MCL coexpression mm9:825: Difference between revisions
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{{MCL_coexpression_mm9| | 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during locomotory behavior;0.00552222860125881;76524!GO:0045851;pH reduction;0.00552222860125881;76524!GO:0051452;cellular pH reduction;0.00552222860125881;76524!GO:0051453;regulation of cellular pH;0.00552222860125881;76524!GO:0007042;lysosomal lumen acidification;0.00552222860125881;76524!GO:0030641;cellular hydrogen ion homeostasis;0.00591651141402709;76524!GO:0006907;pinocytosis;0.00591651141402709;13132!GO:0045862;positive regulation of proteolysis;0.00862777305743479;76524!GO:0055067;monovalent inorganic cation homeostasis;0.0092022015204295;76524!GO:0030004;cellular monovalent inorganic cation homeostasis;0.0092022015204295;76524!GO:0001573;ganglioside metabolic process;0.0092022015204295;76524!GO:0005788;endoplasmic reticulum lumen;0.0092022015204295;76524!GO:0006687;glycosphingolipid metabolic process;0.010617342979341;76524!GO:0030162;regulation of proteolysis;0.0119174408521997;76524!GO:0007588;excretion;0.0119174408521997;13132!GO:0007040;lysosome organization and biogenesis;0.0119174408521997;76524!GO:0006664;glycolipid metabolic process;0.0119174408521997;76524!GO:0006898;receptor-mediated endocytosis;0.0119174408521997;13132!GO:0006885;regulation of pH;0.0119174408521997;76524!GO:0006022;aminoglycan metabolic process;0.0119174408521997;76524!GO:0030203;glycosaminoglycan metabolic process;0.0119174408521997;76524!GO:0007033;vacuole organization and biogenesis;0.0119174408521997;76524!GO:0006672;ceramide metabolic process;0.0137976292243873;76524!GO:0046519;sphingoid metabolic process;0.01437174251759;76524!GO:0005905;coated pit;0.0171053084570357;13132!GO:0006665;sphingolipid metabolic process;0.0222768700319768;76524!GO:0008203;cholesterol metabolic process;0.0326687356933175;76524!GO:0016125;sterol metabolic process;0.0337359571224111;76524!GO:0051247;positive regulation of protein metabolic process;0.0337359571224111;76524!GO:0044432;endoplasmic reticulum part;0.0367361909616291;76524!GO:0003008;system process;0.0408793113802752;13132,76524!GO:0042803;protein homodimerization activity;0.0424400708242353;76524!GO:0030003;cellular cation homeostasis;0.0424400708242353;76524!GO:0055080;cation homeostasis;0.0424400708242353;76524!GO:0007601;visual perception;0.0424400708242353;76524!GO:0050953;sensory perception of light stimulus;0.0424400708242353;76524!GO:0001701;in utero embryonic development;0.044259385893427;13132!GO:0008202;steroid metabolic process;0.0493293550094;76524!GO:0055082;cellular chemical homeostasis;0.0493293550094;76524!GO:0006873;cellular ion homeostasis;0.0493293550094;76524!GO:0016043;cellular component organization and biogenesis;0.0493293550094;13132,76524!GO:0006643;membrane lipid metabolic process;0.0494317164474651;76524!|ontology_enrichment_celltype=|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0006554!5.73e-07!18|tfbs_overrepresentation_for_novel_motifs=0.354643,0.433653,0.330161,1.8057,0.645379,0.40827,0.495658,0.448965,0.468136,0.314043,0.453212,0.484001,0.146657,0.507558,0.680035,0,0.696644,0.22065,1.94334,0.247067,0.802917,0.713323,0.50668,0.226287,0.337218,0.534339,0.128175,0.428336,0.268347,0.0963992,0.414842,0.796599,0.218674,0.113369,0.242923,0.137663,0.210533,0.480503,0.559915,0.500908,0.224094,0.419787,1.46325,0.244285,0.059071,0.383899,0.618203,0.443479,1.30029,0.745859,0.679429,0.560572,0.30602,0.937018,0.954342,0.514504,0.764433,0.471658,0.384731,0.512521,0.776777,0.569793,0.492158,0.668331,0.525334,0.708248,1.08987,1.43807,0.772155,1.29123,0.31262,0.460931,0.0512949,0.987652,0.371787,0.107966,0.364033,0.607043,0.759798,0.81171,0.152219,0.713779,0.568383,0.436063,0.873141,0.0800961,0.0211263,0.0965007,0.623015,1.60001,1.15927,0.878077,0.809272,0.232894,0.188213,0.17334,0.871972,0.812053,0.618454,0.0816605,0.605162,0.796322,0.919715,0.680015,0.678976,0.419366,0.737915,0.439611,0.30446,0.297733,0.348012,0.921485,0.814064,0.458194,1.16629,0.222515,0.0259088,0.398075,0.697928,1.12703,0.993019,0.647706,0.536114,0.606154,1.22022,0.763454,0.503569,0.802564,1.08836,0.235546,0.90286,0.387557,1.05894,0.527782,1.18781,0.0467191,0.362565,0.421136,1.13883,1.96797,1.5682,1.09456,0.547855,0.806961,0.672593,0.420221,0.621266,1.92834,0.956381,0.229209,0.098204,0.041769,0.938577,0.527659,0.526881,1.01974,0.561556,0.253271,0.352329,0.362302,1.1483,0.872292,0.763895,0.345891,0.669337,0.519673,0.209556,0.482466,0.254444|tfbs_overrepresentation_jaspar=MA0003.1;0.0854318,MA0004.1;0.394951,MA0006.1;0.238555,MA0007.1;0.38073,MA0009.1;0.82278,MA0014.1;0.00813637,MA0017.1;0.726051,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;0.311486,MA0043.1;0.918718,MA0046.1;0.858391,MA0048.1;0.0824771,MA0050.1;1.10321,MA0051.1;0.542972,MA0052.1;0.84317,MA0055.1;0.0198867,MA0056.1;0,MA0057.1;0.549903,MA0058.1;0.305206,MA0059.1;0.316585,MA0060.1;0.169058,MA0061.1;0.56663,MA0063.1;0,MA0066.1;1.29967,MA0067.1;1.16502,MA0068.1;0.266547,MA0069.1;0.843506,MA0070.1;0.833895,MA0071.1;1.10147,MA0072.1;1.92922,MA0073.1;0.000250057,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;0.18495,MA0089.1;0,MA0090.1;0.362551,MA0091.1;1.04993,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;0.561811,MA0115.1;0.921497,MA0116.1;0.238371,MA0117.1;0.88947,MA0119.1;0.325434,MA0122.1;2.10074,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;0.195095,MA0145.1;0.442138,MA0146.1;0.0111657,MA0147.1;0.205697,MA0148.1;0.410398,MA0149.1;0.330018,MA0062.2;0.113962,MA0035.2;0.482026,MA0039.2;0.000502396,MA0138.2;0.630612,MA0002.2;0.145685,MA0137.2;0.287486,MA0104.2;0.157347,MA0047.2;0.533516,MA0112.2;0.200175,MA0065.2;0.44341,MA0150.1;0.991233,MA0151.1;0,MA0152.1;0.53362,MA0153.1;0.971406,MA0154.1;0.982083,MA0155.1;0.490492,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;0.0600297,MA0164.1;0.508398,MA0080.2;0.267388,MA0018.2;0.51781,MA0099.2;0.624421,MA0079.2;0.000240419,MA0102.2;1.5442,MA0258.1;0.180934,MA0259.1;0.196451,MA0442.1;0}} | ||
Latest revision as of 15:57, 17 September 2013
Phase1 CAGE Peaks
| Short description | |
|---|---|
| Mm9::chr15:6336759..6336785,+ | p1@Dab2 |
| Mm9::chr15:6372301..6372327,+ | p@chr15:6372301..6372327 + |
| Mm9::chr15:6374201..6374212,+ | p@chr15:6374201..6374212 + |
| Mm9::chr15:6374660..6374664,+ | p@chr15:6374660..6374664 + |
| Mm9::chr15:6385332..6385355,- | p@chr15:6385332..6385355 - |
| Mm9::chr15:6385439..6385449,+ | p@chr15:6385439..6385449 + |
| Mm9::chr15:6389228..6389240,+ | p@chr15:6389228..6389240 + |
| Mm9::chr9:62692398..62692419,+ | p6@Cln6 |
| Mm9::chr9:62693807..62693811,+ | p8@Cln6 |
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:0031987 | locomotion during locomotory behavior | 0.00552222860125881 |
| GO:0045851 | pH reduction | 0.00552222860125881 |
| GO:0051452 | cellular pH reduction | 0.00552222860125881 |
| GO:0051453 | regulation of cellular pH | 0.00552222860125881 |
| GO:0007042 | lysosomal lumen acidification | 0.00552222860125881 |
| GO:0030641 | cellular hydrogen ion homeostasis | 0.00591651141402709 |
| GO:0006907 | pinocytosis | 0.00591651141402709 |
| GO:0045862 | positive regulation of proteolysis | 0.00862777305743479 |
| GO:0055067 | monovalent inorganic cation homeostasis | 0.0092022015204295 |
| GO:0030004 | cellular monovalent inorganic cation homeostasis | 0.0092022015204295 |
| GO:0001573 | ganglioside metabolic process | 0.0092022015204295 |
| GO:0005788 | endoplasmic reticulum lumen | 0.0092022015204295 |
| GO:0006687 | glycosphingolipid metabolic process | 0.010617342979341 |
| GO:0030162 | regulation of proteolysis | 0.0119174408521997 |
| GO:0007588 | excretion | 0.0119174408521997 |
| GO:0007040 | lysosome organization and biogenesis | 0.0119174408521997 |
| GO:0006664 | glycolipid metabolic process | 0.0119174408521997 |
| GO:0006898 | receptor-mediated endocytosis | 0.0119174408521997 |
| GO:0006885 | regulation of pH | 0.0119174408521997 |
| GO:0006022 | aminoglycan metabolic process | 0.0119174408521997 |
| GO:0030203 | glycosaminoglycan metabolic process | 0.0119174408521997 |
| GO:0007033 | vacuole organization and biogenesis | 0.0119174408521997 |
| GO:0006672 | ceramide metabolic process | 0.0137976292243873 |
| GO:0046519 | sphingoid metabolic process | 0.01437174251759 |
| GO:0005905 | coated pit | 0.0171053084570357 |
| GO:0006665 | sphingolipid metabolic process | 0.0222768700319768 |
| GO:0008203 | cholesterol metabolic process | 0.0326687356933175 |
| GO:0016125 | sterol metabolic process | 0.0337359571224111 |
| GO:0051247 | positive regulation of protein metabolic process | 0.0337359571224111 |
| GO:0044432 | endoplasmic reticulum part | 0.0367361909616291 |
| GO:0003008 | system process | 0.0408793113802752 |
| GO:0042803 | protein homodimerization activity | 0.0424400708242353 |
| GO:0030003 | cellular cation homeostasis | 0.0424400708242353 |
| GO:0055080 | cation homeostasis | 0.0424400708242353 |
| GO:0007601 | visual perception | 0.0424400708242353 |
| GO:0050953 | sensory perception of light stimulus | 0.0424400708242353 |
| GO:0001701 | in utero embryonic development | 0.044259385893427 |
| GO:0008202 | steroid metabolic process | 0.0493293550094 |
| GO:0055082 | cellular chemical homeostasis | 0.0493293550094 |
| GO:0006873 | cellular ion homeostasis | 0.0493293550094 |
| GO:0016043 | cellular component organization and biogenesis | 0.0493293550094 |
| GO:0006643 | membrane lipid metabolic process | 0.0494317164474651 |
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>
| Ontology term | p-value | n |
|---|---|---|
| urinary system structure | 5.73e-07 | 18 |
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 | 0.0854318 |
| MA0004.1 | 0.394951 |
| MA0006.1 | 0.238555 |
| MA0007.1 | 0.38073 |
| MA0009.1 | 0.82278 |
| MA0014.1 | 0.00813637 |
| MA0017.1 | 0.726051 |
| 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 | 0.311486 |
| MA0043.1 | 0.918718 |
| MA0046.1 | 0.858391 |
| MA0048.1 | 0.0824771 |
| MA0050.1 | 1.10321 |
| MA0051.1 | 0.542972 |
| MA0052.1 | 0.84317 |
| MA0055.1 | 0.0198867 |
| MA0056.1 | 0 |
| MA0057.1 | 0.549903 |
| MA0058.1 | 0.305206 |
| MA0059.1 | 0.316585 |
| MA0060.1 | 0.169058 |
| MA0061.1 | 0.56663 |
| MA0063.1 | 0 |
| MA0066.1 | 1.29967 |
| MA0067.1 | 1.16502 |
| MA0068.1 | 0.266547 |
| MA0069.1 | 0.843506 |
| MA0070.1 | 0.833895 |
| MA0071.1 | 1.10147 |
| MA0072.1 | 1.92922 |
| MA0073.1 | 0.000250057 |
| 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 | 0.18495 |
| MA0089.1 | 0 |
| MA0090.1 | 0.362551 |
| MA0091.1 | 1.04993 |
| 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 | 0.561811 |
| MA0115.1 | 0.921497 |
| MA0116.1 | 0.238371 |
| MA0117.1 | 0.88947 |
| MA0119.1 | 0.325434 |
| MA0122.1 | 2.10074 |
| 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 | 0.195095 |
| MA0145.1 | 0.442138 |
| MA0146.1 | 0.0111657 |
| MA0147.1 | 0.205697 |
| MA0148.1 | 0.410398 |
| MA0149.1 | 0.330018 |
| MA0062.2 | 0.113962 |
| MA0035.2 | 0.482026 |
| MA0039.2 | 0.000502396 |
| MA0138.2 | 0.630612 |
| MA0002.2 | 0.145685 |
| MA0137.2 | 0.287486 |
| MA0104.2 | 0.157347 |
| MA0047.2 | 0.533516 |
| MA0112.2 | 0.200175 |
| MA0065.2 | 0.44341 |
| MA0150.1 | 0.991233 |
| MA0151.1 | 0 |
| MA0152.1 | 0.53362 |
| MA0153.1 | 0.971406 |
| MA0154.1 | 0.982083 |
| MA0155.1 | 0.490492 |
| 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 | 0.0600297 |
| MA0164.1 | 0.508398 |
| MA0080.2 | 0.267388 |
| MA0018.2 | 0.51781 |
| MA0099.2 | 0.624421 |
| MA0079.2 | 0.000240419 |
| MA0102.2 | 1.5442 |
| MA0258.1 | 0.180934 |
| MA0259.1 | 0.196451 |
| MA0442.1 | 0 |
