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MCL coexpression mm9:2163: Difference between revisions

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{{MCL_coexpression_mm9
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catabolic process;0.00243795540459103;18125!GO:0042738;exogenous drug catabolic process;0.00243795540459103;18125!GO:0051926;negative regulation of calcium ion transport;0.00243795540459103;18125!GO:0004517;nitric-oxide synthase activity;0.00243795540459103;18125!GO:0043267;negative regulation of potassium ion transport;0.00243795540459103;18125!GO:0002028;regulation of sodium ion transport;0.00243795540459103;18125!GO:0043271;negative regulation of ion transport;0.00243795540459103;18125!GO:0043266;regulation of potassium ion transport;0.00243795540459103;18125!GO:0051346;negative regulation of hydrolase activity;0.00243795540459103;18125!GO:0017144;drug metabolic process;0.00243795540459103;18125!GO:0051924;regulation of calcium ion transport;0.00310285233311585;18125!GO:0010181;FMN binding;0.00406325900765171;18125!GO:0050661;NADP binding;0.00412577068469251;18125!GO:0043269;regulation of ion transport;0.00417935212215604;18125!GO:0046209;nitric oxide metabolic process;0.00516272909207511;18125!GO:0006809;nitric oxide biosynthetic process;0.00516272909207511;18125!GO:0051051;negative regulation of transport;0.00516272909207511;18125!GO:0016709;oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen;0.00595944654455584;18125!GO:0042383;sarcolemma;0.00696558687026008;18125!GO:0006941;striated muscle contraction;0.00696558687026008;18125!GO:0042493;response to drug;0.00696558687026008;18125!GO:0043086;negative regulation of catalytic activity;0.0104167185468889;18125!GO:0050660;FAD binding;0.0125077712061627;18125!GO:0044271;nitrogen compound biosynthetic process;0.0151695002952331;18125!GO:0003012;muscle system process;0.0151695002952331;18125!GO:0006936;muscle contraction;0.0151695002952331;18125!GO:0051049;regulation of transport;0.0151695002952331;18125!GO:0006816;calcium ion transport;0.0165485457766179;18125!GO:0005516;calmodulin binding;0.0165485457766179;18125!GO:0051336;regulation of hydrolase activity;0.0165485457766179;18125!GO:0020037;heme binding;0.0165485457766179;18125!GO:0046906;tetrapyrrole binding;0.0165485457766179;18125!GO:0006814;sodium ion transport;0.0165485457766179;18125!GO:0050662;coenzyme binding;0.0166354604077976;18125!GO:0004497;monooxygenase activity;0.0169302458652155;18125!GO:0016705;oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen;0.0169302458652155;18125!GO:0015674;di-, tri-valent inorganic cation transport;0.0174506281591779;18125!GO:0009055;electron carrier activity;0.0174506281591779;18125!GO:0006813;potassium ion transport;0.0191285731744834;18125!GO:0048037;cofactor binding;0.0204788253985646;18125!GO:0050790;regulation of catalytic activity;0.0317528825866246;18125!GO:0015672;monovalent inorganic cation transport;0.0332026307482397;18125!GO:0005506;iron ion binding;0.0333376227418494;18125!GO:0065009;regulation of a molecular function;0.034023022090737;18125!GO:0006118;electron transport;0.034023022090737;18125!GO:0006807;nitrogen compound metabolic process;0.0374173155574188;18125!GO:0042995;cell projection;0.0377623730753674;18125!GO:0030001;metal ion transport;0.0395151938494129;18125!GO:0044248;cellular catabolic process;0.0398849504191092;18125!GO:0006091;generation of precursor metabolites and energy;0.0398849504191092;18125!GO:0042221;response to chemical stimulus;0.0404413778879217;18125!GO:0006812;cation transport;0.0430392896425877;18125!GO:0009056;catabolic 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|gostat_on_MCL_coexpression=GO:0042737;drug catabolic process;0.00243795540459103;18125!GO:0042738;exogenous drug catabolic process;0.00243795540459103;18125!GO:0051926;negative regulation of calcium ion transport;0.00243795540459103;18125!GO:0004517;nitric-oxide synthase activity;0.00243795540459103;18125!GO:0043267;negative regulation of potassium ion transport;0.00243795540459103;18125!GO:0002028;regulation of sodium ion transport;0.00243795540459103;18125!GO:0043271;negative regulation of ion transport;0.00243795540459103;18125!GO:0043266;regulation of potassium ion transport;0.00243795540459103;18125!GO:0051346;negative regulation of hydrolase activity;0.00243795540459103;18125!GO:0017144;drug metabolic process;0.00243795540459103;18125!GO:0051924;regulation of calcium ion transport;0.00310285233311585;18125!GO:0010181;FMN binding;0.00406325900765171;18125!GO:0050661;NADP binding;0.00412577068469251;18125!GO:0043269;regulation of ion transport;0.00417935212215604;18125!GO:0046209;nitric oxide metabolic process;0.00516272909207511;18125!GO:0006809;nitric oxide biosynthetic process;0.00516272909207511;18125!GO:0051051;negative regulation of transport;0.00516272909207511;18125!GO:0016709;oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen;0.00595944654455584;18125!GO:0042383;sarcolemma;0.00696558687026008;18125!GO:0006941;striated muscle contraction;0.00696558687026008;18125!GO:0042493;response to drug;0.00696558687026008;18125!GO:0043086;negative regulation of catalytic activity;0.0104167185468889;18125!GO:0050660;FAD binding;0.0125077712061627;18125!GO:0044271;nitrogen compound biosynthetic process;0.0151695002952331;18125!GO:0003012;muscle system process;0.0151695002952331;18125!GO:0006936;muscle contraction;0.0151695002952331;18125!GO:0051049;regulation of transport;0.0151695002952331;18125!GO:0006816;calcium ion transport;0.0165485457766179;18125!GO:0005516;calmodulin binding;0.0165485457766179;18125!GO:0051336;regulation of hydrolase activity;0.0165485457766179;18125!GO:0020037;heme binding;0.0165485457766179;18125!GO:0046906;tetrapyrrole binding;0.0165485457766179;18125!GO:0006814;sodium ion transport;0.0165485457766179;18125!GO:0050662;coenzyme binding;0.0166354604077976;18125!GO:0004497;monooxygenase activity;0.0169302458652155;18125!GO:0016705;oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen;0.0169302458652155;18125!GO:0015674;di-, tri-valent inorganic cation transport;0.0174506281591779;18125!GO:0009055;electron carrier activity;0.0174506281591779;18125!GO:0006813;potassium ion transport;0.0191285731744834;18125!GO:0048037;cofactor binding;0.0204788253985646;18125!GO:0050790;regulation of catalytic activity;0.0317528825866246;18125!GO:0015672;monovalent inorganic cation transport;0.0332026307482397;18125!GO:0005506;iron ion binding;0.0333376227418494;18125!GO:0065009;regulation of a molecular function;0.034023022090737;18125!GO:0006118;electron transport;0.034023022090737;18125!GO:0006807;nitrogen compound metabolic process;0.0374173155574188;18125!GO:0042995;cell projection;0.0377623730753674;18125!GO:0030001;metal ion transport;0.0395151938494129;18125!GO:0044248;cellular catabolic process;0.0398849504191092;18125!GO:0006091;generation of precursor metabolites and energy;0.0398849504191092;18125!GO:0042221;response to chemical stimulus;0.0404413778879217;18125!GO:0006812;cation transport;0.0430392896425877;18125!GO:0009056;catabolic process;0.048391114823203;18125!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=
}}

Latest revision as of 18:06, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr15:91668686..91668696,+p2@Smgc
Mm9::chr3:113267929..113267940,-p@chr3:113267929..113267940
-
Mm9::chr5:118231026..118231084,+p2@Nos1
Mm9::chr6:132391763..132391770,-p1@uc009eje.1


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:0042737drug catabolic process0.00243795540459103
GO:0042738exogenous drug catabolic process0.00243795540459103
GO:0051926negative regulation of calcium ion transport0.00243795540459103
GO:0004517nitric-oxide synthase activity0.00243795540459103
GO:0043267negative regulation of potassium ion transport0.00243795540459103
GO:0002028regulation of sodium ion transport0.00243795540459103
GO:0043271negative regulation of ion transport0.00243795540459103
GO:0043266regulation of potassium ion transport0.00243795540459103
GO:0051346negative regulation of hydrolase activity0.00243795540459103
GO:0017144drug metabolic process0.00243795540459103
GO:0051924regulation of calcium ion transport0.00310285233311585
GO:0010181FMN binding0.00406325900765171
GO:0050661NADP binding0.00412577068469251
GO:0043269regulation of ion transport0.00417935212215604
GO:0046209nitric oxide metabolic process0.00516272909207511
GO:0006809nitric oxide biosynthetic process0.00516272909207511
GO:0051051negative regulation of transport0.00516272909207511
GO:0016709oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen0.00595944654455584
GO:0042383sarcolemma0.00696558687026008
GO:0006941striated muscle contraction0.00696558687026008
GO:0042493response to drug0.00696558687026008
GO:0043086negative regulation of catalytic activity0.0104167185468889
GO:0050660FAD binding0.0125077712061627
GO:0044271nitrogen compound biosynthetic process0.0151695002952331
GO:0003012muscle system process0.0151695002952331
GO:0006936muscle contraction0.0151695002952331
GO:0051049regulation of transport0.0151695002952331
GO:0006816calcium ion transport0.0165485457766179
GO:0005516calmodulin binding0.0165485457766179
GO:0051336regulation of hydrolase activity0.0165485457766179
GO:0020037heme binding0.0165485457766179
GO:0046906tetrapyrrole binding0.0165485457766179
GO:0006814sodium ion transport0.0165485457766179
GO:0050662coenzyme binding0.0166354604077976
GO:0004497monooxygenase activity0.0169302458652155
GO:0016705oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen0.0169302458652155
GO:0015674di-, tri-valent inorganic cation transport0.0174506281591779
GO:0009055electron carrier activity0.0174506281591779
GO:0006813potassium ion transport0.0191285731744834
GO:0048037cofactor binding0.0204788253985646
GO:0050790regulation of catalytic activity0.0317528825866246
GO:0015672monovalent inorganic cation transport0.0332026307482397
GO:0005506iron ion binding0.0333376227418494
GO:0065009regulation of a molecular function0.034023022090737
GO:0006118electron transport0.034023022090737
GO:0006807nitrogen compound metabolic process0.0374173155574188
GO:0042995cell projection0.0377623730753674
GO:0030001metal ion transport0.0395151938494129
GO:0044248cellular catabolic process0.0398849504191092
GO:0006091generation of precursor metabolites and energy0.0398849504191092
GO:0042221response to chemical stimulus0.0404413778879217
GO:0006812cation transport0.0430392896425877
GO:0009056catabolic process0.048391114823203



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><br><br>


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)
MA0003.10.331308
MA0004.10.6888
MA0006.10.497533
MA0007.11.61215
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
MA0061.10.438628
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.10.256913
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.00221226
MA0074.10.795862
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.582815
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
MA0107.11.3208
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.11.11164
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
MA0139.11.70536
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.10.887119
MA0144.10.439506
MA0145.11.14526
MA0146.10.313734
MA0147.10.453952
MA0148.10.706718
MA0149.10.611881
MA0062.20.319836
MA0035.20.788288
MA0039.20.0959929
MA0138.20.951653
MA0002.20.965577
MA0137.20.559766
MA0104.20.386166
MA0047.20.845655
MA0112.20.608441
MA0065.20.609584
MA0150.10.67206
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.11.34071
MA0155.10.650923
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.10.465802
MA0160.10.71003
MA0161.10
MA0162.10.10667
MA0163.10.327769
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.20.00774881
MA0102.21.8929
MA0258.10.419871
MA0259.10.441366
MA0442.10
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