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MCL coexpression mm9:100: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!3.13e-14!64;UBERON:0003075!3.13e-14!64;UBERON:0007284!3.13e-14!64;UBERON:0010371!4.13e-12!73;UBERON:0003056!4.94e-12!49;UBERON:0004121!2.54e-10!95;UBERON:0000924!2.54e-10!95;UBERON:0006601!2.54e-10!95;UBERON:0001049!1.24e-09!52;UBERON:0005068!1.24e-09!52;UBERON:0006241!1.24e-09!52;UBERON:0007135!1.24e-09!52;UBERON:0001017!2.25e-09!73;UBERON:0000073!5.16e-09!54;UBERON:0001016!6.79e-09!75;UBERON:0002020!2.36e-08!34;UBERON:0002780!7.07e-08!39;UBERON:0001890!7.07e-08!39;UBERON:0006240!7.07e-08!39;UBERON:0010314!1.16e-07!92;UBERON:0003080!1.50e-07!40;UBERON:0001948!8.03e-07!5;UBERON:0002315!8.03e-07!5
|ontology_enrichment_uberon=UBERON:0002346!3.13e-14!64;UBERON:0003075!3.13e-14!64;UBERON:0007284!3.13e-14!64;UBERON:0010371!4.13e-12!73;UBERON:0003056!4.94e-12!49;UBERON:0004121!2.54e-10!95;UBERON:0000924!2.54e-10!95;UBERON:0006601!2.54e-10!95;UBERON:0001049!1.24e-09!52;UBERON:0005068!1.24e-09!52;UBERON:0006241!1.24e-09!52;UBERON:0007135!1.24e-09!52;UBERON:0001017!2.25e-09!73;UBERON:0000073!5.16e-09!54;UBERON:0001016!6.79e-09!75;UBERON:0002020!2.36e-08!34;UBERON:0002780!7.07e-08!39;UBERON:0001890!7.07e-08!39;UBERON:0006240!7.07e-08!39;UBERON:0010314!1.16e-07!92;UBERON:0003080!1.50e-07!40;UBERON:0001948!8.03e-07!5;UBERON:0002315!8.03e-07!5
|tfbs_overrepresentation_for_novel_motifs=0.461279,0.911261,1.88131,0.321251,0.0770254,0.13955,0.481658,0.259195,0.0783087,0.22932,0.7271,0.444106,0.545711,0.743698,0.161721,0,0.384597,0.163734,0.0243626,0.0545911,0.347702,0.142333,0.102201,0.0106267,0.0027822,0.131258,0.368291,1.3509,0.778324,0.392452,0.251342,0.142997,0.424191,0.13794,0.742163,0.983379,1.56155,0.433109,0.743426,2.44268,0.021371,1.28509,0.0695792,0.244331,0.808377,0.104825,0.951305,1.47003,0.00150158,0.10639,0.351416,0.483542,0.267219,0.57476,0.0862643,0.109989,0.0383371,0.405868,0.0900447,0.352629,0.0313944,0.318337,0.00259808,0.0625633,0.231717,0.407737,0.149366,0.379143,0.865669,1.37263,0.19812,0.000515125,3.88017,0.329123,4.41317,0.906792,0.18762,0.0373294,0.116058,0.253701,0.0276532,0.218572,0.506584,0.0803525,0.208632,1.43538,0.751955,2.01141,0.439535,0.509398,0.55142,0.466525,0.152981,0.0502762,0.708344,0.00875437,0.778251,0.155219,0.0414075,0.020801,0.134729,0.332425,0.254585,0.352523,0.350562,0.15729,0.249459,0.0490931,0.522309,0.642415,0.3011,1.92239,0.0121556,0.751153,0.19228,0.0688863,1.74346,0.0277189,0.199414,0.356349,0.335367,0.293983,0.414525,0.106814,1.19697,2.66086,0.507918,0.0373716,0.889259,3.16897,0.237452,0.815458,0.133441,0.0529422,0.205229,0.00233806,0.0791785,0.0854506,0.176297,0.836351,1.21302,0.151855,0.0204093,0.0384568,1.19669,3.47177,0.00820032,0.799695,0.683665,0.788622,0.26069,2.61818,0.0800884,0.486803,1.43213,0.367203,0.073342,0.0770233,0.0325035,0.015381,0.18174,0.793616,0.118905,0.294305,0.0132192,0.115321,0.0846819,0.636944,0.925076
}}
}}

Revision as of 17:48, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:42298108..42298119,-p@chr10:42298108..42298119
-
Mm9::chr12:28020001..28020009,-p@chr12:28020001..28020009
-
Mm9::chr12:28020439..28020450,-p@chr12:28020439..28020450
-
Mm9::chr12:28020918..28020929,-p@chr12:28020918..28020929
-
Mm9::chr12:28021078..28021088,+p@chr12:28021078..28021088
+
Mm9::chr12:28021269..28021304,-p@chr12:28021269..28021304
-
Mm9::chr12:28021332..28021353,-p@chr12:28021332..28021353
-
Mm9::chr12:28021421..28021432,-p@chr12:28021421..28021432
-
Mm9::chr12:28021693..28021702,-p@chr12:28021693..28021702
-
Mm9::chr12:28021707..28021716,-p@chr12:28021707..28021716
-
Mm9::chr12:28021784..28021797,-p@chr12:28021784..28021797
-
Mm9::chr12:28021809..28021832,-p@chr12:28021809..28021832
-
Mm9::chr12:28021852..28021888,-p@chr12:28021852..28021888
-
Mm9::chr12:28021986..28022001,-p@chr12:28021986..28022001
-
Mm9::chr12:28022352..28022363,-p@chr12:28022352..28022363
-
Mm9::chr12:28022400..28022420,-p@chr12:28022400..28022420
-
Mm9::chr12:28022440..28022451,-p@chr12:28022440..28022451
-
Mm9::chr12:28022462..28022471,-p@chr12:28022462..28022471
-
Mm9::chr12:28022476..28022489,-p@chr12:28022476..28022489
-
Mm9::chr12:28023108..28023115,-p@chr12:28023108..28023115
-
Mm9::chr12:28024271..28024279,-p@chr12:28024271..28024279
-
Mm9::chr12:28025122..28025133,-p@chr12:28025122..28025133
-
Mm9::chr12:28025138..28025149,-p@chr12:28025138..28025149
-
Mm9::chr12:28025159..28025175,-p@chr12:28025159..28025175
-
Mm9::chr12:28025234..28025239,-p@chr12:28025234..28025239
-
Mm9::chr12:28025305..28025322,-p@chr12:28025305..28025322
-
Mm9::chr12:28025392..28025407,-p@chr12:28025392..28025407
-
Mm9::chr12:28025483..28025507,-p@chr12:28025483..28025507
-
Mm9::chr12:28025584..28025593,-p@chr12:28025584..28025593
-
Mm9::chr12:28025618..28025629,-p@chr12:28025618..28025629
-
Mm9::chr12:28025985..28025997,-p@chr12:28025985..28025997
-
Mm9::chr12:28026011..28026026,-p@chr12:28026011..28026026
-
Mm9::chr12:28026469..28026480,-p@chr12:28026469..28026480
-
Mm9::chr12:28026549..28026562,-p@chr12:28026549..28026562
-
Mm9::chr12:28027256..28027282,-p2@Sox11
Mm9::chr12:28027310..28027322,-p5@Sox11
Mm9::chr12:28027561..28027591,-p1@Sox11
Mm9::chr13:29042374..29042381,-p@chr13:29042374..29042381
-
Mm9::chr13:29042477..29042484,-p@chr13:29042477..29042484
-
Mm9::chr13:29043536..29043556,-p@chr13:29043536..29043556
-
Mm9::chr13:29044435..29044442,-p@chr13:29044435..29044442
-
Mm9::chr13:29044748..29044766,-p@chr13:29044748..29044766
-
Mm9::chr13:29044875..29044928,-p4@Sox4
Mm9::chr13:29045174..29045188,-p7@Sox4
Mm9::chr13:56353536..56353542,-p1@Neurog1
Mm9::chr13:77186666..77186679,-p7@Ankrd32
Mm9::chr13:83854849..83854860,+p@chr13:83854849..83854860
+
Mm9::chr13:83854861..83854872,+p@chr13:83854861..83854872
+
Mm9::chr13:83860895..83860914,+p3@ENSMUST00000131907
Mm9::chr13:83866774..83866792,-p@chr13:83866774..83866792
-
Mm9::chr13:83869062..83869073,+p@chr13:83869062..83869073
+
Mm9::chr13:83869080..83869099,+p@chr13:83869080..83869099
+
Mm9::chr13:83878789..83878794,+p2@ENSMUST00000052354
Mm9::chr13:84202713..84202716,+p@chr13:84202713..84202716
+
Mm9::chr13:84204390..84204413,-p2@uc007rin.1
Mm9::chr15:76352832..76352900,-p1@Scrt1
Mm9::chr15:76984032..76984041,-p15@Rbfox2
Mm9::chr15:78601331..78601355,-p@chr15:78601331..78601355
-
Mm9::chr15:84685500..84685514,-p6@Phf21b
Mm9::chr15:84685523..84685557,-p2@Phf21b
Mm9::chr15:84685560..84685575,-p5@Phf21b
Mm9::chr15:84686450..84686462,-p8@Phf21b
Mm9::chr16:45724713..45724732,-p3@Tagln3
Mm9::chr18:77803934..77803943,-p7@Rnf165
Mm9::chr18:77803981..77804009,-p5@Rnf165
Mm9::chr19:53907125..53907144,+p@chr19:53907125..53907144
+
Mm9::chr1:42752124..42752135,-p8@2610017I09Rik
Mm9::chr1:42752574..42752621,+p4@Pou3f3
Mm9::chr2:151906555..151906566,+p@chr2:151906555..151906566
+
Mm9::chr2:151906599..151906610,+p@chr2:151906599..151906610
+
Mm9::chr2:151906634..151906642,+p@chr2:151906634..151906642
+
Mm9::chr2:151906650..151906675,+p@chr2:151906650..151906675
+
Mm9::chr2:151906679..151906690,+p@chr2:151906679..151906690
+
Mm9::chr2:151906701..151906711,+p@chr2:151906701..151906711
+
Mm9::chr2:151906968..151906988,+p5@Scrt2
Mm9::chr2:151907110..151907126,+p6@Scrt2
Mm9::chr2:151919680..151919694,+p@chr2:151919680..151919694
+
Mm9::chr2:153270322..153270351,-p5@8430427H17Rik
Mm9::chr2:22477369..22477394,+p15@Gad2
Mm9::chr2:26766053..26766083,-p2@Med22
Mm9::chr2:38196588..38196600,+p4@Lhx2
Mm9::chr3:84108684..84108704,-p15@Trim2
Mm9::chr4:147504747..147504758,-p3@2610109H07Rik
p3@LOC100044686
Mm9::chr4:147504760..147504781,-p2@2610109H07Rik
p2@LOC100044686
Mm9::chr4:20705674..20705740,-p1@Nkain3
Mm9::chr4:22413826..22413832,-p@chr4:22413826..22413832
-
Mm9::chr4:22415600..22415616,-p3@Pou3f2
Mm9::chr4:33010492..33010505,-p5@Ankrd6
Mm9::chr4:34010820..34010831,+p@chr4:34010820..34010831
+
Mm9::chr4:54957886..54957907,+p3@Zfp462
Mm9::chr4:54958725..54958736,-p@chr4:54958725..54958736
-
Mm9::chr4:55022151..55022179,+p@chr4:55022151..55022179
+
Mm9::chr4:87678639..87678653,-p11@Mllt3
Mm9::chr5:111407675..111407695,+p@chr5:111407675..111407695
+
Mm9::chr5:111718223..111718234,+p@chr5:111718223..111718234
+
Mm9::chr5:111846145..111846158,-p@chr5:111846145..111846158
-
Mm9::chr5:111846160..111846179,-p@chr5:111846160..111846179
-
Mm9::chr5:111846283..111846326,+p1@Mn1
Mm9::chr5:111847671..111847682,+p@chr5:111847671..111847682
+
Mm9::chr5:111883934..111883938,+p@chr5:111883934..111883938
+
Mm9::chr5:112190717..112190747,-p1@ENSMUST00000129065
p1@ENSMUST00000129146
p1@ENSMUST00000137398
p1@uc008ysi.1
Mm9::chr5:115879594..115879622,+p2@Msi1
Mm9::chr5:122345353..122345358,-p5@Cux2
Mm9::chr5:132013629..132013661,-p15@Auts2
Mm9::chr5:24104540..24104584,-p7@Smarcd3
Mm9::chr5:24104722..24104736,-p9@Smarcd3
Mm9::chr5:24104737..24104747,-p13@Smarcd3
Mm9::chr5:24104751..24104773,-p5@Smarcd3
Mm9::chr5:99703670..99703683,+p@chr5:99703670..99703683
+
Mm9::chr6:13789895..13789908,-p3@Gpr85
Mm9::chr6:88824043..88824064,-p6@Podxl2
Mm9::chr6:97567621..97567636,-p19@Frmd4b
Mm9::chr7:106614531..106614542,+p1@Klhl35
Mm9::chr7:116318827..116318870,-p@chr7:116318827..116318870
-
Mm9::chr7:116318872..116318883,-p@chr7:116318872..116318883
-
Mm9::chr7:123177904..123177931,-p@chr7:123177904..123177931
-
Mm9::chr7:133416103..133416123,+p2@Sbk1
Mm9::chr7:133436921..133436927,+p@chr7:133436921..133436927
+
Mm9::chr7:28140718..28140748,-p3@Shkbp1
Mm9::chr7:29856616..29856632,+p1@ENSMUST00000153270
p1@uc009gaq.1
Mm9::chr8:11727945..11727967,+p9@Arhgef7
Mm9::chr8:127316961..127316970,+p4@Trim67
Mm9::chr8:29761642..29761646,-p@chr8:29761642..29761646
-
Mm9::chr8:48373484..48373514,-p@chr8:48373484..48373514
-
Mm9::chr8:73387648..73387664,-p1@Kcnn1
Mm9::chr9:41184981..41184991,+p@chr9:41184981..41184991
+
Mm9::chr9:41387595..41387606,-p@chr9:41387595..41387606
-
Mm9::chr9:41387629..41387646,-p@chr9:41387629..41387646
-
Mm9::chr9:41387743..41387752,+p@chr9:41387743..41387752
+
Mm9::chr9:58047493..58047509,-p@chr9:58047493..58047509
-
Mm9::chr9:58047568..58047579,-p@chr9:58047568..58047579
-


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:0006355regulation of transcription, DNA-dependent1.06955522168773e-05
GO:0006351transcription, DNA-dependent1.06955522168773e-05
GO:0032774RNA biosynthetic process1.06955522168773e-05
GO:0045449regulation of transcription1.15739381032375e-05
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process1.1867205629498e-05
GO:0006350transcription1.1867205629498e-05
GO:0010468regulation of gene expression1.57070854974608e-05
GO:0031323regulation of cellular metabolic process2.32376774256967e-05
GO:0019222regulation of metabolic process3.30989259478468e-05
GO:0016070RNA metabolic process4.17018828948098e-05
GO:0050794regulation of cellular process8.05939042937337e-05
GO:0050789regulation of biological process8.30519623796587e-05
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.000154209456836107
GO:0010467gene expression0.000288456481903389
GO:0065007biological regulation0.000506072611848329
GO:0003677DNA binding0.00376362238179168
GO:0043283biopolymer metabolic process0.00664035286554795
GO:0003700transcription factor activity0.00709432958641498
GO:0051098regulation of binding0.00928388962222668
GO:0003676nucleic acid binding0.0225851821885137
GO:0031536positive regulation of exit from mitosis0.0253407908040023
GO:0031017exocrine pancreas development0.0253407908040023
GO:0044451nucleoplasm part0.0273498646958529
GO:0005654nucleoplasm0.032149813537008
GO:0021985neurohypophysis development0.0371349305754187
GO:0004351glutamate decarboxylase activity0.0371349305754187
GO:0010458exit from mitosis0.0371349305754187
GO:0007096regulation of exit from mitosis0.0371349305754187
GO:0051100negative regulation of binding0.0371349305754187
GO:0043392negative regulation of DNA binding0.0371349305754187
GO:0031981nuclear lumen0.0463792531986173
GO:0001957intramembranous ossification0.0463792531986173
GO:0021854hypothalamus development0.0463792531986173
GO:0014002astrocyte development0.0463792531986173
GO:0016286small conductance calcium-activated potassium channel activity0.0463792531986173
GO:0021979hypothalamus cell differentiation0.0463792531986173



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>


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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