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MCL coexpression mm9:205: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.542565314220099,1.01435582520286,0.922977235039523,0.428108388689456,0.386949193329338,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.844202500652206,1.12248348345032,0,0,0,0.196259654667371,0.19481375617252,0,0,0,0,0.0921043897201216,0.0620577069359474,0,0,0,0.106932678779961,0,0.15333029019437,0.0789068729219453,0.0833119053986238,0,0,0,0,0,0,0,0,0,0.0188949472572708,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0714892455114959,0,0,0,0,0.0606187686764715,0,0,0.0696031033168343,0,0.0462742015565751,0.0652962901395099,0,0.0366304820165734,0,0,0,0,0,0,0.0285860945550467,0.0523528812100954,0.0388988969149198,0.0947336931796853,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0828894264954325,0.0628170097405349,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.120936080462619,0.0780235267572164,0,0,0,0,0,0,0,0,0,0,0,0.041279603026058,0,0,0,0.0279662349877794,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0738741926906438,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0106422310290766,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.000682421468696695,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0411005024087217,0,0.0392494331065013,0.0280045912987968,0.0420031173012419,0,0.00551646164834462,0.0766073954291401,0,0.04534568224225,0,0,0.000657808274943495,0,0.0390607415003592,0.0515875539845187,0,0,0.00930954464629256,0,0.0154778259296902,0.0408018333703219,0,0.0226913392171757,0.0043533933900433,0.0150780613343656,0.0104300758639669,0.0845301845292944,0.0760168881589905,0.0865703124974023,0.0905641158318875
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.542565314220099,1.01435582520286,0.922977235039523,0.428108388689456,0.386949193329338,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.844202500652206,1.12248348345032,0,0,0,0.196259654667371,0.19481375617252,0,0,0,0,0.0921043897201216,0.0620577069359474,0,0,0,0.106932678779961,0,0.15333029019437,0.0789068729219453,0.0833119053986238,0,0,0,0,0,0,0,0,0,0.0188949472572708,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0714892455114959,0,0,0,0,0.0606187686764715,0,0,0.0696031033168343,0,0.0462742015565751,0.0652962901395099,0,0.0366304820165734,0,0,0,0,0,0,0.0285860945550467,0.0523528812100954,0.0388988969149198,0.0947336931796853,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0828894264954325,0.0628170097405349,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.120936080462619,0.0780235267572164,0,0,0,0,0,0,0,0,0,0,0,0.041279603026058,0,0,0,0.0279662349877794,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0738741926906438,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0106422310290766,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.000682421468696695,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0411005024087217,0,0.0392494331065013,0.0280045912987968,0.0420031173012419,0,0.00551646164834462,0.0766073954291401,0,0.04534568224225,0,0,0.000657808274943495,0,0.0390607415003592,0.0515875539845187,0,0,0.00930954464629256,0,0.0154778259296902,0.0408018333703219,0,0.0226913392171757,0.0043533933900433,0.0150780613343656,0.0104300758639669,0.0845301845292944,0.0760168881589905,0.0865703124974023,0.0905641158318875
|gostat_on_MCL_coexpression=GO:0001571;non-tyrosine kinase fibroblast growth factor receptor activity;0.0427874869884403;116701!GO:0016942;insulin-like growth factor binding protein complex;0.0427874869884403;16011!
|gostat_on_MCL_coexpression=GO:0001571;non-tyrosine kinase fibroblast growth factor receptor activity;0.0427874869884403;116701!GO:0016942;insulin-like growth factor binding protein complex;0.0427874869884403;16011!
|ontology_enrichment_celltype=CL:0002453!7.06e-12!8;CL:0000333!3.41e-09!10;CL:0000095!3.41e-09!10;CL:0000243!3.41e-09!10;CL:0000123!3.41e-09!10;CL:0000125!3.41e-09!10;CL:0000030!3.41e-09!10;CL:0000339!3.41e-09!10;CL:0000128!2.00e-08!6;CL:0000126!2.00e-08!6;CL:0000127!2.00e-08!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!3.64e-11!73;UBERON:0003076!4.63e-11!12;UBERON:0003057!4.63e-11!12;UBERON:0001016!1.14e-10!75;UBERON:0004121!3.73e-10!95;UBERON:0000924!3.73e-10!95;UBERON:0006601!3.73e-10!95;UBERON:0002346!1.12e-09!64;UBERON:0003075!1.12e-09!64;UBERON:0007284!1.12e-09!64;UBERON:0000073!2.83e-09!54;UBERON:0001049!1.06e-08!52;UBERON:0005068!1.06e-08!52;UBERON:0006241!1.06e-08!52;UBERON:0007135!1.06e-08!52;UBERON:0010371!1.02e-07!73;UBERON:0002240!1.25e-07!6;UBERON:0005174!1.25e-07!6;UBERON:0001137!1.25e-07!6
}}
}}

Revision as of 17:51, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:102749020..102749031,-p@chr11:102749020..102749031
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Mm9::chr11:102749161..102749174,-p@chr11:102749161..102749174
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Mm9::chr11:102749254..102749263,-p@chr11:102749254..102749263
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Mm9::chr11:102749302..102749315,-p@chr11:102749302..102749315
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Mm9::chr11:102749370..102749385,-p@chr11:102749370..102749385
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Mm9::chr11:102750776..102750792,-p@chr11:102750776..102750792
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Mm9::chr11:102754448..102754459,-p@chr11:102754448..102754459
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Mm9::chr11:102754827..102754845,-p@chr11:102754827..102754845
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Mm9::chr11:102755848..102755857,-p@chr11:102755848..102755857
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Mm9::chr11:102758074..102758083,+p@chr11:102758074..102758083
+
Mm9::chr11:102758437..102758453,-p1@Gfap
Mm9::chr11:102758460..102758471,-p2@Gfap
Mm9::chr11:75244815..75244826,-p@chr11:75244815..75244826
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Mm9::chr11:75244855..75244876,-p@chr11:75244855..75244876
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Mm9::chr11:97884385..97884399,+p2@ENSMUST00000123784
Mm9::chr15:88808997..88809027,-p2@Mlc1
Mm9::chr17:35838948..35838961,-p11@Ddr1
Mm9::chr17:35841519..35841577,-p5@Ddr1
Mm9::chr18:61071609..61071627,+p4@Arsi
Mm9::chr18:61071638..61071656,+p3@Arsi
Mm9::chr1:137051201..137051217,+p@chr1:137051201..137051217
+
Mm9::chr1:174130615..174130633,-p@chr1:174130615..174130633
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Mm9::chr1:72920821..72920836,-p7@Igfbp5
Mm9::chr1:72920963..72920982,-p9@Igfbp5
Mm9::chr1:72920986..72921025,-p8@Igfbp5
Mm9::chr3:121130390..121130408,-p@chr3:121130390..121130408
-
Mm9::chr3:89240801..89240814,+p3@Pbxip1
Mm9::chr4:11893042..11893056,+p@chr4:11893042..11893056
+
Mm9::chr4:154620969..154620981,+p@chr4:154620969..154620981
+
Mm9::chr5:109123278..109123289,+p3@Fgfrl1
Mm9::chr5:109123376..109123385,+p5@Fgfrl1
Mm9::chr5:138199339..138199346,+p18@Tsc22d4
Mm9::chr6:17121567..17121578,-p4@ENSMUST00000150251
Mm9::chr7:149559638..149559676,-p2@6330512M04Rik
Mm9::chr8:28089241..28089267,+p@chr8:28089241..28089267
+
Mm9::chr8:28089696..28089722,+p@chr8:28089696..28089722
+
Mm9::chr8:28132545..28132551,+p@chr8:28132545..28132551
+
Mm9::chr8:28133836..28133852,+p3@Erlin2
Mm9::chr8:73022520..73022524,+p@chr8:73022520..73022524
+
Mm9::chr8:93340889..93340916,-p@chr8:93340889..93340916
-
Mm9::chr8:93340930..93340944,-p@chr8:93340930..93340944
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Mm9::chr8:93340958..93340978,-p@chr8:93340958..93340978
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Mm9::chr8:93340981..93340990,-p@chr8:93340981..93340990
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Mm9::chr9:58006819..58006839,-p6@Islr
Mm9::chr9:58006855..58006885,-p5@Islr
Mm9::chrX:137910143..137910155,+p3@Col4a5


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:0001571non-tyrosine kinase fibroblast growth factor receptor activity0.0427874869884403
GO:0016942insulin-like growth factor binding protein complex0.0427874869884403



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
central nervous system3.64e-1173
posterior neural tube4.63e-1112
chordal neural plate4.63e-1112
nervous system1.14e-1075
ectoderm-derived structure3.73e-1095
ectoderm3.73e-1095
presumptive ectoderm3.73e-1095
neurectoderm1.12e-0964
neural plate1.12e-0964
presumptive neural plate1.12e-0964
regional part of nervous system2.83e-0954
neural tube1.06e-0852
neural rod1.06e-0852
future spinal cord1.06e-0852
neural keel1.06e-0852
ecto-epithelium1.02e-0773
spinal cord1.25e-076
dorsal region element1.25e-076
dorsum1.25e-076


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}}}

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