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MCL coexpression mm9:145: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0986886653414259,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.206002197103771,0.286917557066631,0,0,0,0,0,0,0,0,0.0818436986734574,0.0549981337564001,0.0829019901297716,0.196577841073804,0.158886068781892,0.0864613446826421,0.0929615792816322,0,0.633819428689635,0.672368773588483,0.799010237069131,0.253172623579906,0.358092347414727,0.310018887324488,0.325665874540913,0.429475765992591,0.807797656587836,0.997419197618807,0.703900846440791,0.326007286088902,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.06097065795378,0.0917293418104957,0,0,0,0,0.0451252262866493,0,0,0,0.20018311764962,0.211745123527753,0,0,0,0,0.458094664905999,0.296802021898946,0.399301942204949,0.36578889948912,0.403856780142017,0.389965922625323,0.361336814746809,0.0421182837367051,0,0,0,0,0,0,0.162000848159969,0.127163941277894,0.179682427843873,0.074598306112166,0.308524606664259,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0623063220167371,0.0907988888537607,0,0.067020734233748,0.0661618130246221,0.0660154575426048,0.0338533374824575,0,0,0,0.212419302822567,0.387508097331867,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.046982063026719,0,0.0805006992779881,0.0769870445726752,0.0570083229196787,0.0266298923127834,0,0,0,0,0,0,0,0,0,0,0,0.0652566657696677,0,0.58831251521849,0,0,0,0,0,0,0,0,0,0.0401071385430712,0,0,0.143098306652819,0.0635717028550276,0.086880916817156,0.0642538110976656,0.0659019793256198,0.0691813633419548,0,0,0,0,0,0.331219410322688,0.421762417454495,0,0,0,0,0,0,0,0,0,0,0,0.215543090236368,0,0,0.0655375003561515,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0651385073065393,0.0135155077587194,0,0,0,0.0712812415377886,0.0793417804097268,0,0,0,0,0,0,0,0,0,0,0.440906504381716,0,0,0,0,0,0,0,0,0,0,0,0,0.0445418537893845,0,0,0.054943952156948,0.00442291703563265,0,0,0,0,0,0,0,0,0.0677982110636083,0.0481920468563092,0.0531569878936061,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.876583352358041,0.731195449882581,0.827947632634613,0.7512818701593,0.485046405834616,0.742910698304561,0.64026032638324,0.683270141090544,0.62034397318922,0.752804369432746,0.0326004160851094,0,0.0684580848992459,0.0945084131504676,0.0111093293926736,0,0.0871588832444397,0.081359932135904,0.114829880026055,0.0978461107777356,0.098117166361508,0.0750453505157095,0.107523539997041,0.0939704594577385,0.0997261746927171,0,0.115605155875451,0.115845036360997,0.110620082978737,0.158843797677303,0.226790206858766,0.275859125630462,0.169342968499384,0.110822898586572,0.0748964051866952,0.112424166433421,0.189990830607665,0.2123305518675,0.146274790225416,0.193442483447008,0.0924644954689594,0.159094610422879,0.246426582113987,0.0625582350728301,0,0.0968441960560167,0.091291089277545,0.0261203983929041,0.0760168881589905,0,0
|gostat_on_MCL_coexpression=
}}

Latest revision as of 14:46, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:20679401..20679449,+p3@Ahi1
Mm9::chr10:20679500..20679516,+p4@Ahi1
Mm9::chr10:4518506..4518520,+p@chr10:4518506..4518520
+
Mm9::chr11:29606788..29606818,+p@chr11:29606788..29606818
+
Mm9::chr11:46009553..46009569,-p@chr11:46009553..46009569
-
Mm9::chr12:110797474..110797501,+p@chr12:110797474..110797501
+
Mm9::chr12:110797581..110797592,+p@chr12:110797581..110797592
+
Mm9::chr12:110797743..110797758,+p@chr12:110797743..110797758
+
Mm9::chr12:110797815..110797839,+p@chr12:110797815..110797839
+
Mm9::chr12:110797998..110798011,+p@chr12:110797998..110798011
+
Mm9::chr12:110798076..110798100,+p@chr12:110798076..110798100
+
Mm9::chr12:110798131..110798147,+p@chr12:110798131..110798147
+
Mm9::chr12:110798797..110798817,+p@chr12:110798797..110798817
+
Mm9::chr12:110798843..110798863,+p@chr12:110798843..110798863
+
Mm9::chr12:110798961..110798974,+p@chr12:110798961..110798974
+
Mm9::chr12:110799232..110799264,+p@chr12:110799232..110799264
+
Mm9::chr12:110804528..110804542,+p@chr12:110804528..110804542
+
Mm9::chr13:89367072..89367078,+p@chr13:89367072..89367078
+
Mm9::chr14:60262375..60262378,-p@chr14:60262375..60262378
-
Mm9::chr14:94030548..94030563,-p@chr14:94030548..94030563
-
Mm9::chr16:94632430..94632468,+p@chr16:94632430..94632468
+
Mm9::chr16:94641908..94641927,+p@chr16:94641908..94641927
+
Mm9::chr17:90435182..90435203,-p@chr17:90435182..90435203
-
Mm9::chr18:34476135..34476174,+p@chr18:34476135..34476174
+
Mm9::chr1:161861211..161861223,+p@chr1:161861211..161861223
+
Mm9::chr1:66459526..66459545,+p@chr1:66459526..66459545
+
Mm9::chr1:94972803..94972815,-p@chr1:94972803..94972815
-
Mm9::chr2:102240542..102240553,-p6@Trim44
Mm9::chr2:104516801..104516810,-p@chr2:104516801..104516810
-
Mm9::chr2:119430487..119430509,+p@chr2:119430487..119430509
+
Mm9::chr3:107467992..107468037,-p@chr3:107467992..107468037
-
Mm9::chr4:150436922..150436948,-p@chr4:150436922..150436948
-
Mm9::chr4:46690502..46690514,-p@chr4:46690502..46690514
-
Mm9::chr5:71351703..71351705,-p1@uc008xqu.1
Mm9::chr5:71351741..71351785,-p2@uc008xqu.1
Mm9::chr6:30701694..30701705,+p@chr6:30701694..30701705
+
Mm9::chr6:30701907..30701918,+p@chr6:30701907..30701918
+
Mm9::chr6:30702466..30702486,+p@chr6:30702466..30702486
+
Mm9::chr6:30753209..30753228,+p@chr6:30753209..30753228
+
Mm9::chr6:30753354..30753370,+p@chr6:30753354..30753370
+
Mm9::chr6:30753374..30753390,+p@chr6:30753374..30753390
+
Mm9::chr6:30753821..30753836,+p@chr6:30753821..30753836
+
Mm9::chr6:30753917..30753929,+p@chr6:30753917..30753929
+
Mm9::chr6:30754185..30754209,+p@chr6:30754185..30754209
+
Mm9::chr6:30754298..30754311,+p6@uc009bfw.1
Mm9::chr6:30754795..30754817,+p2@uc009bfw.1
Mm9::chr6:30754834..30754841,+p11@uc009bfw.1
Mm9::chr6:30754878..30754887,+p9@uc009bfw.1
Mm9::chr6:30754881..30754893,-p@chr6:30754881..30754893
-
Mm9::chr6:30754900..30754914,+p7@uc009bfw.1
Mm9::chr6:30754949..30754965,+p5@uc009bfw.1
Mm9::chr6:30754970..30754980,+p8@uc009bfw.1
Mm9::chr6:30754983..30755006,+p1@uc009bfw.1
Mm9::chr6:30755031..30755044,+p3@uc009bfw.1
Mm9::chr6:30755066..30755080,+p4@uc009bfw.1
Mm9::chr6:30755165..30755176,+p14@uc009bfw.1
Mm9::chr6:30755186..30755195,+p13@uc009bfw.1
Mm9::chr6:30755202..30755212,+p10@uc009bfw.1
Mm9::chr6:30755457..30755467,+p@chr6:30755457..30755467
+
Mm9::chr6:30755535..30755546,+p@chr6:30755535..30755546
+
Mm9::chr6:30755610..30755624,+p@chr6:30755610..30755624
+
Mm9::chr6:30755657..30755666,+p@chr6:30755657..30755666
+
Mm9::chr6:30755739..30755758,+p@chr6:30755739..30755758
+
Mm9::chr6:30756217..30756237,+p@chr6:30756217..30756237
+
Mm9::chr6:30756310..30756328,+p@chr6:30756310..30756328
+
Mm9::chr6:30756395..30756409,+p@chr6:30756395..30756409
+
Mm9::chr6:30756493..30756516,+p@chr6:30756493..30756516
+
Mm9::chr6:30756543..30756583,+p@chr6:30756543..30756583
+
Mm9::chr6:30756791..30756804,-p@chr6:30756791..30756804
-
Mm9::chr6:42619857..42619871,-p@chr6:42619857..42619871
-
Mm9::chr7:107425158..107425160,+p@chr7:107425158..107425160
+
Mm9::chr7:148613267..148613289,-p@chr7:148613267..148613289
-
Mm9::chr7:66497946..66497972,-p@chr7:66497946..66497972
-
Mm9::chr7:67123756..67123760,-p1@ENSMUST00000104003
Mm9::chr9:75415128..75415161,-p@chr9:75415128..75415161
-
Mm9::chrX:102503327..102503344,-p@chrX:102503327..102503344
-
Mm9::chrX:56316066..56316079,-p@chrX:56316066..56316079
-
Mm9::chrX:58439053..58439064,+p@chrX:58439053..58439064
+


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>

Cell Type
Ontology termp-valuen
CNS neuron (sensu Vertebrata)1.20e-1323
neuroblast (sensu Vertebrata)1.20e-1323
neuron2.86e-0733
neuronal stem cell2.86e-0733
neuroblast2.86e-0733
electrically signaling cell2.86e-0733

Uber Anatomy
Ontology termp-valuen
regional part of nervous system3.09e-2654
neural tube3.02e-2452
neural rod3.02e-2452
future spinal cord3.02e-2452
neural keel3.02e-2452
neurectoderm2.22e-2264
neural plate2.22e-2264
presumptive neural plate2.22e-2264
gray matter7.77e-2234
brain4.65e-2047
future brain4.65e-2047
central nervous system1.90e-1973
regional part of brain2.36e-1946
nervous system1.95e-1875
pre-chordal neural plate5.31e-1849
anterior neural tube6.53e-1840
brain grey matter9.03e-1829
regional part of telencephalon9.03e-1829
telencephalon9.03e-1829
ecto-epithelium2.19e-1773
regional part of forebrain4.53e-1739
forebrain4.53e-1739
future forebrain4.53e-1739
structure with developmental contribution from neural crest1.55e-1592
ectoderm-derived structure7.23e-1595
ectoderm7.23e-1595
presumptive ectoderm7.23e-1595
cerebral cortex1.94e-1121
cerebral hemisphere1.94e-1121
pallium1.94e-1121
occipital lobe6.07e-1110
visual cortex6.07e-1110
neocortex6.07e-1110
tube3.27e-10114
regional part of cerebral cortex9.71e-1017
anatomical conduit2.09e-08122
basal ganglion9.12e-088
nuclear complex of neuraxis9.12e-088
aggregate regional part of brain9.12e-088
collection of basal ganglia9.12e-088
cerebral subcortex9.12e-088
posterior neural tube6.10e-0712
chordal neural plate6.10e-0712


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)
MA0003.14.10668e-12
MA0004.10.0281506
MA0006.10.00211273
MA0007.10.023837
MA0009.10.121213
MA0014.11.07748e-05
MA0017.10.0408234
MA0019.10.0489937
MA0024.10.100735
MA0025.12.04123
MA0027.11.5343
MA0028.10.00262823
MA0029.10.305235
MA0030.10.645988
MA0031.11.99591
MA0038.10.0968032
MA0040.10.798175
MA0041.14.12691
MA0042.14.94972
MA0043.10.172869
MA0046.10.139406
MA0048.17.75518e-05
MA0050.11.29017
MA0051.11.52489
MA0052.10.131483
MA0055.10.0318034
MA0056.10
MA0057.10.272716
MA0058.10.00116222
MA0059.10.0344976
MA0060.10.285705
MA0061.16.3418e-05
MA0063.10
MA0066.10.225019
MA0067.10.338391
MA0068.10.0112488
MA0069.10.411471
MA0070.10.126763
MA0071.10.00793442
MA0072.10.122558
MA0073.10.00481665
MA0074.10.068968
MA0076.10.000684168
MA0077.10.729896
MA0078.10.872708
MA0081.10.211341
MA0083.10.172411
MA0084.10.607113
MA0087.10.453759
MA0088.10.00669873
MA0089.10
MA0090.10.139474
MA0091.10.366419
MA0092.10.0609233
MA0093.10.00310423
MA0095.10
MA0098.10
MA0100.10.0131913
MA0101.10.186328
MA0103.10.307199
MA0105.10.011538
MA0106.10.13227
MA0107.10.0950956
MA0108.20.452103
MA0109.10
MA0111.12.90024
MA0113.10.0264596
MA0114.10.274484
MA0115.10.518294
MA0116.10.476538
MA0117.10.921468
MA0119.10.0950246
MA0122.10.167359
MA0124.10.810445
MA0125.10.692914
MA0130.10
MA0131.10.0476439
MA0132.10
MA0133.10
MA0135.10.194423
MA0136.10.395563
MA0139.18.7216e-05
MA0140.10.558266
MA0141.10.0233988
MA0142.10.928674
MA0143.10.123276
MA0144.10.747421
MA0145.10.000309295
MA0146.11.14261e-08
MA0147.10.00422041
MA0148.10.85355
MA0149.10.0412279
MA0062.20.000124283
MA0035.20.0652893
MA0039.26.16074e-09
MA0138.20.0453365
MA0002.20.0178705
MA0137.20.735931
MA0104.20.000161859
MA0047.21.92289
MA0112.20.122252
MA0065.20.901745
MA0150.10.0735585
MA0151.10
MA0152.10.0963738
MA0153.10.204621
MA0154.10.0468196
MA0155.10.425584
MA0156.10.111749
MA0157.10.485466
MA0158.10
MA0159.10.0843473
MA0160.10.866834
MA0161.10
MA0162.16.36869e-08
MA0163.15.22336e-06
MA0164.10.396321
MA0080.20.441445
MA0018.20.0193169
MA0099.20.16724
MA0079.24.71378e-09
MA0102.20.653468
MA0258.10.0198901
MA0259.10.00328707
MA0442.10
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