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MCL coexpression mm9:243: Difference between revisions

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{{MCL_coexpression_mm9
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receptor signaling pathway;0.0160544875326414;22402,16971,21886!GO:0050794;regulation of cellular process;0.0160544875326414;75646,21886,17311,22402,19335,20583,16971,13591,22762!GO:0048523;negative regulation of cellular process;0.0167036526195371;17311,20583,19335,16971,22762!GO:0050789;regulation of biological process;0.0167036526195371;75646,21886,17311,22402,19335,20583,16971,13591,22762!GO:0048519;negative regulation of biological process;0.0167036526195371;17311,20583,19335,16971,22762!GO:0032502;developmental process;0.0167036526195371;22402,17311,20583,19335,18491,16971,13591,22762!GO:0031323;regulation of cellular metabolic process;0.0167036526195371;17311,20583,75646,19335,13591,22762,21886!GO:0019222;regulation of metabolic process;0.0182742041175836;17311,20583,75646,19335,13591,22762,21886!GO:0065007;biological regulation;0.0182742041175836;75646,21886,17311,22402,19335,20583,16971,13591,22762!GO:0043170;macromolecule metabolic 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|gostat_on_MCL_coexpression=GO:0016055;Wnt receptor signaling pathway;0.0160544875326414;22402,16971,21886!GO:0050794;regulation of cellular process;0.0160544875326414;75646,21886,17311,22402,19335,20583,16971,13591,22762!GO:0048523;negative regulation of cellular process;0.0167036526195371;17311,20583,19335,16971,22762!GO:0050789;regulation of biological process;0.0167036526195371;75646,21886,17311,22402,19335,20583,16971,13591,22762!GO:0048519;negative regulation of biological process;0.0167036526195371;17311,20583,19335,16971,22762!GO:0032502;developmental process;0.0167036526195371;22402,17311,20583,19335,18491,16971,13591,22762!GO:0031323;regulation of cellular metabolic process;0.0167036526195371;17311,20583,75646,19335,13591,22762,21886!GO:0019222;regulation of metabolic process;0.0182742041175836;17311,20583,75646,19335,13591,22762,21886!GO:0065007;biological regulation;0.0182742041175836;75646,21886,17311,22402,19335,20583,16971,13591,22762!GO:0043170;macromolecule metabolic process;0.0370865490371531;75646,21886,17311,223649,18491,19335,56878,20583,13591,22762!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=
|tfbs_overrepresentation_for_novel_motifs=0.422253,0.557886,0.371261,0.236371,0.181931,0.253392,0.115611,0.070465,0.751461,0.705574,0.311617,0.109379,0.293024,1.26434,0.206481,0,0.68073,0.568212,1.86672,0.726212,0.556637,0.20655,0.121635,0.014676,0.170342,0.137293,0.232042,0.278895,1.11553,0.137966,0.554816,0.317094,0.167637,0.95674,0.207215,9.64407,1.12814,0.107538,0.0456251,3.78999,0.176217,0.267928,0.386306,0.403984,0.686284,0.223571,0.189134,0.298674,0.538835,0.104994,0.230631,0.46489,0.224074,0.430267,0.44481,0.125986,0.271595,0.336624,0.35402,0.124877,0.301892,0.478843,0.196652,0.634224,0.132112,0.251098,0.562061,0.88291,0.298379,0.744997,0.335924,0.0757941,0.142166,0.473077,0.331277,0.902856,0.317894,0.181883,0.289046,0.568547,0.501936,0.25509,0.157582,0.147753,0.37768,0.774298,0.147257,0.788722,0.192291,1.03797,0.624114,0.381683,0.326924,0.921664,0.254708,0.607946,0.957277,0.329091,0.189298,0.863206,0.0576921,0.31688,0.415858,0.653326,0.651622,0.267392,0.272737,0.293579,0.582367,0.129803,0.720043,0.417326,0.313137,0.318311,0.630454,0.173701,0.888658,0.516962,0.243704,0.150167,0.477668,0.208777,0.138324,0.18131,0.679524,0.291798,0.765004,0.32171,0.560724,0.627985,0.401936,0.0637522,0.534808,1.33653,0.649958,0.439843,0.19858,0.569198,0.605717,1.39723,1.00731,0.566216,0.445833,0.325124,0.22586,0.268482,0.191141,1.35822,0.201136,0.184457,0.398609,0.0993108,0.431571,0.0379768,0.414892,0.500669,0.466374,0.0203206,0.18698,0.198278,0.61423,0.376993,0.29213,0.713199,0.223599,0.128895,0.524485,0.351552,0.201245
}}

Latest revision as of 14:57, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:120336953..120336957,+p@chr10:120336953..120336957
+
Mm9::chr10:127057998..127057999,-p9@Lrp1
Mm9::chr10:24848388..24848403,+p@chr10:24848388..24848403
+
Mm9::chr10:81037980..81037999,+p4@Tle2
Mm9::chr10:99478451..99478467,+p1@Kitl
Mm9::chr10:99513484..99513489,+p@chr10:99513484..99513489
+
Mm9::chr11:44431191..44431205,+p11@Ebf1
Mm9::chr11:44431626..44431637,+p10@Ebf1
Mm9::chr11:44512528..44512531,+p@chr11:44512528..44512531
+
Mm9::chr14:47007145..47007159,+p4@ENSMUST00000127359
Mm9::chr14:47007162..47007200,+p1@ENSMUST00000127359
Mm9::chr14:47007203..47007234,+p3@ENSMUST00000127359
Mm9::chr15:102758517..102758523,+p@chr15:102758517..102758523
+
Mm9::chr15:10644334..10644365,-p1@Rai14
Mm9::chr15:10644367..10644392,-p2@Rai14
Mm9::chr15:40486427..40486437,+p5@Zfpm2
Mm9::chr15:40486540..40486550,+p6@Zfpm2
Mm9::chr15:42921976..42921980,-p@chr15:42921976..42921980
-
Mm9::chr15:66722925..66722937,+p5@Wisp1
Mm9::chr15:66722940..66722951,+p2@Wisp1
Mm9::chr15:75922084..75922101,-p4@Nrbp2
Mm9::chr16:14705668..14705683,+p3@Snai2
Mm9::chr1:33776825..33776837,+p4@Rab23
Mm9::chr2:30450557..30450568,+p1@Cstad
Mm9::chr2:60800914..60800983,-p3@Rbms1
Mm9::chr2:61371539..61371556,+p@chr2:61371539..61371556
+
Mm9::chr3:83593895..83593914,-p1@ENSMUST00000149626
p1@uc008ppm.1
Mm9::chr3:99120411..99120426,+p@chr3:99120411..99120426
+
Mm9::chr4:64784782..64784802,+p2@Pappa
Mm9::chr5:107538347..107538352,-p@chr5:107538347..107538352
-
Mm9::chr5:125621239..125621259,-p@chr5:125621239..125621259
-
Mm9::chr8:93842016..93842018,+p@chr8:93842016..93842018
+
Mm9::chr9:42859433..42859444,-p@chr9:42859433..42859444
-
Mm9::chr9:44295313..44295348,+p5@Bcl9l


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:0016055Wnt receptor signaling pathway0.0160544875326414
GO:0050794regulation of cellular process0.0160544875326414
GO:0048523negative regulation of cellular process0.0167036526195371
GO:0050789regulation of biological process0.0167036526195371
GO:0048519negative regulation of biological process0.0167036526195371
GO:0032502developmental process0.0167036526195371
GO:0031323regulation of cellular metabolic process0.0167036526195371
GO:0019222regulation of metabolic process0.0182742041175836
GO:0065007biological regulation0.0182742041175836
GO:0043170macromolecule metabolic process0.0370865490371531



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)
MA0003.10.307054
MA0004.10.874584
MA0006.10.387877
MA0007.10.060952
MA0009.10.337492
MA0014.10.591201
MA0017.10.0224649
MA0019.10.205515
MA0024.10.303927
MA0025.10.530879
MA0027.11.89129
MA0028.10.41412
MA0029.10.287662
MA0030.10.794903
MA0031.10.266391
MA0038.10.137249
MA0040.10.347276
MA0041.10.0399705
MA0042.10.143421
MA0043.10.415031
MA0046.10.365786
MA0048.11.41666
MA0050.10.283608
MA0051.10.142335
MA0052.10.353618
MA0055.10.689105
MA0056.10
MA0057.10.777015
MA0058.11.77934
MA0059.11.85842
MA0060.10.0330811
MA0061.10.466178
MA0063.10
MA0066.10.81435
MA0067.10.629308
MA0068.10.0408448
MA0069.10.353886
MA0070.10.346258
MA0071.10.0830235
MA0072.10.339628
MA0073.14.36809
MA0074.10.111914
MA0076.10.026875
MA0077.10.32285
MA0078.10.161775
MA0081.10.688174
MA0083.10.414379
MA0084.10.934141
MA0087.10.379309
MA0088.11.06095
MA0089.10
MA0090.10.767293
MA0091.10.538057
MA0092.10.198903
MA0093.11.87521
MA0095.10
MA0098.10
MA0100.10.701922
MA0101.10.646174
MA0103.10.106012
MA0105.10.470028
MA0106.10.166496
MA0107.10.75593
MA0108.20.629361
MA0109.10
MA0111.10.467988
MA0113.10.149628
MA0114.10.458548
MA0115.10.417336
MA0116.10.199556
MA0117.10.390961
MA0119.11.0084
MA0122.10.407133
MA0124.10.581749
MA0125.10.516802
MA0130.10
MA0131.10.585925
MA0132.10
MA0133.10
MA0135.10.445266
MA0136.10.12239
MA0139.10.281795
MA0140.10.344645
MA0141.10.122526
MA0142.10.711227
MA0143.10.481013
MA0144.10.271931
MA0145.11.16721
MA0146.10.201021
MA0147.10.299116
MA0148.10.256057
MA0149.10.662419
MA0062.20.0954589
MA0035.20.108338
MA0039.20.24442
MA0138.20.197313
MA0002.20.156814
MA0137.20.84428
MA0104.20.527346
MA0047.20.136816
MA0112.20.377237
MA0065.20.157836
MA0150.10.219664
MA0151.10
MA0152.10.839367
MA0153.10.459241
MA0154.10.634733
MA0155.10.461564
MA0156.10.0266647
MA0157.10.233393
MA0158.10
MA0159.10.822926
MA0160.10.0748272
MA0161.10
MA0162.10.374524
MA0163.10.104277
MA0164.10.388159
MA0080.20.0236909
MA0018.20.401707
MA0099.20.563653
MA0079.26.097
MA0102.20.984244
MA0258.10.646855
MA0259.10.275364
MA0442.10
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