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MCL coexpression mm9:345: Difference between revisions

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{{MCL_coexpression_mm9
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ADP-ribosyltransferase activity;0.00877792301695221;80285,547253!GO:0016763;transferase activity, transferring pentosyl groups;0.0217772420971895;80285,547253!GO:0030686;90S preribosome;0.0217772420971895;12370!GO:0030689;Noc complex;0.0217772420971895;12370!GO:0030690;Noc1p-Noc2p complex;0.0217772420971895;12370!GO:0030687;nucleolar preribosome, large subunit precursor;0.0217772420971895;12370!GO:0006014;D-ribose metabolic process;0.0217772420971895;71336!GO:0004747;ribokinase activity;0.0217772420971895;71336!GO:0006868;glutamine transport;0.0348302241563201;105727!GO:0015186;L-glutamine transmembrane transporter activity;0.0348302241563201;105727!GO:0015802;basic amino acid transport;0.0401733084262888;105727!GO:0030685;nucleolar preribosome;0.0401733084262888;12370!GO:0030684;preribosome;0.0401733084262888;12370!GO:0015174;basic amino acid transmembrane transporter 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|gostat_on_MCL_coexpression=GO:0003950;NAD+ ADP-ribosyltransferase activity;0.00877792301695221;80285,547253!GO:0016763;transferase activity, transferring pentosyl groups;0.0217772420971895;80285,547253!GO:0030686;90S preribosome;0.0217772420971895;12370!GO:0030689;Noc complex;0.0217772420971895;12370!GO:0030690;Noc1p-Noc2p complex;0.0217772420971895;12370!GO:0030687;nucleolar preribosome, large subunit precursor;0.0217772420971895;12370!GO:0006014;D-ribose metabolic process;0.0217772420971895;71336!GO:0004747;ribokinase activity;0.0217772420971895;71336!GO:0006868;glutamine transport;0.0348302241563201;105727!GO:0015186;L-glutamine transmembrane transporter activity;0.0348302241563201;105727!GO:0015802;basic amino acid transport;0.0401733084262888;105727!GO:0030685;nucleolar preribosome;0.0401733084262888;12370!GO:0030684;preribosome;0.0401733084262888;12370!GO:0015174;basic amino acid transmembrane transporter activity;0.0497193097025199;105727!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004119!1.97e-20!118;UBERON:0000925!1.97e-20!118;UBERON:0006595!1.97e-20!118;UBERON:0001007!4.22e-20!116;UBERON:0001555!4.22e-20!116;UBERON:0007026!4.22e-20!116;UBERON:0004921!5.07e-19!114;UBERON:0000160!1.65e-11!31;UBERON:0005409!2.05e-11!47;UBERON:0003929!2.08e-11!55;UBERON:0000490!6.88e-11!66;UBERON:0005911!1.07e-10!69;UBERON:0004923!4.31e-10!24;UBERON:0002193!4.77e-09!48;UBERON:0002405!4.77e-09!48;UBERON:0000344!1.73e-08!15;UBERON:0001041!6.83e-08!80;UBERON:0002390!1.13e-07!45;UBERON:0003061!1.13e-07!45;UBERON:0001242!1.70e-07!13;UBERON:0000060!1.70e-07!13;UBERON:0001262!1.70e-07!13;UBERON:0004786!1.70e-07!13;UBERON:0002365!8.69e-07!25;UBERON:0002330!8.69e-07!25
|tfbs_overrepresentation_for_novel_motifs=0.762536,0.859739,2.29598,0.144583,0.0514566,0.466956,0.615468,0.229454,0.465626,0.506646,0.184424,0.595264,0.22989,0.636202,0.0582501,0,0.374352,0.182139,0.647746,0.305467,0.0854539,1.25452,1.18809,1.60129,1.17756,1.26705,0.612988,0.50041,0.248458,0.685197,0.477864,0.460285,0.179513,0.315369,0.21244,0.239233,0.168805,0.2039,0.144722,0.277918,0.186742,2.15537,0.438881,0.0590946,2.74042,0.843029,0.309657,0.177618,0.211272,0.916531,0.359925,0.264025,0.238206,0.586014,0.601849,0.648355,0.559359,0.573993,0.866154,0.644883,0.442975,0.746278,0.804186,0.350689,0.237053,0.384144,0.727642,1.06142,0.438956,0.919268,1.0803,0.0223673,0.0131308,0.632466,0.830159,0.295983,0.533375,0.300684,0.428247,1.0304,0.45844,0.388829,0.270104,0.0864064,0.5282,0.408967,0.211214,0.122924,0.313544,1.21975,0.793151,0.532634,0.471416,0.198642,0.32782,0.855124,1.03253,0.473864,0.834007,0.364782,0.681072,0.460042,0.570262,0.360414,0.359547,0.161095,0.409409,0.519389,1.0481,1.02158,0.115332,0.57187,0.0881503,1.05065,0.799811,0.412914,3.04242,1.41908,1.73999,0.0427125,0.637418,0.333667,0.245224,0.811709,0.851175,0.43141,0.220786,0.465518,0.726225,0.446029,0.554981,0.140083,0.698665,0.238902,0.820264,0.183848,0.78425,0.488358,0.773792,1.58317,1.18855,0.732048,0.254204,1.18389,0.35423,0.944018,0.31213,1.54387,0.396035,0.429877,0.698441,0.0788443,0.587436,0.30395,1.24572,0.662158,0.731564,0.0633954,0.117954,1.27697,0.782756,0.527439,0.431791,1.21191,1.65674,1.90389,0.167532,0.205322,0.126659
}}

Latest revision as of 15:08, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127707602..127707633,+p1@Stat2
Mm9::chr10:43723638..43723704,-p@chr10:43723638..43723704
-
Mm9::chr11:101309717..101309801,+p1@Ifi35
Mm9::chr13:58259003..58259050,+p1@5133401N09Rik
Mm9::chr16:35871458..35871474,-p1@Parp14
Mm9::chr16:35938971..35938994,-p2@Dtx3l
Mm9::chr16:35938998..35939024,-p1@Dtx3l
Mm9::chr16:35939058..35939158,+p1@Parp9
Mm9::chr17:36169627..36169687,-p1@C920025E04Rik
p1@H2-T23
p1@LOC100505163
Mm9::chr1:133904946..133904974,+p7@Elk4
Mm9::chr1:58852462..58852483,+p4@Casp8
Mm9::chr1:58852500..58852511,+p8@Casp8
Mm9::chr2:166888058..166888105,-p2@Znfx1
Mm9::chr2:51828449..51828501,-p1@Nmi
Mm9::chr2:51828510..51828542,-p2@Nmi
Mm9::chr4:115500666..115500708,+p1@Mob3c
Mm9::chr5:31999971..32000005,-p1@Rbks
Mm9::chr6:38304231..38304240,-p4@Zc3hav1
Mm9::chr6:38304243..38304292,-p2@Zc3hav1
Mm9::chr6:57530965..57530979,+p3@Herc6
Mm9::chr6:57530988..57531009,+p2@Herc6
Mm9::chr8:70018742..70018782,+p1@Nat2


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:0003950NAD+ ADP-ribosyltransferase activity0.00877792301695221
GO:0016763transferase activity, transferring pentosyl groups0.0217772420971895
GO:003068690S preribosome0.0217772420971895
GO:0030689Noc complex0.0217772420971895
GO:0030690Noc1p-Noc2p complex0.0217772420971895
GO:0030687nucleolar preribosome, large subunit precursor0.0217772420971895
GO:0006014D-ribose metabolic process0.0217772420971895
GO:0004747ribokinase activity0.0217772420971895
GO:0006868glutamine transport0.0348302241563201
GO:0015186L-glutamine transmembrane transporter activity0.0348302241563201
GO:0015802basic amino acid transport0.0401733084262888
GO:0030685nucleolar preribosome0.0401733084262888
GO:0030684preribosome0.0401733084262888
GO:0015174basic amino acid transmembrane transporter activity0.0497193097025199



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
endoderm-derived structure1.97e-20118
endoderm1.97e-20118
presumptive endoderm1.97e-20118
digestive system4.22e-20116
digestive tract4.22e-20116
primitive gut4.22e-20116
subdivision of digestive tract5.07e-19114
intestine1.65e-1131
gastrointestinal system2.05e-1147
gut epithelium2.08e-1155
unilaminar epithelium6.88e-1166
endo-epithelium1.07e-1069
organ component layer4.31e-1024
hemolymphoid system4.77e-0948
immune system4.77e-0948
mucosa1.73e-0815
foregut6.83e-0880
hematopoietic system1.13e-0745
blood island1.13e-0745
intestinal mucosa1.70e-0713
anatomical wall1.70e-0713
wall of intestine1.70e-0713
gastrointestinal system mucosa1.70e-0713
exocrine gland8.69e-0725
exocrine system8.69e-0725


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)
MA0003.10.617358
MA0004.10.144883
MA0006.10.2064
MA0007.10.421767
MA0009.10.483331
MA0014.10.0690682
MA0017.10.882691
MA0019.10.329708
MA0024.10.445298
MA0025.10.694475
MA0027.12.07936
MA0028.10.825855
MA0029.10.426655
MA0030.10.43227
MA0031.10.402033
MA0038.10.683113
MA0040.10.494317
MA0041.10.10094
MA0042.10.0939798
MA0043.10.569356
MA0046.11.28141
MA0048.10.096215
MA0050.110.66
MA0051.113.7054
MA0052.10.501416
MA0055.10.310665
MA0056.10
MA0057.10.00478356
MA0058.10.0904678
MA0059.10.0968666
MA0060.10.521938
MA0061.10.148219
MA0063.10
MA0066.10.664275
MA0067.10.798606
MA0068.10.0867743
MA0069.10.501715
MA0070.10.493176
MA0071.10.505175
MA0072.10.485733
MA0073.10.00852377
MA0074.10.209912
MA0076.11.96185
MA0077.10.466808
MA0078.10.275441
MA0081.11.18104
MA0083.10.568641
MA0084.11.11388
MA0087.10.530004
MA0088.10.732432
MA0089.10
MA0090.10.392445
MA0091.10.153118
MA0092.10.785025
MA0093.10.0643828
MA0095.10
MA0098.10
MA0100.10.201797
MA0101.10.333139
MA0103.10.253989
MA0105.10.303135
MA0106.10.769607
MA0107.10.526347
MA0108.20.348212
MA0109.10
MA0111.10.132626
MA0113.10.720329
MA0114.11.36887
MA0115.10.571881
MA0116.10.206147
MA0117.10.542889
MA0119.10.333984
MA0122.10.560692
MA0124.10.748494
MA0125.10.67944
MA0130.10
MA0131.10.326061
MA0132.10
MA0133.10
MA0135.14.88995
MA0136.11.19199
MA0139.10.222381
MA0140.10.201717
MA0141.10.280405
MA0142.10.389844
MA0143.10.27232
MA0144.11.38717
MA0145.10.799315
MA0146.11.66448
MA0147.10.0420513
MA0148.10.155077
MA0149.10.104621
MA0062.21.94427
MA0035.20.205003
MA0039.20.232894
MA0138.20.319705
MA0002.20.0910543
MA0137.22.62607
MA0104.20.103917
MA0047.20.243248
MA0112.20.799281
MA0065.21.391
MA0150.10.421594
MA0151.10
MA0152.10.68198
MA0153.11.4979
MA0154.10.571068
MA0155.10.0626858
MA0156.10.94766
MA0157.10.363212
MA0158.10
MA0159.10.174007
MA0160.10.156994
MA0161.10
MA0162.10.222445
MA0163.10.768601
MA0164.10.637671
MA0080.22.46313
MA0018.20.654151
MA0099.20.314682
MA0079.20.000394645
MA0102.21.16504
MA0258.11.73975
MA0259.10.0383313
MA0442.10
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