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MCL coexpression mm9:849: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0043153;entrainment of circadian clock by photoperiod;0.0124910973538596;13864!GO:0009648;photoperiodism;0.0124910973538596;13864!GO:0009649;entrainment of circadian clock;0.0166506905596417;13864!GO:0042953;lipoprotein transport;0.0166506905596417;54135!GO:0050965;detection of temperature stimulus during sensory perception of pain;0.0166506905596417;13864!GO:0050961;detection of temperature stimulus during sensory perception;0.0166506905596417;13864!GO:0016048;detection of temperature stimulus;0.0181584189925705;13864!GO:0042627;chylomicron;0.0181584189925705;54135!GO:0050951;sensory perception of temperature stimulus;0.0181584189925705;13864!GO:0030169;low-density lipoprotein binding;0.0181584189925705;54135!GO:0030228;lipoprotein receptor activity;0.0181584189925705;54135!GO:0008034;lipoprotein binding;0.027037364610579;54135!GO:0001889;liver development;0.0402895678942441;54135!GO:0019233;sensory perception of pain;0.0445231456193193;13864!GO:0007623;circadian rhythm;0.048187877866731;13864!
}}

Latest revision as of 15:59, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr5:140290185..140290233,-p4@Tmem184a
Mm9::chr6:124668826..124668853,-p2@ENSMUST00000143765
Mm9::chr6:124668855..124668875,-p1@ENSMUST00000143765
Mm9::chr7:30066635..30066707,-p3@Spint2
Mm9::chr7:30066957..30066992,-p2@Spint2
Mm9::chr7:30066998..30067009,-p4@Spint2
Mm9::chr7:31758487..31758499,-p5@Lsr
Mm9::chr7:31758805..31758835,+p2@Fam187b
Mm9::chr8:73905344..73905381,-p2@Nr2f6


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:0043153entrainment of circadian clock by photoperiod0.0124910973538596
GO:0009648photoperiodism0.0124910973538596
GO:0009649entrainment of circadian clock0.0166506905596417
GO:0042953lipoprotein transport0.0166506905596417
GO:0050965detection of temperature stimulus during sensory perception of pain0.0166506905596417
GO:0050961detection of temperature stimulus during sensory perception0.0166506905596417
GO:0016048detection of temperature stimulus0.0181584189925705
GO:0042627chylomicron0.0181584189925705
GO:0050951sensory perception of temperature stimulus0.0181584189925705
GO:0030169low-density lipoprotein binding0.0181584189925705
GO:0030228lipoprotein receptor activity0.0181584189925705
GO:0008034lipoprotein binding0.027037364610579
GO:0001889liver development0.0402895678942441
GO:0019233sensory perception of pain0.0445231456193193
GO:0007623circadian rhythm0.048187877866731



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
endoderm-derived structure1.10e-15118
endoderm1.10e-15118
presumptive endoderm1.10e-15118
intestine2.32e-1531
digestive system3.20e-15116
digestive tract3.20e-15116
primitive gut3.20e-15116
subdivision of digestive tract3.52e-14114
gastrointestinal system1.33e-1347
mucosa1.21e-0915
immaterial anatomical entity1.53e-0979
anatomical space3.22e-0957
intestinal mucosa1.78e-0813
anatomical wall1.78e-0813
wall of intestine1.78e-0813
gastrointestinal system mucosa1.78e-0813
trunk region element3.71e-0879
pancreas2.09e-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)
MA0003.11.84202
MA0004.10.394951
MA0006.10.670874
MA0007.10.38073
MA0009.10.82278
MA0014.12.55748
MA0017.10.26239
MA0019.10.642876
MA0024.11.83441
MA0025.11.05446
MA0027.12.46647
MA0028.10.24786
MA0029.10.757957
MA0030.10.764448
MA0031.10.729293
MA0038.10.534262
MA0040.10.835181
MA0041.10.323687
MA0042.10.311486
MA0043.10.918718
MA0046.10.858391
MA0048.12.65098
MA0050.10.431976
MA0051.11.34084
MA0052.10.84317
MA0055.10.692644
MA0056.10
MA0057.10.258928
MA0058.10.305206
MA0059.10.316585
MA0060.10.169058
MA0061.10.194456
MA0063.10
MA0066.10.523573
MA0067.11.16502
MA0068.10.077274
MA0069.10.843506
MA0070.10.833895
MA0071.10.431174
MA0072.10.825495
MA0073.10.193408
MA0074.11.22546
MA0076.10.765781
MA0077.10.804033
MA0078.10.575205
MA0081.10.338098
MA0083.10.917931
MA0084.11.49188
MA0087.10.87515
MA0088.10.18495
MA0089.10
MA0090.10.362551
MA0091.10.407455
MA0092.10.362847
MA0093.10.2553
MA0095.10
MA0098.10
MA0100.12.08657
MA0101.10.324888
MA0103.13.84012
MA0105.10.35523
MA0106.10.582805
MA0107.10.266586
MA0108.20.665343
MA0109.10
MA0111.10.375908
MA0113.10.555251
MA0114.10.19245
MA0115.10.921497
MA0116.10.670446
MA0117.10.88947
MA0119.10.325434
MA0122.10.909168
MA0124.11.11203
MA0125.11.03833
MA0130.10
MA0131.10.638414
MA0132.10
MA0133.10
MA0135.10.954884
MA0136.10.508047
MA0139.10.441109
MA0140.10.477483
MA0141.10.29014
MA0142.10.714976
MA0143.10.571221
MA0144.11.69868
MA0145.11.65394
MA0146.13.91453
MA0147.11.12076
MA0148.10.410398
MA0149.10.330018
MA0062.21.21132
MA0035.20.482026
MA0039.22.7644
MA0138.21.52535
MA0002.20.145685
MA0137.21.42833
MA0104.20.476119
MA0047.20.533516
MA0112.20.442124
MA0065.21.18166
MA0150.10.380623
MA0151.10
MA0152.10.53362
MA0153.10.971406
MA0154.10.581988
MA0155.10.226288
MA0156.10.763978
MA0157.10.683365
MA0158.10
MA0159.10.214506
MA0160.10.413266
MA0161.10
MA0162.10.875406
MA0163.10.542069
MA0164.10.508398
MA0080.20.267388
MA0018.20.51781
MA0099.20.624421
MA0079.22.2128
MA0102.21.5442
MA0258.10.533988
MA0259.11.08444
MA0442.10
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