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MCL coexpression mm9:465: Difference between revisions

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{{MCL_coexpression_mm9
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decarboxylase activity;0.0025199956022708;246277!GO:0046439;L-cysteine metabolic process;0.0025199956022708;246277!GO:0019448;L-cysteine catabolic process;0.0025199956022708;246277!GO:0019452;L-cysteine catabolic process to taurine;0.0025199956022708;246277!GO:0009093;cysteine catabolic process;0.0025199956022708;246277!GO:0019530;taurine metabolic process;0.0025199956022708;246277!GO:0044273;sulfur compound catabolic process;0.00283483972454542;246277!GO:0000098;sulfur amino acid catabolic process;0.00283483972454542;246277!GO:0006534;cysteine metabolic process;0.00419930234896127;246277!GO:0009071;serine family amino acid catabolic process;0.00604600142849892;246277!GO:0000096;sulfur amino acid metabolic process;0.0107011816398053;246277!GO:0009069;serine family amino acid metabolic process;0.0107011816398053;246277!GO:0016831;carboxy-lyase activity;0.0151000999805382;246277!GO:0016830;carbon-carbon lyase activity;0.0204795160219966;246277!GO:0009063;amino acid catabolic 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|gostat_on_MCL_coexpression=GO:0004782;sulfinoalanine decarboxylase activity;0.0025199956022708;246277!GO:0046439;L-cysteine metabolic process;0.0025199956022708;246277!GO:0019448;L-cysteine catabolic process;0.0025199956022708;246277!GO:0019452;L-cysteine catabolic process to taurine;0.0025199956022708;246277!GO:0009093;cysteine catabolic process;0.0025199956022708;246277!GO:0019530;taurine metabolic process;0.0025199956022708;246277!GO:0044273;sulfur compound catabolic process;0.00283483972454542;246277!GO:0000098;sulfur amino acid catabolic process;0.00283483972454542;246277!GO:0006534;cysteine metabolic process;0.00419930234896127;246277!GO:0009071;serine family amino acid catabolic process;0.00604600142849892;246277!GO:0000096;sulfur amino acid metabolic process;0.0107011816398053;246277!GO:0009069;serine family amino acid metabolic process;0.0107011816398053;246277!GO:0016831;carboxy-lyase activity;0.0151000999805382;246277!GO:0016830;carbon-carbon lyase activity;0.0204795160219966;246277!GO:0009063;amino acid catabolic process;0.021682605905944;246277!GO:0030170;pyridoxal phosphate binding;0.021682605905944;246277!GO:0009310;amine catabolic process;0.0234504393678624;246277!GO:0044270;nitrogen compound catabolic process;0.0234504393678624;246277!GO:0006790;sulfur metabolic process;0.0237978560598355;246277!GO:0006575;amino acid derivative metabolic process;0.0327330241633306;246277!GO:0004867;serine-type endopeptidase inhibitor activity;0.0358785136565338;380780!GO:0019842;vitamin binding;0.0358785136565338;246277!GO:0004866;endopeptidase inhibitor activity;0.0455879901011233;380780!GO:0030414;protease inhibitor activity;0.0455879901011233;380780!GO:0016829;lyase activity;0.0455879901011233;246277!GO:0048037;cofactor binding;0.0484061985406142;246277!
}}

Latest revision as of 15:21, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:105228129..105228156,-p2@Serpina11
Mm9::chr12:105228160..105228182,-p1@Serpina11
Mm9::chr15:102007749..102007752,+p@chr15:102007749..102007752
+
Mm9::chr15:102019365..102019382,-p5@Csad
Mm9::chr15:102019414..102019427,-p6@Csad
Mm9::chr15:102019436..102019461,-p3@Csad
Mm9::chr15:102019463..102019481,-p2@Csad
Mm9::chr18:20832196..20832271,-p@chr18:20832196..20832271
-
Mm9::chr18:65380476..65380484,-p@chr18:65380476..65380484
-
Mm9::chr1:174825179..174825194,-p2@Apcs
Mm9::chr2:157643694..157643719,+p@chr2:157643694..157643719
+
Mm9::chr3:82835369..82835408,-p@chr3:82835369..82835408
-
Mm9::chr3:82847241..82847271,+p@chr3:82847241..82847271
+
Mm9::chr3:82847323..82847360,+p@chr3:82847323..82847360
+
Mm9::chr3:82847793..82847801,+p@chr3:82847793..82847801
+
Mm9::chr9:103123231..103123264,+p@chr9:103123231..103123264
+


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:0004782sulfinoalanine decarboxylase activity0.0025199956022708
GO:0046439L-cysteine metabolic process0.0025199956022708
GO:0019448L-cysteine catabolic process0.0025199956022708
GO:0019452L-cysteine catabolic process to taurine0.0025199956022708
GO:0009093cysteine catabolic process0.0025199956022708
GO:0019530taurine metabolic process0.0025199956022708
GO:0044273sulfur compound catabolic process0.00283483972454542
GO:0000098sulfur amino acid catabolic process0.00283483972454542
GO:0006534cysteine metabolic process0.00419930234896127
GO:0009071serine family amino acid catabolic process0.00604600142849892
GO:0000096sulfur amino acid metabolic process0.0107011816398053
GO:0009069serine family amino acid metabolic process0.0107011816398053
GO:0016831carboxy-lyase activity0.0151000999805382
GO:0016830carbon-carbon lyase activity0.0204795160219966
GO:0009063amino acid catabolic process0.021682605905944
GO:0030170pyridoxal phosphate binding0.021682605905944
GO:0009310amine catabolic process0.0234504393678624
GO:0044270nitrogen compound catabolic process0.0234504393678624
GO:0006790sulfur metabolic process0.0237978560598355
GO:0006575amino acid derivative metabolic process0.0327330241633306
GO:0004867serine-type endopeptidase inhibitor activity0.0358785136565338
GO:0019842vitamin binding0.0358785136565338
GO:0004866endopeptidase inhibitor activity0.0455879901011233
GO:0030414protease inhibitor activity0.0455879901011233
GO:0016829lyase activity0.0455879901011233
GO:0048037cofactor binding0.0484061985406142



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>


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)
MA0003.10.00105703
MA0004.10.221835
MA0006.10.105852
MA0007.11.7839
MA0009.10.599391
MA0014.10.000362989
MA0017.10.774877
MA0019.10.434009
MA0024.10.558971
MA0025.10.819843
MA0027.12.21717
MA0028.10.112137
MA0029.10.53905
MA0030.10.545058
MA0031.10.512616
MA0038.10.33811
MA0040.10.611015
MA0041.10.166538
MA0042.10.15744
MA0043.10.689898
MA0046.11.53
MA0048.10.087253
MA0050.10.251816
MA0051.10.345658
MA0052.10.618515
MA0055.10.189769
MA0056.10
MA0057.10.0166073
MA0058.10.152805
MA0059.10.48573
MA0060.10.0623353
MA0061.11.97125
MA0063.10
MA0066.10.876672
MA0067.10.92691
MA0068.10.0798662
MA0069.10.618831
MA0070.10.609808
MA0071.10.70014
MA0072.10.601934
MA0073.15.26061e-07
MA0074.10.299171
MA0076.10.134359
MA0077.10.581866
MA0078.11.7344
MA0081.10.525479
MA0083.10.68915
MA0084.11.24749
MA0087.10.648637
MA0088.10.0428369
MA0089.10
MA0090.10.570974
MA0091.10.655274
MA0092.10.196497
MA0093.10.11723
MA0095.10
MA0098.10
MA0100.10.788514
MA0101.12.20176
MA0103.10.805091
MA0105.10.303578
MA0106.10.380511
MA0107.11.86375
MA0108.20.454274
MA0109.10
MA0111.10.206727
MA0113.10.937714
MA0114.11.95553
MA0115.10.692537
MA0116.10.344035
MA0117.10.662171
MA0119.10.502046
MA0122.10.680832
MA0124.10.875485
MA0125.10.804312
MA0130.10
MA0131.10.43
MA0132.10
MA0133.10
MA0135.10.724328
MA0136.10.315568
MA0139.10.0480655
MA0140.10.289637
MA0141.10.141822
MA0142.10.499475
MA0143.10.96857
MA0144.11.97625
MA0145.10.135509
MA0146.10.0186621
MA0147.10.286569
MA0148.10.23425
MA0149.10.171305
MA0062.20.0332891
MA0035.20.293466
MA0039.20.00879872
MA0138.21.08375
MA0002.20.185031
MA0137.21.98607
MA0104.20.204256
MA0047.20.337465
MA0112.23.76759
MA0065.21.39767
MA0150.10.210447
MA0151.10
MA0152.10.337555
MA0153.10.740107
MA0154.10.0850581
MA0155.10.0605786
MA0156.10.133796
MA0157.10.47062
MA0158.10
MA0159.10.0900717
MA0160.10.23657
MA0161.10
MA0162.10.000977979
MA0163.10.0215627
MA0164.10.315868
MA0080.20.125629
MA0018.20.323932
MA0099.21.07172
MA0079.25.24648e-07
MA0102.21.29919
MA0258.14.48988
MA0259.10.270549
MA0442.10
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