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MCL coexpression mm9:286: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0.0894671442973652,0,0,0,0,0,0,0,0,0,0,0,0,-0.0110118016715627,-0.0216666875468968,-0.050603963791956,0,0,0,0,0.0517823057165658,0,-0.0354384950831587,0,0,0,0,0,0,0,0,0,0,-0.0623063220167371,0,0,0,0,-0.0141539932420942,0,0,0,0,0,0,0,1.42844119351966,0.0948633338865138,0.307922530026151,0.270716912345542,0.528887039731093,0.289094225930445,0,-0.0322822721075458,-0.0529304404135566,0.180274689346406,0.109421078997306,0,0,0,0,0.527876196417904,0.658696105011154,0,0,0,0.389826957822367,0.324302032901418,0,0,0,0.0925846962545493,0.0866689030825281,0,0,0,0,0,0.0620577069359474,0,0,0,0.0925632422378937,0.16030350828116,0.117618844090197,0.0599510476621516,0.0171606771476336,0,0,0,0.0573394525622347,0,0,0,0,0,0.0114527869710046,0,0,0,0.107781924973909,0,0,0,0,0,0.031918923073387,0,0,0.0505949034028005,0.0315031664474517,0,0.0660419785441708,0,0.0482820047261801,0.0514097768499148,0.0319376638233484,0,0,0.0528618000567476,0,0,0,0,0.0825867363219064,0,0,0,0,0,0,0,0.0696031033168343,0.0381451689483145,0,0,0.0469096907938849,0.0509235292940968,0,0,0.0531247310291112,0.0230514794207474,0,0.0456467386659052,0.055406237837571,0,0.0101577575595495,0.0999233952154288,0.0753724028121038,0.140898162455787,0.171718028807667,0.0860734338295156,0.139105526860766,0.12977112683364,0.208803048664568,0.0788315948399074,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00927819534530805,0,0.0711761707812607,0.0425379529581421,-0.038319809883027,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0146264995656655,0.0294389011296462,0,0,0,0,0,-0.00185999483553356,0,-0.0529304404135566,0,-0.0623063220167371,0,0,0,0,0,0,0,0,0,0,0.132457193985781,0,0,0,0,0.0672592169170953,0,0.0669247655228287,0.000798382365841843,0.0825214356493166,0,0.0975144236911162,0.0691813633419548,0.236347100880389,0,0,0,0,0.0646640766951323,0.0481354699899057,0,0,0,0,0,0,0,0,0,0,0,0.00226758778591285,0.0562098127379277,0.0711694759496908,0.0655375003561515,0.0333720221900925,0,0.023352085085254,0,0,0.00470914786910603,0,0,0,0,0,0,0,0,0.0719044921483595,0.0528318955547673,0.110993807672629,0.0709019855629759,0.210665544294997,0.13781226506301,0.115432414129512,0.0892426627963172,0,0,0.121611611059123,0.19146438933765,0.0615352959411188,0.132937195692582,0,0,0.0115678706739068,0,0.0877662905699266,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0135098818543785,0,0,0,0,0,0,0.0297160707844757,0.0527554171614426,0.0148677706500517,0.0556281307422597,0.0531569878936061,0,0,0,0,0.0801664161057822,0.0188327605738683,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0440270628489184,0.0449541516455757,0.00416720052177544,0.0843504501108034,0,0,0,0,0,0,0,0,0,0,0,0.0289835633546164,0.0866812568170158,0.0684580848992459,0.0945084131504676,0.0203401820213446,0.073294297058821,0.0836073475926176,0.0466450403302857,0.120876255993453,0.0266879425311732,0.098117166361508,0.0872837476076012,0.0776835745808277,0.0990244263857601,0.128597245627104,0.0923454808663776,0.0479167523757955,0.0887758957292581,0.0809879130117808,0.0596387295197733,0.0647926997877446,0.0696174640584703,0.092873634605593,0.106532382578619,0.104155055349105,0.073674447457895,0.0795129582362832,0.101427320830301,0.0553034373508932,0,0.0687738573437087,0.0780974029773103,0.0960517610334877,0.0969082476292035,0.0766064454112358,0.175981558593572,0.152954946728044,0.0845301845292944,0.144037036073831,0.0764389974589585,0
|gostat_on_MCL_coexpression=GO:0035107;appendage morphogenesis;0.0495393326676861;11695,232174!GO:0035108;limb morphogenesis;0.0495393326676861;11695,232174!GO:0060173;limb development;0.0495393326676861;11695,232174!GO:0048736;appendage development;0.0495393326676861;11695,232174!GO:0032502;developmental process;0.0495393326676861;12015,11695,18007,20204,232174,56699!GO:0004938;alpha2-adrenergic receptor activity;0.0495393326676861;11551!GO:0048856;anatomical structure development;0.0495393326676861;12015,11695,18007,232174,56699!GO:0004500;dopamine beta-monooxygenase activity;0.0495393326676861;59012!GO:0048384;retinoic acid receptor signaling pathway;0.0495393326676861;232174!GO:0016715;oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen;0.0495393326676861;59012!GO:0045579;positive regulation of B cell differentiation;0.0495393326676861;12015!GO:0045296;cadherin binding;0.0495393326676861;18007!GO:0050839;cell adhesion molecule binding;0.0495393326676861;18007!GO:0003002;regionalization;0.0495393326676861;11695,232174!GO:0007275;multicellular organismal development;0.0495393326676861;12015,11695,18007,20204,232174!GO:0004936;alpha-adrenergic receptor activity;0.0495393326676861;11551!GO:0007517;muscle development;0.0495393326676861;11695,18007!GO:0000768;syncytium formation by plasma membrane fusion;0.0495393326676861;18007!GO:0007520;myoblast fusion;0.0495393326676861;18007!GO:0014902;myotube differentiation;0.0495393326676861;18007!GO:0008191;metalloendopeptidase inhibitor activity;0.0495393326676861;278507!GO:0006949;syncytium formation;0.0495393326676861;18007!GO:0042573;retinoic acid metabolic process;0.0495393326676861;232174!GO:0045577;regulation of B cell differentiation;0.0495393326676861;12015!GO:0006548;histidine catabolic process;0.0495393326676861;59012!GO:0007140;male meiosis;0.0495393326676861;232174!GO:0009077;histidine family amino acid catabolic process;0.0495393326676861;59012!GO:0050789;regulation of biological process;0.0495393326676861;12015,11695,18007,20204,17965,56699!GO:0009954;proximal/distal pattern formation;0.0495393326676861;232174!GO:0006547;histidine metabolic process;0.0495393326676861;59012!GO:0009075;histidine family amino acid metabolic process;0.0495393326676861;59012!GO:0005021;vascular endothelial growth factor receptor activity;0.0495393326676861;18007!
|gostat_on_MCL_coexpression=GO:0035107;appendage morphogenesis;0.0495393326676861;11695,232174!GO:0035108;limb morphogenesis;0.0495393326676861;11695,232174!GO:0060173;limb development;0.0495393326676861;11695,232174!GO:0048736;appendage development;0.0495393326676861;11695,232174!GO:0032502;developmental process;0.0495393326676861;12015,11695,18007,20204,232174,56699!GO:0004938;alpha2-adrenergic receptor activity;0.0495393326676861;11551!GO:0048856;anatomical structure development;0.0495393326676861;12015,11695,18007,232174,56699!GO:0004500;dopamine beta-monooxygenase activity;0.0495393326676861;59012!GO:0048384;retinoic acid receptor signaling pathway;0.0495393326676861;232174!GO:0016715;oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen;0.0495393326676861;59012!GO:0045579;positive regulation of B cell differentiation;0.0495393326676861;12015!GO:0045296;cadherin binding;0.0495393326676861;18007!GO:0050839;cell adhesion molecule binding;0.0495393326676861;18007!GO:0003002;regionalization;0.0495393326676861;11695,232174!GO:0007275;multicellular organismal development;0.0495393326676861;12015,11695,18007,20204,232174!GO:0004936;alpha-adrenergic receptor activity;0.0495393326676861;11551!GO:0007517;muscle development;0.0495393326676861;11695,18007!GO:0000768;syncytium formation by plasma membrane fusion;0.0495393326676861;18007!GO:0007520;myoblast fusion;0.0495393326676861;18007!GO:0014902;myotube differentiation;0.0495393326676861;18007!GO:0008191;metalloendopeptidase inhibitor activity;0.0495393326676861;278507!GO:0006949;syncytium formation;0.0495393326676861;18007!GO:0042573;retinoic acid metabolic process;0.0495393326676861;232174!GO:0045577;regulation of B cell differentiation;0.0495393326676861;12015!GO:0006548;histidine catabolic process;0.0495393326676861;59012!GO:0007140;male meiosis;0.0495393326676861;232174!GO:0009077;histidine family amino acid catabolic process;0.0495393326676861;59012!GO:0050789;regulation of biological process;0.0495393326676861;12015,11695,18007,20204,17965,56699!GO:0009954;proximal/distal pattern formation;0.0495393326676861;232174!GO:0006547;histidine metabolic process;0.0495393326676861;59012!GO:0009075;histidine family amino acid metabolic process;0.0495393326676861;59012!GO:0005021;vascular endothelial growth factor receptor activity;0.0495393326676861;18007!
}}
}}

Revision as of 12:39, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:23943345..23943407,+p1@Moxd1
Mm9::chr11:113612623..113612641,-p5@Cdc42ep4
Mm9::chr11:113613098..113613120,-p1@Cdc42ep4
Mm9::chr11:45940767..45940771,+p@chr11:45940767..45940771
+
Mm9::chr11:94104253..94104270,-p3@Wfikkn2
Mm9::chr13:99124757..99124764,+p@chr13:99124757..99124764
+
Mm9::chr16:30599803..30599820,+p1@Fam43a
Mm9::chr19:54120233..54120243,+p4@Adra2a
Mm9::chr19:6532264..6532286,-p4@ENSMUST00000149574
Mm9::chr19:7025211..7025226,+p8@Bad
Mm9::chr2:163317341..163317353,+p@chr2:163317341..163317353
+
Mm9::chr2:30701003..30701028,+p6@Prrx2
Mm9::chr2:93482426..93482434,+p3@Alx4
Mm9::chr2:93482464..93482491,+p1@Alx4
Mm9::chr4:138641482..138641515,-p@chr4:138641482..138641515
-
Mm9::chr4:138648873..138648892,-p1@Nbl1
Mm9::chr4:138648925..138648936,-p2@Nbl1
Mm9::chr6:84537931..84537980,-p@chr6:84537931..84537980
-
Mm9::chr6:84537985..84538004,-p@chr6:84537985..84538004
-
Mm9::chr6:84538594..84538603,-p6@Cyp26b1
Mm9::chr6:84538625..84538639,-p2@Cyp26b1
Mm9::chr6:84538689..84538700,-p5@Cyp26b1
Mm9::chr6:84538957..84538977,-p1@Cyp26b1
Mm9::chr8:113329722..113329748,-p3@Il34
Mm9::chr8:113329763..113329852,-p1@Il34
Mm9::chr9:43915755..43915801,+p@chr9:43915755..43915801
+
Mm9::chr9:57385390..57385441,+p1@2310046O06Rik
Mm9::chr9:57389282..57389286,+p@chr9:57389282..57389286
+
Mm9::chr9:58884009..58884028,-p2@Neo1


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:0035107appendage morphogenesis0.0495393326676861
GO:0035108limb morphogenesis0.0495393326676861
GO:0060173limb development0.0495393326676861
GO:0048736appendage development0.0495393326676861
GO:0032502developmental process0.0495393326676861
GO:0004938alpha2-adrenergic receptor activity0.0495393326676861
GO:0048856anatomical structure development0.0495393326676861
GO:0004500dopamine beta-monooxygenase activity0.0495393326676861
GO:0048384retinoic acid receptor signaling pathway0.0495393326676861
GO:0016715oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen0.0495393326676861
GO:0045579positive regulation of B cell differentiation0.0495393326676861
GO:0045296cadherin binding0.0495393326676861
GO:0050839cell adhesion molecule binding0.0495393326676861
GO:0003002regionalization0.0495393326676861
GO:0007275multicellular organismal development0.0495393326676861
GO:0004936alpha-adrenergic receptor activity0.0495393326676861
GO:0007517muscle development0.0495393326676861
GO:0000768syncytium formation by plasma membrane fusion0.0495393326676861
GO:0007520myoblast fusion0.0495393326676861
GO:0014902myotube differentiation0.0495393326676861
GO:0008191metalloendopeptidase inhibitor activity0.0495393326676861
GO:0006949syncytium formation0.0495393326676861
GO:0042573retinoic acid metabolic process0.0495393326676861
GO:0045577regulation of B cell differentiation0.0495393326676861
GO:0006548histidine catabolic process0.0495393326676861
GO:0007140male meiosis0.0495393326676861
GO:0009077histidine family amino acid catabolic process0.0495393326676861
GO:0050789regulation of biological process0.0495393326676861
GO:0009954proximal/distal pattern formation0.0495393326676861
GO:0006547histidine metabolic process0.0495393326676861
GO:0009075histidine family amino acid metabolic process0.0495393326676861
GO:0005021vascular endothelial growth factor receptor activity0.0495393326676861



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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