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MCL coexpression mm9:250: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004177!2.11e-21!29;UBERON:0005057!2.11e-21!29;UBERON:0002390!5.22e-18!45;UBERON:0003061!5.22e-18!45;UBERON:0002193!1.90e-17!48;UBERON:0002405!1.90e-17!48;UBERON:0002370!8.13e-17!23;UBERON:0000974!8.13e-17!23;UBERON:0004807!8.13e-17!23;UBERON:0005058!8.13e-17!23;UBERON:0003351!8.13e-17!23;UBERON:0009113!8.13e-17!23;UBERON:0003295!8.13e-17!23;UBERON:0009722!8.13e-17!23;UBERON:0005562!8.13e-17!23;UBERON:0007690!8.13e-17!23;UBERON:0000065!1.69e-16!41;UBERON:0000077!2.30e-16!35;UBERON:0001004!6.70e-16!42;UBERON:0006562!7.38e-16!24;UBERON:0003408!7.38e-16!24;UBERON:0001557!7.38e-16!24;UBERON:0001042!7.38e-16!24;UBERON:0008814!7.38e-16!24;UBERON:0009145!7.38e-16!24;UBERON:0001041!9.99e-16!80;UBERON:0000072!2.01e-13!27;UBERON:0005911!4.73e-11!69;UBERON:0003081!1.13e-09!87;UBERON:0007811!1.20e-09!36;UBERON:0000063!4.88e-09!35;UBERON:0004921!2.79e-08!114;UBERON:0001048!4.01e-08!134;UBERON:0000475!5.08e-08!150;UBERON:0001007!6.01e-08!116;UBERON:0001555!6.01e-08!116;UBERON:0007026!6.01e-08!116;UBERON:0000153!6.03e-08!43;UBERON:0002368!6.25e-08!60;UBERON:0003929!9.94e-08!55;UBERON:0004119!1.25e-07!118;UBERON:0000925!1.25e-07!118;UBERON:0006595!1.25e-07!118;UBERON:0002530!8.85e-07!65
|tfbs_overrepresentation_for_novel_motifs=0.0508136,0.0255683,0.0421294,0.873043,0.357717,0.919414,0.115611,0.070465,0.174976,0.0139704,0.0936327,0.353689,0.293024,0.122119,0.206481,0,0.242789,0.568212,0.0580583,0.0329285,1.71603,0.125136,0.121635,0.590696,0.0445484,0.137293,0.0157205,0.081699,0.0239304,0.0668555,0.0755327,0.317094,0.333399,0.0385618,0.0180326,0.872324,0.01186,0.107538,1.00068,0.0322356,0.176217,0.0777669,0.386306,0.663569,0.0349782,0.0622442,0.189134,0.0888774,0.396409,0.0246048,0.230631,0.152832,0.359253,0.430267,0.44481,0.125986,0.808842,0.102941,0.108538,0.124877,0.301892,0.158445,0.196652,0.222903,0.132112,0.251098,0.562061,0.88291,0.298379,0.744997,0.0364155,1.33476,0.000108948,0.473077,0.00182819,0.00142933,0.490711,0.181883,1.434,0.568547,0.170798,0.25509,0.476703,0.448811,0.37768,2.25117e-06,0.4336,0.0670085,0.192291,1.03797,0.624114,0.381683,0.326924,1.28047,0.0435786,1.55466,0.285674,0.329091,0.189298,0.301946,0.528577,0.31688,0.415858,0.231041,0.230314,0.0775753,0.272737,0.087018,0.0339046,0.0319054,0.0483808,0.417326,0.313137,0.096109,0.630454,0.065984,0.000108232,0.0681828,0.243704,0.515697,0.477668,0.208777,0.138324,0.18131,1.62743,0.291798,0.38126,0.32171,0.560724,1.29861,0.401936,0.227963,1.32353,0.416208,0.649958,0.0657492,0.767339,0.26965,0.605717,1.39723,1.00731,0.566216,0.875066,0.86826,0.22586,0.268482,0.191141,1.35822,0.443919,0.015237,0.0010403,5.22166e-05,0.431571,0.00717276,0.132996,0.500669,0.153427,0.089777,0.73401,0.0536966,0.61423,0.376993,0.29213,0.0476152,0.223599,0.804679,0.0569897,0.351552,9.79373e-05
}}

Latest revision as of 14:58, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:34306974..34306986,-p@chr11:34306974..34306986
-
Mm9::chr13:41520735..41520748,-p@chr13:41520735..41520748
-
Mm9::chr15:6569678..6569708,+p3@Fyb
Mm9::chr15:80428150..80428195,+p@chr15:80428150..80428195
+
Mm9::chr16:92789592..92789597,-p@chr16:92789592..92789597
-
Mm9::chr17:47646397..47646406,+p@chr17:47646397..47646406
+
Mm9::chr18:50255367..50255372,+p@chr18:50255367..50255372
+
Mm9::chr19:25151025..25151028,+p@chr19:25151025..25151028
+
Mm9::chr19:34388190..34388198,+p@chr19:34388190..34388198
+
Mm9::chr19:53534738..53534752,-p@chr19:53534738..53534752
-
Mm9::chr1:137040905..137040930,+p@chr1:137040905..137040930
+
Mm9::chr1:139987046..139987054,-p@chr1:139987046..139987054
-
Mm9::chr1:173338033..173338042,+p@chr1:173338033..173338042
+
Mm9::chr1:173338148..173338165,+p@chr1:173338148..173338165
+
Mm9::chr1:173338341..173338353,+p@chr1:173338341..173338353
+
Mm9::chr1:173785032..173785040,+p@chr1:173785032..173785040
+
Mm9::chr1:173785160..173785168,+p@chr1:173785160..173785168
+
Mm9::chr1:173786265..173786302,+p@chr1:173786265..173786302
+
Mm9::chr1:54971085..54971093,-p@chr1:54971085..54971093
-
Mm9::chr1:80712280..80712284,-p@chr1:80712280..80712284
-
Mm9::chr1:89549888..89549901,+p@chr1:89549888..89549901
+
Mm9::chr2:120194528..120194531,-p@chr2:120194528..120194531
-
Mm9::chr2:18892103..18892115,-p@chr2:18892103..18892115
-
Mm9::chr2:22660147..22660159,+p@chr2:22660147..22660159
+
Mm9::chr3:9778793..9778804,-p@chr3:9778793..9778804
-
Mm9::chr4:102807447..102807455,+p@chr4:102807447..102807455
+
Mm9::chr4:116232752..116232757,+p@chr4:116232752..116232757
+
Mm9::chr5:89210986..89210998,+p@chr5:89210986..89210998
+
Mm9::chr6:124677131..124677142,-p@chr6:124677131..124677142
-
Mm9::chr6:146064611..146064614,-p@chr6:146064611..146064614
-
Mm9::chr6:146203069..146203074,-p@chr6:146203069..146203074
-
Mm9::chr6:146238584..146238587,-p@chr6:146238584..146238587
-
Mm9::chr6:99117753..99117757,-p@chr6:99117753..99117757
-
Mm9::chr7:149652693..149652739,+p@chr7:149652693..149652739
+


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
hemopoietic organ2.11e-2129
immune organ2.11e-2129
hematopoietic system5.22e-1845
blood island5.22e-1845
hemolymphoid system1.90e-1748
immune system1.90e-1748
thymus8.13e-1723
neck8.13e-1723
respiratory system epithelium8.13e-1723
hemolymphoid system gland8.13e-1723
pharyngeal epithelium8.13e-1723
thymic region8.13e-1723
pharyngeal gland8.13e-1723
entire pharyngeal arch endoderm8.13e-1723
thymus primordium8.13e-1723
early pharyngeal endoderm8.13e-1723
respiratory tract1.69e-1641
mixed endoderm/mesoderm-derived structure2.30e-1635
respiratory system6.70e-1642
pharynx7.38e-1624
gland of gut7.38e-1624
upper respiratory tract7.38e-1624
chordate pharynx7.38e-1624
pharyngeal arch system7.38e-1624
pharyngeal region of foregut7.38e-1624
foregut9.99e-1680
segment of respiratory tract2.01e-1327
endo-epithelium4.73e-1169
lateral plate mesoderm1.13e-0987
craniocervical region1.20e-0936
organ segment4.88e-0935
subdivision of digestive tract2.79e-08114
primordium4.01e-08134
organism subdivision5.08e-08150
digestive system6.01e-08116
digestive tract6.01e-08116
primitive gut6.01e-08116
anterior region of body6.03e-0843
endocrine gland6.25e-0860
gut epithelium9.94e-0855
endoderm-derived structure1.25e-07118
endoderm1.25e-07118
presumptive endoderm1.25e-07118
gland8.85e-0765


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)
MA0003.11.83015e-10
MA0004.10.236932
MA0006.10.0171128
MA0007.10.060952
MA0009.10.337492
MA0014.12.0075e-06
MA0017.10.738394
MA0019.10.205515
MA0024.10.303927
MA0025.10.530879
MA0027.11.89129
MA0028.10.0191049
MA0029.10.287662
MA0030.10.794903
MA0031.10.266391
MA0038.10.137249
MA0040.10.917619
MA0041.14.31658
MA0042.12.34196
MA0043.10.415031
MA0046.10.365786
MA0048.10.0173334
MA0050.10.283608
MA0051.10.438574
MA0052.10.353618
MA0055.10.00398544
MA0056.10
MA0057.10.0836355
MA0058.10.0341303
MA0059.10.0376694
MA0060.10.00607994
MA0061.10.0473172
MA0063.10
MA0066.10.41007
MA0067.10.629308
MA0068.10.0146185
MA0069.10.353886
MA0070.10.915359
MA0071.10.282567
MA0072.10.339628
MA0073.10.00121058
MA0074.10.360358
MA0076.10.026875
MA0077.10.32285
MA0078.10.161775
MA0081.10.387588
MA0083.10.414379
MA0084.10.934141
MA0087.10.379309
MA0088.10.0349852
MA0089.10
MA0090.10.0537918
MA0091.10.252373
MA0092.10.768262
MA0093.10.0914627
MA0095.10
MA0098.10
MA0100.10.106017
MA0101.10.360528
MA0103.10.258738
MA0105.10.0102159
MA0106.10.166496
MA0107.10.468235
MA0108.20.629361
MA0109.10
MA0111.10.0590106
MA0113.10.45689
MA0114.10.265271
MA0115.11.07144
MA0116.10.0778306
MA0117.10.390961
MA0119.10.0405474
MA0122.10.407133
MA0124.11.42276
MA0125.10.516802
MA0130.10
MA0131.10.202517
MA0132.10
MA0133.10
MA0135.10.445266
MA0136.10.387656
MA0139.10.00361073
MA0140.10.344645
MA0141.10.538535
MA0142.10.711227
MA0143.10.481013
MA0144.10.132243
MA0145.10.00121596
MA0146.16.06753e-06
MA0147.10.0110656
MA0148.10.256057
MA0149.10.0420811
MA0062.20.0017104
MA0035.20.712602
MA0039.26.6511e-06
MA0138.20.197313
MA0002.20.469896
MA0137.20.120024
MA0104.20.00485556
MA0047.20.136816
MA0112.20.0177147
MA0065.20.157836
MA0150.10.0609087
MA0151.10
MA0152.10.839367
MA0153.10.459241
MA0154.10.448933
MA0155.10.0085214
MA0156.10.504842
MA0157.10.658826
MA0158.10
MA0159.10.32227
MA0160.10.0748272
MA0161.10
MA0162.10.00482265
MA0163.16.45e-05
MA0164.10.388159
MA0080.20.759291
MA0018.20.127843
MA0099.20.563653
MA0079.27.28709e-11
MA0102.20.984244
MA0258.10.1126
MA0259.10.00963667
MA0442.10
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