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MCL coexpression mm9:802: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002346!2.41e-29!64;UBERON:0003075!2.41e-29!64;UBERON:0007284!2.41e-29!64;UBERON:0003056!1.26e-27!49;UBERON:0010371!7.11e-25!73;UBERON:0000955!1.69e-23!47;UBERON:0006238!1.69e-23!47;UBERON:0001049!3.19e-23!52;UBERON:0005068!3.19e-23!52;UBERON:0006241!3.19e-23!52;UBERON:0007135!3.19e-23!52;UBERON:0002616!1.59e-22!46;UBERON:0000073!2.42e-22!54;UBERON:0010314!6.49e-21!92;UBERON:0003080!1.11e-20!40;UBERON:0004121!1.24e-20!95;UBERON:0000924!1.24e-20!95;UBERON:0006601!1.24e-20!95;UBERON:0002780!9.01e-20!39;UBERON:0001890!9.01e-20!39;UBERON:0006240!9.01e-20!39;UBERON:0001017!2.80e-19!73;UBERON:0001016!2.94e-18!75;UBERON:0003528!1.61e-14!29;UBERON:0002791!1.61e-14!29;UBERON:0001893!1.61e-14!29;UBERON:0002020!2.97e-14!34;UBERON:0000956!2.29e-10!21;UBERON:0001869!2.29e-10!21;UBERON:0000203!2.29e-10!21;UBERON:0002021!3.23e-10!10;UBERON:0000411!3.23e-10!10;UBERON:0001950!3.23e-10!10;UBERON:0002619!7.28e-09!17;UBERON:0000970!9.50e-08!9;UBERON:0000019!9.50e-08!9;UBERON:0000047!9.50e-08!9;UBERON:0010312!9.50e-08!9;UBERON:0004088!9.50e-08!9;UBERON:0002104!9.50e-08!9;UBERON:0001456!9.50e-08!9;UBERON:0003072!9.50e-08!9;UBERON:0004128!9.50e-08!9;UBERON:0003071!9.50e-08!9
|ontology_enrichment_uberon=UBERON:0002346!2.41e-29!64;UBERON:0003075!2.41e-29!64;UBERON:0007284!2.41e-29!64;UBERON:0003056!1.26e-27!49;UBERON:0010371!7.11e-25!73;UBERON:0000955!1.69e-23!47;UBERON:0006238!1.69e-23!47;UBERON:0001049!3.19e-23!52;UBERON:0005068!3.19e-23!52;UBERON:0006241!3.19e-23!52;UBERON:0007135!3.19e-23!52;UBERON:0002616!1.59e-22!46;UBERON:0000073!2.42e-22!54;UBERON:0010314!6.49e-21!92;UBERON:0003080!1.11e-20!40;UBERON:0004121!1.24e-20!95;UBERON:0000924!1.24e-20!95;UBERON:0006601!1.24e-20!95;UBERON:0002780!9.01e-20!39;UBERON:0001890!9.01e-20!39;UBERON:0006240!9.01e-20!39;UBERON:0001017!2.80e-19!73;UBERON:0001016!2.94e-18!75;UBERON:0003528!1.61e-14!29;UBERON:0002791!1.61e-14!29;UBERON:0001893!1.61e-14!29;UBERON:0002020!2.97e-14!34;UBERON:0000956!2.29e-10!21;UBERON:0001869!2.29e-10!21;UBERON:0000203!2.29e-10!21;UBERON:0002021!3.23e-10!10;UBERON:0000411!3.23e-10!10;UBERON:0001950!3.23e-10!10;UBERON:0002619!7.28e-09!17;UBERON:0000970!9.50e-08!9;UBERON:0000019!9.50e-08!9;UBERON:0000047!9.50e-08!9;UBERON:0010312!9.50e-08!9;UBERON:0004088!9.50e-08!9;UBERON:0002104!9.50e-08!9;UBERON:0001456!9.50e-08!9;UBERON:0003072!9.50e-08!9;UBERON:0004128!9.50e-08!9;UBERON:0003071!9.50e-08!9
|tfbs_overrepresentation_for_novel_motifs=0.354643,0.0206456,0.330161,0.394491,0.645379,0.40827,0.495658,0.448965,0.154135,0.133458,0.453212,0.484001,0.146657,0.507558,0.24249,0,0.696644,0.22065,0.419123,0.0703872,0.802917,0.179861,0.50668,0.226287,0.337218,0.534339,1.30297,0.428336,0.268347,0.0963992,0.414842,0.796599,0.218674,0.113369,0.242923,0.0500417,0.210533,0.480503,0.191662,0.167387,0.637027,0.419787,0.163087,1.96464,0.0122159,0.383899,0.618203,0.443479,0.0330279,0.271021,0.679429,0.560572,0.30602,0.937018,0.954342,0.514504,0.279148,0.471658,0.384731,0.512521,0.776777,0.569793,0.163832,0.668331,0.525334,1.68713,1.08987,1.43807,0.772155,1.29123,0.31262,0.460931,0.0512949,0.987652,0.116281,0.107966,0.364033,0.607043,0.759798,0.299972,0.463363,0.713779,0.568383,1.38499,0.873141,0.0176817,3.47762,0.0965007,0.623015,1.60001,1.15927,0.878077,0.809272,0.232894,0.188213,0.17334,0.871972,0.812053,0.618454,0.0816605,1.78429,0.796322,0.919715,0.680015,0.678976,0.419366,0.737915,0.439611,0.30446,0.297733,0.348012,0.921485,0.301014,0.458194,1.16629,0.633313,0.10952,0.398075,0.697928,0.597328,0.993019,0.647706,0.536114,0.606154,1.22022,0.763454,0.503569,0.802564,1.08836,0.663857,0.90286,0.387557,1.05894,0.527782,1.18781,3.21543,0.362565,0.421136,1.13883,1.96797,1.5682,1.09456,0.547855,0.806961,0.672593,0.420221,0.621266,1.92834,0.364791,0.229209,0.32395,0.041769,0.938577,0.178329,0.526881,1.01974,0.561556,0.253271,0.352329,0.362302,1.1483,0.872292,0.763895,0.345891,0.669337,1.29138,0.602679,0.482466,0.0435162
|tfbs_overrepresentation_for_novel_motifs=0.354643,0.0206456,0.330161,0.394491,0.645379,0.40827,0.495658,0.448965,0.154135,0.133458,0.453212,0.484001,0.146657,0.507558,0.24249,0,0.696644,0.22065,0.419123,0.0703872,0.802917,0.179861,0.50668,0.226287,0.337218,0.534339,1.30297,0.428336,0.268347,0.0963992,0.414842,0.796599,0.218674,0.113369,0.242923,0.0500417,0.210533,0.480503,0.191662,0.167387,0.637027,0.419787,0.163087,1.96464,0.0122159,0.383899,0.618203,0.443479,0.0330279,0.271021,0.679429,0.560572,0.30602,0.937018,0.954342,0.514504,0.279148,0.471658,0.384731,0.512521,0.776777,0.569793,0.163832,0.668331,0.525334,1.68713,1.08987,1.43807,0.772155,1.29123,0.31262,0.460931,0.0512949,0.987652,0.116281,0.107966,0.364033,0.607043,0.759798,0.299972,0.463363,0.713779,0.568383,1.38499,0.873141,0.0176817,3.47762,0.0965007,0.623015,1.60001,1.15927,0.878077,0.809272,0.232894,0.188213,0.17334,0.871972,0.812053,0.618454,0.0816605,1.78429,0.796322,0.919715,0.680015,0.678976,0.419366,0.737915,0.439611,0.30446,0.297733,0.348012,0.921485,0.301014,0.458194,1.16629,0.633313,0.10952,0.398075,0.697928,0.597328,0.993019,0.647706,0.536114,0.606154,1.22022,0.763454,0.503569,0.802564,1.08836,0.663857,0.90286,0.387557,1.05894,0.527782,1.18781,3.21543,0.362565,0.421136,1.13883,1.96797,1.5682,1.09456,0.547855,0.806961,0.672593,0.420221,0.621266,1.92834,0.364791,0.229209,0.32395,0.041769,0.938577,0.178329,0.526881,1.01974,0.561556,0.253271,0.352329,0.362302,1.1483,0.872292,0.763895,0.345891,0.669337,1.29138,0.602679,0.482466,0.0435162
|tfbs_overrepresentation_jaspar=MA0003.1;0.00972621,MA0004.1;0.394951,MA0006.1;0.238555,MA0007.1;0.38073,MA0009.1;0.82278,MA0014.1;0.0421798,MA0017.1;0.26239,MA0019.1;0.642876,MA0024.1;0.779446,MA0025.1;1.05446,MA0027.1;2.46647,MA0028.1;0.24786,MA0029.1;0.757957,MA0030.1;0.764448,MA0031.1;0.729293,MA0038.1;0.534262,MA0040.1;0.835181,MA0041.1;0.323687,MA0042.1;0.837668,MA0043.1;0.918718,MA0046.1;0.858391,MA0048.1;0.0824771,MA0050.1;0.431976,MA0051.1;0.542972,MA0052.1;0.84317,MA0055.1;0.0198867,MA0056.1;0,MA0057.1;0.0745664,MA0058.1;0.305206,MA0059.1;0.849123,MA0060.1;0.169058,MA0061.1;0.194456,MA0063.1;0,MA0066.1;0.523573,MA0067.1;1.16502,MA0068.1;0.563625,MA0069.1;0.843506,MA0070.1;0.833895,MA0071.1;0.431174,MA0072.1;1.92922,MA0073.1;1.23161,MA0074.1;0.488775,MA0076.1;0.279739,MA0077.1;0.804033,MA0078.1;0.575205,MA0081.1;0.338098,MA0083.1;0.917931,MA0084.1;1.49188,MA0087.1;0.87515,MA0088.1;0.0492918,MA0089.1;0,MA0090.1;0.362551,MA0091.1;0.407455,MA0092.1;0.362847,MA0093.1;0.2553,MA0095.1;0,MA0098.1;0,MA0100.1;0.477594,MA0101.1;0.324888,MA0103.1;0.272167,MA0105.1;0.109964,MA0106.1;0.582805,MA0107.1;0.266586,MA0108.2;0.665343,MA0109.1;0,MA0111.1;0.375908,MA0113.1;0.555251,MA0114.1;0.19245,MA0115.1;0.921497,MA0116.1;0.238371,MA0117.1;0.88947,MA0119.1;0.325434,MA0122.1;0.909168,MA0124.1;1.11203,MA0125.1;1.03833,MA0130.1;0,MA0131.1;0.638414,MA0132.1;0,MA0133.1;0,MA0135.1;0.954884,MA0136.1;0.508047,MA0139.1;0.143341,MA0140.1;0.477483,MA0141.1;0.29014,MA0142.1;0.714976,MA0143.1;0.571221,MA0144.1;0.568165,MA0145.1;0.200183,MA0146.1;0.0548413,MA0147.1;0.205697,MA0148.1;0.410398,MA0149.1;0.330018,MA0062.2;0.113962,MA0035.2;0.482026,MA0039.2;0.0156581,MA0138.2;0.630612,MA0002.2;0.877049,MA0137.2;0.287486,MA0104.2;0.157347,MA0047.2;0.533516,MA0112.2;0.0543294,MA0065.2;0.0545595,MA0150.1;0.380623,MA0151.1;0,MA0152.1;0.53362,MA0153.1;0.971406,MA0154.1;0.0809407,MA0155.1;0.226288,MA0156.1;0.278949,MA0157.1;0.683365,MA0158.1;0,MA0159.1;0.214506,MA0160.1;0.413266,MA0161.1;0,MA0162.1;0.0143037,MA0163.1;0.0124565,MA0164.1;1.26737,MA0080.2;0.267388,MA0018.2;0.51781,MA0099.2;0.624421,MA0079.2;2.29394e-06,MA0102.2;1.5442,MA0258.1;0.180934,MA0259.1;0.196451,MA0442.1;0
}}
}}

Revision as of 12:20, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:104300588..104300589,+p@chr12:104300588..104300589
+
Mm9::chr15:30426557..30426563,+p@chr15:30426557..30426563
+
Mm9::chr18:23181330..23181342,-p@chr18:23181330..23181342
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Mm9::chr19:47091316..47091319,+p@chr19:47091316..47091319
+
Mm9::chr1:160481717..160481720,+p@chr1:160481717..160481720
+
Mm9::chr1:176681777..176681782,+p@chr1:176681777..176681782
+
Mm9::chr1:94980548..94980551,-p@chr1:94980548..94980551
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Mm9::chr2:113658131..113658135,-p@chr2:113658131..113658135
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Mm9::chr2:121395252..121395254,-p@chr2:121395252..121395254
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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
neurectoderm2.41e-2964
neural plate2.41e-2964
presumptive neural plate2.41e-2964
pre-chordal neural plate1.26e-2749
ecto-epithelium7.11e-2573
brain1.69e-2347
future brain1.69e-2347
neural tube3.19e-2352
neural rod3.19e-2352
future spinal cord3.19e-2352
neural keel3.19e-2352
regional part of brain1.59e-2246
regional part of nervous system2.42e-2254
structure with developmental contribution from neural crest6.49e-2192
anterior neural tube1.11e-2040
ectoderm-derived structure1.24e-2095
ectoderm1.24e-2095
presumptive ectoderm1.24e-2095
regional part of forebrain9.01e-2039
forebrain9.01e-2039
future forebrain9.01e-2039
central nervous system2.80e-1973
nervous system2.94e-1875
brain grey matter1.61e-1429
regional part of telencephalon1.61e-1429
telencephalon1.61e-1429
gray matter2.97e-1434
cerebral cortex2.29e-1021
cerebral hemisphere2.29e-1021
pallium2.29e-1021
occipital lobe3.23e-1010
visual cortex3.23e-1010
neocortex3.23e-1010
regional part of cerebral cortex7.28e-0917
eye9.50e-089
camera-type eye9.50e-089
simple eye9.50e-089
immature eye9.50e-089
ocular region9.50e-089
visual system9.50e-089
face9.50e-089
optic cup9.50e-089
optic vesicle9.50e-089
eye primordium9.50e-089


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)
MA0003.10.00972621
MA0004.10.394951
MA0006.10.238555
MA0007.10.38073
MA0009.10.82278
MA0014.10.0421798
MA0017.10.26239
MA0019.10.642876
MA0024.10.779446
MA0025.11.05446
MA0027.12.46647
MA0028.10.24786
MA0029.10.757957
MA0030.10.764448
MA0031.10.729293
MA0038.10.534262
MA0040.10.835181
MA0041.10.323687
MA0042.10.837668
MA0043.10.918718
MA0046.10.858391
MA0048.10.0824771
MA0050.10.431976
MA0051.10.542972
MA0052.10.84317
MA0055.10.0198867
MA0056.10
MA0057.10.0745664
MA0058.10.305206
MA0059.10.849123
MA0060.10.169058
MA0061.10.194456
MA0063.10
MA0066.10.523573
MA0067.11.16502
MA0068.10.563625
MA0069.10.843506
MA0070.10.833895
MA0071.10.431174
MA0072.11.92922
MA0073.11.23161
MA0074.10.488775
MA0076.10.279739
MA0077.10.804033
MA0078.10.575205
MA0081.10.338098
MA0083.10.917931
MA0084.11.49188
MA0087.10.87515
MA0088.10.0492918
MA0089.10
MA0090.10.362551
MA0091.10.407455
MA0092.10.362847
MA0093.10.2553
MA0095.10
MA0098.10
MA0100.10.477594
MA0101.10.324888
MA0103.10.272167
MA0105.10.109964
MA0106.10.582805
MA0107.10.266586
MA0108.20.665343
MA0109.10
MA0111.10.375908
MA0113.10.555251
MA0114.10.19245
MA0115.10.921497
MA0116.10.238371
MA0117.10.88947
MA0119.10.325434
MA0122.10.909168
MA0124.11.11203
MA0125.11.03833
MA0130.10
MA0131.10.638414
MA0132.10
MA0133.10
MA0135.10.954884
MA0136.10.508047
MA0139.10.143341
MA0140.10.477483
MA0141.10.29014
MA0142.10.714976
MA0143.10.571221
MA0144.10.568165
MA0145.10.200183
MA0146.10.0548413
MA0147.10.205697
MA0148.10.410398
MA0149.10.330018
MA0062.20.113962
MA0035.20.482026
MA0039.20.0156581
MA0138.20.630612
MA0002.20.877049
MA0137.20.287486
MA0104.20.157347
MA0047.20.533516
MA0112.20.0543294
MA0065.20.0545595
MA0150.10.380623
MA0151.10
MA0152.10.53362
MA0153.10.971406
MA0154.10.0809407
MA0155.10.226288
MA0156.10.278949
MA0157.10.683365
MA0158.10
MA0159.10.214506
MA0160.10.413266
MA0161.10
MA0162.10.0143037
MA0163.10.0124565
MA0164.11.26737
MA0080.20.267388
MA0018.20.51781
MA0099.20.624421
MA0079.22.29394e-06
MA0102.21.5442
MA0258.10.180934
MA0259.10.196451
MA0442.10
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