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MCL coexpression mm9:209: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.216347494874786,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0421182837367051,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.145528461145601,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0576433181427177,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.370263009505495,0.381110508215446,0.547512012939316,0.569649650917585,0.710855861520886,0.821719651780417,0.764305507450229,0.444452162873441,0.0939761495634833,0.109925980570702,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0032222;regulation of synaptic transmission, cholinergic;0.0332000219142059;16773!GO:0047045;testosterone 17-beta-dehydrogenase (NADP+) activity;0.0332000219142059;15487!GO:0032224;positive regulation of synaptic transmission, cholinergic;0.0332000219142059;16773!GO:0003708;retinoic acid receptor activity;0.0398138396827877;19401!GO:0033327;Leydig cell differentiation;0.0398138396827877;13363!GO:0016539;intein-mediated protein splicing;0.0398138396827877;13363!GO:0030908;protein splicing;0.0398138396827877;13363!GO:0051971;positive regulation of transmission of nerve impulse;0.0398138396827877;16773!GO:0050806;positive regulation of synaptic transmission;0.0398138396827877;16773!GO:0031646;positive regulation of neurological process;0.0398138396827877;16773!GO:0005606;laminin-1 complex;0.0452330855396336;16773!GO:0055012;ventricular cardiac muscle cell differentiation;0.0497345914387747;19401!GO:0045995;regulation of embryonic development;0.0497345914387747;16773!GO:0043256;laminin complex;0.0497345914387747;16773!
|gostat_on_MCL_coexpression=GO:0032222;regulation of synaptic transmission, cholinergic;0.0332000219142059;16773!GO:0047045;testosterone 17-beta-dehydrogenase (NADP+) activity;0.0332000219142059;15487!GO:0032224;positive regulation of synaptic transmission, cholinergic;0.0332000219142059;16773!GO:0003708;retinoic acid receptor activity;0.0398138396827877;19401!GO:0033327;Leydig cell differentiation;0.0398138396827877;13363!GO:0016539;intein-mediated protein splicing;0.0398138396827877;13363!GO:0030908;protein splicing;0.0398138396827877;13363!GO:0051971;positive regulation of transmission of nerve impulse;0.0398138396827877;16773!GO:0050806;positive regulation of synaptic transmission;0.0398138396827877;16773!GO:0031646;positive regulation of neurological process;0.0398138396827877;16773!GO:0005606;laminin-1 complex;0.0452330855396336;16773!GO:0055012;ventricular cardiac muscle cell differentiation;0.0497345914387747;19401!GO:0045995;regulation of embryonic development;0.0497345914387747;16773!GO:0043256;laminin complex;0.0497345914387747;16773!
}}
}}

Revision as of 12:38, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:27336825..27336853,-p4@Lama2
Mm9::chr10:80266026..80266037,+p@chr10:80266026..80266037
+
Mm9::chr10:80268873..80268886,+p@chr10:80268873..80268886
+
Mm9::chr11:98826125..98826141,+p12@Rara
Mm9::chr12:15613141..15613159,+p@chr12:15613141..15613159
+
Mm9::chr12:15613173..15613196,+p@chr12:15613173..15613196
+
Mm9::chr13:64185792..64185799,-p@chr13:64185792..64185799
-
Mm9::chr13:64190453..64190472,-p2@Hsd17b3
Mm9::chr13:64190487..64190500,-p3@Hsd17b3
Mm9::chr13:64190505..64190516,-p4@Hsd17b3
Mm9::chr13:64190530..64190544,-p1@Hsd17b3
Mm9::chr13:64190565..64190575,-p5@Hsd17b3
Mm9::chr13:64190682..64190702,-p6@Hsd17b3
Mm9::chr13:64190730..64190737,-p8@Hsd17b3
Mm9::chr14:52854959..52854970,-p@chr14:52854959..52854970
-
Mm9::chr15:25584890..25584921,+p@chr15:25584890..25584921
+
Mm9::chr15:98728914..98728989,-p1@Dhh
Mm9::chr17:24610840..24610867,+p1@9930021D14Rik
Mm9::chr17:26343369..26343379,-p@chr17:26343369..26343379
-
Mm9::chr17:26343389..26343398,-p@chr17:26343389..26343398
-
Mm9::chr19:45151174..45151192,+p@chr19:45151174..45151192
+
Mm9::chr19:45151197..45151217,+p@chr19:45151197..45151217
+
Mm9::chr1:75503214..75503225,-p11@Obsl1
Mm9::chr2:152757674..152757681,+p@chr2:152757674..152757681
+
Mm9::chr3:87804937..87804965,-p@chr3:87804937..87804965
-
Mm9::chr3:9028360..9028371,+p@chr3:9028360..9028371
+
Mm9::chr5:104863543..104863571,+p@chr5:104863543..104863571
+
Mm9::chr5:114411821..114411827,-p@chr5:114411821..114411827
-
Mm9::chr5:117768747..117768768,+p@chr5:117768747..117768768
+
Mm9::chr5:123229458..123229472,-p2@Camkk2
Mm9::chr6:113343056..113343076,+p4@Ttll3
Mm9::chr6:52911717..52911733,-p@chr6:52911717..52911733
-
Mm9::chr6:83138985..83138996,+p10@Dctn1
Mm9::chr6:92777628..92777657,+p2@ENSMUST00000133858
Mm9::chr6:92777666..92777679,+p3@ENSMUST00000133858
Mm9::chr7:104599777..104599780,+p5@Kctd14
Mm9::chr7:122456428..122456433,-p@chr7:122456428..122456433
-
Mm9::chr7:151449983..151449996,+p@chr7:151449983..151449996
+
Mm9::chr7:151450010..151450017,+p@chr7:151450010..151450017
+
Mm9::chr8:97519604..97519648,+p@chr8:97519604..97519648
+
Mm9::chr8:97519650..97519661,+p@chr8:97519650..97519661
+
Mm9::chr9:62620734..62620748,+p@chr9:62620734..62620748
+
Mm9::chr9:83143732..83143739,-p@chr9:83143732..83143739
-
Mm9::chr9:83143828..83143845,-p@chr9:83143828..83143845
-


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:0032222regulation of synaptic transmission, cholinergic0.0332000219142059
GO:0047045testosterone 17-beta-dehydrogenase (NADP+) activity0.0332000219142059
GO:0032224positive regulation of synaptic transmission, cholinergic0.0332000219142059
GO:0003708retinoic acid receptor activity0.0398138396827877
GO:0033327Leydig cell differentiation0.0398138396827877
GO:0016539intein-mediated protein splicing0.0398138396827877
GO:0030908protein splicing0.0398138396827877
GO:0051971positive regulation of transmission of nerve impulse0.0398138396827877
GO:0050806positive regulation of synaptic transmission0.0398138396827877
GO:0031646positive regulation of neurological process0.0398138396827877
GO:0005606laminin-1 complex0.0452330855396336
GO:0055012ventricular cardiac muscle cell differentiation0.0497345914387747
GO:0045995regulation of embryonic development0.0497345914387747
GO:0043256laminin complex0.0497345914387747



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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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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