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MCL coexpression mm9:152: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.32336819332749,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.113809739605487,0.332974415283731,0,0,0,0,0,0,0,0,0,0.0987733636723519,0.0620577069359474,0,0,0,0,0.193893011938994,0.163875090269313,0,0.0578074284787346,0,0,0,0,0,0,0,0,0,0.107511441879825,0,0,0,0,0,0,0,0,0,0,0.0893284091371433,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.111524892460631,0.0825867363219064,0,0,0,0,0.161179842546876,0.163608743054207,0,0,0,0.210415946511272,0.122046233034924,0,0.137740408373976,0.177665042710266,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.103212884397651,0,0,0,0,0,0,0,0.212419302822567,0.116844694267823,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.06876768737641,0,0,0,0.167134271056746,0.502096677397456,0.742161610541154,0.571926631175535,0.601524147354108,0.507133276069325,0.530432992571966,0.734344461306219,0.725676833210211,0.831611445323899,0,0,0,0,0.120936080462619,0.0914641362800683,0,0,0,0,0,0,0,0,0,0,0,0,0.696733928471219,0,0,0.981295073068015,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0661577744756082,0,0,0,0,0,0,0,0,0,0,0.0738741926906438,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0798802230592418,0.031895734489288,0,0.0403878614760544,0,0,0,0,0,0,0,0.0747003483965965,0.135547100918658,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.135986724295729,0.221867905942098,0.209006745960922,0.215330413983256,0.216818579117963,0.245620709720879,0.194758206527804,0.242822600021565,0.214910449956623,0.212664309528237,0.169172763866184,0.198498081255604,0.198307218446548,0.14986111676545,0.239548370090468,0.226790206858766,0.232971531330564,0.169342968499384,0.237224958395051,0.219785036720782,0.224511532029221,0.189990830607665,0.18359421108913,0.18842684556126,0.193442483447008,0.202263507572545,0.17392086126324,0.148982201447044,0.209447282040344,0.198305064902181,0.242897000144792,0.200296092105252,0.155257708002722,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.32336819332749,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.113809739605487,0.332974415283731,0,0,0,0,0,0,0,0,0,0.0987733636723519,0.0620577069359474,0,0,0,0,0.193893011938994,0.163875090269313,0,0.0578074284787346,0,0,0,0,0,0,0,0,0,0.107511441879825,0,0,0,0,0,0,0,0,0,0,0.0893284091371433,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.111524892460631,0.0825867363219064,0,0,0,0,0.161179842546876,0.163608743054207,0,0,0,0.210415946511272,0.122046233034924,0,0.137740408373976,0.177665042710266,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.103212884397651,0,0,0,0,0,0,0,0.212419302822567,0.116844694267823,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.06876768737641,0,0,0,0.167134271056746,0.502096677397456,0.742161610541154,0.571926631175535,0.601524147354108,0.507133276069325,0.530432992571966,0.734344461306219,0.725676833210211,0.831611445323899,0,0,0,0,0.120936080462619,0.0914641362800683,0,0,0,0,0,0,0,0,0,0,0,0,0.696733928471219,0,0,0.981295073068015,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0661577744756082,0,0,0,0,0,0,0,0,0,0,0.0738741926906438,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0798802230592418,0.031895734489288,0,0.0403878614760544,0,0,0,0,0,0,0,0.0747003483965965,0.135547100918658,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.135986724295729,0.221867905942098,0.209006745960922,0.215330413983256,0.216818579117963,0.245620709720879,0.194758206527804,0.242822600021565,0.214910449956623,0.212664309528237,0.169172763866184,0.198498081255604,0.198307218446548,0.14986111676545,0.239548370090468,0.226790206858766,0.232971531330564,0.169342968499384,0.237224958395051,0.219785036720782,0.224511532029221,0.189990830607665,0.18359421108913,0.18842684556126,0.193442483447008,0.202263507572545,0.17392086126324,0.148982201447044,0.209447282040344,0.198305064902181,0.242897000144792,0.200296092105252,0.155257708002722,0,0,0
|gostat_on_MCL_coexpression=GO:0017120;polyphosphoinositide phosphatase activity;0.0433901276502493;104015!GO:0004398;histidine decarboxylase activity;0.0433901276502493;15186!
|gostat_on_MCL_coexpression=GO:0017120;polyphosphoinositide phosphatase activity;0.0433901276502493;104015!GO:0004398;histidine decarboxylase activity;0.0433901276502493;15186!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002048!1.09e-11!14;UBERON:0000117!1.09e-11!14;UBERON:0000171!1.09e-11!14;UBERON:0000170!1.09e-11!14;UBERON:0005597!1.09e-11!14;UBERON:0000118!1.09e-11!14;UBERON:0005153!4.88e-09!17;UBERON:0005178!4.88e-09!17;UBERON:0005181!4.88e-09!17;UBERON:0002224!4.88e-09!17;UBERON:0000915!4.88e-09!17;UBERON:0008947!4.88e-09!17;UBERON:0003258!4.88e-09!17;UBERON:0005157!3.31e-07!20
}}
}}

Revision as of 17:01, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:26542366..26542385,+p3@Arhgap18
Mm9::chr10:33624821..33624853,+p1@Rsph4a
Mm9::chr10:5864020..5864038,-p1@Gm221
Mm9::chr10:59504833..59504865,+p@chr10:59504833..59504865
+
Mm9::chr10:75403378..75403428,-p1@ENSMUST00000059658
p1@uc007fts.1
Mm9::chr10:75405765..75405773,+p4@Vpreb3
Mm9::chr10:75911802..75911813,+p4@2610028H24Rik
Mm9::chr10:75911819..75911838,+p2@2610028H24Rik
Mm9::chr10:75911840..75911854,+p3@2610028H24Rik
Mm9::chr10:75911866..75911880,+p1@2610028H24Rik
Mm9::chr11:106236149..106236164,+p1@2310007L24Rik
Mm9::chr11:46079527..46079538,-p@chr11:46079527..46079538
-
Mm9::chr11:59519852..59519891,+p@chr11:59519852..59519891
+
Mm9::chr11:83243309..83243334,-p1@Gas2l2
Mm9::chr12:100579225..100579266,+p1@3300002A11Rik
Mm9::chr12:102216299..102216339,-p@chr12:102216299..102216339
-
Mm9::chr12:33777748..33777767,-p3@Cdhr3
Mm9::chr13:24797943..24797958,+p@chr13:24797943..24797958
+
Mm9::chr13:46369069..46369081,+p1@Gm1574
Mm9::chr13:47081806..47081833,+p1@uc007qho.1
Mm9::chr14:10466878..10466912,-p@chr14:10466878..10466912
-
Mm9::chr14:14503381..14503433,+p1@Sntn
Mm9::chr14:27511097..27511122,+p@chr14:27511097..27511122
+
Mm9::chr14:27511147..27511157,+p@chr14:27511147..27511157
+
Mm9::chr14:62226292..62226295,+p1@Kcnrg
Mm9::chr14:78488784..78488800,-p2@AU021034
Mm9::chr14:78488801..78488838,-p1@AU021034
Mm9::chr16:17561333..17561347,-p1@4930451C15Rik
Mm9::chr16:90946905..90946937,-p6@Synj1
Mm9::chr17:25923511..25923529,+p2@Ccdc78
Mm9::chr17:25923530..25923558,+p1@Ccdc78
Mm9::chr17:43688212..43688243,-p@chr17:43688212..43688243
-
Mm9::chr17:81296152..81296181,+p1@uc008drl.1
p1@uc008drm.1
Mm9::chr17:8549083..8549096,+p@chr17:8549083..8549096
+
Mm9::chr1:129751573..129751607,-p@chr1:129751573..129751607
-
Mm9::chr1:184388732..184388743,+p@chr1:184388732..184388743
+
Mm9::chr1:193641318..193641331,+p1@uc007ecv.1
Mm9::chr1:4399328..4399356,-p2@Rp1
Mm9::chr1:4399359..4399371,-p5@Rp1
Mm9::chr1:54866808..54866845,-p@chr1:54866808..54866845
-
Mm9::chr1:90359141..90359170,-p@chr1:90359141..90359170
-
Mm9::chr1:90359187..90359199,-p@chr1:90359187..90359199
-
Mm9::chr2:126423769..126423783,-p2@Hdc
Mm9::chr3:27795269..27795278,-p2@Tmem212
Mm9::chr3:27795282..27795312,-p1@Tmem212
Mm9::chr3:57105865..57105878,-p8@Tm4sf1
Mm9::chr3:57105879..57105919,-p5@Tm4sf1
Mm9::chr3:57105921..57105931,-p10@Tm4sf1
Mm9::chr3:75286054..75286088,-p1@uc008pnb.1
Mm9::chr4:106881743..106881764,+p1@Ldlrad1
Mm9::chr4:116269242..116269270,+p2@Ccdc17
Mm9::chr4:116269277..116269308,+p5@Ccdc17
Mm9::chr4:141488821..141488847,-p@chr4:141488821..141488847
-
Mm9::chr4:141488995..141489010,-p3@Fhad1
Mm9::chr5:121084285..121084303,-p1@Ccdc42b
Mm9::chr5:124625404..124625417,+p@chr5:124625404..124625417
+
Mm9::chr5:33163339..33163356,-p@chr5:33163339..33163356
-
Mm9::chr5:92984061..92984096,+p2@Fam47e
Mm9::chr6:128999848..128999869,-p@chr6:128999848..128999869
-
Mm9::chr6:5769801..5769824,-p@chr6:5769801..5769824
-
Mm9::chr6:5769826..5769836,-p@chr6:5769826..5769836
-
Mm9::chr7:109082294..109082320,-p3@Lrrc51
Mm9::chr7:116867358..116867369,-p2@BC051019
Mm9::chr7:116867374..116867403,-p1@BC051019
Mm9::chr7:127239197..127239225,-p@chr7:127239197..127239225
-
Mm9::chr7:31550425..31550469,+p@chr7:31550425..31550469
+
Mm9::chr7:56417518..56417541,-p@chr7:56417518..56417541
-
Mm9::chr9:107894782..107894793,+p2@ENSMUST00000061248
Mm9::chr9:107894794..107894853,+p1@ENSMUST00000061248
Mm9::chr9:44048751..44048776,+p1@Ccdc153
Mm9::chr9:67003026..67003038,-p@chr9:67003026..67003038
-
Mm9::chr9:99351841..99351855,+p@chr9:99351841..99351855
+
Mm9::chr9:99351856..99351872,+p@chr9:99351856..99351872
+


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:0017120polyphosphoinositide phosphatase activity0.0433901276502493
GO:0004398histidine decarboxylase activity0.0433901276502493



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
lung1.09e-1114
respiratory tube1.09e-1114
respiration organ1.09e-1114
pair of lungs1.09e-1114
lung primordium1.09e-1114
lung bud1.09e-1114
epithelial bud4.88e-0917
thoracic cavity element4.88e-0917
thoracic segment organ4.88e-0917
thoracic cavity4.88e-0917
thoracic segment of trunk4.88e-0917
respiratory primordium4.88e-0917
endoderm of foregut4.88e-0917
epithelial fold3.31e-0720


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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