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MCL coexpression mm9:2119: Difference between revisions

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{{MCL_coexpression_mm9
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activity, acting on the CH-OH group of donors, cytochrome as acceptor;0.0051498383827316;52815!GO:0008720;D-lactate dehydrogenase activity;0.0051498383827316;52815!GO:0004458;D-lactate dehydrogenase (cytochrome) activity;0.0051498383827316;52815!GO:0001891;phagocytic cup;0.00772433434609092;18826!GO:0004457;lactate dehydrogenase activity;0.0154461295096576;52815!GO:0051017;actin filament bundle formation;0.0334519460528467;18826!GO:0005884;actin filament;0.0370630103427486;18826!GO:0051015;actin filament binding;0.0370630103427486;18826!GO:0001726;ruffle;0.0370630103427486;18826!GO:0006754;ATP biosynthetic process;0.0370630103427486;52815!GO:0006753;nucleoside phosphate metabolic process;0.0370630103427486;52815!GO:0046034;ATP metabolic process;0.0370630103427486;52815!GO:0007015;actin filament organization;0.0370630103427486;18826!GO:0009206;purine ribonucleoside triphosphate biosynthetic process;0.0370630103427486;52815!GO:0009201;ribonucleoside triphosphate biosynthetic 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|gostat_on_MCL_coexpression=GO:0016898;oxidoreductase activity, acting on the CH-OH group of donors, cytochrome as acceptor;0.0051498383827316;52815!GO:0008720;D-lactate dehydrogenase activity;0.0051498383827316;52815!GO:0004458;D-lactate dehydrogenase (cytochrome) activity;0.0051498383827316;52815!GO:0001891;phagocytic cup;0.00772433434609092;18826!GO:0004457;lactate dehydrogenase activity;0.0154461295096576;52815!GO:0051017;actin filament bundle formation;0.0334519460528467;18826!GO:0005884;actin filament;0.0370630103427486;18826!GO:0051015;actin filament binding;0.0370630103427486;18826!GO:0001726;ruffle;0.0370630103427486;18826!GO:0006754;ATP biosynthetic process;0.0370630103427486;52815!GO:0006753;nucleoside phosphate metabolic process;0.0370630103427486;52815!GO:0046034;ATP metabolic process;0.0370630103427486;52815!GO:0007015;actin filament organization;0.0370630103427486;18826!GO:0009206;purine ribonucleoside triphosphate biosynthetic process;0.0370630103427486;52815!GO:0009201;ribonucleoside triphosphate biosynthetic process;0.0370630103427486;52815!GO:0009145;purine nucleoside triphosphate biosynthetic process;0.0370630103427486;52815!GO:0009142;nucleoside triphosphate biosynthetic process;0.0370630103427486;52815!GO:0009205;purine ribonucleoside triphosphate metabolic process;0.0370630103427486;52815!GO:0009199;ribonucleoside triphosphate metabolic process;0.0370630103427486;52815!GO:0009144;purine nucleoside triphosphate metabolic process;0.0370630103427486;52815!GO:0006752;group transfer coenzyme metabolic process;0.0370630103427486;52815!GO:0009141;nucleoside triphosphate metabolic process;0.0370630103427486;52815!GO:0009152;purine ribonucleotide biosynthetic process;0.0370630103427486;52815!GO:0050660;FAD binding;0.0370630103427486;52815!GO:0009260;ribonucleotide biosynthetic process;0.0370630103427486;52815!GO:0009150;purine ribonucleotide metabolic process;0.0370630103427486;52815!GO:0006164;purine nucleotide biosynthetic process;0.0370630103427486;52815!GO:0009259;ribonucleotide metabolic process;0.0384779555486205;52815!GO:0006163;purine nucleotide metabolic process;0.0389781624273876;52815!GO:0031252;leading edge;0.0389781624273876;18826!GO:0009108;coenzyme biosynthetic process;0.0411792677516855;52815!GO:0051188;cofactor biosynthetic process;0.0461077196418848;52815!
|ontology_enrichment_celltype=
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|ontology_enrichment_uberon=UBERON:0005177!8.89e-10!79;UBERON:0002100!2.67e-09!90;UBERON:0000466!5.25e-09!79;UBERON:0007023!1.38e-08!51;UBERON:0004111!2.07e-08!122;UBERON:0002365!2.64e-07!25;UBERON:0002330!2.64e-07!25;UBERON:0000025!4.71e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.402508,0.612053,0.688265,0.483253,0.704257,0.803568,0.96814,0.381467,0.162942,0.755749,0.790506,0.37041,0.81685,2.16972,0,1.02248,0.473993,0.928768,0.683591,0.570433,0.197567,0.815872,0.481455,0.620553,0.846564,0.342316,0.727368,0.535752,0.290745,0.711848,1.12823,0.471365,0.318879,0.503207,0.30022,0.460474,0.786577,0.434783,0.40068,0.478558,0.717547,0.185353,1.26006,0.66772,0.675898,0.938241,0.744678,0.162985,0.539131,1.0041,0.875451,0.771943,1.2746,1.29252,0.82458,0.549352,0.776619,0.331485,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,0.590754,0.377213,0.205546,1.32691,0.323563,0.310084,0.318792,0.926147,1.08947,0.575233,0.37865,1.04072,0.884013,0.362446,1.20828,0.11855,0.129654,0.290918,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,0.430015,0.409166,0.367176,1.14445,0.938512,0.264911,0.460566,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,0.57247,0.633483,1.25851,1.41174,0.7614,1.51002,0.476467,0.143825,0.692434,1.02384,0.456123,1.33244,0.970073,0.848526,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,0.839311,1.53196,1.08088,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.79777,0.184289,1.27621,0.416214,0.838313,1.35996,0.87653,0.516549,0.63863,0.650472,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,0.459159,0.788782,0.0824127
|tfbs_overrepresentation_jaspar=MA0003.1;0.142214,MA0004.1;1.64673,MA0006.1;0.497533,MA0007.1;0.672186,MA0009.1;1.15569,MA0014.1;0.581929,MA0017.1;0.528196,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;1.97232,MA0040.1;1.16866,MA0041.1;0.604221,MA0042.1;0.589368,MA0043.1;1.25564,MA0046.1;1.1929,MA0048.1;0.266382,MA0050.1;0.731539,MA0051.1;0.856094,MA0052.1;1.17701,MA0055.1;0.125758,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;1.31585,MA0069.1;1.17737,MA0070.1;1.16732,MA0071.1;0.73062,MA0072.1;1.15853,MA0073.1;5.51487,MA0074.1;0.795862,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;0.582815,MA0089.1;0,MA0090.1;1.56748,MA0091.1;0.703314,MA0092.1;0.651119,MA0093.1;2.22418,MA0095.1;0,MA0098.1;0,MA0100.1;0.783305,MA0101.1;0.605676,MA0103.1;0.540576,MA0105.1;0.313353,MA0106.1;0.899777,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;0.887119,MA0144.1;0.439506,MA0145.1;0.608454,MA0146.1;0.0944145,MA0147.1;0.453952,MA0148.1;0.706718,MA0149.1;0.611881,MA0062.2;0.319836,MA0035.2;0.788288,MA0039.2;1.07321,MA0138.2;0.951653,MA0002.2;0.368961,MA0137.2;0.559766,MA0104.2;0.386166,MA0047.2;0.845655,MA0112.2;1.79184,MA0065.2;0.212467,MA0150.1;0.67206,MA0151.1;0,MA0152.1;0.84577,MA0153.1;1.31015,MA0154.1;0.728853,MA0155.1;0.230016,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;0.0996272,MA0164.1;0.817786,MA0080.2;0.534538,MA0018.2;0.828253,MA0099.2;0.944966,MA0079.2;0.814354,MA0102.2;1.8929,MA0258.1;0.419871,MA0259.1;0.441366,MA0442.1;0
}}

Latest revision as of 18:01, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:75531033..75531048,+p16@Lcp1
Mm9::chr16:43235969..43235989,+p20@Zbtb20
Mm9::chr16:43236037..43236050,+p35@Zbtb20
Mm9::chr8:114154225..114154244,-p1@Ldhd


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:0016898oxidoreductase activity, acting on the CH-OH group of donors, cytochrome as acceptor0.0051498383827316
GO:0008720D-lactate dehydrogenase activity0.0051498383827316
GO:0004458D-lactate dehydrogenase (cytochrome) activity0.0051498383827316
GO:0001891phagocytic cup0.00772433434609092
GO:0004457lactate dehydrogenase activity0.0154461295096576
GO:0051017actin filament bundle formation0.0334519460528467
GO:0005884actin filament0.0370630103427486
GO:0051015actin filament binding0.0370630103427486
GO:0001726ruffle0.0370630103427486
GO:0006754ATP biosynthetic process0.0370630103427486
GO:0006753nucleoside phosphate metabolic process0.0370630103427486
GO:0046034ATP metabolic process0.0370630103427486
GO:0007015actin filament organization0.0370630103427486
GO:0009206purine ribonucleoside triphosphate biosynthetic process0.0370630103427486
GO:0009201ribonucleoside triphosphate biosynthetic process0.0370630103427486
GO:0009145purine nucleoside triphosphate biosynthetic process0.0370630103427486
GO:0009142nucleoside triphosphate biosynthetic process0.0370630103427486
GO:0009205purine ribonucleoside triphosphate metabolic process0.0370630103427486
GO:0009199ribonucleoside triphosphate metabolic process0.0370630103427486
GO:0009144purine nucleoside triphosphate metabolic process0.0370630103427486
GO:0006752group transfer coenzyme metabolic process0.0370630103427486
GO:0009141nucleoside triphosphate metabolic process0.0370630103427486
GO:0009152purine ribonucleotide biosynthetic process0.0370630103427486
GO:0050660FAD binding0.0370630103427486
GO:0009260ribonucleotide biosynthetic process0.0370630103427486
GO:0009150purine ribonucleotide metabolic process0.0370630103427486
GO:0006164purine nucleotide biosynthetic process0.0370630103427486
GO:0009259ribonucleotide metabolic process0.0384779555486205
GO:0006163purine nucleotide metabolic process0.0389781624273876
GO:0031252leading edge0.0389781624273876
GO:0009108coenzyme biosynthetic process0.0411792677516855
GO:0051188cofactor biosynthetic process0.0461077196418848



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
trunk region element8.89e-1079
trunk2.67e-0990
immaterial anatomical entity5.25e-0979
adult organism1.38e-0851
anatomical conduit2.07e-08122
exocrine gland2.64e-0725
exocrine system2.64e-0725
tube4.71e-07114


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)
MA0003.10.142214
MA0004.11.64673
MA0006.10.497533
MA0007.10.672186
MA0009.11.15569
MA0014.10.581929
MA0017.10.528196
MA0019.10.964875
MA0024.11.11019
MA0025.11.39562
MA0027.12.81824
MA0028.10.509589
MA0029.11.08753
MA0030.11.09438
MA0031.11.05719
MA0038.11.97232
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
MA0057.10.251896
MA0058.10.581673
MA0059.10.59559
MA0060.10.403071
MA0061.10.438628
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.11.31585
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.15.51487
MA0074.10.795862
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.582815
MA0089.10
MA0090.11.56748
MA0091.10.703314
MA0092.10.651119
MA0093.12.22418
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.10.605676
MA0103.10.540576
MA0105.10.313353
MA0106.10.899777
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
MA0143.10.887119
MA0144.10.439506
MA0145.10.608454
MA0146.10.0944145
MA0147.10.453952
MA0148.10.706718
MA0149.10.611881
MA0062.20.319836
MA0035.20.788288
MA0039.21.07321
MA0138.20.951653
MA0002.20.368961
MA0137.20.559766
MA0104.20.386166
MA0047.20.845655
MA0112.21.79184
MA0065.20.212467
MA0150.10.67206
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.10.728853
MA0155.10.230016
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.10.465802
MA0160.10.71003
MA0161.10
MA0162.10.346529
MA0163.10.0996272
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.20.814354
MA0102.21.8929
MA0258.10.419871
MA0259.10.441366
MA0442.10
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