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MCL coexpression mm9:204: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0731162928622474,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.2335268638117,0.297881225579985,0.405220956891543,0.264798593193012,0.386949193329338,0,0,0,0,0,0,0.0103791968486474,0,0,0,0,0,0,0,0.702635299034249,1.20369943382118,0,0,0,0.171686490222598,0.220789244932085,0,0,0,0,0.140841653605462,0.116346380288332,0.0538027986792206,0.0380188235580625,0,0.106932678779961,0.193893011938994,0.248187359045015,0.112145192034931,0.154458983811568,0,0,0,0,0,0,0,0,0,0.0392779901785318,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.078522118678911,0.0825867363219064,0,0,0,0,0.113803446464706,0.111073166435348,0.0514050548005424,0.0696031033168343,0.0817568712632069,0.156101417931449,0.147138261851992,0,0.0223851671594447,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.212419302822567,0.142435944479046,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.10509597335063,0,0,0,0,0.0672592169170953,0.0927359537809747,0.0774164737207147,0.0635717028550276,0,0.0642538110976656,0.0659019793256198,0.0691813633419548,0.00476301326726367,0,0,0,0,0.0682269141341028,0.0914641362800683,0,0,0,0,0,0,0,0,0,0,0,0,0.122271882943738,0,0,0.0663147875126409,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.149777533542322,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0177092985551041,0.0311263812325535,0,0.0732729463329626,0,0.0740267149837504,0.0388749848471105,0.0758613932353286,0.0690411384905589,0,0.0555958525510626,0.0766073954291401,0,0,0,0.0463788279086516,0,0.0228445095543661,0.0390607415003592,0.0352754493378881,0.0729583017401753,0.0387943473699824,0.00307855423067362,0,0.0486884105045233,0.0408018333703219,0,0.0625582350728301,0.0139734719509173,0.0968441960560167,0,0.0845301845292944,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0731162928622474,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.2335268638117,0.297881225579985,0.405220956891543,0.264798593193012,0.386949193329338,0,0,0,0,0,0,0.0103791968486474,0,0,0,0,0,0,0,0.702635299034249,1.20369943382118,0,0,0,0.171686490222598,0.220789244932085,0,0,0,0,0.140841653605462,0.116346380288332,0.0538027986792206,0.0380188235580625,0,0.106932678779961,0.193893011938994,0.248187359045015,0.112145192034931,0.154458983811568,0,0,0,0,0,0,0,0,0,0.0392779901785318,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.078522118678911,0.0825867363219064,0,0,0,0,0.113803446464706,0.111073166435348,0.0514050548005424,0.0696031033168343,0.0817568712632069,0.156101417931449,0.147138261851992,0,0.0223851671594447,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.212419302822567,0.142435944479046,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.10509597335063,0,0,0,0,0.0672592169170953,0.0927359537809747,0.0774164737207147,0.0635717028550276,0,0.0642538110976656,0.0659019793256198,0.0691813633419548,0.00476301326726367,0,0,0,0,0.0682269141341028,0.0914641362800683,0,0,0,0,0,0,0,0,0,0,0,0,0.122271882943738,0,0,0.0663147875126409,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.149777533542322,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0177092985551041,0.0311263812325535,0,0.0732729463329626,0,0.0740267149837504,0.0388749848471105,0.0758613932353286,0.0690411384905589,0,0.0555958525510626,0.0766073954291401,0,0,0,0.0463788279086516,0,0.0228445095543661,0.0390607415003592,0.0352754493378881,0.0729583017401753,0.0387943473699824,0.00307855423067362,0,0.0486884105045233,0.0408018333703219,0,0.0625582350728301,0.0139734719509173,0.0968441960560167,0,0.0845301845292944,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0002453!2.68e-10!8;CL:0002319!2.25e-08!43;CL:0000221!4.61e-08!44;CL:0000133!4.61e-08!44;CL:0000333!6.74e-08!10;CL:0000095!6.74e-08!10;CL:0000243!6.74e-08!10;CL:0000123!6.74e-08!10;CL:0000125!6.74e-08!10;CL:0000030!6.74e-08!10;CL:0000339!6.74e-08!10;CL:0000128!2.54e-07!6;CL:0000126!2.54e-07!6;CL:0000127!2.54e-07!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!3.41e-13!73;UBERON:0001016!1.37e-12!75;UBERON:0000073!2.91e-12!54;UBERON:0001049!9.05e-12!52;UBERON:0005068!9.05e-12!52;UBERON:0006241!9.05e-12!52;UBERON:0007135!9.05e-12!52;UBERON:0003076!3.26e-11!12;UBERON:0003057!3.26e-11!12;UBERON:0002346!3.11e-08!64;UBERON:0003075!3.11e-08!64;UBERON:0007284!3.11e-08!64;UBERON:0004121!4.88e-08!95;UBERON:0000924!4.88e-08!95;UBERON:0006601!4.88e-08!95;UBERON:0002616!7.16e-08!46;UBERON:0002420!7.26e-08!8;UBERON:0007245!7.26e-08!8;UBERON:0010009!7.26e-08!8;UBERON:0010011!7.26e-08!8;UBERON:0000454!7.26e-08!8;UBERON:0000955!1.37e-07!47;UBERON:0006238!1.37e-07!47;UBERON:0002020!1.46e-07!34;UBERON:0000025!5.52e-07!114;UBERON:0002950!7.54e-07!4;UBERON:0001891!7.54e-07!4;UBERON:0009616!7.54e-07!4;UBERON:0010286!7.54e-07!4;UBERON:0002240!9.20e-07!6;UBERON:0005174!9.20e-07!6;UBERON:0001137!9.20e-07!6
}}
}}

Revision as of 17:50, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:25341361..25341374,-p@chr10:25341361..25341374
-
Mm9::chr10:59862497..59862520,+p2@Gm17455
Mm9::chr10:59862550..59862553,+p3@Gm17455
Mm9::chr10:59862597..59862624,+p1@Gm17455
Mm9::chr10:61656947..61656959,-p@chr10:61656947..61656959
-
Mm9::chr10:75403311..75403323,-p3@ENSMUST00000059658
p3@uc007fts.1
Mm9::chr10:75403348..75403368,-p2@ENSMUST00000059658
p2@uc007fts.1
Mm9::chr11:102749101..102749112,-p@chr11:102749101..102749112
-
Mm9::chr11:116196664..116196679,-p1@Foxj1
Mm9::chr11:32036107..32036145,-p@chr11:32036107..32036145
-
Mm9::chr11:45567111..45567116,-p@chr11:45567111..45567116
-
Mm9::chr11:68884359..68884382,+p2@Tmem107
Mm9::chr12:112646729..112646768,+p@chr12:112646729..112646768
+
Mm9::chr12:17018318..17018367,-p1@2410004P03Rik
Mm9::chr13:34129535..34129551,+p@chr13:34129535..34129551
+
Mm9::chr14:56362683..56362711,-p@chr14:56362683..56362711
-
Mm9::chr15:25682615..25682652,+p6@Myo10
Mm9::chr15:57540476..57540491,-p1@ENSMUST00000160938
Mm9::chr15:78235786..78235811,-p@chr15:78235786..78235811
-
Mm9::chr15:78236613..78236617,+p@chr15:78236613..78236617
+
Mm9::chr15:88808274..88808289,-p@chr15:88808274..88808289
-
Mm9::chr15:89209677..89209693,-p4@Odf3b
Mm9::chr15:89209695..89209731,-p1@Odf3b
Mm9::chr16:17646606..17646623,+p2@Ccdc74a
Mm9::chr16:17646685..17646713,+p@chr16:17646685..17646713
+
Mm9::chr17:35822365..35822376,-p@chr17:35822365..35822376
-
Mm9::chr17:72022595..72022611,+p1@Fam179a
Mm9::chr17:81296183..81296194,+p2@uc008drl.1
p2@uc008drm.1
Mm9::chr1:122016630..122016662,-p6@Dbi
Mm9::chr1:87791024..87791029,+p3@Itm2c
Mm9::chr4:116799381..116799402,+p2@Tctex1d4
Mm9::chr4:116799405..116799423,+p1@Tctex1d4
Mm9::chr4:135525988..135526004,-p@chr4:135525988..135526004
-
Mm9::chr4:43441943..43441960,-p@chr4:43441943..43441960
-
Mm9::chr4:43442000..43442011,-p1@Fam166b
Mm9::chr5:23889365..23889379,+p@chr5:23889365..23889379
+
Mm9::chr5:5314611..5314624,-p@chr5:5314611..5314624
-
Mm9::chr5:66842890..66842903,-p11@Apbb2
Mm9::chr6:113277237..113277258,+p2@Ogg1
Mm9::chr6:47998855..47998863,-p5@Zfp777
Mm9::chr7:148211055..148211073,+p@chr7:148211055..148211073
+
Mm9::chr8:113227136..113227143,+p@chr8:113227136..113227143
+
Mm9::chr8:96676922..96676933,+p@chr8:96676922..96676933
+
Mm9::chr8:96677795..96677811,+p@chr8:96677795..96677811
+
Mm9::chr9:103595089..103595100,-p4@Tmem108
Mm9::chr9:103595115..103595142,-p3@Tmem108


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

no results for this coexpression

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>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
central nervous system3.41e-1373
nervous system1.37e-1275
regional part of nervous system2.91e-1254
neural tube9.05e-1252
neural rod9.05e-1252
future spinal cord9.05e-1252
neural keel9.05e-1252
posterior neural tube3.26e-1112
chordal neural plate3.26e-1112
neurectoderm3.11e-0864
neural plate3.11e-0864
presumptive neural plate3.11e-0864
ectoderm-derived structure4.88e-0895
ectoderm4.88e-0895
presumptive ectoderm4.88e-0895
regional part of brain7.16e-0846
basal ganglion7.26e-088
nuclear complex of neuraxis7.26e-088
aggregate regional part of brain7.26e-088
collection of basal ganglia7.26e-088
cerebral subcortex7.26e-088
brain1.37e-0747
future brain1.37e-0747
gray matter1.46e-0734
tube5.52e-07114
regional part of midbrain7.54e-074
midbrain7.54e-074
presumptive midbrain7.54e-074
midbrain neural tube7.54e-074
spinal cord9.20e-076
dorsal region element9.20e-076
dorsum9.20e-076


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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