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MCL coexpression mm9:607: Difference between revisions

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{{MCL_coexpression_mm9
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affinity oligopeptide transporter activity;0.0293650358845121;57738!GO:0004332;fructose-bisphosphate aldolase activity;0.0381369142928167;11676!GO:0016832;aldehyde-lyase activity;0.0381369142928167;11676!GO:0015198;oligopeptide transporter activity;0.0381369142928167;57738!GO:0015197;peptide transporter activity;0.0381369142928167;57738!GO:0006857;oligopeptide transport;0.0381369142928167;57738!GO:0043113;receptor clustering;0.0381369142928167;231134!GO:0031594;neuromuscular junction;0.0381369142928167;231134!GO:0005158;insulin receptor binding;0.0381369142928167;231134!GO:0007172;signal complex 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|gostat_on_MCL_coexpression=GO:0015334;high affinity oligopeptide transporter activity;0.0293650358845121;57738!GO:0004332;fructose-bisphosphate aldolase activity;0.0381369142928167;11676!GO:0016832;aldehyde-lyase activity;0.0381369142928167;11676!GO:0015198;oligopeptide transporter activity;0.0381369142928167;57738!GO:0015197;peptide transporter activity;0.0381369142928167;57738!GO:0006857;oligopeptide transport;0.0381369142928167;57738!GO:0043113;receptor clustering;0.0381369142928167;231134!GO:0031594;neuromuscular junction;0.0381369142928167;231134!GO:0005158;insulin receptor binding;0.0381369142928167;231134!GO:0007172;signal complex assembly;0.0381369142928167;231134!
|ontology_enrichment_celltype=CL:0000117!1.22e-16!23;CL:0000337!1.22e-16!23;CL:0000221!4.09e-16!44;CL:0000133!4.09e-16!44;CL:0002319!1.78e-15!43;CL:0000055!2.43e-12!49;CL:0000540!2.32e-11!33;CL:0000047!2.32e-11!33;CL:0000031!2.32e-11!33;CL:0000404!2.32e-11!33;CL:0000393!1.66e-08!39;CL:0000211!1.66e-08!39;CL:0002453!5.47e-07!8
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!1.24e-34!73;UBERON:0000073!1.91e-33!54;UBERON:0001016!3.44e-33!75;UBERON:0004121!2.04e-32!95;UBERON:0000924!2.04e-32!95;UBERON:0006601!2.04e-32!95;UBERON:0001049!4.31e-31!52;UBERON:0005068!4.31e-31!52;UBERON:0006241!4.31e-31!52;UBERON:0007135!4.31e-31!52;UBERON:0002346!9.79e-30!64;UBERON:0003075!9.79e-30!64;UBERON:0007284!9.79e-30!64;UBERON:0002020!6.79e-29!34;UBERON:0010371!6.34e-28!73;UBERON:0000955!1.57e-25!47;UBERON:0006238!1.57e-25!47;UBERON:0002616!1.11e-24!46;UBERON:0003528!1.75e-23!29;UBERON:0002791!1.75e-23!29;UBERON:0001893!1.75e-23!29;UBERON:0003056!2.94e-21!49;UBERON:0003080!2.91e-20!40;UBERON:0002780!2.11e-19!39;UBERON:0001890!2.11e-19!39;UBERON:0006240!2.11e-19!39;UBERON:0010314!2.57e-17!92;UBERON:0000956!4.12e-17!21;UBERON:0001869!4.12e-17!21;UBERON:0000203!4.12e-17!21;UBERON:0002619!4.54e-14!17;UBERON:0003076!1.62e-11!12;UBERON:0003057!1.62e-11!12;UBERON:0002021!1.41e-10!10;UBERON:0000411!1.41e-10!10;UBERON:0001950!1.41e-10!10;UBERON:0002240!1.26e-07!6;UBERON:0005174!1.26e-07!6;UBERON:0001137!1.26e-07!6;UBERON:0002420!1.77e-07!8;UBERON:0007245!1.77e-07!8;UBERON:0010009!1.77e-07!8;UBERON:0010011!1.77e-07!8;UBERON:0000454!1.77e-07!8;UBERON:0000025!2.32e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.267173,0.110566,0.245304,0.303186,0.474017,0.315748,0.396495,0.630239,0.320069,0.56551,0.357058,0.385627,0.0909495,0.407615,0.504927,0,0.587245,0.459418,0.0817508,0.602977,0.215242,0.447169,0.406794,0.155356,0.251585,1.93601,0.265362,0.888376,0.191143,1.17115,0.321757,0.683831,0.14899,0.504772,0.169391,0.246271,0.142225,0.382372,0.126724,0.347926,0.466602,0.870859,0.407596,0.508662,0.0216041,0.797213,0.512146,0.34807,0.337012,0.564214,0.570705,0.457464,0.736781,0.82076,0.837732,1.06445,2.44577,0.37415,0.912284,0.412262,0.664611,0.46618,0.694361,0.560059,0.424276,0.598412,0.970969,1.3158,0.660133,1.17005,0.650349,0.0945081,0.102623,0.870406,0.0680008,0.0619297,1.30758,0.50152,0.648171,0.218647,1.60084,0.60374,0.464847,0.0868537,0.758319,0.206209,0.00753188,0.43877,0.516731,1.47691,1.03946,0.763136,0.696137,0.16091,0.12392,0.360425,0.299765,1.66759,0.512384,0.0434558,0.142282,0.683562,0.803823,0.571268,0.57027,0.3259,0.627019,0.344504,0.222586,0.216685,0.261228,0.805555,1.83296,0.361667,1.04639,0.152197,0.0493982,0.306448,0.58848,0.43155,0.875675,0.540309,0.434408,0.500675,1.09972,0.651709,0.403884,0.689622,0.969481,0.163147,0.787341,0.296885,0.940498,1.91515,1.06766,0.092963,0.274293,0.327523,1.01927,1.84381,1.44523,0.975592,1.13238,0.693891,0.564145,0.326684,0.515065,1.80426,0.757925,0.157809,0.201988,0.663851,0.822286,0.115938,1.08967,0.901933,0.458393,0.52735,0.265096,0.274055,1.02862,0.757491,0.652135,0.719007,0.561023,0.418964,1.99824,0.384198,0.113306
|tfbs_overrepresentation_jaspar=MA0003.1;0.624557,MA0004.1;0.303605,MA0006.1;0.16569,MA0007.1;0.290695,MA0009.1;0.709264,MA0014.1;1.0426,MA0017.1;0.186015,MA0019.1;0.535691,MA0024.1;0.667197,MA0025.1;0.936082,MA0027.1;2.34178,MA0028.1;0.173587,MA0029.1;0.64639,MA0030.1;0.65267,MA0031.1;0.618697,MA0038.1;0.432665,MA0040.1;0.721328,MA0041.1;0.239557,MA0042.1;0.648006,MA0043.1;0.802848,MA0046.1;0.743934,MA0048.1;0.0440103,MA0050.1;0.895831,MA0051.1;0.440863,MA0052.1;0.729105,MA0055.1;0.0370218,MA0056.1;0,MA0057.1;0.151898,MA0058.1;0.223242,MA0059.1;0.233271,MA0060.1;0.108526,MA0061.1;0.129002,MA0063.1;0,MA0066.1;0.422624,MA0067.1;1.04514,MA0068.1;0.157638,MA0069.1;0.729433,MA0070.1;0.720077,MA0071.1;0.336739,MA0072.1;0.711905,MA0073.1;0.000670495,MA0074.1;0.390075,MA0076.1;0.200996,MA0077.1;0.691048,MA0078.1;1.18801,MA0081.1;1.29891,MA0083.1;0.802078,MA0084.1;1.3693,MA0087.1;0.760279,MA0088.1;0.24301,MA0089.1;0,MA0090.1;0.753315,MA0091.1;0.315003,MA0092.1;0.753925,MA0093.1;0.179936,MA0095.1;0,MA0098.1;0,MA0100.1;0.989129,MA0101.1;0.240622,MA0103.1;0.19444,MA0105.1;0.0633795,MA0106.1;0.478503,MA0107.1;0.189625,MA0108.2;0.557195,MA0109.1;0,MA0111.1;0.78079,MA0113.1;1.14743,MA0114.1;0.797973,MA0115.1;0.805567,MA0116.1;0.496352,MA0117.1;0.774259,MA0119.1;2.72929,MA0122.1;0.793507,MA0124.1;0.992825,MA0125.1;0.920215,MA0130.1;0,MA0131.1;0.531427,MA0132.1;0,MA0133.1;0,MA0135.1;0.838263,MA0136.1;0.408073,MA0139.1;0.0883913,MA0140.1;0.379562,MA0141.1;1.13771,MA0142.1;0.604892,MA0143.1;0.467531,MA0144.1;0.807435,MA0145.1;0.109043,MA0146.1;0.0622241,MA0147.1;0.138228,MA0148.1;0.317692,MA0149.1;0.245177,MA0062.2;0.0662974,MA0035.2;0.383789,MA0039.2;0.382143,MA0138.2;0.523978,MA0002.2;1.55322,MA0137.2;0.598347,MA0104.2;0.099275,MA0047.2;0.431964,MA0112.2;1.15536,MA0065.2;0.4963,MA0150.1;0.290598,MA0151.1;0,MA0152.1;0.432062,MA0153.1;0.854464,MA0154.1;0.670722,MA0155.1;2.21027,MA0156.1;0.200311,MA0157.1;0.574484,MA0158.1;0,MA0159.1;0.876351,MA0160.1;0.320315,MA0161.1;0,MA0162.1;0.317256,MA0163.1;1.27382,MA0164.1;0.408402,MA0080.2;0.556674,MA0018.2;0.417217,MA0099.2;0.518072,MA0079.2;0.0367825,MA0102.2;1.42135,MA0258.1;0.376353,MA0259.1;0.130633,MA0442.1;0
}}

Latest revision as of 15:35, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:78136622..78136647,+p2@Aldoc
Mm9::chr11:78136653..78136668,+p3@Aldoc
Mm9::chr11:78137906..78137917,+p13@Aldoc
Mm9::chr11:78138138..78138150,+p11@Aldoc
Mm9::chr11:78138215..78138264,+p5@Aldoc
Mm9::chr11:78138393..78138432,+p8@Aldoc
Mm9::chr11:78139435..78139445,+p@chr11:78139435..78139445
+
Mm9::chr11:78139806..78139834,+p@chr11:78139806..78139834
+
Mm9::chr16:36784785..36784814,-p@chr16:36784785..36784814
-
Mm9::chr16:36784832..36784844,-p@chr16:36784832..36784844
-
Mm9::chr17:25922269..25922288,-p2@Haghl
Mm9::chr5:35399708..35399745,+p2@Dok7


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:0015334high affinity oligopeptide transporter activity0.0293650358845121
GO:0004332fructose-bisphosphate aldolase activity0.0381369142928167
GO:0016832aldehyde-lyase activity0.0381369142928167
GO:0015198oligopeptide transporter activity0.0381369142928167
GO:0015197peptide transporter activity0.0381369142928167
GO:0006857oligopeptide transport0.0381369142928167
GO:0043113receptor clustering0.0381369142928167
GO:0031594neuromuscular junction0.0381369142928167
GO:0005158insulin receptor binding0.0381369142928167
GO:0007172signal complex assembly0.0381369142928167



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
central nervous system1.24e-3473
regional part of nervous system1.91e-3354
nervous system3.44e-3375
ectoderm-derived structure2.04e-3295
ectoderm2.04e-3295
presumptive ectoderm2.04e-3295
neural tube4.31e-3152
neural rod4.31e-3152
future spinal cord4.31e-3152
neural keel4.31e-3152
neurectoderm9.79e-3064
neural plate9.79e-3064
presumptive neural plate9.79e-3064
gray matter6.79e-2934
ecto-epithelium6.34e-2873
brain1.57e-2547
future brain1.57e-2547
regional part of brain1.11e-2446
brain grey matter1.75e-2329
regional part of telencephalon1.75e-2329
telencephalon1.75e-2329
pre-chordal neural plate2.94e-2149
anterior neural tube2.91e-2040
regional part of forebrain2.11e-1939
forebrain2.11e-1939
future forebrain2.11e-1939
structure with developmental contribution from neural crest2.57e-1792
cerebral cortex4.12e-1721
cerebral hemisphere4.12e-1721
pallium4.12e-1721
regional part of cerebral cortex4.54e-1417
posterior neural tube1.62e-1112
chordal neural plate1.62e-1112
occipital lobe1.41e-1010
visual cortex1.41e-1010
neocortex1.41e-1010
spinal cord1.26e-076
dorsal region element1.26e-076
dorsum1.26e-076
basal ganglion1.77e-078
nuclear complex of neuraxis1.77e-078
aggregate regional part of brain1.77e-078
collection of basal ganglia1.77e-078
cerebral subcortex1.77e-078
tube2.32e-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)
MA0003.10.624557
MA0004.10.303605
MA0006.10.16569
MA0007.10.290695
MA0009.10.709264
MA0014.11.0426
MA0017.10.186015
MA0019.10.535691
MA0024.10.667197
MA0025.10.936082
MA0027.12.34178
MA0028.10.173587
MA0029.10.64639
MA0030.10.65267
MA0031.10.618697
MA0038.10.432665
MA0040.10.721328
MA0041.10.239557
MA0042.10.648006
MA0043.10.802848
MA0046.10.743934
MA0048.10.0440103
MA0050.10.895831
MA0051.10.440863
MA0052.10.729105
MA0055.10.0370218
MA0056.10
MA0057.10.151898
MA0058.10.223242
MA0059.10.233271
MA0060.10.108526
MA0061.10.129002
MA0063.10
MA0066.10.422624
MA0067.11.04514
MA0068.10.157638
MA0069.10.729433
MA0070.10.720077
MA0071.10.336739
MA0072.10.711905
MA0073.10.000670495
MA0074.10.390075
MA0076.10.200996
MA0077.10.691048
MA0078.11.18801
MA0081.11.29891
MA0083.10.802078
MA0084.11.3693
MA0087.10.760279
MA0088.10.24301
MA0089.10
MA0090.10.753315
MA0091.10.315003
MA0092.10.753925
MA0093.10.179936
MA0095.10
MA0098.10
MA0100.10.989129
MA0101.10.240622
MA0103.10.19444
MA0105.10.0633795
MA0106.10.478503
MA0107.10.189625
MA0108.20.557195
MA0109.10
MA0111.10.78079
MA0113.11.14743
MA0114.10.797973
MA0115.10.805567
MA0116.10.496352
MA0117.10.774259
MA0119.12.72929
MA0122.10.793507
MA0124.10.992825
MA0125.10.920215
MA0130.10
MA0131.10.531427
MA0132.10
MA0133.10
MA0135.10.838263
MA0136.10.408073
MA0139.10.0883913
MA0140.10.379562
MA0141.11.13771
MA0142.10.604892
MA0143.10.467531
MA0144.10.807435
MA0145.10.109043
MA0146.10.0622241
MA0147.10.138228
MA0148.10.317692
MA0149.10.245177
MA0062.20.0662974
MA0035.20.383789
MA0039.20.382143
MA0138.20.523978
MA0002.21.55322
MA0137.20.598347
MA0104.20.099275
MA0047.20.431964
MA0112.21.15536
MA0065.20.4963
MA0150.10.290598
MA0151.10
MA0152.10.432062
MA0153.10.854464
MA0154.10.670722
MA0155.12.21027
MA0156.10.200311
MA0157.10.574484
MA0158.10
MA0159.10.876351
MA0160.10.320315
MA0161.10
MA0162.10.317256
MA0163.11.27382
MA0164.10.408402
MA0080.20.556674
MA0018.20.417217
MA0099.20.518072
MA0079.20.0367825
MA0102.21.42135
MA0258.10.376353
MA0259.10.130633
MA0442.10
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