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MCL coexpression mm9:161: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.599882887683077,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.00643330045083,0.940819555029427,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0605152268483434,0.0664968100861445,0,0,0,0,0,0.0433069931089932,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.892898861372986,0.775225672218803,1.09982003931637,0,0.0747003483965965,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0192392640876906,0,0,0,0,0,0,0,0,0,0,0.0165240286971328,0,0,0,0,0,0.0247683058790264,0,0,0,0.000260628311398933,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0022829;wide pore channel activity;0.0205594866160349;14620,14622!GO:0005243;gap junction channel activity;0.0205594866160349;14620,14622!GO:0005922;connexon complex;0.0205594866160349;14620,14622!GO:0004867;serine-type endopeptidase inhibitor activity;0.0205594866160349;20707,20706,20726!GO:0005921;gap junction;0.0235609285926919;14620,14622!GO:0001890;placenta development;0.0235609285926919;56096,14620!GO:0004866;endopeptidase inhibitor activity;0.0288628581844393;20707,20706,20726!GO:0030414;protease inhibitor activity;0.0288628581844393;20707,20706,20726!GO:0005911;intercellular junction;0.0288628581844393;75723,14620,14622!GO:0015093;ferrous iron transmembrane transporter activity;0.030055333369857;213053!GO:0014704;intercalated disc;0.0356811463156563;14620,14622!
|gostat_on_MCL_coexpression=GO:0022829;wide pore channel activity;0.0205594866160349;14620,14622!GO:0005243;gap junction channel activity;0.0205594866160349;14620,14622!GO:0005922;connexon complex;0.0205594866160349;14620,14622!GO:0004867;serine-type endopeptidase inhibitor activity;0.0205594866160349;20707,20706,20726!GO:0005921;gap junction;0.0235609285926919;14620,14622!GO:0001890;placenta development;0.0235609285926919;56096,14620!GO:0004866;endopeptidase inhibitor activity;0.0288628581844393;20707,20706,20726!GO:0030414;protease inhibitor activity;0.0288628581844393;20707,20706,20726!GO:0005911;intercellular junction;0.0288628581844393;75723,14620,14622!GO:0015093;ferrous iron transmembrane transporter activity;0.030055333369857;213053!GO:0014704;intercalated disc;0.0356811463156563;14620,14622!
}}
}}

Revision as of 12:37, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:79390075..79390115,+p2@Arid3a
Mm9::chr10:79390120..79390129,+p4@Arid3a
Mm9::chr11:104469314..104469326,+p3@Itgb3
Mm9::chr11:107408246..107408290,+p@chr11:107408246..107408290
+
Mm9::chr11:57646181..57646192,-p@chr11:57646181..57646192
-
Mm9::chr11:97459817..97459838,+p1@2410003L11Rik
Mm9::chr12:18394291..18394302,+p1@ENSMUST00000080502
Mm9::chr13:33119401..33119416,+p1@Serpinb9b
Mm9::chr13:33250231..33250243,-p2@Serpinb9c
Mm9::chr13:33284821..33284833,+p1@Serpinb9d
Mm9::chr14:70723590..70723605,-p4@Slc39a14
Mm9::chr16:17233653..17233683,+p1@Hic2
Mm9::chr16:33985120..33985122,+p@chr16:33985120..33985122
+
Mm9::chr17:45709444..45709455,-p16@Hsp90ab1
Mm9::chr17:56562125..56562160,-p@chr17:56562125..56562160
-
Mm9::chr1:135069525..135069528,+p@chr1:135069525..135069528
+
Mm9::chr2:10292892..10292915,+p@chr2:10292892..10292915
+
Mm9::chr2:104689622..104689640,-p2@Prrg4
Mm9::chr2:172371173..172371185,+p@chr2:172371173..172371185
+
Mm9::chr2:172375136..172375149,+p2@Tfap2c
Mm9::chr2:172376261..172376267,+p4@Tfap2c
Mm9::chr2:172376528..172376543,+p3@Tfap2c
Mm9::chr2:172377022..172377035,+p@chr2:172377022..172377035
+
Mm9::chr3:41359645..41359667,+p3@Phf17
Mm9::chr4:127007791..127007870,-p1@Gjb3
Mm9::chr4:127035368..127035431,-p1@Gjb5
Mm9::chr4:127035439..127035452,-p3@Gjb5
Mm9::chr4:129852357..129852382,-p2@Tinagl1
Mm9::chr5:109985549..109985572,-p@chr5:109985549..109985572
-
Mm9::chr5:120998338..120998349,-p@chr5:120998338..120998349
-
Mm9::chr5:30062377..30062390,+p4@Dnajb6
Mm9::chr6:4708451..4708464,+p@chr6:4708451..4708464
+
Mm9::chr6:4710113..4710124,+p@chr6:4710113..4710124
+
Mm9::chr7:134891681..134891691,+p9@Fbxl19
Mm9::chr7:135073489..135073494,-p3@Prss8
Mm9::chr7:147123950..147123998,+p@chr7:147123950..147123998
+
Mm9::chr7:150688420..150688437,-p1@Phlda2
Mm9::chr7:29478031..29478040,+p8@Fbxo27
Mm9::chr7:29922648..29922661,+p@chr7:29922648..29922661
+
Mm9::chr7:3169086..3169093,-p3@AU018091
Mm9::chr7:49994357..49994363,-p@chr7:49994357..49994363
-
Mm9::chr7:50333422..50333437,+p@chr7:50333422..50333437
+
Mm9::chr9:100498105..100498143,+p7@Stag1
Mm9::chr9:100498372..100498421,+p6@Stag1
Mm9::chr9:14419741..14419753,-p12@Amotl1
Mm9::chr9:14419862..14419869,-p17@Amotl1
Mm9::chr9:62659233..62659283,-p4@Fem1b
Mm9::chr9:97176146..97176173,+p@chr9:97176146..97176173
+
Mm9::chrX:136596834..136596879,-p4@Nup62cl
Mm9::chrX:136596987..136596999,-p3@Nup62cl
Mm9::chrX:136597089..136597122,-p2@Nup62cl
Mm9::chrX:136597123..136597144,-p1@Nup62cl
Mm9::chrX:136597258..136597265,-p5@Nup62cl
Mm9::chrX:34750993..34751005,-p1@Gm9
Mm9::chrX:35929343..35929364,-p7@Cul4b
Mm9::chrX:35929366..35929381,-p4@Cul4b
Mm9::chrX:50467569..50467589,-p1@Plac1
Mm9::chrX:61426720..61426733,+p1@3830417A13Rik
Mm9::chrX:69058113..69058134,+p@chrX:69058113..69058134
+
Mm9::chrX:69058139..69058146,+p@chrX:69058139..69058146
+
Mm9::chrX:69058149..69058160,+p@chrX:69058149..69058160
+
Mm9::chrX:70884737..70884749,+p2@Dusp9
Mm9::chrX:70884753..70884775,+p1@Dusp9
Mm9::chrX:70884778..70884781,+p4@Dusp9
Mm9::chrX:70885456..70885468,+p@chrX:70885456..70885468
+
Mm9::chrX:70885500..70885511,+p@chrX:70885500..70885511
+
Mm9::chrX:70886090..70886121,+p@chrX:70886090..70886121
+
Mm9::chrX:91395970..91395977,-p@chrX:91395970..91395977
-


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:0022829wide pore channel activity0.0205594866160349
GO:0005243gap junction channel activity0.0205594866160349
GO:0005922connexon complex0.0205594866160349
GO:0004867serine-type endopeptidase inhibitor activity0.0205594866160349
GO:0005921gap junction0.0235609285926919
GO:0001890placenta development0.0235609285926919
GO:0004866endopeptidase inhibitor activity0.0288628581844393
GO:0030414protease inhibitor activity0.0288628581844393
GO:0005911intercellular junction0.0288628581844393
GO:0015093ferrous iron transmembrane transporter activity0.030055333369857
GO:0014704intercalated disc0.0356811463156563



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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