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MCL coexpression mm9:112: Difference between revisions

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{{MCL_coexpression_mm9
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structure development;0.000952200394169407;17295,15221,231532,192897,56443,11735,14176,243914,235379,12661,233752!GO:0007399;nervous system development;0.000952200394169407;17295,11735,14176,243914,235379,12661,233752!GO:0007275;multicellular organismal development;0.00129763837263494;17295,15221,231532,192897,108105,11735,14176,243914,235379,12661,233752!GO:0032502;developmental process;0.00212167718388141;17295,15221,231532,192897,108105,56443,11735,14176,243914,235379,12661,233752!GO:0009925;basal plasma membrane;0.00272932897512999;17295,192897!GO:0045178;basal part of cell;0.00292214534650913;17295,192897!GO:0048731;system development;0.0030665695854812;17295,15221,231532,11735,14176,235379,243914,12661,233752!GO:0043005;neuron projection;0.0155603656934145;11735,15165,12661!GO:0048869;cellular developmental process;0.0173731909726563;15221,231532,11735,14176,235379,243914,12661,233752!GO:0030154;cell differentiation;0.0173731909726563;15221,231532,11735,14176,235379,243914,12661,233752!GO:0022008;neurogenesis;0.020825909281943;11735,14176,243914,12661!GO:0042995;cell projection;0.0251860800119627;11735,15165,12661,56443!GO:0005008;hepatocyte growth factor receptor activity;0.0283642871491444;17295!GO:0008917;lipopolysaccharide N-acetylglucosaminyltransferase activity;0.0283642871491444;108105!GO:0001829;trophectodermal cell differentiation;0.0283642871491444;15221!GO:0030425;dendrite;0.0330954276798172;15165,12661!GO:0009653;anatomical structure morphogenesis;0.0330954276798172;11735,15221,231532,192897,12661,56443!GO:0032989;cellular structure morphogenesis;0.0377276756698914;11735,192897,12661,56443!GO:0000902;cell morphogenesis;0.0377276756698914;11735,192897,12661,56443!GO:0048666;neuron development;0.0386225960481618;11735,243914,12661!GO:0051450;myoblast proliferation;0.0402741059270088;17295!GO:0030424;axon;0.0402741059270088;11735,15165!GO:0032501;multicellular organismal process;0.0468740066234956;17295,15221,231532,192897,108105,11735,14176,243914,235379,12661,233752!GO:0016323;basolateral plasma membrane;0.0468740066234956;17295,192897!GO:0048012;hepatocyte growth factor receptor signaling pathway;0.0489103062839025;17295!GO:0032990;cell part morphogenesis;0.0489103062839025;11735,192897,12661!GO:0048858;cell projection morphogenesis;0.0489103062839025;11735,192897,12661!GO:0030030;cell projection organization and biogenesis;0.0489103062839025;11735,192897,12661!GO:0007411;axon 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|gostat_on_MCL_coexpression=GO:0048856;anatomical structure development;0.000952200394169407;17295,15221,231532,192897,56443,11735,14176,243914,235379,12661,233752!GO:0007399;nervous system development;0.000952200394169407;17295,11735,14176,243914,235379,12661,233752!GO:0007275;multicellular organismal development;0.00129763837263494;17295,15221,231532,192897,108105,11735,14176,243914,235379,12661,233752!GO:0032502;developmental process;0.00212167718388141;17295,15221,231532,192897,108105,56443,11735,14176,243914,235379,12661,233752!GO:0009925;basal plasma membrane;0.00272932897512999;17295,192897!GO:0045178;basal part of cell;0.00292214534650913;17295,192897!GO:0048731;system development;0.0030665695854812;17295,15221,231532,11735,14176,235379,243914,12661,233752!GO:0043005;neuron projection;0.0155603656934145;11735,15165,12661!GO:0048869;cellular developmental process;0.0173731909726563;15221,231532,11735,14176,235379,243914,12661,233752!GO:0030154;cell differentiation;0.0173731909726563;15221,231532,11735,14176,235379,243914,12661,233752!GO:0022008;neurogenesis;0.020825909281943;11735,14176,243914,12661!GO:0042995;cell projection;0.0251860800119627;11735,15165,12661,56443!GO:0005008;hepatocyte growth factor receptor activity;0.0283642871491444;17295!GO:0008917;lipopolysaccharide N-acetylglucosaminyltransferase activity;0.0283642871491444;108105!GO:0001829;trophectodermal cell differentiation;0.0283642871491444;15221!GO:0030425;dendrite;0.0330954276798172;15165,12661!GO:0009653;anatomical structure morphogenesis;0.0330954276798172;11735,15221,231532,192897,12661,56443!GO:0032989;cellular structure morphogenesis;0.0377276756698914;11735,192897,12661,56443!GO:0000902;cell morphogenesis;0.0377276756698914;11735,192897,12661,56443!GO:0048666;neuron development;0.0386225960481618;11735,243914,12661!GO:0051450;myoblast proliferation;0.0402741059270088;17295!GO:0030424;axon;0.0402741059270088;11735,15165!GO:0032501;multicellular organismal process;0.0468740066234956;17295,15221,231532,192897,108105,11735,14176,243914,235379,12661,233752!GO:0016323;basolateral plasma membrane;0.0468740066234956;17295,192897!GO:0048012;hepatocyte growth factor receptor signaling pathway;0.0489103062839025;17295!GO:0032990;cell part morphogenesis;0.0489103062839025;11735,192897,12661!GO:0048858;cell projection morphogenesis;0.0489103062839025;11735,192897,12661!GO:0030030;cell projection organization and biogenesis;0.0489103062839025;11735,192897,12661!GO:0007411;axon guidance;0.0491670232970789;11735,12661!
|ontology_enrichment_celltype=CL:0000217!1.66e-44!2;CL:0000328!1.66e-44!2;CL:0002573!1.66e-44!2;CL:0002376!1.66e-44!2;CL:0000218!1.66e-44!2;CL:0000692!1.66e-44!2;CL:0002377!1.66e-44!2;CL:0002375!1.66e-44!2;CL:0000215!4.03e-30!3;CL:0000630!4.03e-30!3;CL:0000325!1.13e-15!6;CL:0000107!1.26e-10!9;CL:0000333!7.63e-10!10;CL:0000095!7.63e-10!10;CL:0000243!7.63e-10!10;CL:0000123!7.63e-10!10;CL:0000125!7.63e-10!10;CL:0000030!7.63e-10!10;CL:0000339!7.63e-10!10;CL:0002319!6.31e-09!43;CL:0000221!9.66e-09!44;CL:0000133!9.66e-09!44;CL:0000055!6.29e-08!49
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000010!3.07e-32!11;UBERON:0000011!1.54e-29!3;UBERON:0002410!1.26e-10!9
}}

Latest revision as of 14:43, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:128359639..128359653,+p@chr10:128359639..128359653
+
Mm9::chr10:69209762..69209778,+p@chr10:69209762..69209778
+
Mm9::chr10:69209793..69209801,+p@chr10:69209793..69209801
+
Mm9::chr10:69248255..69248271,+p14@Ank3
Mm9::chr11:115835864..115835869,+p20@Itgb4
Mm9::chr11:115836221..115836231,+p10@Itgb4
Mm9::chr11:56925925..56925960,-p@chr11:56925925..56925960
-
Mm9::chr11:56942405..56942422,+p@chr11:56942405..56942422
+
Mm9::chr11:73026893..73026901,+p@chr11:73026893..73026901
+
Mm9::chr11:95431310..95431333,-p@chr11:95431310..95431333
-
Mm9::chr11:95431700..95431710,-p@chr11:95431700..95431710
-
Mm9::chr11:99720074..99720077,-p@chr11:99720074..99720077
-
Mm9::chr12:31569186..31569191,+p1@Fam150b
Mm9::chr12:45629895..45629920,+p@chr12:45629895..45629920
+
Mm9::chr12:53884241..53884258,+p@chr12:53884241..53884258
+
Mm9::chr12:53884275..53884286,+p@chr12:53884275..53884286
+
Mm9::chr12:86685402..86685408,-p@chr12:86685402..86685408
-
Mm9::chr12:86685417..86685445,-p@chr12:86685417..86685445
-
Mm9::chr13:118391116..118391132,+p2@Hcn1
Mm9::chr13:40779254..40779265,-p@chr13:40779254..40779265
-
Mm9::chr13:93453323..93453355,+p@chr13:93453323..93453355
+
Mm9::chr13:93463212..93463214,+p@chr13:93463212..93463214
+
Mm9::chr13:95819359..95819371,-p@chr13:95819359..95819371
-
Mm9::chr14:67691531..67691536,-p7@Ppp2r2a
Mm9::chr14:74279307..74279342,+p@chr14:74279307..74279342
+
Mm9::chr15:103345675..103345685,+p10@Pde1b
Mm9::chr15:6490258..6490270,+p@chr15:6490258..6490270
+
Mm9::chr15:87485402..87485411,+p@chr15:87485402..87485411
+
Mm9::chr15:87485433..87485449,+p@chr15:87485433..87485449
+
Mm9::chr15:87485458..87485465,+p@chr15:87485458..87485465
+
Mm9::chr15:90746400..90746406,-p@chr15:90746400..90746406
-
Mm9::chr16:19760918..19760929,+p8@B3gnt5
Mm9::chr16:19760995..19761002,+p15@B3gnt5
Mm9::chr16:32867596..32867603,-p@chr16:32867596..32867603
-
Mm9::chr16:45038561..45038571,+p@chr16:45038561..45038571
+
Mm9::chr17:35380038..35380095,+p@chr17:35380038..35380095
+
Mm9::chr17:35380097..35380121,+p@chr17:35380097..35380121
+
Mm9::chr17:71029236..71029253,-p@chr17:71029236..71029253
-
Mm9::chr17:73424057..73424098,-p@chr17:73424057..73424098
-
Mm9::chr18:21130153..21130163,+p@chr18:21130153..21130163
+
Mm9::chr18:57302436..57302450,+p8@Megf10
Mm9::chr18:57302477..57302482,+p21@Megf10
Mm9::chr18:57302491..57302512,+p12@Megf10
Mm9::chr1:112873900..112873909,-p3@Cdh19
Mm9::chr1:112873943..112873959,-p1@Cdh19
Mm9::chr1:122931854..122931863,+p@chr1:122931854..122931863
+
Mm9::chr1:135777494..135777503,+p@chr1:135777494..135777503
+
Mm9::chr1:135777519..135777524,+p@chr1:135777519..135777524
+
Mm9::chr1:88964576..88964593,+p@chr1:88964576..88964593
+
Mm9::chr1:92754564..92754577,+p@chr1:92754564..92754577
+
Mm9::chr1:92754583..92754595,+p@chr1:92754583..92754595
+
Mm9::chr2:108525989..108525997,-p@chr2:108525989..108525997
-
Mm9::chr2:131087778..131087783,+p9@Pank2
Mm9::chr2:13346379..13346390,-p@chr2:13346379..13346390
-
Mm9::chr2:13346395..13346412,-p@chr2:13346395..13346412
-
Mm9::chr2:142583784..142583792,-p@chr2:142583784..142583792
-
Mm9::chr2:163516416..163516431,-p@chr2:163516416..163516431
-
Mm9::chr2:163516500..163516503,-p@chr2:163516500..163516503
-
Mm9::chr2:163516561..163516571,-p@chr2:163516561..163516571
-
Mm9::chr2:91152821..91152832,-p@chr2:91152821..91152832
-
Mm9::chr2:92688875..92688880,+p@chr2:92688875..92688880
+
Mm9::chr3:129764403..129764426,-p13@Sec24b
Mm9::chr4:140480203..140480226,+p2@Padi2
Mm9::chr4:99323353..99323363,+p@chr4:99323353..99323363
+
Mm9::chr5:102910365..102910376,+p20@Arhgap24
Mm9::chr5:102910393..102910401,+p21@Arhgap24
Mm9::chr5:116856799..116856810,+p@chr5:116856799..116856810
+
Mm9::chr5:145651101..145651113,-p@chr5:145651101..145651113
-
Mm9::chr5:145865342..145865361,+p6@Arpc1a
Mm9::chr5:152054997..152055007,+p@chr5:152054997..152055007
+
Mm9::chr5:152055079..152055086,+p@chr5:152055079..152055086
+
Mm9::chr5:152055094..152055108,+p@chr5:152055094..152055108
+
Mm9::chr5:35996812..35996829,-p@chr5:35996812..35996829
-
Mm9::chr5:81113315..81113317,+p@chr5:81113315..81113317
+
Mm9::chr5:98683260..98683274,+p1@Fgf5
Mm9::chr5:98683341..98683353,+p2@Fgf5
Mm9::chr6:103460767..103460778,+p13@Chl1
Mm9::chr6:120953023..120953030,-p5@LOC100505050
Mm9::chr6:120953117..120953152,-p1@LOC100505050
Mm9::chr6:17413432..17413442,+p10@Met
Mm9::chr6:17413555..17413581,+p5@Met
Mm9::chr6:17414092..17414113,+p6@Met
Mm9::chr6:17441128..17441144,+p@chr6:17441128..17441144
+
Mm9::chr6:17441216..17441242,+p@chr6:17441216..17441242
+
Mm9::chr6:18763883..18763912,-p@chr6:18763883..18763912
-
Mm9::chr6:31038438..31038445,-p@chr6:31038438..31038445
-
Mm9::chr6:39508100..39508110,-p12@Dennd2a
Mm9::chr6:39508130..39508138,-p15@Dennd2a
Mm9::chr7:114809700..114809718,+p@chr7:114809700..114809718
+
Mm9::chr7:121897273..121897278,+p21@Insc
Mm9::chr7:121897294..121897307,+p16@Insc
Mm9::chr7:121897309..121897342,+p5@Insc
Mm9::chr7:121897346..121897351,+p20@Insc
Mm9::chr7:125737212..125737216,+p@chr7:125737212..125737216
+
Mm9::chr7:31844871..31844895,+p9@Lgi4
Mm9::chr7:31844925..31844939,+p11@Lgi4
Mm9::chr7:31844941..31844960,+p7@Lgi4
Mm9::chr8:113317485..113317497,-p@chr8:113317485..113317497
-
Mm9::chr8:74103312..74103347,+p21@Slc27a1
Mm9::chr9:108887208..108887226,+p@chr9:108887208..108887226
+
Mm9::chr9:108890352..108890409,+p@chr9:108890352..108890409
+
Mm9::chr9:14575600..14575609,-p8@1700012B09Rik
Mm9::chr9:21134801..21134809,+p@chr9:21134801..21134809
+
Mm9::chr9:38526609..38526640,+p4@Vwa5a
Mm9::chr9:54134286..54134301,+p1@Gldn
Mm9::chrX:143863732..143863735,-p2@Il13ra2
Mm9::chrX:149092014..149092030,-p@chrX:149092014..149092030
-


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:0048856anatomical structure development0.000952200394169407
GO:0007399nervous system development0.000952200394169407
GO:0007275multicellular organismal development0.00129763837263494
GO:0032502developmental process0.00212167718388141
GO:0009925basal plasma membrane0.00272932897512999
GO:0045178basal part of cell0.00292214534650913
GO:0048731system development0.0030665695854812
GO:0043005neuron projection0.0155603656934145
GO:0048869cellular developmental process0.0173731909726563
GO:0030154cell differentiation0.0173731909726563
GO:0022008neurogenesis0.020825909281943
GO:0042995cell projection0.0251860800119627
GO:0005008hepatocyte growth factor receptor activity0.0283642871491444
GO:0008917lipopolysaccharide N-acetylglucosaminyltransferase activity0.0283642871491444
GO:0001829trophectodermal cell differentiation0.0283642871491444
GO:0030425dendrite0.0330954276798172
GO:0009653anatomical structure morphogenesis0.0330954276798172
GO:0032989cellular structure morphogenesis0.0377276756698914
GO:0000902cell morphogenesis0.0377276756698914
GO:0048666neuron development0.0386225960481618
GO:0051450myoblast proliferation0.0402741059270088
GO:0030424axon0.0402741059270088
GO:0032501multicellular organismal process0.0468740066234956
GO:0016323basolateral plasma membrane0.0468740066234956
GO:0048012hepatocyte growth factor receptor signaling pathway0.0489103062839025
GO:0032990cell part morphogenesis0.0489103062839025
GO:0048858cell projection morphogenesis0.0489103062839025
GO:0030030cell projection organization and biogenesis0.0489103062839025
GO:0007411axon guidance0.0491670232970789



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
peripheral nervous system3.07e-3211
parasympathetic nervous system1.54e-293
autonomic nervous system1.26e-109


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)
MA0003.18.55588e-07
MA0004.10.065573
MA0006.10.0262096
MA0007.10.706757
MA0009.10.0675489
MA0014.11.04912e-06
MA0017.10.142046
MA0019.10.433639
MA0024.10.0531867
MA0025.10.176234
MA0027.11.39939
MA0028.10.0137697
MA0029.10.177299
MA0030.10.0486752
MA0031.10.152943
MA0038.10.230917
MA0040.10.251719
MA0041.10.0238898
MA0042.10.0941028
MA0043.10.106262
MA0046.10.581389
MA0048.10.1169
MA0050.10.328451
MA0051.10.117081
MA0052.11.93936
MA0055.10.652674
MA0056.10
MA0057.10.160756
MA0058.10.153694
MA0059.10.176929
MA0060.10.0003181
MA0061.10.00305542
MA0063.10
MA0066.10.380434
MA0067.10.685186
MA0068.10.238536
MA0069.10.26047
MA0070.10.534445
MA0071.10.975064
MA0072.10.24171
MA0073.10.146818
MA0074.10.720014
MA0076.10.000611781
MA0077.10.479298
MA0078.10.77869
MA0081.10.132746
MA0083.10.105907
MA0084.10.491456
MA0087.10.614352
MA0088.10.0542957
MA0089.10
MA0090.10.28832
MA0091.10.15385
MA0092.10.43709
MA0093.10.0163033
MA0095.10
MA0098.10
MA0100.10.0661137
MA0101.10.0572182
MA0103.10.0508538
MA0105.10.0034532
MA0106.10.0582733
MA0107.10.0460101
MA0108.20.257434
MA0109.10
MA0111.10.200707
MA0113.10.706843
MA0114.10.110283
MA0115.10.708853
MA0116.10.0963016
MA0117.10.311175
MA0119.10.196214
MA0122.10.683251
MA0124.10.210725
MA0125.10.167061
MA0130.10
MA0131.10.088225
MA0132.10
MA0133.10
MA0135.10.123241
MA0136.10.0877342
MA0139.10.00114326
MA0140.10.278541
MA0141.10.452128
MA0142.10.32985
MA0143.11.44409
MA0144.10.179427
MA0145.11.07008
MA0146.14.0528e-06
MA0147.10.0256834
MA0148.10.0310277
MA0149.10.0265339
MA0062.21.22996e-05
MA0035.20.287916
MA0039.27.99096e-05
MA0138.20.0186228
MA0002.21.7333
MA0137.20.439958
MA0104.20.00564097
MA0047.20.404318
MA0112.20.0138322
MA0065.20.937458
MA0150.11.5129
MA0151.10
MA0152.10.404572
MA0153.10.41085
MA0154.10.0314165
MA0155.10.228759
MA0156.10.0029956
MA0157.10.282762
MA0158.10
MA0159.10.351835
MA0160.11.79649
MA0161.10
MA0162.10.000216035
MA0163.13.56508e-06
MA0164.10.19174
MA0080.20.152828
MA0018.20.0323995
MA0099.25.79619
MA0079.21.06045e-11
MA0102.20.53545
MA0258.10.392507
MA0259.10.0201479
MA0442.10
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