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MCL coexpression mm9:255: Difference between revisions

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{{MCL_coexpression_mm9
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_on_MCL_coexpression=GO:0006909;phagocytosis;0.0468125249051673;14461,70450!GO:0051005;negative regulation of lipoprotein lipase activity;0.0468125249051673;57875!GO:0002432;granuloma formation;0.0468125249051673;70450!GO:0004827;proline-tRNA ligase activity;0.0468125249051673;230577!GO:0006433;prolyl-tRNA aminoacylation;0.0468125249051673;230577!GO:0051004;regulation of lipoprotein lipase activity;0.0468125249051673;57875!GO:0002544;chronic inflammatory response;0.0468125249051673;70450!GO:0043320;natural killer cell 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|gostat_on_MCL_coexpression=GO:0006909;phagocytosis;0.0468125249051673;14461,70450!GO:0051005;negative regulation of lipoprotein lipase activity;0.0468125249051673;57875!GO:0002432;granuloma formation;0.0468125249051673;70450!GO:0004827;proline-tRNA ligase activity;0.0468125249051673;230577!GO:0006433;prolyl-tRNA aminoacylation;0.0468125249051673;230577!GO:0051004;regulation of lipoprotein lipase activity;0.0468125249051673;57875!GO:0002544;chronic inflammatory response;0.0468125249051673;70450!GO:0043320;natural killer cell degranulation;0.0468125249051673;70450!
|ontology_enrichment_celltype=CL:0000988!2.76e-15!32;CL:0002032!2.76e-15!32;CL:0000037!2.76e-15!32;CL:0000566!2.76e-15!32;CL:0000837!2.76e-15!32;CL:0002031!1.18e-10!25;CL:0000049!3.37e-10!19;CL:0000050!6.52e-10!9;CL:0002242!2.58e-09!16;CL:0002320!6.57e-09!46;CL:0000134!6.57e-09!46;CL:0000763!2.41e-07!16;CL:0000219!8.20e-07!54
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!1.36e-11!45;UBERON:0003061!1.36e-11!45;UBERON:0002193!1.75e-10!48;UBERON:0002405!1.75e-10!48;UBERON:0004177!2.22e-09!29;UBERON:0005057!2.22e-09!29;UBERON:0002384!6.57e-09!46;UBERON:0000077!4.36e-07!35
|tfbs_overrepresentation_for_novel_motifs=0.2005,0.345537,0.692708,0.531249,0.379978,0.562772,0.121436,0.744315,0.342458,0.208435,0.325626,0.368534,0.745597,0.402403,0.422447,0,0.251083,0.600021,0.928387,0.574452,0.321036,0.492568,0.401126,0.376135,0.18065,0.441914,0.251881,0.609434,0.267596,0.419507,0.274535,0.870912,0.354863,0.526942,1.40613,0.0885186,0.559024,0.36358,0.282212,0.221237,0.189193,0.993144,0.192043,0.223829,0.603162,0.235475,0.196567,0.0939238,0.074965,0.507079,0.671323,0.93522,0.389635,0.440493,0.45514,0.818582,0.288046,0.351141,0.577971,1.32042,0.31094,0.495729,0.377986,0.230901,0.138355,0.259509,0.573087,0.894999,0.307386,0.756737,0.354261,0.332034,1.17993,0.483599,0.545701,0.0947976,0.012801,0.553945,0.297944,0.596416,0.0847125,0.263556,0.1644,0.161297,0.387484,0.130296,0.106188,0.00818014,0.19978,1.05033,0.635424,0.391521,0.336244,0.394854,0.273282,0.0391609,0.0755433,0.338434,0.196734,0.0195875,0.332674,0.326093,1.0902,0.239164,0.238425,1.47634,0.769646,0.307199,0.337745,0.324305,0.428415,0.427455,0.94135,0.680399,0.64179,0.90877,0.597824,0.539405,0.252011,0.546056,0.488218,0.216549,0.44457,0.552537,0.691048,0.300729,0.12586,0.881336,0.571744,0.208592,0.411944,0.0679138,0.545694,0.851896,0.661372,0.0363506,0.459995,0.592592,0.616948,1.40994,1.01963,0.577263,0.462236,0.334426,0.233904,0.590458,0.19861,1.3709,0.464877,0.635114,0.15772,1.2046,1.12448,0.118879,0.430809,1.27368,0.160157,0.0968826,0.0535441,0.798202,0.625497,1.00477,0.301065,0.190434,0.654652,0.831519,0.555095,0.366357,0.108745
|tfbs_overrepresentation_jaspar=MA0003.1;0.449018,MA0004.1;0.532294,MA0006.1;1.80445,MA0007.1;0.859893,MA0009.1;0.34692,MA0014.1;0.222305,MA0017.1;0.256524,MA0019.1;0.611398,MA0024.1;0.841066,MA0025.1;0.541743,MA0027.1;1.90418,MA0028.1;1.88291,MA0029.1;0.803957,MA0030.1;0.301487,MA0031.1;0.275007,MA0038.1;0.143615,MA0040.1;0.3568,MA0041.1;0.0430851,MA0042.1;0.0389751,MA0043.1;0.425142,MA0046.1;0.375484,MA0048.1;0.334404,MA0050.1;0.297005,MA0051.1;0.148819,MA0052.1;1.69753,MA0055.1;0.232244,MA0056.1;0,MA0057.1;0.0431157,MA0058.1;0.612897,MA0059.1;0.649041,MA0060.1;2.90505,MA0061.1;0.756555,MA0063.1;0,MA0066.1;0.137327,MA0067.1;0.640638,MA0068.1;1.72339,MA0069.1;0.363473,MA0070.1;0.355772,MA0071.1;0.616103,MA0072.1;0.349077,MA0073.1;1.27534,MA0074.1;0.754792,MA0076.1;2.68573,MA0077.1;0.332127,MA0078.1;0.168681,MA0081.1;1.10582,MA0083.1;0.424485,MA0084.1;0.946331,MA0087.1;1.00988,MA0088.1;0.363302,MA0089.1;0,MA0090.1;0.209755,MA0091.1;0.0767329,MA0092.1;0.057664,MA0093.1;0.744145,MA0095.1;0,MA0098.1;0,MA0100.1;0.111578,MA0101.1;1.04684,MA0103.1;0.510552,MA0105.1;0.328357,MA0106.1;0.51588,MA0107.1;0.493686,MA0108.2;0.648082,MA0109.1;0,MA0111.1;0.489457,MA0113.1;0.156275,MA0114.1;0.487194,MA0115.1;0.427465,MA0116.1;0.213477,MA0117.1;1.03559,MA0119.1;0.16767,MA0122.1;0.417182,MA0124.1;0.59287,MA0125.1;0.527588,MA0130.1;0,MA0131.1;0.604171,MA0132.1;0,MA0133.1;0,MA0135.1;1.15424,MA0136.1;0.403115,MA0139.1;0.490261,MA0140.1;1.19521,MA0141.1;0.131084,MA0142.1;0.264434,MA0143.1;0.166176,MA0144.1;0.0524465,MA0145.1;0.577133,MA0146.1;0.553773,MA0147.1;1.5271,MA0148.1;0.268803,MA0149.1;0.0453,MA0062.2;2.86326,MA0035.2;0.738235,MA0039.2;0.292129,MA0138.2;0.20489,MA0002.2;0.170854,MA0137.2;0.0315069,MA0104.2;1.46339,MA0047.2;0.143172,MA0112.2;0.771125,MA0065.2;0.415311,MA0150.1;0.859534,MA0151.1;0,MA0152.1;0.866624,MA0153.1;0.469672,MA0154.1;1.17628,MA0155.1;0.688876,MA0156.1;0.845297,MA0157.1;0.677848,MA0158.1;0,MA0159.1;0.343356,MA0160.1;0.272498,MA0161.1;0,MA0162.1;0.868038,MA0163.1;2.09062,MA0164.1;0.403627,MA0080.2;0.795599,MA0018.2;0.417406,MA0099.2;0.581639,MA0079.2;2.26805,MA0102.2;0.996522,MA0258.1;0.684515,MA0259.1;3.32071,MA0442.1;0
}}

Latest revision as of 14:58, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:76688454..76688462,+p@chr10:76688454..76688462
+
Mm9::chr10:76688464..76688474,+p@chr10:76688464..76688474
+
Mm9::chr11:102177974..102177992,-p17@Ubtf
Mm9::chr11:102331415..102331424,-p9@Itga2b
Mm9::chr11:106362222..106362239,+p1@Snord104
Mm9::chr11:115938300..115938341,-p3@Unc13d
Mm9::chr11:6428785..6428810,-p2@ENSMUST00000147762
p2@uc007hyu.1
Mm9::chr17:24664870..24664880,-p4@Traf7
Mm9::chr17:33918132..33918225,-p2@Angptl4
Mm9::chr17:34258889..34258917,-p10@Brd2
Mm9::chr17:39985193..39985213,+p@chr17:39985193..39985213
+
Mm9::chr18:12321944..12321948,+p1@ENSMUST00000122799
Mm9::chr18:34671622..34671653,-p@chr18:34671622..34671653
-
Mm9::chr19:8797968..8798004,+p1@Snhg1
Mm9::chr2:10814902..10814910,+p@chr2:10814902..10814910
+
Mm9::chr2:152011439..152011450,-p1@ENSMUST00000117430
Mm9::chr2:156853485..156853494,-p13@9830001H06Rik
Mm9::chr3:121948220..121948250,-p@chr3:121948220..121948250
-
Mm9::chr3:153575905..153575924,-p1@Rabggtb
Mm9::chr4:106323692..106323725,+p1@Pars2
Mm9::chr4:131909538..131909556,-p1@ENSMUST00000151374
Mm9::chr4:43505923..43505937,-p1@Rmrp
Mm9::chr5:139853642..139853664,+p2@D830046C22Rik
Mm9::chr5:65875277..65875315,-p@chr5:65875277..65875315
-
Mm9::chr6:112996157..112996171,-p@chr6:112996157..112996171
-
Mm9::chr6:88148650..88148669,+p1@Gata2
Mm9::chr7:133646139..133646169,+p@chr7:133646139..133646169
+
Mm9::chr7:75334450..75334472,+p@chr7:75334450..75334472
+
Mm9::chr8:87188142..87188156,+p@chr8:87188142..87188156
+
Mm9::chr9:108007205..108007233,-p@chr9:108007205..108007233
-
Mm9::chr9:43033167..43033191,-p@chr9:43033167..43033191
-
Mm9::chrX:133654344..133654358,-p2@Esx1
Mm9::chrX:35682209..35682211,+p@chrX:35682209..35682211
+


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:0006909phagocytosis0.0468125249051673
GO:0051005negative regulation of lipoprotein lipase activity0.0468125249051673
GO:0002432granuloma formation0.0468125249051673
GO:0004827proline-tRNA ligase activity0.0468125249051673
GO:0006433prolyl-tRNA aminoacylation0.0468125249051673
GO:0051004regulation of lipoprotein lipase activity0.0468125249051673
GO:0002544chronic inflammatory response0.0468125249051673
GO:0043320natural killer cell degranulation0.0468125249051673



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
hematopoietic system1.36e-1145
blood island1.36e-1145
hemolymphoid system1.75e-1048
immune system1.75e-1048
hemopoietic organ2.22e-0929
immune organ2.22e-0929
connective tissue6.57e-0946
mixed endoderm/mesoderm-derived structure4.36e-0735


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)
MA0003.10.449018
MA0004.10.532294
MA0006.11.80445
MA0007.10.859893
MA0009.10.34692
MA0014.10.222305
MA0017.10.256524
MA0019.10.611398
MA0024.10.841066
MA0025.10.541743
MA0027.11.90418
MA0028.11.88291
MA0029.10.803957
MA0030.10.301487
MA0031.10.275007
MA0038.10.143615
MA0040.10.3568
MA0041.10.0430851
MA0042.10.0389751
MA0043.10.425142
MA0046.10.375484
MA0048.10.334404
MA0050.10.297005
MA0051.10.148819
MA0052.11.69753
MA0055.10.232244
MA0056.10
MA0057.10.0431157
MA0058.10.612897
MA0059.10.649041
MA0060.12.90505
MA0061.10.756555
MA0063.10
MA0066.10.137327
MA0067.10.640638
MA0068.11.72339
MA0069.10.363473
MA0070.10.355772
MA0071.10.616103
MA0072.10.349077
MA0073.11.27534
MA0074.10.754792
MA0076.12.68573
MA0077.10.332127
MA0078.10.168681
MA0081.11.10582
MA0083.10.424485
MA0084.10.946331
MA0087.11.00988
MA0088.10.363302
MA0089.10
MA0090.10.209755
MA0091.10.0767329
MA0092.10.057664
MA0093.10.744145
MA0095.10
MA0098.10
MA0100.10.111578
MA0101.11.04684
MA0103.10.510552
MA0105.10.328357
MA0106.10.51588
MA0107.10.493686
MA0108.20.648082
MA0109.10
MA0111.10.489457
MA0113.10.156275
MA0114.10.487194
MA0115.10.427465
MA0116.10.213477
MA0117.11.03559
MA0119.10.16767
MA0122.10.417182
MA0124.10.59287
MA0125.10.527588
MA0130.10
MA0131.10.604171
MA0132.10
MA0133.10
MA0135.11.15424
MA0136.10.403115
MA0139.10.490261
MA0140.11.19521
MA0141.10.131084
MA0142.10.264434
MA0143.10.166176
MA0144.10.0524465
MA0145.10.577133
MA0146.10.553773
MA0147.11.5271
MA0148.10.268803
MA0149.10.0453
MA0062.22.86326
MA0035.20.738235
MA0039.20.292129
MA0138.20.20489
MA0002.20.170854
MA0137.20.0315069
MA0104.21.46339
MA0047.20.143172
MA0112.20.771125
MA0065.20.415311
MA0150.10.859534
MA0151.10
MA0152.10.866624
MA0153.10.469672
MA0154.11.17628
MA0155.10.688876
MA0156.10.845297
MA0157.10.677848
MA0158.10
MA0159.10.343356
MA0160.10.272498
MA0161.10
MA0162.10.868038
MA0163.12.09062
MA0164.10.403627
MA0080.20.795599
MA0018.20.417406
MA0099.20.581639
MA0079.22.26805
MA0102.20.996522
MA0258.10.684515
MA0259.13.32071
MA0442.10
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