88e-07!10;CL:0000393!3.02e-07!39;CL:0000211!3.02e-07!39
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004121!2.05e-25!95;UBERON:0000924!2.05e-25!95;UBERON:0006601!2.05e-25!95;UBERON:0001017!8.33e-25!73;UBERON:0002346!1.48e-24!64;UBERON:0003075!1.48e-24!64;UBERON:0007284!1.48e-24!64;UBERON:0001016!1.75e-24!75;UBERON:0010371!5.47e-23!73;UBERON:0001049!8.91e-23!52;UBERON:0005068!8.91e-23!52;UBERON:0006241!8.91e-23!52;UBERON:0007135!8.91e-23!52;UBERON:0000073!1.02e-22!54;UBERON:0000955!5.44e-19!47;UBERON:0006238!5.44e-19!47;UBERON:0002616!2.63e-18!46;UBERON:0003056!3.35e-18!49;UBERON:0010314!3.55e-16!92;UBERON:0003080!1.44e-14!40;UBERON:0002780!3.97e-14!39;UBERON:0001890!3.97e-14!39;UBERON:0006240!3.97e-14!39;UBERON:0002020!2.26e-12!34;UBERON:0003076!2.66e-09!12;UBERON:0003057!2.66e-09!12;UBERON:0003528!5.60e-09!29;UBERON:0002791!5.60e-09!29;UBERON:0001893!5.60e-09!29;UBERON:0002420!4.47e-07!8;UBERON:0007245!4.47e-07!8;UBERON:0010009!4.47e-07!8;UBERON:0010011!4.47e-07!8;UBERON:0000454!4.47e-07!8
}}
}}

Revision as of 19:31, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:83903404..83903420,-p1@Nuak1
Mm9::chr11:8368453..8368462,-p9@Tns3
Mm9::chr12:112910294..112910300,-p@chr12:112910294..112910300
-
Mm9::chr15:30576269..30576327,+p@chr15:30576269..30576327
+
Mm9::chr15:30576422..30576441,+p@chr15:30576422..30576441
+
Mm9::chr15:89011111..89011131,-p2@Plxnb2
Mm9::chr16:18392647..18392715,+p1@Arvcf
Mm9::chr16:18392724..18392736,+p3@Arvcf
Mm9::chr19:8788690..8788697,-p17@Slc3a2
Mm9::chr19:8788816..8788826,-p14@Slc3a2
Mm9::chr1:88563264..88563269,-p@chr1:88563264..88563269
-
Mm9::chr1:88567140..88567154,-p1@Nppc
Mm9::chr2:37631749..37631778,+p1@Crb2
Mm9::chr2:37631779..37631794,+p3@Crb2
Mm9::chr2:37631801..37631817,+p2@Crb2
Mm9::chr3:89028994..89029006,+p5@Thbs3
Mm9::chr3:89030096..89030118,+p4@Thbs3
Mm9::chr5:143722156..143722172,+p2@Fscn1
Mm9::chr7:150253440..150253446,+p@chr7:150253440..150253446
+
Mm9::chr7:52147728..52147799,-p1@Med25
Mm9::chr8:11006242..11006246,-p@chr8:11006242..11006246
-
Mm9::chr9:20550677..20550695,-p@chr9:20550677..20550695
-
Mm9::chr9:20550706..20550724,-p@chr9:20550706..20550724
-
Mm9::chr9:50564531..50564547,+p@chr9:50564531..50564547
+
Mm9::chr9:91266261..91266282,+p5@Zic4
Mm9::chrX:97925319..97925333,+p2@Gdpd2


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


no results for this coexpression

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>cell_data<br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
ectoderm-derived structure2.05e-2595
ectoderm2.05e-2595
presumptive ectoderm2.05e-2595
central nervous system8.33e-2573
neurectoderm1.48e-2464
neural plate1.48e-2464
presumptive neural plate1.48e-2464
nervous system1.75e-2475
ecto-epithelium5.47e-2373
neural tube8.91e-2352
neural rod8.91e-2352
future spinal cord8.91e-2352
neural keel8.91e-2352
regional part of nervous system1.02e-2254
brain5.44e-1947
future brain5.44e-1947
regional part of brain2.63e-1846
pre-chordal neural plate3.35e-1849
structure with developmental contribution from neural crest3.55e-1692
anterior neural tube1.44e-1440
regional part of forebrain3.97e-1439
forebrain3.97e-1439
future forebrain3.97e-1439
gray matter2.26e-1234
posterior neural tube2.66e-0912
chordal neural plate2.66e-0912
brain grey matter5.60e-0929
regional part of telencephalon5.60e-0929
telencephalon5.60e-0929
basal ganglion4.47e-078
nuclear complex of neuraxis4.47e-078
aggregate regional part of brain4.47e-078
collection of basal ganglia4.47e-078
cerebral subcortex4.47e-078


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}}}