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MCL coexpression mm9:2589: Difference between revisions

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{{MCL_coexpression_mm9
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part;0.0141976823458055;30055,64660!GO:0005744;mitochondrial inner membrane presequence translocase complex;0.0141976823458055;30055!GO:0006626;protein targeting to mitochondrion;0.0141976823458055;30055!GO:0000314;organellar small ribosomal subunit;0.0141976823458055;64660!GO:0005763;mitochondrial small ribosomal subunit;0.0141976823458055;64660!GO:0015450;P-P-bond-hydrolysis-driven protein transmembrane transporter activity;0.0164771950779731;30055!GO:0022884;macromolecule transmembrane transporter activity;0.0164771950779731;30055!GO:0008320;protein transmembrane transporter activity;0.0205562383033736;30055!GO:0006839;mitochondrial transport;0.0205562383033736;30055!GO:0005739;mitochondrion;0.0205562383033736;30055,64660!GO:0015935;small ribosomal subunit;0.0241860070486766;64660!GO:0000313;organellar ribosome;0.0272792962298164;64660!GO:0005761;mitochondrial ribosome;0.0272792962298164;64660!GO:0044455;mitochondrial membrane part;0.027860796073819;30055!GO:0031980;mitochondrial 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|gostat_on_MCL_coexpression=GO:0044429;mitochondrial part;0.0141976823458055;30055,64660!GO:0005744;mitochondrial inner membrane presequence translocase complex;0.0141976823458055;30055!GO:0006626;protein targeting to mitochondrion;0.0141976823458055;30055!GO:0000314;organellar small ribosomal subunit;0.0141976823458055;64660!GO:0005763;mitochondrial small ribosomal subunit;0.0141976823458055;64660!GO:0015450;P-P-bond-hydrolysis-driven protein transmembrane transporter activity;0.0164771950779731;30055!GO:0022884;macromolecule transmembrane transporter activity;0.0164771950779731;30055!GO:0008320;protein transmembrane transporter activity;0.0205562383033736;30055!GO:0006839;mitochondrial transport;0.0205562383033736;30055!GO:0005739;mitochondrion;0.0205562383033736;30055,64660!GO:0015935;small ribosomal subunit;0.0241860070486766;64660!GO:0000313;organellar ribosome;0.0272792962298164;64660!GO:0005761;mitochondrial ribosome;0.0272792962298164;64660!GO:0044455;mitochondrial membrane part;0.027860796073819;30055!GO:0031980;mitochondrial lumen;0.0293573975194805;64660!GO:0005759;mitochondrial matrix;0.0293573975194805;64660!GO:0033279;ribosomal subunit;0.031240360603001;64660!GO:0043234;protein complex;0.031240360603001;30055,64660!GO:0007005;mitochondrion organization and biogenesis;0.031240360603001;30055!GO:0007605;sensory perception of sound;0.0407243909325758;30055!GO:0050954;sensory perception of mechanical stimulus;0.0408874067830024;30055!GO:0032991;macromolecular complex;0.0425634602071351;30055,64660!GO:0015399;primary active transmembrane transporter activity;0.0471700039905898;30055!GO:0015405;P-P-bond-hydrolysis-driven transmembrane transporter activity;0.0471700039905898;30055!GO:0008565;protein transporter activity;0.0474081102660598;30055!GO:0044446;intracellular organelle part;0.0474081102660598;30055,64660!GO:0044422;organelle part;0.0474081102660598;30055,64660!GO:0003735;structural constituent of ribosome;0.049237879306909;64660!GO:0005840;ribosome;0.0496636615416406;64660!
|ontology_enrichment_celltype=CL:0000548!1.04e-23!115;CL:0000255!1.04e-23!115;CL:0002371!1.40e-22!118;CL:0002321!6.42e-18!70;CL:0000066!3.68e-12!25;CL:0000723!5.86e-12!91;CL:0000048!5.86e-12!91;CL:0000034!2.12e-10!97;CL:0000223!2.15e-10!20;CL:0000055!9.54e-09!49;CL:0002076!1.29e-08!15;CL:0000219!3.17e-08!54;CL:0000221!2.25e-07!44;CL:0000133!2.25e-07!44;CL:0002319!3.29e-07!43
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000344!8.92e-07!15
|tfbs_overrepresentation_for_novel_motifs=1.77936,0.564138,0.722405,0.801166,0.587814,0.81763,0.919454,1.17946,0.479531,0.66329,0.870507,0.906098,0.467629,0.933025,0.608226,0,1.14208,0.578045,0.448066,0.328717,0.679146,0.756749,0.932027,0.585919,0.731217,0.963352,0.437236,0.841386,0.64294,0.380786,0.825437,1.24901,0.575271,0.411696,0.608816,0.144706,2.37023,0.902078,0.536514,0.50014,0.582863,0.831295,0.261619,0.610669,0.156582,1.85291,1.05665,0.859154,0.235354,0.646474,1.12346,0.99279,0.371606,1.3966,1.41464,0.940919,0.657156,0.891887,0.425455,0.938668,1.22795,1.00308,0.494668,1.11142,0.953187,1.15459,1.55483,1.90983,1.22303,1.7608,0.700291,0.474956,0.284975,1.44925,0.416814,0.402065,1.05896,1.04436,1.20986,0.684144,0.476502,1.16055,1.00151,0.459035,1.32978,1.02517,1.07971,0.380977,1.06194,2.07346,1.62608,1.33496,1.26245,0.595071,0.531443,0.509215,0.464141,1.26539,1.05692,0.352122,0.563856,1.24872,1.37854,1.12409,1.12297,0.830796,1.18646,0.854628,0.689894,0.681267,0.744607,1.38039,0.685481,0.876299,1.63327,0.580657,0.212464,0.805461,1.14346,0.559153,1.45481,1.08896,0.965352,1.04338,1.68841,1.21376,0.928483,1.25534,1.55328,0.598722,1.36093,0.792832,1.52297,0.955954,1.65529,0.273451,0.762499,0.832891,1.60513,2.44352,2.04137,1.55966,0.978551,1.26,1.11604,0.831808,1.06002,2.40374,1.80505,0.589976,0.38417,0.721422,1.39822,1.28513,0.954936,1.48249,0.993889,0.622823,0.749933,0.762177,1.61484,1.32889,1.21423,0.741984,1.11251,0.94678,0.562367,0.904334,0.135528
}}

Latest revision as of 18:46, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:80363494..80363564,-p1@Timm13
Mm9::chr11:5607661..5607711,-p1@Mrps24
Mm9::chr2:155969939..155969981,+p1@Romo1


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 IDGO nameFDR corrected p-value
GO:0044429mitochondrial part0.0141976823458055
GO:0005744mitochondrial inner membrane presequence translocase complex0.0141976823458055
GO:0006626protein targeting to mitochondrion0.0141976823458055
GO:0000314organellar small ribosomal subunit0.0141976823458055
GO:0005763mitochondrial small ribosomal subunit0.0141976823458055
GO:0015450P-P-bond-hydrolysis-driven protein transmembrane transporter activity0.0164771950779731
GO:0022884macromolecule transmembrane transporter activity0.0164771950779731
GO:0008320protein transmembrane transporter activity0.0205562383033736
GO:0006839mitochondrial transport0.0205562383033736
GO:0005739mitochondrion0.0205562383033736
GO:0015935small ribosomal subunit0.0241860070486766
GO:0000313organellar ribosome0.0272792962298164
GO:0005761mitochondrial ribosome0.0272792962298164
GO:0044455mitochondrial membrane part0.027860796073819
GO:0031980mitochondrial lumen0.0293573975194805
GO:0005759mitochondrial matrix0.0293573975194805
GO:0033279ribosomal subunit0.031240360603001
GO:0043234protein complex0.031240360603001
GO:0007005mitochondrion organization and biogenesis0.031240360603001
GO:0007605sensory perception of sound0.0407243909325758
GO:0050954sensory perception of mechanical stimulus0.0408874067830024
GO:0032991macromolecular complex0.0425634602071351
GO:0015399primary active transmembrane transporter activity0.0471700039905898
GO:0015405P-P-bond-hydrolysis-driven transmembrane transporter activity0.0471700039905898
GO:0008565protein transporter activity0.0474081102660598
GO:0044446intracellular organelle part0.0474081102660598
GO:0044422organelle part0.0474081102660598
GO:0003735structural constituent of ribosome0.049237879306909
GO:0005840ribosome0.0496636615416406



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
animal cell1.04e-23115
eukaryotic cell1.04e-23115
somatic cell1.40e-22118
embryonic cell6.42e-1870
epithelial cell3.68e-1225
somatic stem cell5.86e-1291
multi fate stem cell5.86e-1291
stem cell2.12e-1097
endodermal cell2.15e-1020
non-terminally differentiated cell9.54e-0949
endo-epithelial cell1.29e-0815
motile cell3.17e-0854
ectodermal cell2.25e-0744
neurectodermal cell2.25e-0744
neural cell3.29e-0743

Uber Anatomy
Ontology termp-valuen
mucosa8.92e-0715


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)
MA0003.10.245953
MA0004.10.801718
MA0006.10.60285
MA0007.10.784593
MA0009.11.27673
MA0014.10.416365
MA0017.11.5346
MA0019.11.08369
MA0024.11.23079
MA0025.11.51835
MA0027.12.9431
MA0028.11.49373
MA0029.11.20789
MA0030.11.21482
MA0031.11.17722
MA0038.10.963265
MA0040.11.28983
MA0041.10.714279
MA0042.10.69885
MA0043.11.3775
MA0046.11.31428
MA0048.10.353763
MA0050.10.845669
MA0051.10.973068
MA0052.11.29825
MA0055.10.190475
MA0056.10
MA0057.10.337566
MA0058.10.690848
MA0059.10.705317
MA0060.10.502699
MA0061.10.5406
MA0063.10
MA0066.10.951196
MA0067.11.63197
MA0068.10.908538
MA0069.11.29861
MA0070.11.28847
MA0071.10.844726
MA0072.11.2796
MA0073.10.680038
MA0074.10.911576
MA0076.12.67392
MA0077.11.2569
MA0078.11.0091
MA0081.10.732313
MA0083.11.37668
MA0084.11.96428
MA0087.11.33189
MA0088.12.98794
MA0089.10
MA0090.10.762482
MA0091.10.816659
MA0092.10.762845
MA0093.10.62555
MA0095.10
MA0098.10
MA0100.10.89873
MA0101.10.71579
MA0103.10.647985
MA0105.10.405648
MA0106.11.01755
MA0107.10.640607
MA0108.21.10817
MA0109.10
MA0111.10.778753
MA0113.10.986839
MA0114.11.3296
MA0115.11.38041
MA0116.10.602598
MA0117.11.34691
MA0119.10.716476
MA0122.11.36752
MA0124.11.57762
MA0125.11.5017
MA0130.10
MA0131.11.07881
MA0132.10
MA0133.10
MA0135.11.4152
MA0136.10.933582
MA0139.10.462282
MA0140.10.898603
MA0141.10.671467
MA0142.11.16183
MA0143.11.00467
MA0144.10.541532
MA0145.10.292366
MA0146.10.46063
MA0147.10.556853
MA0148.10.820161
MA0149.10.722227
MA0062.21.86813
MA0035.20.903829
MA0039.20.71803
MA0138.21.07027
MA0002.20.466067
MA0137.20.668025
MA0104.20.48458
MA0047.20.962424
MA0112.20.794478
MA0065.20.79573
MA0150.10.784464
MA0151.10
MA0152.10.962542
MA0153.11.43238
MA0154.10.35067
MA0155.10.312898
MA0156.10.656895
MA0157.11.12772
MA0158.10
MA0159.10.569393
MA0160.10.823568
MA0161.10
MA0162.10.166722
MA0163.10.477233
MA0164.10.933981
MA0080.20.64167
MA0018.20.944669
MA0099.21.06348
MA0079.20.0831329
MA0102.22.01714
MA0258.10.520639
MA0259.10.543506
MA0442.10
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