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MCL coexpression mm9:2374: Difference between revisions

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{{MCL_coexpression_mm9
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constituent of ribosome;1.44052928663171e-07;94061,74600,66223,64655!GO:0005840;ribosome;1.44052928663171e-07;94061,74600,66223,64655!GO:0000313;organellar ribosome;4.57523921296204e-07;94061,74600,64655!GO:0005761;mitochondrial ribosome;4.57523921296204e-07;94061,74600,64655!GO:0031980;mitochondrial lumen;7.22821904815425e-07;94061,74600,64655!GO:0005759;mitochondrial matrix;7.22821904815425e-07;94061,74600,64655!GO:0030529;ribonucleoprotein complex;2.29891456423958e-06;94061,74600,66223,64655!GO:0005739;mitochondrion;3.7681569081048e-05;94061,74600,66223,64655!GO:0044429;mitochondrial part;0.00010599580311128;94061,74600,64655!GO:0043232;intracellular non-membrane-bound organelle;0.000175673274077125;94061,74600,66223,64655!GO:0043228;non-membrane-bound organelle;0.000175673274077125;94061,74600,66223,64655!GO:0006412;translation;0.000194354067993051;94061,74600,66223!GO:0033279;ribosomal subunit;0.000245175487726604;94061,64655!GO:0032991;macromolecular complex;0.000447845837616268;94061,74600,66223,64655!GO:0009059;macromolecule biosynthetic process;0.000523740630934592;94061,74600,66223!GO:0031974;membrane-enclosed lumen;0.000689158315214261;94061,74600,64655!GO:0043233;organelle lumen;0.000689158315214261;94061,74600,64655!GO:0044249;cellular biosynthetic process;0.00098304005342419;94061,74600,66223!GO:0044444;cytoplasmic part;0.00194557283349915;94061,74600,66223,64655!GO:0009058;biosynthetic process;0.00216637039338063;94061,74600,66223!GO:0000314;organellar small ribosomal subunit;0.00374318286250356;64655!GO:0005763;mitochondrial small ribosomal subunit;0.00374318286250356;64655!GO:0000315;organellar large ribosomal subunit;0.00771397156612733;94061!GO:0005762;mitochondrial large ribosomal subunit;0.00771397156612733;94061!GO:0015935;small ribosomal subunit;0.0116585593426487;64655!GO:0015934;large ribosomal subunit;0.0116585593426487;94061!GO:0044446;intracellular organelle 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|gostat_on_MCL_coexpression=GO:0003735;structural constituent of ribosome;1.44052928663171e-07;94061,74600,66223,64655!GO:0005840;ribosome;1.44052928663171e-07;94061,74600,66223,64655!GO:0000313;organellar ribosome;4.57523921296204e-07;94061,74600,64655!GO:0005761;mitochondrial ribosome;4.57523921296204e-07;94061,74600,64655!GO:0031980;mitochondrial lumen;7.22821904815425e-07;94061,74600,64655!GO:0005759;mitochondrial matrix;7.22821904815425e-07;94061,74600,64655!GO:0030529;ribonucleoprotein complex;2.29891456423958e-06;94061,74600,66223,64655!GO:0005739;mitochondrion;3.7681569081048e-05;94061,74600,66223,64655!GO:0044429;mitochondrial part;0.00010599580311128;94061,74600,64655!GO:0043232;intracellular non-membrane-bound organelle;0.000175673274077125;94061,74600,66223,64655!GO:0043228;non-membrane-bound organelle;0.000175673274077125;94061,74600,66223,64655!GO:0006412;translation;0.000194354067993051;94061,74600,66223!GO:0033279;ribosomal subunit;0.000245175487726604;94061,64655!GO:0032991;macromolecular complex;0.000447845837616268;94061,74600,66223,64655!GO:0009059;macromolecule biosynthetic process;0.000523740630934592;94061,74600,66223!GO:0031974;membrane-enclosed lumen;0.000689158315214261;94061,74600,64655!GO:0043233;organelle lumen;0.000689158315214261;94061,74600,64655!GO:0044249;cellular biosynthetic process;0.00098304005342419;94061,74600,66223!GO:0044444;cytoplasmic part;0.00194557283349915;94061,74600,66223,64655!GO:0009058;biosynthetic process;0.00216637039338063;94061,74600,66223!GO:0000314;organellar small ribosomal subunit;0.00374318286250356;64655!GO:0005763;mitochondrial small ribosomal subunit;0.00374318286250356;64655!GO:0000315;organellar large ribosomal subunit;0.00771397156612733;94061!GO:0005762;mitochondrial large ribosomal subunit;0.00771397156612733;94061!GO:0015935;small ribosomal subunit;0.0116585593426487;64655!GO:0015934;large ribosomal subunit;0.0116585593426487;94061!GO:0044446;intracellular organelle part;0.0116585593426487;94061,74600,64655!GO:0005737;cytoplasm;0.0116585593426487;94061,74600,66223,64655!GO:0044422;organelle part;0.0116585593426487;94061,74600,64655!GO:0044267;cellular protein metabolic process;0.0160591084200635;94061,74600,66223!GO:0044260;cellular macromolecule metabolic process;0.0160591084200635;94061,74600,66223!GO:0010467;gene expression;0.0160591084200635;94061,74600,66223!GO:0019538;protein metabolic process;0.0166250440803477;94061,74600,66223!GO:0043231;intracellular membrane-bound organelle;0.0180028723501245;94061,74600,66223,64655!GO:0043227;membrane-bound organelle;0.0180028723501245;94061,74600,66223,64655!GO:0043229;intracellular organelle;0.0279670535780238;94061,74600,66223,64655!GO:0043226;organelle;0.0279670535780238;94061,74600,66223,64655!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003914!4.11e-11!47;UBERON:0002107!5.87e-10!22;UBERON:0007499!5.87e-10!22;UBERON:0006925!5.87e-10!22;UBERON:0009497!5.87e-10!22;UBERON:0000015!5.87e-10!22;UBERON:0002423!5.87e-10!22;UBERON:0006235!5.87e-10!22;UBERON:0008835!5.87e-10!22;UBERON:0003894!5.87e-10!22;UBERON:0004161!5.87e-10!22;UBERON:0008836!5.87e-10!22;UBERON:0009854!2.80e-09!23;UBERON:0009856!2.80e-09!23;UBERON:0002365!1.02e-08!25;UBERON:0002330!1.02e-08!25
}}

Latest revision as of 18:26, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr3:32635665..32635699,-p1@Mrpl47
Mm9::chr5:96639147..96639180,+p1@Mrpl1
Mm9::chr6:71773750..71773787,-p1@Mrpl35
Mm9::chr9:98502061..98502096,-p1@Mrps22


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:0003735structural constituent of ribosome1.44052928663171e-07
GO:0005840ribosome1.44052928663171e-07
GO:0000313organellar ribosome4.57523921296204e-07
GO:0005761mitochondrial ribosome4.57523921296204e-07
GO:0031980mitochondrial lumen7.22821904815425e-07
GO:0005759mitochondrial matrix7.22821904815425e-07
GO:0030529ribonucleoprotein complex2.29891456423958e-06
GO:0005739mitochondrion3.7681569081048e-05
GO:0044429mitochondrial part0.00010599580311128
GO:0043232intracellular non-membrane-bound organelle0.000175673274077125
GO:0043228non-membrane-bound organelle0.000175673274077125
GO:0006412translation0.000194354067993051
GO:0033279ribosomal subunit0.000245175487726604
GO:0032991macromolecular complex0.000447845837616268
GO:0009059macromolecule biosynthetic process0.000523740630934592
GO:0031974membrane-enclosed lumen0.000689158315214261
GO:0043233organelle lumen0.000689158315214261
GO:0044249cellular biosynthetic process0.00098304005342419
GO:0044444cytoplasmic part0.00194557283349915
GO:0009058biosynthetic process0.00216637039338063
GO:0000314organellar small ribosomal subunit0.00374318286250356
GO:0005763mitochondrial small ribosomal subunit0.00374318286250356
GO:0000315organellar large ribosomal subunit0.00771397156612733
GO:0005762mitochondrial large ribosomal subunit0.00771397156612733
GO:0015935small ribosomal subunit0.0116585593426487
GO:0015934large ribosomal subunit0.0116585593426487
GO:0044446intracellular organelle part0.0116585593426487
GO:0005737cytoplasm0.0116585593426487
GO:0044422organelle part0.0116585593426487
GO:0044267cellular protein metabolic process0.0160591084200635
GO:0044260cellular macromolecule metabolic process0.0160591084200635
GO:0010467gene expression0.0160591084200635
GO:0019538protein metabolic process0.0166250440803477
GO:0043231intracellular membrane-bound organelle0.0180028723501245
GO:0043227membrane-bound organelle0.0180028723501245
GO:0043229intracellular organelle0.0279670535780238
GO:0043226organelle0.0279670535780238



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>

Uber Anatomy
Ontology termp-valuen
epithelial tube4.11e-1147
liver5.87e-1022
epithelial sac5.87e-1022
digestive gland5.87e-1022
epithelium of foregut-midgut junction5.87e-1022
anatomical boundary5.87e-1022
hepatobiliary system5.87e-1022
foregut-midgut junction5.87e-1022
hepatic diverticulum5.87e-1022
liver primordium5.87e-1022
septum transversum5.87e-1022
liver bud5.87e-1022
digestive tract diverticulum2.80e-0923
sac2.80e-0923
exocrine gland1.02e-0825
exocrine system1.02e-0825


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)
MA0003.10.0356887
MA0004.10.6888
MA0006.10.497533
MA0007.10.672186
MA0009.11.15569
MA0014.10.276754
MA0017.11.30949
MA0019.10.964875
MA0024.11.11019
MA0025.11.39562
MA0027.12.81824
MA0028.10.509589
MA0029.11.08753
MA0030.11.09438
MA0031.11.05719
MA0038.10.846479
MA0040.11.16866
MA0041.13.65347
MA0042.13.58846
MA0043.11.25564
MA0046.11.1929
MA0048.10.266382
MA0050.10.731539
MA0051.10.856094
MA0052.11.17701
MA0055.10.125758
MA0056.10
MA0057.10.251896
MA0058.10.581673
MA0059.10.59559
MA0060.10.403071
MA0061.10.438628
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.10.256913
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.0471131
MA0074.11.86824
MA0076.11.35592
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.582815
MA0089.10
MA0090.10.650768
MA0091.10.703314
MA0092.10.651119
MA0093.10.519148
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.10.605676
MA0103.10.540576
MA0105.10.313353
MA0106.10.899777
MA0107.10.533522
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.10.43587
MA0115.11.25852
MA0116.10.497293
MA0117.11.22527
MA0119.10.606338
MA0122.11.24573
MA0124.11.45461
MA0125.11.37907
MA0130.10
MA0131.10.960068
MA0132.10
MA0133.10
MA0135.12.87969
MA0136.10.817395
MA0139.10.365453
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.10.887119
MA0144.10.439506
MA0145.10.21199
MA0146.10.0944145
MA0147.10.453952
MA0148.10.706718
MA0149.10.611881
MA0062.21.54479
MA0035.20.788288
MA0039.20.731226
MA0138.20.951653
MA0002.20.368961
MA0137.20.559766
MA0104.20.386166
MA0047.20.845655
MA0112.20.211985
MA0065.20.212467
MA0150.10.67206
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.10.263609
MA0155.10.230016
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.10.465802
MA0160.10.71003
MA0161.10
MA0162.10.346529
MA0163.10.0996272
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.20.190089
MA0102.21.8929
MA0258.10.419871
MA0259.10.441366
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:2374&oldid=3074373"