MCL coexpression mm9:114: Difference between revisions
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|ontology_enrichment_uberon=UBERON:0002410!1.69e-11!9;UBERON:0000010!7.89e-09!11 | |ontology_enrichment_uberon=UBERON:0002410!1.69e-11!9;UBERON:0000010!7.89e-09!11 | ||
|tfbs_overrepresentation_for_novel_motifs=0.823089,0.11892,0.901403,0.253509,0.595287,0.285608,0.529848,0.0381813,0.468485,0.311386,0.852989,0.493498,1.60203,0.358829,0.1129,0,0.132965,0.894084,1.58914,1.03164,0.507016,0.150306,0.0919583,0.21864,1.205,0.115484,0.143493,2.38667,1.93904,0.158137,0.919726,0.0611185,0.398859,0.557958,0.184042,3.70031e-05,0.482686,0.298723,1.42012,0.00131057,0.73731,1.23463,0.234862,0.00507236,0.410486,0.12897,1.34149,1.74668,0.118573,0.10299,0.120207,0.49081,0.414514,0.377161,0.126763,0.0983013,1.22194,0.280204,0.236878,1.1564,0.774893,0.303207,0.157377,0.271689,0.401058,0.330798,0.584471,0.453804,0.196908,0.339159,0.590239,0.338099,0.241142,0.143739,0.101007,0.1638,0.0357479,1.28597,0.0494978,1.158,0.579908,0.146348,0.148641,0.13806,0.0898275,0.0288511,0.0728836,0.158681,0.211298,0.590407,0.688496,0.306877,0.232886,0.157678,2.74401,0.373394,0.791185,0.0664233,0.0806598,1.00266,0.994386,0.47893,0.355909,0.12063,0.119881,0.694863,0.166333,0.217988,0.163644,0.902938,1.02289,0.35806,0.714763,0.625573,0.250799,0.560541,0.0387804,0.412485,1.30275,0.0301334,0.449225,0.459569,2.53696,1.6903,0.287754,0.188896,0.194538,0.0631364,0.200986,1.0362,0.102592,0.238071,0.539935,0.038184,0.265314,0.0755344,0.0171977,0.0940833,0.657304,0.925803,0.562883,0.204783,0.457522,0.498333,0.115334,0.184187,0.0822886,0.888527,0.658274,0.228438,0.11872,0.0724579,0.3791,0.298153,0.230069,0.485274,0.288415,0.0771651,0.0897475,0.304432,0.671702,0.0894761,0.0507208,1.27489,0.507879,1.19499,0.166744,0.0738827,0.0245344 | |tfbs_overrepresentation_for_novel_motifs=0.823089,0.11892,0.901403,0.253509,0.595287,0.285608,0.529848,0.0381813,0.468485,0.311386,0.852989,0.493498,1.60203,0.358829,0.1129,0,0.132965,0.894084,1.58914,1.03164,0.507016,0.150306,0.0919583,0.21864,1.205,0.115484,0.143493,2.38667,1.93904,0.158137,0.919726,0.0611185,0.398859,0.557958,0.184042,3.70031e-05,0.482686,0.298723,1.42012,0.00131057,0.73731,1.23463,0.234862,0.00507236,0.410486,0.12897,1.34149,1.74668,0.118573,0.10299,0.120207,0.49081,0.414514,0.377161,0.126763,0.0983013,1.22194,0.280204,0.236878,1.1564,0.774893,0.303207,0.157377,0.271689,0.401058,0.330798,0.584471,0.453804,0.196908,0.339159,0.590239,0.338099,0.241142,0.143739,0.101007,0.1638,0.0357479,1.28597,0.0494978,1.158,0.579908,0.146348,0.148641,0.13806,0.0898275,0.0288511,0.0728836,0.158681,0.211298,0.590407,0.688496,0.306877,0.232886,0.157678,2.74401,0.373394,0.791185,0.0664233,0.0806598,1.00266,0.994386,0.47893,0.355909,0.12063,0.119881,0.694863,0.166333,0.217988,0.163644,0.902938,1.02289,0.35806,0.714763,0.625573,0.250799,0.560541,0.0387804,0.412485,1.30275,0.0301334,0.449225,0.459569,2.53696,1.6903,0.287754,0.188896,0.194538,0.0631364,0.200986,1.0362,0.102592,0.238071,0.539935,0.038184,0.265314,0.0755344,0.0171977,0.0940833,0.657304,0.925803,0.562883,0.204783,0.457522,0.498333,0.115334,0.184187,0.0822886,0.888527,0.658274,0.228438,0.11872,0.0724579,0.3791,0.298153,0.230069,0.485274,0.288415,0.0771651,0.0897475,0.304432,0.671702,0.0894761,0.0507208,1.27489,0.507879,1.19499,0.166744,0.0738827,0.0245344 | ||
|tfbs_overrepresentation_jaspar=MA0003.1;0.0220618,MA0004.1;1.36472,MA0006.1;0.373736,MA0007.1;0.124663,MA0009.1;0.246683,MA0014.1;0.0215709,MA0017.1;0.0212701,MA0019.1;0.236857,MA0024.1;0.203747,MA0025.1;0.533578,MA0027.1;1.40742,MA0028.1;0.0155343,MA0029.1;0.411574,MA0030.1;0.189803,MA0031.1;0.0409442,MA0038.1;0.115414,MA0040.1;1.40198,MA0041.1;0.20553,MA0042.1;0.178366,MA0043.1;0.354701,MA0046.1;0.0838239,MA0048.1;3.19388,MA0050.1;0.104999,MA0051.1;0.256344,MA0052.1;0.0778627,MA0055.1;0.722896,MA0056.1;0,MA0057.1;0.310336,MA0058.1;0.740648,MA0059.1;0.812562,MA0060.1;0.0413264,MA0061.1;0.12623,MA0063.1;0,MA0066.1;0.224843,MA0067.1;0.249953,MA0068.1;1.57842,MA0069.1;0.0779918,MA0070.1;2.52615,MA0071.1;0.104168,MA0072.1;0.532852,MA0073.1;0.434878,MA0074.1;0.173584,MA0076.1;0.0116286,MA0077.1;0.0636391,MA0078.1;0.530316,MA0081.1;0.370089,MA0083.1;1.18115,MA0084.1;0.498171,MA0087.1;0.303547,MA0088.1;0.216651,MA0089.1;0,MA0090.1;0.186492,MA0091.1;0.0813006,MA0092.1;0.871785,MA0093.1;1.00257,MA0095.1;0,MA0098.1;0,MA0100.1;0.973944,MA0101.1;0.0268535,MA0103.1;0.0559151,MA0105.1;0.518601,MA0106.1;0.0128657,MA0107.1;0.0231668,MA0108.2;0.110286,MA0109.1;0,MA0111.1;0.95129,MA0113.1;1.79141,MA0114.1;0.000229781,MA0115.1;0.358075,MA0116.1;0.0292137,MA0117.1;0.0967316,MA0119.1;0.122153,MA0122.1;0.343203,MA0124.1;0.215643,MA0125.1;0.510941,MA0130.1;0,MA0131.1;0.0211113,MA0132.1;0,MA0133.1;0,MA0135.1;0.796497,MA0136.1;0.0314373,MA0139.1;0.145142,MA0140.1;0.292336,MA0141.1;0.0748502,MA0142.1;2.3737,MA0143.1;1.48428,MA0144.1;1.71918,MA0145.1;0.218941,MA0146.1;0.0028202,MA0147.1;0.33242,MA0148.1;0.03364,MA0149.1;0.00027729,MA0062.2;0.00221526,MA0035.2;0.0735761,MA0039.2;0.0551613,MA0138.2;0.422833,MA0002.2;0.402706,MA0137.2;0.829335,MA0104.2;0.199912,MA0047.2;0.0403056,MA0112.2;0.0273753,MA0065.2;0.0101175,MA0150.1;0.124519,MA0151.1;0,MA0152.1;0.655404,MA0153.1;0.135331,MA0154.1;0.706474,MA0155.1;0.499318,MA0156.1;0.0626596,MA0157.1;0.029886,MA0158.1;0,MA0159.1;0.115015,MA0160.1;0.0348706,MA0161.1;0,MA0162.1;0.00535394,MA0163.1;0.0111803,MA0164.1;0.201648,MA0080.2;0.00888598,MA0018.2;0.382925,MA0099.2;0.0841379,MA0079.2;0.0138257,MA0102.2;0.542325,MA0258.1;0.149508,MA0259.1;0.288422,MA0442.1;0 | |||
}} | }} |
Revision as of 11:12, 23 January 2013
Phase1 CAGE Peaks
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 ID | GO name | FDR corrected p-value |
---|---|---|
GO:0035094 | response to nicotine | 5.90605161753699e-05 |
GO:0007271 | synaptic transmission, cholinergic | 0.000203216950164617 |
GO:0004889 | nicotinic acetylcholine-activated cation-selective channel activity | 0.000203216950164617 |
GO:0014070 | response to organic cyclic substance | 0.000227052508675745 |
GO:0043279 | response to alkaloid | 0.000227052508675745 |
GO:0005230 | extracellular ligand-gated ion channel activity | 0.000254806426551577 |
GO:0060084 | synaptic transmission involved in micturition | 0.000452052441777918 |
GO:0015276 | ligand-gated ion channel activity | 0.000452052441777918 |
GO:0022834 | ligand-gated channel activity | 0.000452052441777918 |
GO:0030594 | neurotransmitter receptor activity | 0.000466777603105592 |
GO:0042165 | neurotransmitter binding | 0.000466777603105592 |
GO:0010033 | response to organic substance | 0.000501887345624438 |
GO:0035095 | behavioral response to nicotine | 0.000798053674773339 |
GO:0060073 | micturition | 0.000798053674773339 |
GO:0045211 | postsynaptic membrane | 0.000798053674773339 |
GO:0044456 | synapse part | 0.0010976946821783 |
GO:0005231 | excitatory extracellular ligand-gated ion channel activity | 0.0010976946821783 |
GO:0005892 | nicotinic acetylcholine-gated receptor-channel complex | 0.00284133150154998 |
GO:0004714 | transmembrane receptor protein tyrosine kinase activity | 0.00316725798069038 |
GO:0007274 | neuromuscular synaptic transmission | 0.00441938523556918 |
GO:0019199 | transmembrane receptor protein kinase activity | 0.00465758495744733 |
GO:0003014 | renal system process | 0.00468260819794851 |
GO:0003012 | muscle system process | 0.00595660893513175 |
GO:0006936 | muscle contraction | 0.00595660893513175 |
GO:0006940 | regulation of smooth muscle contraction | 0.006140218008909 |
GO:0043565 | sequence-specific DNA binding | 0.00933951148039214 |
GO:0001755 | neural crest cell migration | 0.0105141501010203 |
GO:0022836 | gated channel activity | 0.0119428038023244 |
GO:0006939 | smooth muscle contraction | 0.0125377475929431 |
GO:0001657 | ureteric bud development | 0.0172385332321902 |
GO:0014032 | neural crest cell development | 0.0172385332321902 |
GO:0014033 | neural crest cell differentiation | 0.0172385332321902 |
GO:0006937 | regulation of muscle contraction | 0.0177771087471225 |
GO:0003700 | transcription factor activity | 0.0182128430608801 |
GO:0009653 | anatomical structure morphogenesis | 0.0182128430608801 |
GO:0017065 | single-strand selective uracil DNA N-glycosylase activity | 0.0182128430608801 |
GO:0001600 | endothelin-B receptor activity | 0.0182128430608801 |
GO:0042737 | drug catabolic process | 0.0182128430608801 |
GO:0007497 | posterior midgut development | 0.0182128430608801 |
GO:0047276 | N-acetyllactosaminide 3-alpha-galactosyltransferase activity | 0.0182128430608801 |
GO:0042738 | exogenous drug catabolic process | 0.0182128430608801 |
GO:0014031 | mesenchymal cell development | 0.0190338594545024 |
GO:0048762 | mesenchymal cell differentiation | 0.0190338594545024 |
GO:0004713 | protein-tyrosine kinase activity | 0.0206593250905961 |
GO:0042391 | regulation of membrane potential | 0.0206593250905961 |
GO:0005216 | ion channel activity | 0.0206593250905961 |
GO:0048856 | anatomical structure development | 0.0206593250905961 |
GO:0050801 | ion homeostasis | 0.021741001755456 |
GO:0022838 | substrate specific channel activity | 0.021741001755456 |
GO:0001656 | metanephros development | 0.021741001755456 |
GO:0022803 | passive transmembrane transporter activity | 0.0240694773202363 |
GO:0015267 | channel activity | 0.0240694773202363 |
GO:0030054 | cell junction | 0.0240694773202363 |
GO:0048731 | system development | 0.0240694773202363 |
GO:0004844 | uracil DNA N-glycosylase activity | 0.0240694773202363 |
GO:0007171 | transmembrane receptor protein tyrosine kinase activation (dimerization) | 0.0240694773202363 |
GO:0051926 | negative regulation of calcium ion transport | 0.0240694773202363 |
GO:0004962 | endothelin receptor activity | 0.0240694773202363 |
GO:0003708 | retinoic acid receptor activity | 0.0240694773202363 |
GO:0014056 | regulation of acetylcholine secretion | 0.0240694773202363 |
GO:0007494 | midgut development | 0.0240694773202363 |
GO:0014055 | acetylcholine secretion | 0.0240694773202363 |
GO:0031981 | nuclear lumen | 0.0244049524193499 |
GO:0007268 | synaptic transmission | 0.0244085965294841 |
GO:0065007 | biological regulation | 0.0265736740763895 |
GO:0005667 | transcription factor complex | 0.0288895254695332 |
GO:0030534 | adult behavior | 0.0288938309675815 |
GO:0042221 | response to chemical stimulus | 0.0288938309675815 |
GO:0048878 | chemical homeostasis | 0.0288938309675815 |
GO:0006811 | ion transport | 0.0288938309675815 |
GO:0007275 | multicellular organismal development | 0.0296480129899384 |
GO:0004517 | nitric-oxide synthase activity | 0.0302262808074342 |
GO:0043267 | negative regulation of potassium ion transport | 0.0302262808074342 |
GO:0048484 | enteric nervous system development | 0.0302262808074342 |
GO:0050789 | regulation of biological process | 0.0313445092488392 |
GO:0019226 | transmission of nerve impulse | 0.0328830511673025 |
GO:0043233 | organelle lumen | 0.0328830511673025 |
GO:0031974 | membrane-enclosed lumen | 0.0328830511673025 |
GO:0043235 | receptor complex | 0.0345964800045106 |
GO:0007389 | pattern specification process | 0.0346587170262196 |
GO:0001822 | kidney development | 0.0346587170262196 |
GO:0002028 | regulation of sodium ion transport | 0.0359040941619587 |
GO:0043271 | negative regulation of ion transport | 0.0359040941619587 |
GO:0005261 | cation channel activity | 0.0364861394112969 |
GO:0001655 | urogenital system development | 0.0384936939922191 |
GO:0009887 | organ morphogenesis | 0.0404586346824031 |
GO:0043266 | regulation of potassium ion transport | 0.0404586346824031 |
GO:0051346 | negative regulation of hydrolase activity | 0.0404586346824031 |
GO:0000702 | oxidized base lesion DNA N-glycosylase activity | 0.0404586346824031 |
GO:0050773 | regulation of dendrite development | 0.0404586346824031 |
GO:0048814 | regulation of dendrite morphogenesis | 0.0404586346824031 |
GO:0017144 | drug metabolic process | 0.0404586346824031 |
GO:0007167 | enzyme linked receptor protein signaling pathway | 0.0427126089843394 |
GO:0032502 | developmental process | 0.0436375440710394 |
GO:0044451 | nucleoplasm part | 0.0437717283163608 |
GO:0048048 | embryonic eye morphogenesis | 0.0455429611551728 |
GO:0055012 | ventricular cardiac muscle cell differentiation | 0.0455429611551728 |
GO:0004396 | hexokinase activity | 0.0455429611551728 |
GO:0005615 | extracellular space | 0.0463548692610854 |
GO:0046873 | metal ion transmembrane transporter activity | 0.0470136409072034 |
GO:0005654 | nucleoplasm | 0.0483471950138859 |
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>
Ontology term | p-value | n |
---|---|---|
autonomic neuron | 1.69e-11 | 9 |
Ontology term | p-value | n |
---|---|---|
autonomic nervous system | 1.69e-11 | 9 |
peripheral nervous system | 7.89e-09 | 11 |
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) |
---|---|
MA0003.1 | 0.0220618 |
MA0004.1 | 1.36472 |
MA0006.1 | 0.373736 |
MA0007.1 | 0.124663 |
MA0009.1 | 0.246683 |
MA0014.1 | 0.0215709 |
MA0017.1 | 0.0212701 |
MA0019.1 | 0.236857 |
MA0024.1 | 0.203747 |
MA0025.1 | 0.533578 |
MA0027.1 | 1.40742 |
MA0028.1 | 0.0155343 |
MA0029.1 | 0.411574 |
MA0030.1 | 0.189803 |
MA0031.1 | 0.0409442 |
MA0038.1 | 0.115414 |
MA0040.1 | 1.40198 |
MA0041.1 | 0.20553 |
MA0042.1 | 0.178366 |
MA0043.1 | 0.354701 |
MA0046.1 | 0.0838239 |
MA0048.1 | 3.19388 |
MA0050.1 | 0.104999 |
MA0051.1 | 0.256344 |
MA0052.1 | 0.0778627 |
MA0055.1 | 0.722896 |
MA0056.1 | 0 |
MA0057.1 | 0.310336 |
MA0058.1 | 0.740648 |
MA0059.1 | 0.812562 |
MA0060.1 | 0.0413264 |
MA0061.1 | 0.12623 |
MA0063.1 | 0 |
MA0066.1 | 0.224843 |
MA0067.1 | 0.249953 |
MA0068.1 | 1.57842 |
MA0069.1 | 0.0779918 |
MA0070.1 | 2.52615 |
MA0071.1 | 0.104168 |
MA0072.1 | 0.532852 |
MA0073.1 | 0.434878 |
MA0074.1 | 0.173584 |
MA0076.1 | 0.0116286 |
MA0077.1 | 0.0636391 |
MA0078.1 | 0.530316 |
MA0081.1 | 0.370089 |
MA0083.1 | 1.18115 |
MA0084.1 | 0.498171 |
MA0087.1 | 0.303547 |
MA0088.1 | 0.216651 |
MA0089.1 | 0 |
MA0090.1 | 0.186492 |
MA0091.1 | 0.0813006 |
MA0092.1 | 0.871785 |
MA0093.1 | 1.00257 |
MA0095.1 | 0 |
MA0098.1 | 0 |
MA0100.1 | 0.973944 |
MA0101.1 | 0.0268535 |
MA0103.1 | 0.0559151 |
MA0105.1 | 0.518601 |
MA0106.1 | 0.0128657 |
MA0107.1 | 0.0231668 |
MA0108.2 | 0.110286 |
MA0109.1 | 0 |
MA0111.1 | 0.95129 |
MA0113.1 | 1.79141 |
MA0114.1 | 0.000229781 |
MA0115.1 | 0.358075 |
MA0116.1 | 0.0292137 |
MA0117.1 | 0.0967316 |
MA0119.1 | 0.122153 |
MA0122.1 | 0.343203 |
MA0124.1 | 0.215643 |
MA0125.1 | 0.510941 |
MA0130.1 | 0 |
MA0131.1 | 0.0211113 |
MA0132.1 | 0 |
MA0133.1 | 0 |
MA0135.1 | 0.796497 |
MA0136.1 | 0.0314373 |
MA0139.1 | 0.145142 |
MA0140.1 | 0.292336 |
MA0141.1 | 0.0748502 |
MA0142.1 | 2.3737 |
MA0143.1 | 1.48428 |
MA0144.1 | 1.71918 |
MA0145.1 | 0.218941 |
MA0146.1 | 0.0028202 |
MA0147.1 | 0.33242 |
MA0148.1 | 0.03364 |
MA0149.1 | 0.00027729 |
MA0062.2 | 0.00221526 |
MA0035.2 | 0.0735761 |
MA0039.2 | 0.0551613 |
MA0138.2 | 0.422833 |
MA0002.2 | 0.402706 |
MA0137.2 | 0.829335 |
MA0104.2 | 0.199912 |
MA0047.2 | 0.0403056 |
MA0112.2 | 0.0273753 |
MA0065.2 | 0.0101175 |
MA0150.1 | 0.124519 |
MA0151.1 | 0 |
MA0152.1 | 0.655404 |
MA0153.1 | 0.135331 |
MA0154.1 | 0.706474 |
MA0155.1 | 0.499318 |
MA0156.1 | 0.0626596 |
MA0157.1 | 0.029886 |
MA0158.1 | 0 |
MA0159.1 | 0.115015 |
MA0160.1 | 0.0348706 |
MA0161.1 | 0 |
MA0162.1 | 0.00535394 |
MA0163.1 | 0.0111803 |
MA0164.1 | 0.201648 |
MA0080.2 | 0.00888598 |
MA0018.2 | 0.382925 |
MA0099.2 | 0.0841379 |
MA0079.2 | 0.0138257 |
MA0102.2 | 0.542325 |
MA0258.1 | 0.149508 |
MA0259.1 | 0.288422 |
MA0442.1 | 0 |