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MCL coexpression mm9:87: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0.064513712786576,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0758722258592733,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.687385105082154,0.798644417018446,0.765767819029419,0,0,0,0,0,0,0.063078478593679,0.245017785665464,0.288928887255498,0.247662009281958,0.767606017233794,0.783901896513154,0.322718899423679,0.332467880293453,0.35965016423193,0.505464404962115,0.424871088552468,0.45381938563575,0.717700553756812,0.746196740664966,0.667115995911391,0.470451800356371,0.512023707637857,0.422896420029936,0.840617190131474,0.834880755661613,0.806558725892495,0,0,0,0,0,0,0,0,0,0,0,0,0.0572260417947564,0,0,0,0,0,0,0,0,0,0.0240338065461625,0.0701446699189386,0,0.06097065795378,0.0482820047261801,0,0,0,0,0,0,0,0,0.131001754307666,0.211745123527753,0,0,0,0,0.422868288838969,0.249369603719454,0.460118009966705,0.229245865416417,0.179388300989621,0.389965922625323,0.325708693941514,0.00764117701202532,0,0,0,0.0531247310291112,0.134855710332408,0.133578586898209,0.174730373072013,0.207453528713667,0.179682427843873,0.17662740713432,0.0999233952154288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.200877903720163,0.401403697627498,0,0,0,0,0.0304077564926992,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00400484575771112,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.318037093516484,0.336883187795113,0,0,0,0,0.0847275925579778,0,0,0,0,0,0,0.215543090236368,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0719044921483595,0.0528318955547673,0.0843392403965415,0.0709019855629759,0.132495872273197,0.123557017950668,0.115432414129512,0,0,0,0,0,0,0,0,0,0.324807369180142,0,0,0,0,0,0,0,0,0,0,0.03230054294811,0,0.0303352226568933,0,0,0,0,0,0,0,0,0,0,0,0,0,8.52231487112609e-06,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.328278395983124,0.283448337556827,0.331587424856164,0.343009031749163,0.226621173458704,0.244374584202533,0.224020645200257,0.252396837084531,0.185023420716167,0.204964573230126,0.0847967410419302,0.240063897439019,0.180459730867206,0.17208118264908,0.199938736274875,0.190760324464606,0.159715578577694,0.191572607364267,0.157280638439171,0.17765030293269,0.178101321237085,0.194758206527804,0.193639056320997,0.19761858935648,0.197102582129624,0.169172763866184,0.165403796547116,0.198307218446548,0.14986111676545,0.158843797677303,0.149258037266961,0.185379913858661,0.169342968499384,0.199037798091534,0.167478880586199,0.202025510213218,0.189990830607665,0.18359421108913,0.18842684556126,0.193442483447008,0.168656579551575,0.164608016893644,0.190522887407454,0.209447282040344,0.141704700595215,0.351999668610516,0.162133855470368,0.155257708002722,0.140689222355642,0.0865703124974023,0
|gostat_on_MCL_coexpression=GO:0043005;neuron projection;6.5438753596911e-05;227325,14432,17967,17762,12934,12933,11419!GO:0030425;dendrite;0.00561725477027507;227325,12934,12933,11419!GO:0030424;axon;0.0103677147115197;14432,17967,17762,12934!GO:0022834;ligand-gated channel activity;0.0194470630245126;14814,330953,237213,11419!GO:0015276;ligand-gated ion channel activity;0.0194470630245126;14814,330953,237213,11419!GO:0042995;cell projection;0.0194790752482849;227325,14432,17967,17762,12934,12933,11419!
|gostat_on_MCL_coexpression=GO:0043005;neuron projection;6.5438753596911e-05;227325,14432,17967,17762,12934,12933,11419!GO:0030425;dendrite;0.00561725477027507;227325,12934,12933,11419!GO:0030424;axon;0.0103677147115197;14432,17967,17762,12934!GO:0022834;ligand-gated channel activity;0.0194470630245126;14814,330953,237213,11419!GO:0015276;ligand-gated ion channel activity;0.0194470630245126;14814,330953,237213,11419!GO:0042995;cell projection;0.0194790752482849;227325,14432,17967,17762,12934,12933,11419!
}}
}}

Revision as of 12:36, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:126497219..126497262,-p1@March9
Mm9::chr10:19076194..19076197,+p2@Olig3
Mm9::chr10:44786879..44786894,+p3@Prep
Mm9::chr10:79076757..79076800,-p1@C2cd4c
Mm9::chr10:85061471..85061500,+p@chr10:85061471..85061500
+
Mm9::chr11:104092756..104092767,+p2@Mapt
Mm9::chr11:104143685..104143706,+p5@Mapt
Mm9::chr11:104163705..104163726,-p@chr11:104163705..104163726
-
Mm9::chr11:104167954..104167968,+p@chr11:104167954..104167968
+
Mm9::chr11:104189552..104189556,-p@chr11:104189552..104189556
-
Mm9::chr11:120582766..120582850,+p1@Rac3
Mm9::chr11:120582857..120582878,+p2@Rac3
Mm9::chr11:45758412..45758462,-p1@Lsm11
Mm9::chr12:106575132..106575180,+p1@ENSMUST00000138649
p1@uc007oyg.1
Mm9::chr12:110306566..110306578,-p4@Begain
Mm9::chr12:47799607..47799610,-p@chr12:47799607..47799610
-
Mm9::chr12:47885301..47885305,-p@chr12:47885301..47885305
-
Mm9::chr12:47919065..47919083,-p@chr12:47919065..47919083
-
Mm9::chr12:47919095..47919116,-p@chr12:47919095..47919116
-
Mm9::chr12:47919328..47919344,-p@chr12:47919328..47919344
-
Mm9::chr12:47919483..47919504,-p@chr12:47919483..47919504
-
Mm9::chr12:47919736..47919775,-p3@Nova1
Mm9::chr12:47919913..47919924,-p5@Nova1
Mm9::chr12:47919969..47919991,-p2@Nova1
Mm9::chr12:47920007..47920013,-p7@Nova1
Mm9::chr12:47920030..47920045,-p4@Nova1
Mm9::chr12:47920074..47920083,-p6@Nova1
Mm9::chr12:47920175..47920191,-p1@Nova1
Mm9::chr12:47920231..47920236,-p8@Nova1
Mm9::chr13:104899656..104899699,-p2@Nln
Mm9::chr13:111070862..111070879,-p6@Rab3c
Mm9::chr13:111071199..111071245,-p2@Rab3c
Mm9::chr13:95645555..95645566,+p3@Otp
Mm9::chr14:119276115..119276118,-p@chr14:119276115..119276118
-
Mm9::chr14:119324684..119324701,-p1@Dzip1
Mm9::chr14:26427427..26427439,+p22@Zmiz1
Mm9::chr14:55496369..55496389,-p2@Ppp1r3e
Mm9::chr14:55735781..55735817,-p9@Jph4
Mm9::chr14:66044006..66044025,-p1@Pnoc
Mm9::chr14:66044290..66044303,-p2@Pnoc
Mm9::chr14:67433858..67433880,-p@chr14:67433858..67433880
-
Mm9::chr14:67448813..67448819,-p@chr14:67448813..67448819
-
Mm9::chr14:67453139..67453158,-p@chr14:67453139..67453158
-
Mm9::chr14:67487756..67487785,-p5@Dpysl2
Mm9::chr14:67529728..67529798,-p@chr14:67529728..67529798
-
Mm9::chr15:101676842..101676853,-p@chr15:101676842..101676853
-
Mm9::chr15:75397327..75397339,-p6@Ly6h
Mm9::chr15:75397341..75397349,-p8@Ly6h
Mm9::chr15:75397445..75397483,-p3@Ly6h
Mm9::chr15:99500758..99500827,+p1@Accn2
Mm9::chr15:99500834..99500850,+p5@Accn2
Mm9::chr16:31428979..31428988,+p7@Bdh1
Mm9::chr16:42292251..42292266,-p@chr16:42292251..42292266
-
Mm9::chr16:42340697..42340704,-p4@Gap43
Mm9::chr17:37183500..37183545,+p4@Gabbr1
Mm9::chr17:56110012..56110026,+p3@Shd
Mm9::chr18:33624019..33624040,-p9@D0H4S114
Mm9::chr18:37975044..37975091,+p6@Pcdhga11
p6@Pcdhga12
p6@Pcdhga3
p6@Pcdhga8
p6@Pcdhga9
p6@Pcdhgb6
p6@Pcdhgc3
p6@Pcdhgc4
p6@Pcdhgc5
Mm9::chr18:37975098..37975121,+p10@Pcdhga11
p10@Pcdhga12
p10@Pcdhga3
p10@Pcdhga8
p10@Pcdhga9
p10@Pcdhgb6
p10@Pcdhgc3
p10@Pcdhgc4
p10@Pcdhgc5
Mm9::chr18:62071437..62071508,-p1@Ablim3
Mm9::chr18:86880274..86880286,+p4@Cbln2
Mm9::chr18:86880451..86880455,+p1@Cbln2
Mm9::chr18:86881100..86881132,+p2@Cbln2
Mm9::chr19:8913640..8913651,-p2@Gng3
Mm9::chr1:129574459..129574474,-p3@Tmem163
Mm9::chr1:129574500..129574533,-p2@Tmem163
Mm9::chr1:23768815..23768838,+p2@B3gat2
Mm9::chr1:23768842..23768857,+p1@B3gat2
Mm9::chr1:84692581..84692590,-p14@Dner
Mm9::chr1:84692602..84692613,-p12@Dner
Mm9::chr1:84692822..84692836,-p10@Dner
Mm9::chr1:94745160..94745194,+p@chr1:94745160..94745194
+
Mm9::chr1:94745202..94745249,+p@chr1:94745202..94745249
+
Mm9::chr1:94745285..94745304,+p@chr1:94745285..94745304
+
Mm9::chr2:125499419..125499430,+p@chr2:125499419..125499430
+
Mm9::chr2:156246852..156246859,+p11@Epb4.1l1
Mm9::chr2:156246865..156246879,+p8@Epb4.1l1
Mm9::chr2:156246898..156246910,+p9@Epb4.1l1
Mm9::chr2:157740396..157740407,+p2@Vstm2l
Mm9::chr2:25097716..25097727,+p4@Rnf208
Mm9::chr3:148652676..148652715,-p7@Lphn2
Mm9::chr3:4797337..4797364,+p@chr3:4797337..4797364
+
Mm9::chr3:88004177..88004191,+p3@ENSMUST00000167043
Mm9::chr3:88004192..88004201,+p8@ENSMUST00000167043
Mm9::chr3:88004207..88004240,+p2@ENSMUST00000167043
Mm9::chr3:88004245..88004270,+p1@ENSMUST00000167043
Mm9::chr3:89263198..89263211,+p5@Pmvk
Mm9::chr3:95023478..95023490,-p@chr3:95023478..95023490
-
Mm9::chr4:114806709..114806726,-p3@Cyp4x1
Mm9::chr4:129118044..129118067,-p1@Zbtb8b
Mm9::chr4:130348049..130348063,+p6@Sdc3
Mm9::chr4:130348222..130348235,+p9@Sdc3
Mm9::chr4:130348395..130348423,+p2@Sdc3
Mm9::chr4:140924031..140924094,+p1@Fam131c
Mm9::chr4:41587211..41587266,-p3@Enho
Mm9::chr4:49072311..49072337,+p3@E130309F12Rik
Mm9::chr4:76096494..76096519,-p@chr4:76096494..76096519
-
Mm9::chr4:76096788..76096815,+p@chr4:76096788..76096815
+
Mm9::chr4:91030569..91030573,-p@chr4:91030569..91030573
-
Mm9::chr5:137463627..137463638,-p7@Znhit1
Mm9::chr5:151062473..151062486,+p11@Fry
Mm9::chr5:37633264..37633320,+p2@Crmp1
Mm9::chr5:37633325..37633330,+p3@Crmp1
Mm9::chr5:38108433..38108444,-p2@Stk32b
Mm9::chr6:122436375..122436444,-p3@Rimklb
Mm9::chr6:138375213..138375222,-p19@Lmo3
Mm9::chr7:126328062..126328086,-p2@Gpr139
Mm9::chr7:126328112..126328133,-p3@Gpr139
Mm9::chr7:135831964..135831986,+p1@Inpp5f
Mm9::chr7:135831994..135832014,+p3@Inpp5f
Mm9::chr7:135832399..135832413,+p6@Inpp5f
Mm9::chr7:135832680..135832690,+p@chr7:135832680..135832690
+
Mm9::chr7:145589387..145589469,-p1@Tcerg1l
Mm9::chr7:20437343..20437371,+p1@Gm19345
Mm9::chr7:20437373..20437394,+p2@Gm19345
Mm9::chr7:20437403..20437410,+p3@Gm19345
Mm9::chr7:30089029..30089032,+p10@Dpf1
Mm9::chr7:31016724..31016735,-p2@Tbcb
Mm9::chr7:53125826..53125843,+p@chr7:53125826..53125843
+
Mm9::chr7:53126334..53126356,-p3@Grin2d
Mm9::chr7:54387991..54388007,-p10@Ptpn5
Mm9::chr7:54388095..54388120,-p3@Ptpn5
Mm9::chr7:54388961..54388999,-p4@Ptpn5
Mm9::chr7:54389015..54389026,-p11@Ptpn5
Mm9::chr7:58877055..58877073,+p13@Slc17a6
Mm9::chr7:58877539..58877553,+p4@Slc17a6
Mm9::chr7:80554269..80554280,+p@chr7:80554269..80554280
+
Mm9::chr7:87484876..87484896,-p@chr7:87484876..87484896
-
Mm9::chr7:89319756..89319761,+p4@Sh3gl3
Mm9::chr8:127354916..127354928,+p@chr8:127354916..127354928
+
Mm9::chr8:34496088..34496153,+p@chr8:34496088..34496153
+
Mm9::chr8:35953722..35953773,-p@chr8:35953722..35953773
-
Mm9::chr8:73895532..73895543,+p3@Ocel1
Mm9::chr8:98201645..98201708,+p2@Ndrg4
Mm9::chr9:106355745..106355766,+p7@Pcbp4
Mm9::chr9:45198876..45198891,+p@chr9:45198876..45198891
+
Mm9::chr9:49312416..49312430,-p@chr9:49312416..49312430
-
Mm9::chr9:49376574..49376610,-p@chr9:49376574..49376610
-
Mm9::chr9:58670746..58670773,+p@chr9:58670746..58670773
+
Mm9::chr9:64949111..64949149,+p2@Igdcc4
Mm9::chrX:140098908..140098942,+p1@Pak3
Mm9::chrX:149079031..149079087,-p3@Shroom2
Mm9::chrX:161765029..161765057,-p3@Glra2
Mm9::chrX:161765308..161765353,-p1@Glra2
Mm9::chrX:45872422..45872458,+p3@Rab33a


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:0043005neuron projection6.5438753596911e-05
GO:0030425dendrite0.00561725477027507
GO:0030424axon0.0103677147115197
GO:0022834ligand-gated channel activity0.0194470630245126
GO:0015276ligand-gated ion channel activity0.0194470630245126
GO:0042995cell projection0.0194790752482849



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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