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MCL coexpression mm9:941: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000117!2.63e-24!23;CL:0000337!2.63e-24!23;CL:0000540!3.22e-16!33;CL:0000047!3.22e-16!33;CL:0000031!3.22e-16!33;CL:0000404!3.22e-16!33;CL:0000393!1.37e-12!39;CL:0000211!1.37e-12!39;CL:0002319!9.32e-11!43;CL:0000221!2.36e-10!44;CL:0000133!2.36e-10!44;CL:0000055!1.32e-08!49
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!2.59e-32!64;UBERON:0003075!2.59e-32!64;UBERON:0007284!2.59e-32!64;UBERON:0000073!2.26e-30!54;UBERON:0001049!6.87e-30!52;UBERON:0005068!6.87e-30!52;UBERON:0006241!6.87e-30!52;UBERON:0007135!6.87e-30!52;UBERON:0002020!5.45e-28!34;UBERON:0001017!7.19e-27!73;UBERON:0010371!1.52e-26!73;UBERON:0001016!9.08e-26!75;UBERON:0004121!2.86e-25!95;UBERON:0000924!2.86e-25!95;UBERON:0006601!2.86e-25!95;UBERON:0003056!5.10e-25!49;UBERON:0002616!5.62e-23!46;UBERON:0000955!2.94e-22!47;UBERON:0006238!2.94e-22!47;UBERON:0003528!4.82e-22!29;UBERON:0002791!4.82e-22!29;UBERON:0001893!4.82e-22!29;UBERON:0003080!1.18e-20!40;UBERON:0010314!3.33e-20!92;UBERON:0002780!1.00e-19!39;UBERON:0001890!1.00e-19!39;UBERON:0006240!1.00e-19!39;UBERON:0000956!1.17e-14!21;UBERON:0001869!1.17e-14!21;UBERON:0000203!1.17e-14!21;UBERON:0002619!2.45e-10!17;UBERON:0003076!1.04e-09!12;UBERON:0003057!1.04e-09!12;UBERON:0002021!2.07e-09!10;UBERON:0000411!2.07e-09!10;UBERON:0001950!2.07e-09!10;UBERON:0002420!1.21e-08!8;UBERON:0007245!1.21e-08!8;UBERON:0010009!1.21e-08!8;UBERON:0010011!1.21e-08!8;UBERON:0000454!1.21e-08!8;UBERON:0002240!1.78e-08!6;UBERON:0005174!1.78e-08!6;UBERON:0001137!1.78e-08!6;UBERON:0001948!2.89e-07!5;UBERON:0002315!2.89e-07!5;UBERON:0000025!2.97e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.393008,0.121181,0.367606,0.434198,1.32803,0.448401,0.538088,0.173246,0.181564,0.0447303,0.494602,0.526159,0.173454,0.550255,0.275867,0,0.742571,0.252772,0.160384,0.29826,0.332107,0.0622758,0.549359,0.258745,0.374936,0.577606,0.909128,0.469052,0.303071,0.376624,0.455168,0.843667,0.250677,0.136998,0.276324,2.11044,0.242032,0.522578,0.221921,0.570041,0.256422,0.460258,1.19668,0.761266,0.0183213,0.423266,0.662995,0.484612,1.06276,0.305876,0.725127,0.604356,0.362495,0.985264,1.00271,0.557354,0.314394,0.513517,0.877107,0.555328,0.823643,0.613749,0.192045,0.713876,0.568415,0.754324,1.139,1.48833,0.818971,1.34113,0.349355,1.0125,0.236196,1.03623,0.140213,0.131016,0.839631,0.651651,0.806481,0.336166,0.179489,0.759925,0.612313,0.167672,0.920903,0.025519,0.123242,0.118251,0.667883,1.65055,1.20871,2.13489,0.856465,0.265734,1.16941,0.202284,0.1711,0.859272,0.663249,0.332938,0.242106,0.843387,0.967837,0.725721,0.724668,0.459825,0.784351,0.480639,0.903338,0.333829,0.386136,0.96962,0.337254,0.499714,1.21576,0.254749,0.143112,1.95344,0.743872,0.238599,1.04163,1.65536,0.579418,0.650748,1.26989,0.810177,1.34763,0.849691,1.13749,0.268537,0.950857,1.09252,1.10792,0.570914,1.23736,0.220515,0.401212,0.461647,1.18819,2.01886,1.6187,1.14372,0.591394,0.854131,0.718197,0.460705,0.666107,1.9792,1.83663,2.05603,0.120154,0.780212,0.986833,0.207643,0.569994,1.06851,0.605358,0.287226,0.39061,0.400939,1.1977,0.920047,0.810622,0.383936,0.714896,0.562634,0.240994,0.524587,0.0131724
}}

Latest revision as of 16:08, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:99670376..99670380,-p@chr12:99670376..99670380
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Mm9::chr19:47097877..47097890,+p@chr19:47097877..47097890
+
Mm9::chr19:47097990..47098003,+p@chr19:47097990..47098003
+
Mm9::chr19:47098035..47098046,+p@chr19:47098035..47098046
+
Mm9::chr19:47098061..47098072,+p@chr19:47098061..47098072
+
Mm9::chr19:47098327..47098338,+p@chr19:47098327..47098338
+
Mm9::chr19:47099141..47099153,+p@chr19:47099141..47099153
+
Mm9::chr7:17200127..17200137,-p11@Grlf1


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>

Uber Anatomy
Ontology termp-valuen
neurectoderm2.59e-3264
neural plate2.59e-3264
presumptive neural plate2.59e-3264
regional part of nervous system2.26e-3054
neural tube6.87e-3052
neural rod6.87e-3052
future spinal cord6.87e-3052
neural keel6.87e-3052
gray matter5.45e-2834
central nervous system7.19e-2773
ecto-epithelium1.52e-2673
nervous system9.08e-2675
ectoderm-derived structure2.86e-2595
ectoderm2.86e-2595
presumptive ectoderm2.86e-2595
pre-chordal neural plate5.10e-2549
regional part of brain5.62e-2346
brain2.94e-2247
future brain2.94e-2247
brain grey matter4.82e-2229
regional part of telencephalon4.82e-2229
telencephalon4.82e-2229
anterior neural tube1.18e-2040
structure with developmental contribution from neural crest3.33e-2092
regional part of forebrain1.00e-1939
forebrain1.00e-1939
future forebrain1.00e-1939
cerebral cortex1.17e-1421
cerebral hemisphere1.17e-1421
pallium1.17e-1421
regional part of cerebral cortex2.45e-1017
posterior neural tube1.04e-0912
chordal neural plate1.04e-0912
occipital lobe2.07e-0910
visual cortex2.07e-0910
neocortex2.07e-0910
basal ganglion1.21e-088
nuclear complex of neuraxis1.21e-088
aggregate regional part of brain1.21e-088
collection of basal ganglia1.21e-088
cerebral subcortex1.21e-088
spinal cord1.78e-086
dorsal region element1.78e-086
dorsum1.78e-086
regional part of spinal cord2.89e-075
gray matter of spinal cord2.89e-075
tube2.97e-07114


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)
MA0003.10.016751
MA0004.10.434673
MA0006.10.747445
MA0007.10.419994
MA0009.10.870101
MA0014.10.0611475
MA0017.10.296816
MA0019.10.688051
MA0024.10.826339
MA0025.11.10341
MA0027.12.51754
MA0028.10.281528
MA0029.10.804619
MA0030.10.811181
MA0031.10.775627
MA0038.11.41387
MA0040.10.882616
MA0041.10.947733
MA0042.10.919611
MA0043.10.966833
MA0046.10.906029
MA0048.10.102483
MA0050.10.472794
MA0051.10.586414
MA0052.10.890676
MA0055.10.0283571
MA0056.10
MA0057.10.643187
MA0058.10.341628
MA0059.10.353484
MA0060.10.197678
MA0061.10.638933
MA0063.10
MA0066.11.39085
MA0067.11.21448
MA0068.10.0965831
MA0069.10.891016
MA0070.10.881319
MA0071.10.471969
MA0072.10.872842
MA0073.10.00296875
MA0074.10.531046
MA0076.10.315013
MA0077.10.851175
MA0078.10.61926
MA0081.10.375851
MA0083.10.96604
MA0084.11.54225
MA0087.10.922929
MA0088.11.29043
MA0089.10
MA0090.10.401197
MA0091.10.447561
MA0092.10.401504
MA0093.10.289361
MA0095.10
MA0098.10
MA0100.10.519598
MA0101.10.362124
MA0103.10.307078
MA0105.10.133231
MA0106.10.626997
MA0107.10.301222
MA0108.20.710846
MA0109.10
MA0111.10.415012
MA0113.10.598933
MA0114.10.222763
MA0115.10.969632
MA0116.10.27152
MA0117.10.937363
MA0119.10.362692
MA0122.10.957212
MA0124.11.16127
MA0125.11.0872
MA0130.10
MA0131.10.683521
MA0132.10
MA0133.10
MA0135.11.00325
MA0136.10.550755
MA0139.10.169849
MA0140.10.519484
MA0141.10.325895
MA0142.10.761136
MA0143.10.615203
MA0144.11.86541
MA0145.10.246409
MA0146.10.0169049
MA0147.10.236889
MA0148.10.450593
MA0149.10.367458
MA0062.20.137653
MA0035.20.524137
MA0039.20.027551
MA0138.20.675599
MA0002.20.172399
MA0137.20.32312
MA0104.20.18504
MA0047.20.576767
MA0112.20.0701537
MA0065.20.528619
MA0150.10.419883
MA0151.10
MA0152.10.576873
MA0153.11.01988
MA0154.10.100744
MA0155.10.275377
MA0156.10.314185
MA0157.10.729116
MA0158.10
MA0159.10.688775
MA0160.11.14982
MA0161.10
MA0162.10.230918
MA0163.10.0836563
MA0164.10.551114
MA0080.21.48111
MA0018.20.560731
MA0099.20.669311
MA0079.20.0769949
MA0102.21.59466
MA0258.10.210437
MA0259.10.643936
MA0442.10
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