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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0000073!3.35e-17!54;UBERON:0001049!1.91e-15!52;UBERON:0005068!1.91e-15!52;UBERON:0006241!1.91e-15!52;UBERON:0007135!1.91e-15!52;UBERON:0001017!1.11e-13!73;UBERON:0001016!6.16e-13!75;UBERON:0000064!1.09e-12!99;UBERON:0002020!1.89e-12!34;UBERON:0002370!1.90e-12!23;UBERON:0000974!1.90e-12!23;UBERON:0004807!1.90e-12!23;UBERON:0005058!1.90e-12!23;UBERON:0003351!1.90e-12!23;UBERON:0009113!1.90e-12!23;UBERON:0003295!1.90e-12!23;UBERON:0009722!1.90e-12!23;UBERON:0005562!1.90e-12!23;UBERON:0007690!1.90e-12!23;UBERON:0000955!3.90e-12!47;UBERON:0006238!3.90e-12!47;UBERON:0002021!6.93e-12!10;UBERON:0000411!6.93e-12!10;UBERON:0001950!6.93e-12!10;UBERON:0006562!1.21e-11!24;UBERON:0003408!1.21e-11!24;UBERON:0001557!1.21e-11!24;UBERON:0001042!1.21e-11!24;UBERON:0008814!1.21e-11!24;UBERON:0009145!1.21e-11!24;UBERON:0002616!1.28e-11!46;UBERON:0010371!3.04e-11!73;UBERON:0002346!6.52e-11!64;UBERON:0003075!6.52e-11!64;UBERON:0007284!6.52e-11!64;UBERON:0000063!7.25e-11!35;UBERON:0004121!1.37e-10!95;UBERON:0000924!1.37e-10!95;UBERON:0006601!1.37e-10!95;UBERON:0000072!1.31e-09!27;UBERON:0002619!1.65e-09!17;UBERON:0003528!2.23e-09!29;UBERON:0002791!2.23e-09!29;UBERON:0001893!2.23e-09!29;UBERON:0004177!2.44e-09!29;UBERON:0005057!2.44e-09!29;UBERON:0003080!2.80e-09!40;UBERON:0002780!1.10e-08!39;UBERON:0001890!1.10e-08!39;UBERON:0006240!1.10e-08!39;UBERON:0000119!4.76e-08!176;UBERON:0000956!5.75e-08!21;UBERON:0001869!5.75e-08!21;UBERON:0000203!5.75e-08!21;UBERON:0000483!7.07e-08!174;UBERON:0003076!8.41e-08!12;UBERON:0003057!8.41e-08!12
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.293744,0.529553,0.603273,0.406364,0.618805,0.715644,0.812379,0.836099,0.370407,1.60538,0.702872,0.300533,0.728641,0.424775,0,0.930881,0.397593,0.283802,0.545768,2.12626,0.44579,0.727684,0.404661,0.537749,0.757752,1.38127,0.641282,0.456327,1.20535,0.626183,1.03545,1.02297,0.253145,0.425309,0.20704,0.384813,0.699032,0.360612,0.328675,0.401916,0.631725,0.134724,0.426986,0.4934,0.591277,0.847828,0.658142,0.115788,0.459555,0.912738,0.786094,1.17664,1.18062,1.19842,0.73621,0.469329,0.689304,1.34464,0.734051,1.01481,0.796017,0.865544,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,0.509047,0.827208,0.152094,1.23259,0.257421,0.245132,3.68491,0.835925,0.997094,0.494135,0.830212,0.948899,0.794502,0.293164,1.1148,0.0793594,0.0882907,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.937248,0.3366,0.297538,1.05152,0.848095,3.27181,1.00062,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.0998646,0.607321,0.932233,1.75823,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,1.06895,1.14546,0.595426,1.3055,0.750642,1.43666,1.398,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.230371,0.133815,1.18223,0.343194,1.77291,1.26545,0.787153,0.438007,0.555203,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,0.0513167
|tfbs_overrepresentation_jaspar=MA0003.1;0.211284,MA0004.1;1.46913,MA0006.1;0.419915,MA0007.1;0.587678,MA0009.1;1.06266,MA0014.1;0.0502051,MA0017.1;1.14026,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;0.602741,MA0056.1;0,MA0057.1;0.192781,MA0058.1;2.16203,MA0059.1;3.25322,MA0060.1;0.330907,MA0061.1;0.955135,MA0063.1;0,MA0066.1;0.746072,MA0067.1;1.41352,MA0068.1;0.197245,MA0069.1;1.08414,MA0070.1;1.07418,MA0071.1;0.644448,MA0072.1;1.06547,MA0073.1;0.00450236,MA0074.1;0.708108,MA0076.1;0.470037,MA0077.1;1.04318,MA0078.1;0.801834,MA0081.1;1.33193,MA0083.1;1.16099,MA0084.1;1.74401,MA0087.1;1.11687,MA0088.1;0.148348,MA0089.1;0,MA0090.1;0.566938,MA0091.1;1.4987,MA0092.1;0.567278,MA0093.1;1.12162,MA0095.1;0,MA0098.1;0,MA0100.1;0.695835,MA0101.1;0.523409,MA0103.1;1.16573,MA0105.1;0.693075,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;1.07655,MA0117.1;1.13165,MA0119.1;0.524046,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;0.295945,MA0140.1;0.695713,MA0141.1;0.482463,MA0142.1;0.950155,MA0143.1;0.797553,MA0144.1;0.365053,MA0145.1;0.157686,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;0.0102623,MA0138.2;0.861035,MA0002.2;0.299191,MA0137.2;0.479301,MA0104.2;0.845917,MA0047.2;0.75686,MA0112.2;2.12679,MA0065.2;0.477991,MA0150.1;0.587557,MA0151.1;0,MA0152.1;0.756973,MA0153.1;1.21594,MA0154.1;0.587595,MA0155.1;0.173445,MA0156.1;0.469089,MA0157.1;0.91689,MA0158.1;0,MA0159.1;1.01146,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;0.739807,MA0099.2;0.854449,MA0079.2;0.000313198,MA0102.2;1.79669,MA0258.1;2.47863,MA0259.1;1.71005,MA0442.1;0
}}

Latest revision as of 17:36, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr9:43854027..43854039,+p@chr9:43854027..43854039
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Mm9::chr9:43854710..43854736,+p@chr9:43854710..43854736
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Mm9::chr9:43854921..43854932,+p@chr9:43854921..43854932
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Mm9::chr9:43854953..43854967,+p@chr9:43854953..43854967
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Mm9::chr9:43855567..43855579,+p@chr9:43855567..43855579
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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>

Cell Type
Ontology termp-valuen
T cell3.00e-0811
pro-T cell3.00e-0811
mature alpha-beta T cell1.92e-079
alpha-beta T cell1.92e-079
immature T cell1.92e-079
mature T cell1.92e-079
immature alpha-beta T cell1.92e-079
lymphoid lineage restricted progenitor cell2.66e-0712

Uber Anatomy
Ontology termp-valuen
regional part of nervous system3.35e-1754
neural tube1.91e-1552
neural rod1.91e-1552
future spinal cord1.91e-1552
neural keel1.91e-1552
central nervous system1.11e-1373
nervous system6.16e-1375
organ part1.09e-1299
gray matter1.89e-1234
thymus1.90e-1223
neck1.90e-1223
respiratory system epithelium1.90e-1223
hemolymphoid system gland1.90e-1223
pharyngeal epithelium1.90e-1223
thymic region1.90e-1223
pharyngeal gland1.90e-1223
entire pharyngeal arch endoderm1.90e-1223
thymus primordium1.90e-1223
early pharyngeal endoderm1.90e-1223
brain3.90e-1247
future brain3.90e-1247
occipital lobe6.93e-1210
visual cortex6.93e-1210
neocortex6.93e-1210
pharynx1.21e-1124
gland of gut1.21e-1124
upper respiratory tract1.21e-1124
chordate pharynx1.21e-1124
pharyngeal arch system1.21e-1124
pharyngeal region of foregut1.21e-1124
regional part of brain1.28e-1146
ecto-epithelium3.04e-1173
neurectoderm6.52e-1164
neural plate6.52e-1164
presumptive neural plate6.52e-1164
organ segment7.25e-1135
ectoderm-derived structure1.37e-1095
ectoderm1.37e-1095
presumptive ectoderm1.37e-1095
segment of respiratory tract1.31e-0927
regional part of cerebral cortex1.65e-0917
brain grey matter2.23e-0929
regional part of telencephalon2.23e-0929
telencephalon2.23e-0929
hemopoietic organ2.44e-0929
immune organ2.44e-0929
anterior neural tube2.80e-0940
regional part of forebrain1.10e-0839
forebrain1.10e-0839
future forebrain1.10e-0839
cell layer4.76e-08176
cerebral cortex5.75e-0821
cerebral hemisphere5.75e-0821
pallium5.75e-0821
epithelium7.07e-08174
posterior neural tube8.41e-0812
chordal neural plate8.41e-0812


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)
MA0003.10.211284
MA0004.11.46913
MA0006.10.419915
MA0007.10.587678
MA0009.11.06266
MA0014.10.0502051
MA0017.11.14026
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
MA0055.10.602741
MA0056.10
MA0057.10.192781
MA0058.12.16203
MA0059.13.25322
MA0060.10.330907
MA0061.10.955135
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.10.00450236
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.11.33193
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.10.148348
MA0089.10
MA0090.10.566938
MA0091.11.4987
MA0092.10.567278
MA0093.11.12162
MA0095.10
MA0098.10
MA0100.10.695835
MA0101.10.523409
MA0103.11.16573
MA0105.10.693075
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.361633
MA0115.11.16466
MA0116.11.07655
MA0117.11.13165
MA0119.10.524046
MA0122.11.15196
MA0124.11.35963
MA0125.11.28445
MA0130.10
MA0131.10.869325
MA0132.10
MA0133.10
MA0135.11.19898
MA0136.10.729175
MA0139.10.295945
MA0140.10.695713
MA0141.10.482463
MA0142.10.950155
MA0143.10.797553
MA0144.10.365053
MA0145.10.157686
MA0146.10.21827
MA0147.10.986917
MA0148.10.621195
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.20.0102623
MA0138.20.861035
MA0002.20.299191
MA0137.20.479301
MA0104.20.845917
MA0047.20.75686
MA0112.22.12679
MA0065.20.477991
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.10.587595
MA0155.10.173445
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.11.01146
MA0160.10.624415
MA0161.10
MA0162.10.245828
MA0163.10.230013
MA0164.10.729558
MA0080.20.455167
MA0018.20.739807
MA0099.20.854449
MA0079.20.000313198
MA0102.21.79669
MA0258.12.47863
MA0259.11.71005
MA0442.10
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