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MCL coexpression mm9:1916: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!8.03e-10!31;UBERON:0002193!2.50e-09!48;UBERON:0002405!2.50e-09!48;UBERON:0000344!8.71e-09!15;UBERON:0002390!1.14e-08!45;UBERON:0003061!1.14e-08!45;UBERON:0002204!4.75e-08!32;UBERON:0004923!5.09e-08!24;UBERON:0001242!8.14e-08!13;UBERON:0000060!8.14e-08!13;UBERON:0001262!8.14e-08!13;UBERON:0004786!8.14e-08!13;UBERON:0005409!8.51e-08!47;UBERON:0002384!2.63e-07!46
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.801438,0.612053,0.688265,0.483253,0.704257,0.803568,0.370124,0.381467,0.949265,0.755749,0.790506,0.37041,0.81685,0.502646,0,1.02248,0.473993,0.352304,0.24402,0.570433,0.57409,0.815872,0.481455,0.620553,0.846564,0.342316,0.727368,1.32554,0.290745,0.711848,1.12823,0.471365,0.318879,0.503207,0.089443,0.460474,1.84911,0.434783,0.40068,0.478558,0.717547,0.185353,0.504971,0.66772,0.675898,0.938241,0.744678,0.162985,1.3327,1.0041,0.875451,0.282443,1.2746,1.29252,0.82458,0.549352,0.776619,0.331485,0.822375,1.10737,0.885556,1.80941,0.992216,1.95203,1.03484,1.43193,1.78579,1.1025,1.63712,1.44172,0.377213,0.205546,1.32691,0.864765,0.310084,0.318792,0.926147,1.08947,0.575233,0.37865,1.04072,0.884013,0.362446,1.20828,0.758875,0.129654,0.791209,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,0.430015,0.409166,0.961641,1.14445,0.938512,0.264911,0.460566,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,0.57247,0.633483,1.25851,0.576517,0.7614,1.51002,0.476467,1.40021,0.692434,1.02384,1.15537,1.33244,0.970073,0.848526,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,0.839311,1.53196,0.195549,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.293812,1.03606,1.27621,0.416214,0.838313,1.35996,0.87653,0.516549,0.63863,0.650472,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,1.16191,0.788782,0.992915
}}

Latest revision as of 17:42, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:79783251..79783298,-p1@2310011J03Rik
Mm9::chr11:120442867..120442946,-p1@Arhgdia
Mm9::chr19:4148616..4148666,+p1@Coro1b
Mm9::chr2:121275098..121275129,+p1@Gm12481
p1@Serf2


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:0005094Rho GDP-dissociation inhibitor activity0.00821692672136646
GO:0005092GDP-dissociation inhibitor activity0.00821692672136646
GO:0001772immunological synapse0.021902799739109



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
somatic cell3.13e-18118
animal cell1.44e-16115
eukaryotic cell1.44e-16115
motile cell1.13e-1054
endo-epithelial cell5.13e-0815
stem cell6.81e-0897
somatic stem cell9.10e-0891
multi fate stem cell9.10e-0891
connective tissue cell2.63e-0746
mesenchymal cell2.63e-0746

Uber Anatomy
Ontology termp-valuen
intestine8.03e-1031
hemolymphoid system2.50e-0948
immune system2.50e-0948
mucosa8.71e-0915
hematopoietic system1.14e-0845
blood island1.14e-0845
musculoskeletal system4.75e-0832
organ component layer5.09e-0824
intestinal mucosa8.14e-0813
anatomical wall8.14e-0813
wall of intestine8.14e-0813
gastrointestinal system mucosa8.14e-0813
gastrointestinal system8.51e-0847
connective tissue2.63e-0746


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)
MA0003.11.34944
MA0004.12.77235
MA0006.11.24418
MA0007.11.61215
MA0009.11.15569
MA0014.12.01483
MA0017.10.528196
MA0019.10.964875
MA0024.11.11019
MA0025.11.39562
MA0027.12.81824
MA0028.11.26991
MA0029.11.08753
MA0030.11.09438
MA0031.11.05719
MA0038.10.846479
MA0040.11.16866
MA0041.10.604221
MA0042.10.589368
MA0043.11.25564
MA0046.11.1929
MA0048.10.266382
MA0050.10.731539
MA0051.10.856094
MA0052.11.17701
MA0055.10.125758
MA0056.10
MA0057.10.701847
MA0058.14.77557
MA0059.12.47352
MA0060.10.403071
MA0061.11.95592
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.10.256913
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.363073
MA0074.10.795862
MA0076.12.32565
MA0077.11.13603
MA0078.10.891476
MA0081.11.5065
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.11.73268
MA0089.10
MA0090.10.650768
MA0091.10.703314
MA0092.10.651119
MA0093.13.27761
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.11.47308
MA0103.10.540576
MA0105.10.841866
MA0106.10.899777
MA0107.10.533522
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.11.11164
MA0115.11.25852
MA0116.12.15201
MA0117.11.22527
MA0119.10.606338
MA0122.11.24573
MA0124.11.45461
MA0125.11.37907
MA0130.10
MA0131.10.960068
MA0132.10
MA0133.10
MA0135.11.29308
MA0136.10.817395
MA0139.10.957842
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.10.887119
MA0144.10.439506
MA0145.10.608454
MA0146.11.5929
MA0147.12.98268
MA0148.10.706718
MA0149.10.611881
MA0062.23.24307
MA0035.20.788288
MA0039.21.91986
MA0138.20.951653
MA0002.20.965577
MA0137.20.559766
MA0104.23.65093
MA0047.20.845655
MA0112.20.211985
MA0065.21.14711
MA0150.11.61189
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.11.34071
MA0155.11.21457
MA0156.11.35382
MA0157.11.0083
MA0158.10
MA0159.11.1762
MA0160.11.69082
MA0161.10
MA0162.11.16288
MA0163.10.0996272
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.21.59291
MA0102.21.8929
MA0258.10.419871
MA0259.10.441366
MA0442.10
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