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MCL coexpression mm9:1775: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0000007!7.84e-31!8;UBERON:0003296!7.84e-31!8;UBERON:0010133!7.84e-31!8;UBERON:0001894!1.21e-24!10;UBERON:0006222!1.21e-24!10;UBERON:0004766!3.45e-15!2;UBERON:0008193!3.45e-15!2;UBERON:0005913!3.45e-15!2;UBERON:0011158!3.45e-15!2;UBERON:0005744!3.45e-15!2;UBERON:0003457!3.45e-15!2;UBERON:0008001!3.45e-15!2;UBERON:0007497!3.45e-15!2;UBERON:0009955!3.45e-15!2;UBERON:0003067!3.45e-15!2;UBERON:0002546!3.45e-15!2;UBERON:0007914!3.45e-15!2;UBERON:0005253!3.45e-15!2;UBERON:0002227!3.45e-15!2;UBERON:0001846!3.45e-15!2;UBERON:0004339!3.45e-15!2;UBERON:0002105!3.45e-15!2;UBERON:0001678!3.45e-15!2;UBERON:0003128!3.45e-15!2;UBERON:0001694!3.45e-15!2;UBERON:0004681!3.45e-15!2;UBERON:0001839!3.45e-15!2;UBERON:0001690!3.45e-15!2;UBERON:0001844!3.45e-15!2;UBERON:0001849!3.45e-15!2;UBERON:0002499!3.45e-15!2;UBERON:0001855!3.45e-15!2;UBERON:0011137!3.45e-15!2;UBERON:0001703!3.45e-15!2;UBERON:0010323!3.45e-15!2;UBERON:0003129!3.45e-15!2;UBERON:0003069!3.45e-15!2;UBERON:0003051!3.45e-15!2;UBERON:0004637!3.45e-15!2;UBERON:0004761!3.45e-15!2;UBERON:0010113!3.45e-15!2;UBERON:0009123!3.45e-15!2;UBERON:0010351!3.45e-15!2;UBERON:0009617!3.45e-15!2;UBERON:0005641!3.45e-15!2;UBERON:0010349!3.45e-15!2;UBERON:0000073!4.61e-14!54;UBERON:0001017!2.90e-12!73;UBERON:0001016!6.62e-12!75;UBERON:0004121!5.96e-11!95;UBERON:0000924!5.96e-11!95;UBERON:0006601!5.96e-11!95;UBERON:0010371!2.82e-10!73;UBERON:0001049!9.83e-10!52;UBERON:0005068!9.83e-10!52;UBERON:0006241!9.83e-10!52;UBERON:0007135!9.83e-10!52;UBERON:0004684!1.03e-09!3;UBERON:0002275!1.03e-09!3;UBERON:0002616!8.73e-09!46;UBERON:0000955!1.39e-08!47;UBERON:0006238!1.39e-08!47;UBERON:0002780!4.06e-08!39;UBERON:0001890!4.06e-08!39;UBERON:0006240!4.06e-08!39;UBERON:0010314!6.61e-08!92;UBERON:0003080!6.69e-08!40;UBERON:0002346!9.79e-08!64;UBERON:0003075!9.79e-08!64;UBERON:0007284!9.79e-08!64
|tfbs_overrepresentation_for_novel_motifs=0.557864,1.02681,0.529553,0.603273,0.406364,0.618805,0.715644,0.300268,0.310789,0.746305,0.668936,0.702872,0.300533,0.728641,0.424775,0,0.930881,1.02841,0.283802,0.185796,1.22707,0.145201,0.727684,1.04384,0.537749,0.757752,0.274609,0.641282,0.456327,0.645258,0.626183,1.03545,0.395107,0.704734,0.425309,0.0566307,0.384813,0.699032,0.360612,0.328675,0.401916,0.631725,0.134724,1.09239,0.4934,0.591277,0.847828,0.658142,0.746467,0.459555,0.912738,0.786094,0.220111,1.18062,1.19842,0.73621,0.469329,0.689304,0.731291,0.734051,1.01481,0.796017,0.865544,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,0.509047,0.30684,0.152094,1.23259,0.714607,0.245132,0.70455,0.835925,0.997094,0.494135,0.308173,0.948899,0.794502,0.293164,1.1148,0.0793594,0.0882907,1.20595,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.806207,1.05152,0.848095,0.20438,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.328405,0.607321,0.932233,0.380707,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.143464,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,1.21592,0.133815,1.18223,0.343194,0.749664,1.26545,0.787153,0.438007,0.555203,1.39093,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,0.191104
|tfbs_overrepresentation_jaspar=MA0003.1;0.0185483,MA0004.1;0.603793,MA0006.1;0.419915,MA0007.1;0.587678,MA0009.1;1.06266,MA0014.1;0.187732,MA0017.1;0.449113,MA0019.1;0.874061,MA0024.1;1.01759,MA0025.1;1.30092,MA0027.1;2.72141,MA0028.1;0.43138,MA0029.1;0.995171,MA0030.1;1.00195,MA0031.1;0.965177,MA0038.1;0.757669,MA0040.1;1.07552,MA0041.1;0.522007,MA0042.1;0.507715,MA0043.1;1.1618,MA0046.1;1.09955,MA0048.1;0.205696,MA0050.1;0.645342,MA0051.1;0.767098,MA0052.1;1.08379,MA0055.1;0.28842,MA0056.1;0,MA0057.1;0.562607,MA0058.1;0.50032,MA0059.1;0.513699,MA0060.1;0.330907,MA0061.1;0.364227,MA0063.1;0,MA0066.1;0.746072,MA0067.1;1.41352,MA0068.1;3.20872,MA0069.1;1.08414,MA0070.1;1.07418,MA0071.1;0.644448,MA0072.1;2.41915,MA0073.1;10.5963,MA0074.1;0.708108,MA0076.1;0.470037,MA0077.1;1.04318,MA0078.1;0.801834,MA0081.1;0.53877,MA0083.1;1.16099,MA0084.1;1.74401,MA0087.1;1.11687,MA0088.1;0.453686,MA0089.1;0,MA0090.1;1.39153,MA0091.1;0.617887,MA0092.1;0.567278,MA0093.1;0.440484,MA0095.1;0,MA0098.1;0,MA0100.1;0.695835,MA0101.1;0.523409,MA0103.1;1.16573,MA0105.1;0.248108,MA0106.1;0.809991,MA0107.1;0.454197,MA0108.2;0.897859,MA0109.1;0,MA0111.1;0.582193,MA0113.1;0.780358,MA0114.1;0.361633,MA0115.1;1.16466,MA0116.1;0.419688,MA0117.1;1.13165,MA0119.1;3.29951,MA0122.1;1.15196,MA0124.1;1.35963,MA0125.1;1.28445,MA0130.1;0,MA0131.1;0.869325,MA0132.1;0,MA0133.1;0,MA0135.1;1.19898,MA0136.1;0.729175,MA0139.1;2.22941,MA0140.1;0.695713,MA0141.1;0.482463,MA0142.1;0.950155,MA0143.1;0.797553,MA0144.1;0.365053,MA0145.1;0.476962,MA0146.1;0.21827,MA0147.1;0.986917,MA0148.1;0.621195,MA0149.1;0.529387,MA0062.2;0.254018,MA0035.2;0.700704,MA0039.2;0.0511423,MA0138.2;0.861035,MA0002.2;0.299191,MA0137.2;0.479301,MA0104.2;0.845917,MA0047.2;0.75686,MA0112.2;0.157681,MA0065.2;0.158101,MA0150.1;0.587557,MA0151.1;0,MA0152.1;0.756973,MA0153.1;1.21594,MA0154.1;1.11105,MA0155.1;1.57585,MA0156.1;0.469089,MA0157.1;0.91689,MA0158.1;0,MA0159.1;0.389847,MA0160.1;0.624415,MA0161.1;0,MA0162.1;0.245828,MA0163.1;0.230013,MA0164.1;0.729558,MA0080.2;0.455167,MA0018.2;1.75252,MA0099.2;0.854449,MA0079.2;0.30932,MA0102.2;1.79669,MA0258.1;0.346619,MA0259.1;0.366802,MA0442.1;0
}}

Latest revision as of 17:28, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr2:28180993..28181001,-p@chr2:28180993..28181001
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Mm9::chr2:69877171..69877182,+p2@Myo3b
Mm9::chr9:110776494..110776513,-p@chr9:110776494..110776513
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Mm9::chr9:110776522..110776533,-p@chr9:110776522..110776533
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Mm9::chr9:34756371..34756384,-p@chr9:34756371..34756384
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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>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
pituitary gland7.84e-318
gland of diencephalon7.84e-318
neuroendocrine gland7.84e-318
diencephalon1.21e-2410
future diencephalon1.21e-2410
cranial bone3.45e-152
pneumatized bone3.45e-152
zone of bone organ3.45e-152
primary subdivision of skull3.45e-152
cranial conduit3.45e-152
head bone3.45e-152
irregular bone3.45e-152
developing epithelial placode3.45e-152
neurogenic placode3.45e-152
dorsolateral placode3.45e-152
cranial placode3.45e-152
head or neck bone3.45e-152
head mesenchyme3.45e-152
spiral organ of cochlea3.45e-152
internal ear3.45e-152
calvarium3.45e-152
vestibulo-auditory system3.45e-152
temporal bone3.45e-152
cranium3.45e-152
petrous part of temporal bone3.45e-152
vestibular system3.45e-152
bony labyrinth3.45e-152
ear3.45e-152
cochlea3.45e-152
membranous labyrinth3.45e-152
cochlear labyrinth3.45e-152
cochlear duct of membranous labyrinth3.45e-152
axial skeletal system3.45e-152
neurocranium3.45e-152
cranial skeletal system3.45e-152
skull3.45e-152
otic placode3.45e-152
ear vesicle3.45e-152
otic capsule3.45e-152
cartilaginous neurocranium3.45e-152
future membranous labyrinth3.45e-152
otic cup3.45e-152
otic capsule cartilage condensation3.45e-152
head paraxial mesoderm3.45e-152
otocyst epithelium3.45e-152
otic capsule pre-cartilage condensation3.45e-152
regional part of nervous system4.61e-1454
central nervous system2.90e-1273
nervous system6.62e-1275
ectoderm-derived structure5.96e-1195
ectoderm5.96e-1195
presumptive ectoderm5.96e-1195
ecto-epithelium2.82e-1073
neural tube9.83e-1052
neural rod9.83e-1052
future spinal cord9.83e-1052
neural keel9.83e-1052
raphe nuclei1.03e-093
reticular formation1.03e-093
regional part of brain8.73e-0946
brain1.39e-0847
future brain1.39e-0847
regional part of forebrain4.06e-0839
forebrain4.06e-0839
future forebrain4.06e-0839
structure with developmental contribution from neural crest6.61e-0892
anterior neural tube6.69e-0840
neurectoderm9.79e-0864
neural plate9.79e-0864
presumptive neural plate9.79e-0864


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)
MA0003.10.0185483
MA0004.10.603793
MA0006.10.419915
MA0007.10.587678
MA0009.11.06266
MA0014.10.187732
MA0017.10.449113
MA0019.10.874061
MA0024.11.01759
MA0025.11.30092
MA0027.12.72141
MA0028.10.43138
MA0029.10.995171
MA0030.11.00195
MA0031.10.965177
MA0038.10.757669
MA0040.11.07552
MA0041.10.522007
MA0042.10.507715
MA0043.11.1618
MA0046.11.09955
MA0048.10.205696
MA0050.10.645342
MA0051.10.767098
MA0052.11.08379
MA0055.10.28842
MA0056.10
MA0057.10.562607
MA0058.10.50032
MA0059.10.513699
MA0060.10.330907
MA0061.10.364227
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.13.20872
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.12.41915
MA0073.110.5963
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.10.453686
MA0089.10
MA0090.11.39153
MA0091.10.617887
MA0092.10.567278
MA0093.10.440484
MA0095.10
MA0098.10
MA0100.10.695835
MA0101.10.523409
MA0103.11.16573
MA0105.10.248108
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.361633
MA0115.11.16466
MA0116.10.419688
MA0117.11.13165
MA0119.13.29951
MA0122.11.15196
MA0124.11.35963
MA0125.11.28445
MA0130.10
MA0131.10.869325
MA0132.10
MA0133.10
MA0135.11.19898
MA0136.10.729175
MA0139.12.22941
MA0140.10.695713
MA0141.10.482463
MA0142.10.950155
MA0143.10.797553
MA0144.10.365053
MA0145.10.476962
MA0146.10.21827
MA0147.10.986917
MA0148.10.621195
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.20.0511423
MA0138.20.861035
MA0002.20.299191
MA0137.20.479301
MA0104.20.845917
MA0047.20.75686
MA0112.20.157681
MA0065.20.158101
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.11.11105
MA0155.11.57585
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.10.389847
MA0160.10.624415
MA0161.10
MA0162.10.245828
MA0163.10.230013
MA0164.10.729558
MA0080.20.455167
MA0018.21.75252
MA0099.20.854449
MA0079.20.30932
MA0102.21.79669
MA0258.10.346619
MA0259.10.366802
MA0442.10
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