Personal tools

MCL coexpression mm9:2132: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
 
(One intermediate revision by the same user not shown)
Line 1: Line 1:
{{MCL_coexpression_mm9
{
|coexpression_dpi_cluster_scores_mean=-0

Latest revision as of 18:03, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr15:25870451..25870487,+p9@Fam134b
Mm9::chr19:10020382..10020393,-p@chr19:10020382..10020393
-
Mm9::chr1:172989521..172989536,-p2@Fcgr3
Mm9::chr4:149375404..149375413,-p8@H6pd


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:0047936glucose 1-dehydrogenase activity0.00701043274445327
GO:0019770IgG receptor activity0.00701043274445327
GO:00170576-phosphogluconolactonase activity0.00701043274445327
GO:0042590antigen processing and presentation of exogenous peptide antigen via MHC class I0.00701043274445327
GO:0001802type III hypersensitivity0.00701043274445327
GO:0001803regulation of type III hypersensitivity0.00701043274445327
GO:0004345glucose-6-phosphate dehydrogenase activity0.00701043274445327
GO:0001805positive regulation of type III hypersensitivity0.00701043274445327
GO:0001820serotonin secretion0.00701043274445327
GO:0019763immunoglobulin receptor activity0.00701043274445327
GO:0042535positive regulation of tumor necrosis factor biosynthetic process0.00701043274445327
GO:0001788antibody-dependent cellular cytotoxicity0.00701043274445327
GO:0019864IgG binding0.00701043274445327
GO:0042534regulation of tumor necrosis factor biosynthetic process0.00701043274445327
GO:0042533tumor necrosis factor biosynthetic process0.00701043274445327
GO:0001812positive regulation of type I hypersensitivity0.00701043274445327
GO:0006098pentose-phosphate shunt0.00701043274445327
GO:0001810regulation of type I hypersensitivity0.00701043274445327
GO:0001798positive regulation of type IIa hypersensitivity0.00701043274445327
GO:0002894positive regulation of type II hypersensitivity0.00701043274445327
GO:0006740NADPH regeneration0.00701043274445327
GO:0001796regulation of type IIa hypersensitivity0.00701043274445327
GO:0002445type II hypersensitivity0.00701043274445327
GO:0002886regulation of myeloid leukocyte mediated immunity0.00701043274445327
GO:0002888positive regulation of myeloid leukocyte mediated immunity0.00701043274445327
GO:0001794type IIa hypersensitivity0.00701043274445327
GO:0016068type I hypersensitivity0.00701043274445327
GO:0002892regulation of type II hypersensitivity0.00701043274445327
GO:0019865immunoglobulin binding0.00701043274445327
GO:0002675positive regulation of acute inflammatory response0.00701043274445327
GO:0002885positive regulation of hypersensitivity0.00701043274445327
GO:0002866positive regulation of acute inflammatory response to antigenic stimulus0.00701043274445327
GO:0002891positive regulation of immunoglobulin mediated immune response0.00701043274445327
GO:0002714positive regulation of B cell mediated immunity0.00701043274445327
GO:0006910phagocytosis, recognition0.00701043274445327
GO:0045576mast cell activation0.00701043274445327
GO:0002889regulation of immunoglobulin mediated immune response0.00701043274445327
GO:0002883regulation of hypersensitivity0.00701043274445327
GO:0002673regulation of acute inflammatory response0.00701043274445327
GO:0002712regulation of B cell mediated immunity0.00701043274445327
GO:0002438acute inflammatory response to antigenic stimulus0.00701043274445327
GO:0002864regulation of acute inflammatory response to antigenic stimulus0.00701043274445327
GO:0030593neutrophil chemotaxis0.00701043274445327
GO:0002524hypersensitivity0.00701043274445327
GO:0002863positive regulation of inflammatory response to antigenic stimulus0.00701043274445327
GO:0006739NADP metabolic process0.00743970612096549
GO:0002861regulation of inflammatory response to antigenic stimulus0.00743970612096549
GO:0002437inflammatory response to antigenic stimulus0.00743970612096549
GO:0006911phagocytosis, engulfment0.00743970612096549
GO:0002705positive regulation of leukocyte mediated immunity0.00743970612096549
GO:0002444myeloid leukocyte mediated immunity0.00743970612096549
GO:0032640tumor necrosis factor production0.00743970612096549
GO:0002708positive regulation of lymphocyte mediated immunity0.00743970612096549
GO:0050766positive regulation of phagocytosis0.00744756424117877
GO:0050764regulation of phagocytosis0.00744756424117877
GO:0002699positive regulation of immune effector process0.00744756424117877
GO:0050729positive regulation of inflammatory response0.00744756424117877
GO:0002703regulation of leukocyte mediated immunity0.00744756424117877
GO:0031349positive regulation of defense response0.00744756424117877
GO:0002706regulation of lymphocyte mediated immunity0.00744756424117877
GO:0002824positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains0.00750994298946373
GO:0002821positive regulation of adaptive immune response0.00750994298946373
GO:0002478antigen processing and presentation of exogenous peptide antigen0.00750994298946373
GO:0002697regulation of immune effector process0.00756662911250776
GO:0030595leukocyte chemotaxis0.00756662911250776
GO:0002474antigen processing and presentation of peptide antigen via MHC class I0.00756662911250776
GO:0045807positive regulation of endocytosis0.0080305863338368
GO:0001906cell killing0.0080305863338368
GO:0006769nicotinamide metabolic process0.0080305863338368
GO:0002819regulation of adaptive immune response0.0080305863338368
GO:0002822regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains.0.0080305863338368
GO:0001909leukocyte mediated cytotoxicity0.0080305863338368
GO:0019884antigen processing and presentation of exogenous antigen0.00828037761672297
GO:0019362pyridine nucleotide metabolic process0.00852339831390692
GO:0002274myeloid leukocyte activation0.00946019410929288
GO:0031347regulation of defense response0.00989648583932346
GO:0050727regulation of inflammatory response0.00989648583932346
GO:0050900leukocyte migration0.0104428012558215
GO:0042108positive regulation of cytokine biosynthetic process0.010509886011911
GO:0006733oxidoreduction coenzyme metabolic process0.010509886011911
GO:0051050positive regulation of transport0.0107042200392035
GO:0048002antigen processing and presentation of peptide antigen0.0107625460797819
GO:0030100regulation of endocytosis0.0107625460797819
GO:0006909phagocytosis0.0118842252695908
GO:0006767water-soluble vitamin metabolic process0.0120531437671891
GO:0045727positive regulation of translation0.0122181171744225
GO:0031328positive regulation of cellular biosynthetic process0.0129824368127697
GO:0008037cell recognition0.0129854729932073
GO:0048583regulation of response to stimulus0.0129854729932073
GO:0032403protein complex binding0.014298455035278
GO:0042035regulation of cytokine biosynthetic process0.0144295318923336
GO:0006007glucose catabolic process0.0146500853118655
GO:0009891positive regulation of biosynthetic process0.0146500853118655
GO:0046365monosaccharide catabolic process0.0146500853118655
GO:0019320hexose catabolic process0.0146500853118655
GO:0046164alcohol catabolic process0.0153168316673578
GO:0019882antigen processing and presentation0.0154291979758798
GO:0042089cytokine biosynthetic process0.0160742107120935
GO:0042107cytokine metabolic process0.0161765984876201
GO:0006766vitamin metabolic process0.0162769240998742
GO:0044275cellular carbohydrate catabolic process0.0171536103076992
GO:0016064immunoglobulin mediated immune response0.0179183655045773
GO:0019724B cell mediated immunity0.0179183655045773
GO:0051247positive regulation of protein metabolic process0.0179183655045773
GO:0016052carbohydrate catabolic process0.0179971882326395
GO:0002526acute inflammatory response0.0190628010616963
GO:0051049regulation of transport0.0205974710962379
GO:0003001generation of a signal involved in cell-cell signaling0.0211338254680621
GO:0002250adaptive immune response0.0212254100803507
GO:0002460adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains0.0212254100803507
GO:0002449lymphocyte mediated immunity0.0217414165806211
GO:0050778positive regulation of immune response0.0223829177043655
GO:0006006glucose metabolic process0.0223829177043655
GO:0002684positive regulation of immune system process0.0223829177043655
GO:0002443leukocyte mediated immunity0.0223829177043655
GO:0001816cytokine production0.0223829177043655
GO:0042330taxis0.0228900631349165
GO:0006935chemotaxis0.0228900631349165
GO:0004091carboxylesterase activity0.0229174461935555
GO:0016616oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor0.0240336476950901
GO:0050776regulation of immune response0.0240510436784332
GO:0002682regulation of immune system process0.0242823695583694
GO:0051240positive regulation of multicellular organismal process0.0249347756005532
GO:0016614oxidoreductase activity, acting on CH-OH group of donors0.025155104117616
GO:0006917induction of apoptosis0.0268175387162677
GO:0012502induction of programmed cell death0.0268175387162677
GO:0019318hexose metabolic process0.0268175387162677
GO:0006417regulation of translation0.0268175387162677
GO:0005996monosaccharide metabolic process0.0272082271734108
GO:0002252immune effector process0.0272082271734108
GO:0031326regulation of cellular biosynthetic process0.0277974889846219
GO:0005792microsome0.0303537488994884
GO:0009889regulation of biosynthetic process0.0305176438388193
GO:0042598vesicular fraction0.0306790495767813
GO:0006732coenzyme metabolic process0.0308380214289605
GO:0043065positive regulation of apoptosis0.0313779125208623
GO:0043068positive regulation of programmed cell death0.0315293362273279
GO:0010324membrane invagination0.0316380769624637
GO:0006897endocytosis0.0316380769624637
GO:0009117nucleotide metabolic process0.0338306805273247
GO:0051186cofactor metabolic process0.0346985195858322
GO:0055086nucleobase, nucleoside and nucleotide metabolic process0.0357370025259997
GO:0007626locomotory behavior0.0369423378237362
GO:0045321leukocyte activation0.0371501358980471
GO:0032940secretion by cell0.0371501358980471
GO:0006954inflammatory response0.0372518408134996
GO:0001775cell activation0.0392967491917958
GO:0044265cellular macromolecule catabolic process0.0397332974907156
GO:0051246regulation of protein metabolic process0.0403381072681309
GO:0016044membrane organization and biogenesis0.040588471108217
GO:0044262cellular carbohydrate metabolic process0.0428976130983566
GO:0006066alcohol metabolic process0.0436391866684175
GO:0046903secretion0.0442012902965828
GO:0016477cell migration0.0462701344748131
GO:0051239regulation of multicellular organismal process0.0468071282397463
GO:0009611response to wounding0.0481666997116998
GO:0009057macromolecule catabolic process0.0485192670346343



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
trunk1.25e-0890
trunk region element1.11e-0779


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
MA0014.10.0809287
MA0017.10.528196
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
MA0041.10.604221
MA0042.10.589368
MA0043.11.25564
MA0046.11.1929
MA0048.10.266382
MA0050.10.731539
MA0051.10.856094
MA0052.11.17701
MA0055.10.396346
MA0056.10
MA0057.10.251896
MA0058.10.581673
MA0059.10.59559
MA0060.10.403071
MA0061.11.11761
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.10.256913
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.112167
MA0074.10.795862
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.201215
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
MA0107.11.3208
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
MA0135.11.29308
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
MA0148.11.68395
MA0149.10.611881
MA0062.20.319836
MA0035.20.788288
MA0039.20.0220513
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
MA0154.10.728853
MA0155.10.230016
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.10.465802
MA0160.10.71003
MA0161.10
MA0162.10.10667
MA0163.10.0996272
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.20.00175067
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_mm9:2132&oldid=3074131"