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MCL coexpression mm9:349: Difference between revisions

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{{MCL_coexpression_mm9
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inhibitor activity;0.00155390727746792;78609,13013,268591!GO:0030414;protease inhibitor activity;0.00155390727746792;78609,13013,268591!GO:0004869;cysteine protease inhibitor activity;0.00216860408760358;78609,13013!GO:0004857;enzyme inhibitor activity;0.00216860408760358;78609,13013,268591!GO:0046655;folic acid metabolic process;0.00999287788308772;14275!GO:0005615;extracellular space;0.0117082944214759;78609,13013,268591,14275,14230!GO:0044421;extracellular region part;0.013191880929217;78609,13013,268591,14275,14230!GO:0006620;posttranslational protein targeting to membrane;0.0187294609469804;14275!GO:0008517;folic acid transporter activity;0.0221936232131417;14275!GO:0051183;vitamin transporter activity;0.0349348537543064;14275!GO:0051184;cofactor transporter activity;0.0362889929932853;14275!GO:0005542;folic acid binding;0.0415651954327155;14275!GO:0006760;folic acid and derivative metabolic process;0.0421965688191756;14275!GO:0042558;pteridine and derivative metabolic 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|gostat_on_MCL_coexpression=GO:0004866;endopeptidase inhibitor activity;0.00155390727746792;78609,13013,268591!GO:0030414;protease inhibitor activity;0.00155390727746792;78609,13013,268591!GO:0004869;cysteine protease inhibitor activity;0.00216860408760358;78609,13013!GO:0004857;enzyme inhibitor activity;0.00216860408760358;78609,13013,268591!GO:0046655;folic acid metabolic process;0.00999287788308772;14275!GO:0005615;extracellular space;0.0117082944214759;78609,13013,268591,14275,14230!GO:0044421;extracellular region part;0.013191880929217;78609,13013,268591,14275,14230!GO:0006620;posttranslational protein targeting to membrane;0.0187294609469804;14275!GO:0008517;folic acid transporter activity;0.0221936232131417;14275!GO:0051183;vitamin transporter activity;0.0349348537543064;14275!GO:0051184;cofactor transporter activity;0.0362889929932853;14275!GO:0005542;folic acid binding;0.0415651954327155;14275!GO:0006760;folic acid and derivative metabolic process;0.0421965688191756;14275!GO:0042558;pteridine and derivative metabolic process;0.0462888715449998;14275!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000991!9.70e-62!18;UBERON:0005564!9.70e-62!18;UBERON:0004176!1.52e-57!17;UBERON:0009196!1.52e-57!17;UBERON:0009117!1.52e-57!17;UBERON:0003133!9.87e-46!24;UBERON:0000473!1.05e-45!14;UBERON:0003135!1.53e-42!15;UBERON:0005156!4.91e-42!26;UBERON:0000990!4.91e-42!26;UBERON:0003101!9.04e-40!16;UBERON:0000079!9.04e-40!16;UBERON:0002323!7.89e-29!37;UBERON:0004458!7.89e-29!37;UBERON:0003886!5.25e-28!38;UBERON:0002553!3.16e-27!39;UBERON:0000464!7.64e-18!57;UBERON:0000992!4.48e-13!3;UBERON:0000466!3.71e-12!79;UBERON:0000926!3.20e-08!120;UBERON:0004120!3.20e-08!120;UBERON:0006603!3.20e-08!120
|tfbs_overrepresentation_for_novel_motifs=0.119369,0.205918,0.104705,2.02365,0.0514566,0.15366,0.214952,1.04656,0.247005,0.0552943,0.184424,0.206436,0.0921047,0.223743,0.463829,0,0.374352,0.182139,0.393073,0.726362,1.01508,0.495413,0.223092,0.189689,0.352326,0.243873,0.188741,0.167184,0.248458,0.25504,0.15805,0.460285,0.712306,1.13741,0.0584536,0.152266,0.0440547,0.589223,0.608153,0.277918,0.186742,0.486105,0.0801319,0.214332,0.967816,0.137727,0.309657,0.177618,1.21544,0.916531,0.359925,0.264025,1.2622,0.586014,0.601849,0.22892,0.0764293,0.573993,0.0660369,0.227439,0.442975,0.271204,0.804186,0.350689,0.667373,0.384144,0.727642,1.06142,1.95702,0.919268,0.0946191,0.736708,0.0443679,0.632466,0.0127734,0.145958,0.533375,0.813317,0.428247,0.295115,0.242597,0.388829,0.270104,1.39199,0.5282,0.0205017,0.000252775,0.443564,0.313544,1.21975,0.793151,0.532634,0.471416,0.198642,0.140438,1.23591,0.700484,0.473864,0.309859,0.204213,0.0440835,0.460042,0.570262,0.360414,0.359547,0.485402,0.409409,0.519389,0.301886,0.29175,0.115332,0.57187,0.0881503,0.550938,0.799811,0.412914,0.158238,1.41908,0.375433,0.164609,0.637418,0.333667,0.686386,0.811709,0.851175,0.43141,1.17924,0.465518,0.726225,0.446029,0.554981,0.85315,0.698665,0.238902,0.820264,0.0929961,3.22217,0.162291,0.773792,1.58317,1.18855,0.732048,0.254204,0.469382,0.35423,0.161672,0.839116,1.54387,0.125637,0.0521541,0.126282,0.00872472,0.587436,0.557177,0.670097,0.662158,0.731564,1.28124,0.117954,0.124089,0.782756,0.527439,1.10281,0.365959,0.351524,0.657421,0.380389,0.592611,0.00159783
}}

Latest revision as of 15:09, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:80011458..80011470,-p@chr10:80011458..80011470
-
Mm9::chr11:106117359..106117417,-p2@Ftsj3
Mm9::chr12:104878634..104878638,+p@chr12:104878634..104878638
+
Mm9::chr12:105339297..105339308,+p3@Serpina5
Mm9::chr12:105339352..105339367,+p1@Serpina5
Mm9::chr12:105339370..105339379,+p2@Serpina5
Mm9::chr12:105339383..105339386,+p5@Serpina5
Mm9::chr12:31775417..31775434,-p@chr12:31775417..31775434
-
Mm9::chr13:18123450..18123460,-p1@ENSMUST00000099736
Mm9::chr15:98722619..98722623,-p@chr15:98722619..98722623
-
Mm9::chr16:37843615..37843636,-p@chr16:37843615..37843636
-
Mm9::chr18:74037888..74037896,+p@chr18:74037888..74037896
+
Mm9::chr18:74038195..74038197,+p@chr18:74038195..74038197
+
Mm9::chr1:121420313..121420329,+p@chr1:121420313..121420329
+
Mm9::chr2:148607786..148607808,+p1@8030411F24Rik
Mm9::chr2:148607822..148607844,+p2@8030411F24Rik
Mm9::chr2:148660852..148660861,+p3@Cst9
Mm9::chr2:148660876..148660929,+p1@Cst9
Mm9::chr2:152406007..152406024,-p2@Defb19
Mm9::chr2:152406036..152406051,-p1@Defb19
Mm9::chr5:135825912..135825919,-p2@Fkbp6
Mm9::chr7:109015905..109015934,-p8@Folr1


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:0004866endopeptidase inhibitor activity0.00155390727746792
GO:0030414protease inhibitor activity0.00155390727746792
GO:0004869cysteine protease inhibitor activity0.00216860408760358
GO:0004857enzyme inhibitor activity0.00216860408760358
GO:0046655folic acid metabolic process0.00999287788308772
GO:0005615extracellular space0.0117082944214759
GO:0044421extracellular region part0.013191880929217
GO:0006620posttranslational protein targeting to membrane0.0187294609469804
GO:0008517folic acid transporter activity0.0221936232131417
GO:0051183vitamin transporter activity0.0349348537543064
GO:0051184cofactor transporter activity0.0362889929932853
GO:0005542folic acid binding0.0415651954327155
GO:0006760folic acid and derivative metabolic process0.0421965688191756
GO:0042558pteridine and derivative metabolic process0.0462888715449998



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)
MA0003.10.00246128
MA0004.10.444991
MA0006.10.2064
MA0007.10.421767
MA0009.10.483331
MA0014.10.000273396
MA0017.10.239891
MA0019.11.57988
MA0024.10.445298
MA0025.10.694475
MA0027.12.07936
MA0028.10.21932
MA0029.10.426655
MA0030.10.43227
MA0031.10.402033
MA0038.11.26683
MA0040.10.494317
MA0041.11.12403
MA0042.10.0939798
MA0043.10.569356
MA0046.10.514989
MA0048.10.00599822
MA0050.10.169675
MA0051.10.250459
MA0052.10.501416
MA0055.10.114275
MA0056.10
MA0057.10.00478356
MA0058.10.303016
MA0059.10.0968666
MA0060.10.117373
MA0061.10.343057
MA0063.10
MA0066.10.235725
MA0067.10.798606
MA0068.10.0867743
MA0069.10.501715
MA0070.10.493176
MA0071.10.974672
MA0072.10.485733
MA0073.11.09216e-07
MA0074.10.209912
MA0076.10.265041
MA0077.10.466808
MA0078.10.755969
MA0081.10.717402
MA0083.10.568641
MA0084.11.11388
MA0087.11.31333
MA0088.10.100554
MA0089.10
MA0090.10.784211
MA0091.10.465605
MA0092.10.785025
MA0093.10.229794
MA0095.10
MA0098.10
MA0100.10.201797
MA0101.10.681587
MA0103.10.253989
MA0105.10.0554491
MA0106.12.99724
MA0107.11.3518
MA0108.20.348212
MA0109.10
MA0111.10.132626
MA0113.10.259904
MA0114.10.145706
MA0115.10.571881
MA0116.10.453258
MA0117.10.542889
MA0119.10.683064
MA0122.10.560692
MA0124.10.748494
MA0125.10.67944
MA0130.10
MA0131.10.326061
MA0132.10
MA0133.10
MA0135.10.602346
MA0136.10.637057
MA0139.11.02435
MA0140.11.73546
MA0141.11.47632
MA0142.10.389844
MA0143.10.27232
MA0144.10.0377982
MA0145.10.371879
MA0146.10.0539901
MA0147.10.370788
MA0148.10.470482
MA0149.10.104621
MA0062.20.15838
MA0035.21.11804
MA0039.20.00718354
MA0138.20.319705
MA0002.20.0910543
MA0137.20.080825
MA0104.20.477699
MA0047.20.243248
MA0112.20.115713
MA0065.20.373593
MA0150.10.421594
MA0151.10
MA0152.10.243327
MA0153.10.617506
MA0154.10.093399
MA0155.10.00328539
MA0156.10.558833
MA0157.10.952896
MA0158.10
MA0159.10.0457298
MA0160.10.924598
MA0161.10
MA0162.10.0144065
MA0163.10.0113989
MA0164.11.19299
MA0080.20.528447
MA0018.20.231394
MA0099.20.314682
MA0079.24.89688e-05
MA0102.22.62097
MA0258.10.131525
MA0259.10.150732
MA0442.10
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