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MCL coexpression mm9:340: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000945!2.77e-14!16;UBERON:0010039!2.77e-14!16;UBERON:0000014!8.78e-07!5;UBERON:0001003!8.78e-07!5;UBERON:0002097!8.78e-07!5;UBERON:0002199!8.78e-07!5;UBERON:0007029!8.78e-07!5;UBERON:0007376!8.78e-07!5;UBERON:0002416!8.78e-07!5;UBERON:0007383!8.78e-07!5
|ontology_enrichment_uberon=UBERON:0000945!2.77e-14!16;UBERON:0010039!2.77e-14!16;UBERON:0000014!8.78e-07!5;UBERON:0001003!8.78e-07!5;UBERON:0002097!8.78e-07!5;UBERON:0002199!8.78e-07!5;UBERON:0007029!8.78e-07!5;UBERON:0007376!8.78e-07!5;UBERON:0002416!8.78e-07!5;UBERON:0007383!8.78e-07!5
|tfbs_overrepresentation_for_novel_motifs=0.110832,0.0067908,0.0967691,0.831798,0.701412,0.442517,0.203465,1.77639,0.699778,0.0166489,0.173735,0.568323,0.0181895,0.212045,0.195204,0,0.359959,0.674982,0.0702244,0.272746,2.58909,0.880744,0.211409,2.02582,0.330779,0.23172,0.169642,0.156999,0.0645727,0.629469,0.148148,0.444875,1.03558,0.285662,0.19578,0.0718753,0.0394039,0.19269,0.131332,0.25408,0.687976,0.151372,0.793004,0.437292,0.158204,0.128506,0.296243,0.167123,1.11123,0.504749,0.345732,0.251452,0.378342,0.569522,0.585246,0.217101,0.525548,0.186482,0.155641,0.215654,0.427748,0.258489,0.464178,0.33663,0.22505,0.96703,0.710311,1.04299,0.423773,0.901202,0.0871308,0.418659,0.0106533,0.615662,0.0108504,0.267317,3.81785,0.287424,0.413185,1.45829,1.01841,0.374245,0.25741,0.197096,0.512157,0.000115462,0.000180154,0.403279,0.300065,1.20106,0.775527,0.516553,2.01401,0.72126,0.0311482,1.16319,0.394469,0.458317,0.803726,0.0823725,0.637194,0.444635,0.553884,0.915262,0.34536,0.151097,0.394568,0.49385,0.0827779,0.0792537,0.106955,0.555481,0.0809652,0.177151,0.78216,1.49568,0.00248467,0.426065,0.361025,0.346862,0.620583,0.319864,0.658005,1.42556,0.833329,0.416312,0.209158,0.450055,0.7089,0.415597,0.53872,0.130779,0.68148,0.226858,0.802533,0.159824,0.745293,0.152256,0.75625,1.56412,1.1699,0.714696,0.241832,0.45388,0.340119,0.151656,0.298675,1.52485,0.373295,0.0469598,0.0389106,0.000969399,0.570933,0.115918,0.226192,0.645175,0.70255,0.459789,0.353936,0.11537,0.765175,1.27377,0.416689,0.344026,0.895778,0.220885,0.633271,0.194075,0.0576766
}}
}}

Revision as of 18:12, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:80580869..80580904,+p4@Map2k2
Mm9::chr11:121463007..121463024,+p6@Tbcd
Mm9::chr15:59626509..59626514,-p1@Gm19510
Mm9::chr15:74564722..74564729,-p2@Lypd2
Mm9::chr18:20220073..20220091,-p@chr18:20220073..20220091
-
Mm9::chr18:20220148..20220153,-p@chr18:20220148..20220153
-
Mm9::chr2:127570249..127570296,-p2@Nphp1
Mm9::chr2:30049671..30049687,-p3@Ccbl1
Mm9::chr3:125681557..125681568,-p@chr3:125681557..125681568
-
Mm9::chr3:92222001..92222010,+p1@Sprr2j-ps
Mm9::chr3:92222042..92222055,+p2@Sprr2j-ps
Mm9::chr3:92236500..92236507,+p1@Sprr2k
Mm9::chr3:92260735..92260763,+p@chr3:92260735..92260763
+
Mm9::chr3:92261115..92261125,-p@chr3:92261115..92261125
-
Mm9::chr3:92261163..92261174,-p@chr3:92261163..92261174
-
Mm9::chr3:92261211..92261222,-p@chr3:92261211..92261222
-
Mm9::chr3:92261253..92261263,-p@chr3:92261253..92261263
-
Mm9::chr3:92262637..92262652,-p1@Sprr3
Mm9::chr3:93201855..93201866,+p@chr3:93201855..93201866
+
Mm9::chr3:93202135..93202148,+p@chr3:93202135..93202148
+
Mm9::chr6:55434602..55434607,+p@chr6:55434602..55434607
+
Mm9::chr7:26152711..26152722,-p@chr7:26152711..26152722
-
Mm9::chr7:26154731..26154749,-p1@Cnfn


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:0001533cornified envelope5.77541237792595e-06
GO:0031424keratinization7.39858915949517e-06
GO:0009913epidermal cell differentiation1.1018611209622e-05
GO:0048730epidermis morphogenesis2.31959133667652e-05
GO:0048729tissue morphogenesis6.76484108271804e-05
GO:0008544epidermis development0.000118616180189891
GO:0007398ectoderm development0.000118616180189891
GO:0009888tissue development0.00219537389489957
GO:0047316glutamine-phenylpyruvate transaminase activity0.00448023764738825
GO:0047804cysteine-S-conjugate beta-lyase activity0.00806288133218585
GO:0016212kynurenine-oxoglutarate transaminase activity0.010992729869998
GO:00168471-aminocyclopropane-1-carboxylate synthase activity0.0134329824711121
GO:0016846carbon-sulfur lyase activity0.0278725354145116
GO:0005856cytoskeleton0.0319885563879413



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
stomach2.77e-1416
food storage organ2.77e-1416
zone of skin8.78e-075
skin epidermis8.78e-075
skin of body8.78e-075
integument8.78e-075
surface8.78e-075
outer epithelium8.78e-075
integumental system8.78e-075
enveloping layer of ectoderm8.78e-075


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)

{{{tfbs_overrepresentation_jaspar}}}

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