Personal tools

MCL coexpression mm9:295: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 3: Line 3:
|coexpression_dpi_cluster_scores_median=0.104253763685172,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.171868847334295,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0244437292339902,0,0.00925358429083205,0,0,0,0,0,0,0,0,0.681988271279124,0.672270907330732,0.476198815278119,0,0,0,0,0,0,0.141204588184303,0.760022412113045,0.7573077301738,0.733744740099677,0.299871399766146,0.305202647470998,0.820938874978924,0.782520031826667,0.78091013068873,0.322458878535173,0.380422563160635,0.332575406409886,0.693836582507211,0.609015532938437,0.613842169261923,0.19266946376396,0.210017953365658,0.350527443387187,0.442130235059405,0.486226735707772,0.589489405903224,0,0.0170575674780822,0,0,0,0,0,0,0,0,0,0,0.130421719113758,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.36415412284522,0.372742727561734,0,0,0,0,0.480186011358922,0.633329561137043,1.04537826030682,0.583556821685884,0.501196894706633,0.407611812723932,0.642310106967302,0,0,0,0.0913460069525444,0.193894629999207,0.182541489591367,0.217476311809946,0.276162750275083,0.354956796788865,0.419166534391083,0.431662311947982,0.281373416728676,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.744524280469424,0.863724035366849,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.253499680900333,0.254603284832828,0,0,0,0,0,0,0,0,0,0,0,0.818656578807423,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.227475406167594,0.0657367984150149,0.0843392403965415,0.101369427228017,0.0712812415377886,0.0948573962131381,0.0258304270291107,0,0,0,0,0,0,0,0,0,0.260922967679976,0,0,0,0,0,0,0,0,0,0,0,0.00302708354403708,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.509079702664489,0.376754964798171,0.382973280977661,0.434334421267153,0.374778587894724,0.413276141112564,0.394019844166312,0.412345163810518,0.410954935295049,0.375212822437513,0.136844238689188,0.341844807303808,0.275419871901867,0.320239623866024,0.209921217676811,0.195714548461791,0.275024629482302,0.284595399564024,0.26098089399932,0.179460125247881,0.287032395205544,0.25711955721627,0.296856217966671,0.285948627602402,0.299924607868925,0.283652812654646,0.28547501031927,0.248374712829307,0.176136678616361,0.274894951296473,0.177411968389294,0.232971531330564,0.245338268795351,0.232302932500509,0.225488168263947,0.265264590071179,0.243409327979282,0.24251642346308,0.304789527953048,0.317313882961916,0.296922170455057,0.244607619877168,0.230377501964889,0.264809079205343,0.24837215409455,0.464951909534991,0.176240573252358,0.230893152914525,0.0760168881589905,0.0772232102445039,0.0065738210555864
|coexpression_dpi_cluster_scores_median=0.104253763685172,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.171868847334295,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0244437292339902,0,0.00925358429083205,0,0,0,0,0,0,0,0,0.681988271279124,0.672270907330732,0.476198815278119,0,0,0,0,0,0,0.141204588184303,0.760022412113045,0.7573077301738,0.733744740099677,0.299871399766146,0.305202647470998,0.820938874978924,0.782520031826667,0.78091013068873,0.322458878535173,0.380422563160635,0.332575406409886,0.693836582507211,0.609015532938437,0.613842169261923,0.19266946376396,0.210017953365658,0.350527443387187,0.442130235059405,0.486226735707772,0.589489405903224,0,0.0170575674780822,0,0,0,0,0,0,0,0,0,0,0.130421719113758,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.36415412284522,0.372742727561734,0,0,0,0,0.480186011358922,0.633329561137043,1.04537826030682,0.583556821685884,0.501196894706633,0.407611812723932,0.642310106967302,0,0,0,0.0913460069525444,0.193894629999207,0.182541489591367,0.217476311809946,0.276162750275083,0.354956796788865,0.419166534391083,0.431662311947982,0.281373416728676,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.744524280469424,0.863724035366849,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.253499680900333,0.254603284832828,0,0,0,0,0,0,0,0,0,0,0,0.818656578807423,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.227475406167594,0.0657367984150149,0.0843392403965415,0.101369427228017,0.0712812415377886,0.0948573962131381,0.0258304270291107,0,0,0,0,0,0,0,0,0,0.260922967679976,0,0,0,0,0,0,0,0,0,0,0,0.00302708354403708,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.509079702664489,0.376754964798171,0.382973280977661,0.434334421267153,0.374778587894724,0.413276141112564,0.394019844166312,0.412345163810518,0.410954935295049,0.375212822437513,0.136844238689188,0.341844807303808,0.275419871901867,0.320239623866024,0.209921217676811,0.195714548461791,0.275024629482302,0.284595399564024,0.26098089399932,0.179460125247881,0.287032395205544,0.25711955721627,0.296856217966671,0.285948627602402,0.299924607868925,0.283652812654646,0.28547501031927,0.248374712829307,0.176136678616361,0.274894951296473,0.177411968389294,0.232971531330564,0.245338268795351,0.232302932500509,0.225488168263947,0.265264590071179,0.243409327979282,0.24251642346308,0.304789527953048,0.317313882961916,0.296922170455057,0.244607619877168,0.230377501964889,0.264809079205343,0.24837215409455,0.464951909534991,0.176240573252358,0.230893152914525,0.0760168881589905,0.0772232102445039,0.0065738210555864
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000117!2.59e-20!23;CL:0000337!2.59e-20!23;CL:0000540!2.24e-12!33;CL:0000047!2.24e-12!33;CL:0000031!2.24e-12!33;CL:0000404!2.24e-12!33;CL:0000221!1.61e-10!44;CL:0000133!1.61e-10!44;CL:0002319!3.26e-10!43;CL:0000393!3.60e-09!39;CL:0000211!3.60e-09!39;CL:0000055!7.09e-08!49;CL:0002609!1.24e-07!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002346!2.39e-36!64;UBERON:0003075!2.39e-36!64;UBERON:0007284!2.39e-36!64;UBERON:0000073!2.40e-35!54;UBERON:0001049!1.74e-33!52;UBERON:0005068!1.74e-33!52;UBERON:0006241!1.74e-33!52;UBERON:0007135!1.74e-33!52;UBERON:0003056!5.44e-32!49;UBERON:0010371!1.80e-31!73;UBERON:0001017!9.13e-31!73;UBERON:0001016!2.23e-30!75;UBERON:0004121!2.53e-30!95;UBERON:0000924!2.53e-30!95;UBERON:0006601!2.53e-30!95;UBERON:0000955!1.19e-29!47;UBERON:0006238!1.19e-29!47;UBERON:0002616!1.53e-28!46;UBERON:0002020!1.46e-27!34;UBERON:0003080!1.11e-26!40;UBERON:0002780!9.47e-26!39;UBERON:0001890!9.47e-26!39;UBERON:0006240!9.47e-26!39;UBERON:0003528!2.11e-23!29;UBERON:0002791!2.11e-23!29;UBERON:0001893!2.11e-23!29;UBERON:0010314!1.14e-20!92;UBERON:0000956!4.69e-17!21;UBERON:0001869!4.69e-17!21;UBERON:0000203!4.69e-17!21;UBERON:0002619!3.92e-13!17;UBERON:0002021!3.73e-09!10;UBERON:0000411!3.73e-09!10;UBERON:0001950!3.73e-09!10;UBERON:0002420!1.86e-07!8;UBERON:0007245!1.86e-07!8;UBERON:0010009!1.86e-07!8;UBERON:0010011!1.86e-07!8;UBERON:0000454!1.86e-07!8;UBERON:0003076!3.70e-07!12;UBERON:0003057!3.70e-07!12
}}
}}

Revision as of 19:17, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:80924310..80924312,+p1@ENSMUST00000156926
Mm9::chr13:20564559..20564605,+p11@Elmo1
Mm9::chr17:25570208..25570252,-p3@Cacna1h
Mm9::chr17:27078365..27078409,+p@chr17:27078365..27078409
+
Mm9::chr18:16967125..16967186,-p5@Cdh2
Mm9::chr18:23009239..23009260,-p6@Nol4
Mm9::chr18:23009281..23009296,-p5@Nol4
Mm9::chr1:75476081..75476092,+p2@Tmem198
Mm9::chr1:91476722..91476755,+p@chr1:91476722..91476755
+
Mm9::chr2:151907338..151907360,+p2@Scrt2
Mm9::chr2:6805522..6805544,-p@chr2:6805522..6805544
-
Mm9::chr2:6805564..6805576,-p@chr2:6805564..6805576
-
Mm9::chr2:6805920..6805945,-p@chr2:6805920..6805945
-
Mm9::chr2:6805947..6805952,-p@chr2:6805947..6805952
-
Mm9::chr2:6805954..6805965,-p@chr2:6805954..6805965
-
Mm9::chr2:6805967..6805984,-p@chr2:6805967..6805984
-
Mm9::chr2:6805986..6806003,-p@chr2:6805986..6806003
-
Mm9::chr2:6806004..6806015,-p16@Celf2
Mm9::chr2:6806021..6806037,-p11@Celf2
Mm9::chr3:7366589..7366594,+p4@Pkia
Mm9::chr4:102432769..102432789,+p3@Sgip1
Mm9::chr4:116550032..116550058,+p1@Zswim5
Mm9::chr5:108298312..108298329,-p11@Evi5
Mm9::chr5:65522238..65522249,+p9@Klhl5
Mm9::chr6:138373114..138373132,-p7@Lmo3
Mm9::chr6:47194358..47194416,+p1@Cntnap2
Mm9::chr6:90732504..90732523,-p13@Iqsec1
Mm9::chr8:48373638..48373649,-p@chr8:48373638..48373649
-


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
neurectoderm2.39e-3664
neural plate2.39e-3664
presumptive neural plate2.39e-3664
regional part of nervous system2.40e-3554
neural tube1.74e-3352
neural rod1.74e-3352
future spinal cord1.74e-3352
neural keel1.74e-3352
pre-chordal neural plate5.44e-3249
ecto-epithelium1.80e-3173
central nervous system9.13e-3173
nervous system2.23e-3075
ectoderm-derived structure2.53e-3095
ectoderm2.53e-3095
presumptive ectoderm2.53e-3095
brain1.19e-2947
future brain1.19e-2947
regional part of brain1.53e-2846
gray matter1.46e-2734
anterior neural tube1.11e-2640
regional part of forebrain9.47e-2639
forebrain9.47e-2639
future forebrain9.47e-2639
brain grey matter2.11e-2329
regional part of telencephalon2.11e-2329
telencephalon2.11e-2329
structure with developmental contribution from neural crest1.14e-2092
cerebral cortex4.69e-1721
cerebral hemisphere4.69e-1721
pallium4.69e-1721
regional part of cerebral cortex3.92e-1317
occipital lobe3.73e-0910
visual cortex3.73e-0910
neocortex3.73e-0910
basal ganglion1.86e-078
nuclear complex of neuraxis1.86e-078
aggregate regional part of brain1.86e-078
collection of basal ganglia1.86e-078
cerebral subcortex1.86e-078
posterior neural tube3.70e-0712
chordal neural plate3.70e-0712


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}}}