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MCL coexpression mm9:456: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004111!2.69e-16!122;UBERON:0000025!3.99e-15!114;UBERON:0000073!2.32e-13!54;UBERON:0001049!2.10e-12!52;UBERON:0005068!2.10e-12!52;UBERON:0006241!2.10e-12!52;UBERON:0007135!2.10e-12!52;UBERON:0002346!4.72e-12!64;UBERON:0003075!4.72e-12!64;UBERON:0007284!4.72e-12!64;UBERON:0010314!5.27e-12!92;UBERON:0001017!5.35e-12!73;UBERON:0001016!3.85e-11!75;UBERON:0010371!5.15e-11!73;UBERON:0002020!7.29e-11!34;UBERON:0004121!7.99e-11!95;UBERON:0000924!7.99e-11!95;UBERON:0006601!7.99e-11!95;UBERON:0000955!2.39e-10!47;UBERON:0006238!2.39e-10!47;UBERON:0002616!6.55e-10!46;UBERON:0003056!4.67e-09!49;UBERON:0003080!6.47e-09!40;UBERON:0003528!6.95e-09!29;UBERON:0002791!6.95e-09!29;UBERON:0001893!6.95e-09!29;UBERON:0002780!1.96e-08!39;UBERON:0001890!1.96e-08!39;UBERON:0006240!1.96e-08!39;UBERON:0002021!4.01e-08!10;UBERON:0000411!4.01e-08!10;UBERON:0001950!4.01e-08!10;UBERON:0000468!7.65e-08!333
|tfbs_overrepresentation_for_novel_motifs=1.05939,0.732102,0.510781,0.630846,0.325044,0.656813,0.823081,0.186307,0.439801,1.68218,0.742008,0.295134,1.1257,0.315149,0.108498,0,0.482714,0.645746,0.167127,0.359873,0.146132,0.945392,0.844218,0.322638,0.523846,0.338177,0.644752,0.694761,0.793289,0.490013,0.237846,0.574932,0.639629,0.314034,0.108791,0.178588,1.03008,0.794075,0.262298,0.830613,0.0962801,0.678575,0.214696,0.109711,1.85748,2.5351,0.41191,0.723497,0.166243,0.801551,0.467043,0.360991,0.466115,0.7073,0.723811,0.85924,0.417292,0.777175,0.338309,0.855431,0.556492,0.965809,0.469805,0.456979,0.880059,0.493315,0.854035,1.19441,0.552202,1.05011,0.929954,0.19416,0.997111,0.755651,0.924066,0.297446,0.313869,0.401969,0.540754,0.148967,0.0528615,0.498379,0.36783,0.177942,0.646739,1.83528,0.521323,0.490514,0.416206,1.35441,0.92132,0.6514,0.586758,0.102076,1.39003,0.231057,0.722691,0.589355,0.412133,0.0860851,0.0875773,0.574674,1.65098,0.467576,0.466632,2.7321,1.29324,0.716149,0.904788,2.04555,0.185018,0.692526,0.457145,0.273484,0.928143,0.0952498,1.82668,0.637592,0.483885,0.0854853,0.760792,0.438354,0.339713,0.40118,0.980682,1.34331,0.311744,0.580495,0.852575,0.10384,0.67485,0.215942,0.824167,0.332514,0.949083,0.11332,0.196278,0.24296,0.901468,1.71991,1.32292,0.85857,0.349901,0.584599,1.16552,0.242215,0.414644,1.68046,0.198013,0.327798,1.16323,2.82184,0.708784,0.514688,0.331737,0.786435,0.361851,0.115836,0.188342,0.570508,0.910663,0.645939,0.544546,1.03245,0.457889,0.325532,0.0869123,0.293837,3.0045
|tfbs_overrepresentation_jaspar=MA0003.1;4.22223,MA0004.1;0.221835,MA0006.1;1.15737,MA0007.1;0.210531,MA0009.1;0.599391,MA0014.1;1.53197,MA0017.1;0.774877,MA0019.1;0.434009,MA0024.1;0.558971,MA0025.1;1.9176,MA0027.1;2.21717,MA0028.1;0.729948,MA0029.1;0.53905,MA0030.1;0.545058,MA0031.1;0.512616,MA0038.1;0.33811,MA0040.1;0.611015,MA0041.1;0.166538,MA0042.1;0.15744,MA0043.1;0.689898,MA0046.1;0.632833,MA0048.1;0.687863,MA0050.1;0.251816,MA0051.1;0.345658,MA0052.1;0.618515,MA0055.1;0.323347,MA0056.1;0,MA0057.1;1.30238,MA0058.1;0.152805,MA0059.1;0.161227,MA0060.1;0.838431,MA0061.1;0.267107,MA0063.1;0,MA0066.1;0.328887,MA0067.1;0.92691,MA0068.1;1.33583,MA0069.1;0.618831,MA0070.1;0.609808,MA0071.1;0.251158,MA0072.1;0.601934,MA0073.1;7.1869,MA0074.1;0.299171,MA0076.1;0.828482,MA0077.1;0.581866,MA0078.1;0.37382,MA0081.1;0.177433,MA0083.1;0.68915,MA0084.1;1.24749,MA0087.1;0.648637,MA0088.1;0.67791,MA0089.1;0,MA0090.1;1.08371,MA0091.1;0.231874,MA0092.1;0.196497,MA0093.1;0.11723,MA0095.1;0,MA0098.1;0,MA0100.1;0.289731,MA0101.1;0.167439,MA0103.1;0.404646,MA0105.1;0.128193,MA0106.1;0.380511,MA0107.1;0.125067,MA0108.2;0.454274,MA0109.1;0,MA0111.1;0.595954,MA0113.1;0.356344,MA0114.1;0.947046,MA0115.1;1.65449,MA0116.1;0.700593,MA0117.1;1.59128,MA0119.1;0.502046,MA0122.1;0.680832,MA0124.1;0.875485,MA0125.1;0.804312,MA0130.1;0,MA0131.1;0.43,MA0132.1;0,MA0133.1;0,MA0135.1;0.724328,MA0136.1;0.315568,MA0139.1;0.717229,MA0140.1;0.289637,MA0141.1;0.437281,MA0142.1;0.499475,MA0143.1;0.37032,MA0144.1;0.566612,MA0145.1;0.732278,MA0146.1;2.51051,MA0147.1;1.00795,MA0148.1;0.660829,MA0149.1;0.510517,MA0062.2;0.908306,MA0035.2;0.293466,MA0039.2;1.92748,MA0138.2;0.423003,MA0002.2;0.413675,MA0137.2;0.432446,MA0104.2;1.19482,MA0047.2;0.337465,MA0112.2;0.47728,MA0065.2;0.7347,MA0150.1;1.13926,MA0151.1;0,MA0152.1;0.337555,MA0153.1;0.740107,MA0154.1;0.676749,MA0155.1;1.53888,MA0156.1;0.133796,MA0157.1;1.18655,MA0158.1;0,MA0159.1;0.301936,MA0160.1;0.23657,MA0161.1;0,MA0162.1;2.00106,MA0163.1;1.53957,MA0164.1;0.847515,MA0080.2;0.125629,MA0018.2;0.323932,MA0099.2;0.417463,MA0079.2;6.02976,MA0102.2;1.29919,MA0258.1;0.893749,MA0259.1;0.965484,MA0442.1;0
}}

Latest revision as of 15:20, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:7383351..7383363,-p5@Pcmt1
Mm9::chr10:7383367..7383411,-p2@Pcmt1
Mm9::chr10:82226613..82226641,-p4@Nfyb
Mm9::chr10:89149110..89149166,+p1@ENSMUST00000123742
p1@uc007gsq.1
p1@uc007gsr.1
Mm9::chr11:74739160..74739218,-p1@Srr
Mm9::chr13:36826273..36826284,-p4@Nrn1
Mm9::chr14:18493386..18493464,+p1@Thrb
Mm9::chr14:19726769..19726796,-p5@Ube2e2
Mm9::chr17:57199218..57199280,-p1@Slc25a23
Mm9::chr18:13020850..13020935,-p1@Osbpl1a
Mm9::chr18:9449945..9450041,-p1@Ccny
Mm9::chr6:128493397..128493454,-p3@BC048546
Mm9::chr6:133055258..133055337,+p1@2700089E24Rik
p1@LOC100504757
Mm9::chr7:146101175..146101196,-p1@Bnip3
Mm9::chr7:148623486..148623549,-p1@Slc25a22
Mm9::chr9:79641097..79641179,-p1@Tmem30a


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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
anatomical conduit2.69e-16122
tube3.99e-15114
regional part of nervous system2.32e-1354
neural tube2.10e-1252
neural rod2.10e-1252
future spinal cord2.10e-1252
neural keel2.10e-1252
neurectoderm4.72e-1264
neural plate4.72e-1264
presumptive neural plate4.72e-1264
structure with developmental contribution from neural crest5.27e-1292
central nervous system5.35e-1273
nervous system3.85e-1175
ecto-epithelium5.15e-1173
gray matter7.29e-1134
ectoderm-derived structure7.99e-1195
ectoderm7.99e-1195
presumptive ectoderm7.99e-1195
brain2.39e-1047
future brain2.39e-1047
regional part of brain6.55e-1046
pre-chordal neural plate4.67e-0949
anterior neural tube6.47e-0940
brain grey matter6.95e-0929
regional part of telencephalon6.95e-0929
telencephalon6.95e-0929
regional part of forebrain1.96e-0839
forebrain1.96e-0839
future forebrain1.96e-0839
occipital lobe4.01e-0810
visual cortex4.01e-0810
neocortex4.01e-0810
multi-cellular organism7.65e-08333


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)
MA0003.14.22223
MA0004.10.221835
MA0006.11.15737
MA0007.10.210531
MA0009.10.599391
MA0014.11.53197
MA0017.10.774877
MA0019.10.434009
MA0024.10.558971
MA0025.11.9176
MA0027.12.21717
MA0028.10.729948
MA0029.10.53905
MA0030.10.545058
MA0031.10.512616
MA0038.10.33811
MA0040.10.611015
MA0041.10.166538
MA0042.10.15744
MA0043.10.689898
MA0046.10.632833
MA0048.10.687863
MA0050.10.251816
MA0051.10.345658
MA0052.10.618515
MA0055.10.323347
MA0056.10
MA0057.11.30238
MA0058.10.152805
MA0059.10.161227
MA0060.10.838431
MA0061.10.267107
MA0063.10
MA0066.10.328887
MA0067.10.92691
MA0068.11.33583
MA0069.10.618831
MA0070.10.609808
MA0071.10.251158
MA0072.10.601934
MA0073.17.1869
MA0074.10.299171
MA0076.10.828482
MA0077.10.581866
MA0078.10.37382
MA0081.10.177433
MA0083.10.68915
MA0084.11.24749
MA0087.10.648637
MA0088.10.67791
MA0089.10
MA0090.11.08371
MA0091.10.231874
MA0092.10.196497
MA0093.10.11723
MA0095.10
MA0098.10
MA0100.10.289731
MA0101.10.167439
MA0103.10.404646
MA0105.10.128193
MA0106.10.380511
MA0107.10.125067
MA0108.20.454274
MA0109.10
MA0111.10.595954
MA0113.10.356344
MA0114.10.947046
MA0115.11.65449
MA0116.10.700593
MA0117.11.59128
MA0119.10.502046
MA0122.10.680832
MA0124.10.875485
MA0125.10.804312
MA0130.10
MA0131.10.43
MA0132.10
MA0133.10
MA0135.10.724328
MA0136.10.315568
MA0139.10.717229
MA0140.10.289637
MA0141.10.437281
MA0142.10.499475
MA0143.10.37032
MA0144.10.566612
MA0145.10.732278
MA0146.12.51051
MA0147.11.00795
MA0148.10.660829
MA0149.10.510517
MA0062.20.908306
MA0035.20.293466
MA0039.21.92748
MA0138.20.423003
MA0002.20.413675
MA0137.20.432446
MA0104.21.19482
MA0047.20.337465
MA0112.20.47728
MA0065.20.7347
MA0150.11.13926
MA0151.10
MA0152.10.337555
MA0153.10.740107
MA0154.10.676749
MA0155.11.53888
MA0156.10.133796
MA0157.11.18655
MA0158.10
MA0159.10.301936
MA0160.10.23657
MA0161.10
MA0162.12.00106
MA0163.11.53957
MA0164.10.847515
MA0080.20.125629
MA0018.20.323932
MA0099.20.417463
MA0079.26.02976
MA0102.21.29919
MA0258.10.893749
MA0259.10.965484
MA0442.10
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