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MCL coexpression mm9:2107: Difference between revisions

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{{MCL_coexpression_mm9
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ribonuclease activity;0.0249339931844607;58809!GO:0016892;endoribonuclease activity, producing 3'-phosphomonoesters;0.0249339931844607;58809!GO:0016894;endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 3'-phosphomonoesters;0.0249339931844607;58809!GO:0006958;complement activation, classical pathway;0.0249339931844607;12258!GO:0002455;humoral immune response mediated by circulating immunoglobulin;0.0249339931844607;12258!GO:0004521;endoribonuclease activity;0.0249339931844607;58809!GO:0002541;activation of plasma proteins during acute inflammatory response;0.0249339931844607;12258!GO:0006956;complement activation;0.0249339931844607;12258!GO:0007596;blood coagulation;0.0249339931844607;12258!GO:0007599;hemostasis;0.0249339931844607;12258!GO:0050817;coagulation;0.0249339931844607;12258!GO:0004540;ribonuclease activity;0.0249339931844607;58809!GO:0050878;regulation of body fluid levels;0.0249339931844607;12258!GO:0016064;immunoglobulin mediated immune response;0.0249339931844607;12258!GO:0019724;B cell mediated immunity;0.0249339931844607;12258!GO:0002526;acute inflammatory response;0.0249339931844607;12258!GO:0002253;activation of immune response;0.0249339931844607;12258!GO:0042060;wound healing;0.0249339931844607;12258!GO:0004519;endonuclease activity;0.0249339931844607;58809!GO:0045087;innate immune response;0.0249339931844607;12258!GO:0002460;adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains;0.0249339931844607;12258!GO:0002250;adaptive immune response;0.0249339931844607;12258!GO:0002449;lymphocyte mediated immunity;0.0249339931844607;12258!GO:0050778;positive regulation of immune response;0.0249339931844607;12258!GO:0002684;positive regulation of immune system process;0.0249339931844607;12258!GO:0002443;leukocyte mediated immunity;0.0249339931844607;12258!GO:0004867;serine-type endopeptidase inhibitor activity;0.0249339931844607;12258!GO:0050776;regulation of immune response;0.0259639934272105;12258!GO:0002682;regulation of immune system process;0.0259639934272105;12258!GO:0051240;positive regulation of multicellular organismal process;0.0259841140737432;12258!GO:0004518;nuclease activity;0.027443623303524;58809!GO:0002252;immune effector process;0.027443623303524;12258!GO:0006959;humoral immune response;0.027443623303524;12258!GO:0004866;endopeptidase inhibitor activity;0.0277703825651687;12258!GO:0030414;protease inhibitor activity;0.0277703825651687;12258!GO:0004857;enzyme inhibitor activity;0.0373609115185842;12258!GO:0006954;inflammatory response;0.0373609115185842;12258!GO:0051239;regulation of multicellular organismal process;0.0485264690248685;12258!GO:0009611;response to 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|gostat_on_MCL_coexpression=GO:0004522;pancreatic ribonuclease activity;0.0249339931844607;58809!GO:0016892;endoribonuclease activity, producing 3'-phosphomonoesters;0.0249339931844607;58809!GO:0016894;endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 3'-phosphomonoesters;0.0249339931844607;58809!GO:0006958;complement activation, classical pathway;0.0249339931844607;12258!GO:0002455;humoral immune response mediated by circulating immunoglobulin;0.0249339931844607;12258!GO:0004521;endoribonuclease activity;0.0249339931844607;58809!GO:0002541;activation of plasma proteins during acute inflammatory response;0.0249339931844607;12258!GO:0006956;complement activation;0.0249339931844607;12258!GO:0007596;blood coagulation;0.0249339931844607;12258!GO:0007599;hemostasis;0.0249339931844607;12258!GO:0050817;coagulation;0.0249339931844607;12258!GO:0004540;ribonuclease activity;0.0249339931844607;58809!GO:0050878;regulation of body fluid levels;0.0249339931844607;12258!GO:0016064;immunoglobulin mediated immune response;0.0249339931844607;12258!GO:0019724;B cell mediated immunity;0.0249339931844607;12258!GO:0002526;acute inflammatory response;0.0249339931844607;12258!GO:0002253;activation of immune response;0.0249339931844607;12258!GO:0042060;wound healing;0.0249339931844607;12258!GO:0004519;endonuclease activity;0.0249339931844607;58809!GO:0045087;innate immune response;0.0249339931844607;12258!GO:0002460;adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains;0.0249339931844607;12258!GO:0002250;adaptive immune response;0.0249339931844607;12258!GO:0002449;lymphocyte mediated immunity;0.0249339931844607;12258!GO:0050778;positive regulation of immune response;0.0249339931844607;12258!GO:0002684;positive regulation of immune system process;0.0249339931844607;12258!GO:0002443;leukocyte mediated immunity;0.0249339931844607;12258!GO:0004867;serine-type endopeptidase inhibitor activity;0.0249339931844607;12258!GO:0050776;regulation of immune response;0.0259639934272105;12258!GO:0002682;regulation of immune system process;0.0259639934272105;12258!GO:0051240;positive regulation of multicellular organismal process;0.0259841140737432;12258!GO:0004518;nuclease activity;0.027443623303524;58809!GO:0002252;immune effector process;0.027443623303524;12258!GO:0006959;humoral immune response;0.027443623303524;12258!GO:0004866;endopeptidase inhibitor activity;0.0277703825651687;12258!GO:0030414;protease inhibitor activity;0.0277703825651687;12258!GO:0004857;enzyme inhibitor activity;0.0373609115185842;12258!GO:0006954;inflammatory response;0.0373609115185842;12258!GO:0051239;regulation of multicellular organismal process;0.0485264690248685;12258!GO:0009611;response to wounding;0.0489694780402281;12258!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002100!1.81e-12!90;UBERON:0005177!3.40e-11!79;UBERON:0000466!2.65e-10!79;UBERON:0000468!1.48e-09!333;UBERON:0009569!1.29e-08!66;UBERON:0003104!6.68e-08!61;UBERON:0009142!6.68e-08!61;UBERON:0005256!1.04e-07!45;UBERON:0000464!1.18e-07!57;UBERON:0003914!2.53e-07!47;UBERON:0000479!2.65e-07!349;UBERON:0000475!2.68e-07!150
|tfbs_overrepresentation_for_novel_motifs=0.641384,3.27106,0.612053,0.688265,0.483253,0.704257,0.803568,0.370124,0.381467,1.51468,0.755749,0.790506,0.37041,0.81685,0.502646,0,1.02248,0.473993,0.928768,0.683591,0.570433,0.57409,0.815872,0.481455,0.620553,0.846564,0.906602,0.727368,0.535752,0.290745,0.711848,1.12823,0.471365,1.54138,0.503207,2.11901,0.460474,0.786577,0.434783,1.82692,0.478558,0.717547,0.185353,0.504971,1.63233,0.675898,0.938241,0.744678,0.949442,0.539131,1.0041,0.875451,1.40995,1.2746,1.29252,0.82458,0.549352,0.776619,0.331485,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,1.44172,0.377213,0.593145,1.32691,0.323563,0.310084,0.318792,0.926147,1.08947,0.575233,0.37865,1.04072,0.884013,0.951203,1.20828,0.11855,0.129654,0.791209,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,1.09896,0.409166,0.367176,1.14445,0.938512,0.731844,0.460566,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,0.57247,0.633483,1.25851,1.41174,0.7614,1.51002,0.476467,0.143825,0.692434,1.02384,0.456123,1.33244,0.970073,0.848526,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,0.839311,1.53196,0.195549,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.293812,0.184289,1.27621,0.416214,0.838313,1.35996,0.87653,0.516549,0.63863,2.65007,1.49167,2.70665,1.09379,0.630949,0.993294,0.830321,0.459159,0.788782,2.65001
|tfbs_overrepresentation_jaspar=MA0003.1;0.331308,MA0004.1;0.6888,MA0006.1;0.497533,MA0007.1;0.672186,MA0009.1;1.15569,MA0014.1;0.581929,MA0017.1;1.30949,MA0019.1;0.964875,MA0024.1;1.11019,MA0025.1;1.39562,MA0027.1;2.81824,MA0028.1;0.509589,MA0029.1;1.08753,MA0030.1;1.09438,MA0031.1;1.05719,MA0038.1;0.846479,MA0040.1;1.16866,MA0041.1;0.604221,MA0042.1;0.589368,MA0043.1;1.25564,MA0046.1;1.1929,MA0048.1;0.735223,MA0050.1;0.731539,MA0051.1;3.29861,MA0052.1;1.17701,MA0055.1;4.83503,MA0056.1;0,MA0057.1;0.251896,MA0058.1;0.581673,MA0059.1;0.59559,MA0060.1;0.403071,MA0061.1;0.438628,MA0063.1;0,MA0066.1;0.834648,MA0067.1;1.50873,MA0068.1;0.713436,MA0069.1;1.17737,MA0070.1;1.16732,MA0071.1;0.73062,MA0072.1;1.15853,MA0073.1;0.363073,MA0074.1;3.11034,MA0076.1;0.550092,MA0077.1;1.13603,MA0078.1;0.891476,MA0081.1;0.621611,MA0083.1;1.25482,MA0084.1;1.84013,MA0087.1;1.21037,MA0088.1;0.201215,MA0089.1;0,MA0090.1;0.650768,MA0091.1;2.81846,MA0092.1;0.651119,MA0093.1;0.519148,MA0095.1;0,MA0098.1;0,MA0100.1;0.783305,MA0101.1;0.605676,MA0103.1;0.540576,MA0105.1;0.313353,MA0106.1;3.43447,MA0107.1;0.533522,MA0108.2;0.989014,MA0109.1;0,MA0111.1;0.666525,MA0113.1;0.869608,MA0114.1;0.43587,MA0115.1;1.25852,MA0116.1;0.497293,MA0117.1;1.22527,MA0119.1;0.606338,MA0122.1;1.24573,MA0124.1;1.45461,MA0125.1;1.37907,MA0130.1;0,MA0131.1;0.960068,MA0132.1;0,MA0133.1;0,MA0135.1;1.29308,MA0136.1;0.817395,MA0139.1;0.365453,MA0140.1;0.78318,MA0141.1;0.563066,MA0142.1;1.04199,MA0143.1;2.05562,MA0144.1;2.91634,MA0145.1;1.79187,MA0146.1;2.17792,MA0147.1;0.453952,MA0148.1;0.706718,MA0149.1;0.611881,MA0062.2;0.319836,MA0035.2;0.788288,MA0039.2;1.47117,MA0138.2;0.951653,MA0002.2;0.368961,MA0137.2;2.35722,MA0104.2;0.386166,MA0047.2;0.845655,MA0112.2;1.14524,MA0065.2;0.212467,MA0150.1;0.67206,MA0151.1;0,MA0152.1;0.84577,MA0153.1;1.31015,MA0154.1;0.263609,MA0155.1;1.21457,MA0156.1;0.549102,MA0157.1;1.0083,MA0158.1;0,MA0159.1;0.465802,MA0160.1;0.71003,MA0161.1;0,MA0162.1;0.346529,MA0163.1;1.11502,MA0164.1;0.817786,MA0080.2;0.534538,MA0018.2;0.828253,MA0099.2;0.944966,MA0079.2;2.24437,MA0102.2;1.8929,MA0258.1;0.419871,MA0259.1;0.441366,MA0442.1;0
}}

Latest revision as of 18:00, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:51710846..51710867,+p3@Ang
p3@Rnase4
Mm9::chr2:84614953..84614964,-p5@Serping1
Mm9::chr2:84614966..84615017,-p1@Serping1
Mm9::chr2:84615020..84615033,-p4@Serping1


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:0004522pancreatic ribonuclease activity0.0249339931844607
GO:0016892endoribonuclease activity, producing 3'-phosphomonoesters0.0249339931844607
GO:0016894endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 3'-phosphomonoesters0.0249339931844607
GO:0006958complement activation, classical pathway0.0249339931844607
GO:0002455humoral immune response mediated by circulating immunoglobulin0.0249339931844607
GO:0004521endoribonuclease activity0.0249339931844607
GO:0002541activation of plasma proteins during acute inflammatory response0.0249339931844607
GO:0006956complement activation0.0249339931844607
GO:0007596blood coagulation0.0249339931844607
GO:0007599hemostasis0.0249339931844607
GO:0050817coagulation0.0249339931844607
GO:0004540ribonuclease activity0.0249339931844607
GO:0050878regulation of body fluid levels0.0249339931844607
GO:0016064immunoglobulin mediated immune response0.0249339931844607
GO:0019724B cell mediated immunity0.0249339931844607
GO:0002526acute inflammatory response0.0249339931844607
GO:0002253activation of immune response0.0249339931844607
GO:0042060wound healing0.0249339931844607
GO:0004519endonuclease activity0.0249339931844607
GO:0045087innate immune response0.0249339931844607
GO:0002460adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains0.0249339931844607
GO:0002250adaptive immune response0.0249339931844607
GO:0002449lymphocyte mediated immunity0.0249339931844607
GO:0050778positive regulation of immune response0.0249339931844607
GO:0002684positive regulation of immune system process0.0249339931844607
GO:0002443leukocyte mediated immunity0.0249339931844607
GO:0004867serine-type endopeptidase inhibitor activity0.0249339931844607
GO:0050776regulation of immune response0.0259639934272105
GO:0002682regulation of immune system process0.0259639934272105
GO:0051240positive regulation of multicellular organismal process0.0259841140737432
GO:0004518nuclease activity0.027443623303524
GO:0002252immune effector process0.027443623303524
GO:0006959humoral immune response0.027443623303524
GO:0004866endopeptidase inhibitor activity0.0277703825651687
GO:0030414protease inhibitor activity0.0277703825651687
GO:0004857enzyme inhibitor activity0.0373609115185842
GO:0006954inflammatory response0.0373609115185842
GO:0051239regulation of multicellular organismal process0.0485264690248685
GO:0009611response to wounding0.0489694780402281



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
trunk1.81e-1290
trunk region element3.40e-1179
immaterial anatomical entity2.65e-1079
multi-cellular organism1.48e-09333
subdivision of trunk1.29e-0866
mesenchyme6.68e-0861
entire embryonic mesenchyme6.68e-0861
trunk mesenchyme1.04e-0745
anatomical space1.18e-0757
epithelial tube2.53e-0747
tissue2.65e-07349
organism subdivision2.68e-07150


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)
MA0003.10.331308
MA0004.10.6888
MA0006.10.497533
MA0007.10.672186
MA0009.11.15569
MA0014.10.581929
MA0017.11.30949
MA0019.10.964875
MA0024.11.11019
MA0025.11.39562
MA0027.12.81824
MA0028.10.509589
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
MA0048.10.735223
MA0050.10.731539
MA0051.13.29861
MA0052.11.17701
MA0055.14.83503
MA0056.10
MA0057.10.251896
MA0058.10.581673
MA0059.10.59559
MA0060.10.403071
MA0061.10.438628
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.10.713436
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.363073
MA0074.13.11034
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.201215
MA0089.10
MA0090.10.650768
MA0091.12.81846
MA0092.10.651119
MA0093.10.519148
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.10.605676
MA0103.10.540576
MA0105.10.313353
MA0106.13.43447
MA0107.10.533522
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.10.43587
MA0115.11.25852
MA0116.10.497293
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
MA0139.10.365453
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.12.05562
MA0144.12.91634
MA0145.11.79187
MA0146.12.17792
MA0147.10.453952
MA0148.10.706718
MA0149.10.611881
MA0062.20.319836
MA0035.20.788288
MA0039.21.47117
MA0138.20.951653
MA0002.20.368961
MA0137.22.35722
MA0104.20.386166
MA0047.20.845655
MA0112.21.14524
MA0065.20.212467
MA0150.10.67206
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.10.263609
MA0155.11.21457
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.10.465802
MA0160.10.71003
MA0161.10
MA0162.10.346529
MA0163.11.11502
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.22.24437
MA0102.21.8929
MA0258.10.419871
MA0259.10.441366
MA0442.10
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