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MCL coexpression mm9:176: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001016!2.46e-47!75;UBERON:0001017!1.13e-45!73;UBERON:0000073!3.65e-45!54;UBERON:0004121!1.13e-44!95;UBERON:0000924!1.13e-44!95;UBERON:0006601!1.13e-44!95;UBERON:0002346!7.42e-43!64;UBERON:0003075!7.42e-43!64;UBERON:0007284!7.42e-43!64;UBERON:0001049!1.24e-42!52;UBERON:0005068!1.24e-42!52;UBERON:0006241!1.24e-42!52;UBERON:0007135!1.24e-42!52;UBERON:0010371!6.54e-37!73;UBERON:0000955!1.72e-36!47;UBERON:0006238!1.72e-36!47;UBERON:0002616!1.61e-35!46;UBERON:0003056!4.86e-34!49;UBERON:0002020!1.16e-32!34;UBERON:0003080!3.87e-31!40;UBERON:0002780!3.21e-30!39;UBERON:0001890!3.21e-30!39;UBERON:0006240!3.21e-30!39;UBERON:0003528!4.91e-27!29;UBERON:0002791!4.91e-27!29;UBERON:0001893!4.91e-27!29;UBERON:0010314!1.23e-25!92;UBERON:0000956!4.69e-19!21;UBERON:0001869!4.69e-19!21;UBERON:0000203!4.69e-19!21;UBERON:0002619!7.85e-16!17;UBERON:0000025!8.41e-14!114;UBERON:0004111!1.28e-12!122;UBERON:0002021!1.26e-11!10;UBERON:0000411!1.26e-11!10;UBERON:0001950!1.26e-11!10;UBERON:0003076!2.84e-11!12;UBERON:0003057!2.84e-11!12;UBERON:0002420!5.11e-09!8;UBERON:0007245!5.11e-09!8;UBERON:0010009!5.11e-09!8;UBERON:0010011!5.11e-09!8;UBERON:0000454!5.11e-09!8;UBERON:0000119!4.39e-08!176;UBERON:0000483!9.14e-08!174;UBERON:0002240!9.86e-08!6;UBERON:0005174!9.86e-08!6;UBERON:0001137!9.86e-08!6;UBERON:0011216!1.40e-07!194;UBERON:0000477!5.14e-07!244
|ontology_enrichment_uberon=UBERON:0001016!2.46e-47!75;UBERON:0001017!1.13e-45!73;UBERON:0000073!3.65e-45!54;UBERON:0004121!1.13e-44!95;UBERON:0000924!1.13e-44!95;UBERON:0006601!1.13e-44!95;UBERON:0002346!7.42e-43!64;UBERON:0003075!7.42e-43!64;UBERON:0007284!7.42e-43!64;UBERON:0001049!1.24e-42!52;UBERON:0005068!1.24e-42!52;UBERON:0006241!1.24e-42!52;UBERON:0007135!1.24e-42!52;UBERON:0010371!6.54e-37!73;UBERON:0000955!1.72e-36!47;UBERON:0006238!1.72e-36!47;UBERON:0002616!1.61e-35!46;UBERON:0003056!4.86e-34!49;UBERON:0002020!1.16e-32!34;UBERON:0003080!3.87e-31!40;UBERON:0002780!3.21e-30!39;UBERON:0001890!3.21e-30!39;UBERON:0006240!3.21e-30!39;UBERON:0003528!4.91e-27!29;UBERON:0002791!4.91e-27!29;UBERON:0001893!4.91e-27!29;UBERON:0010314!1.23e-25!92;UBERON:0000956!4.69e-19!21;UBERON:0001869!4.69e-19!21;UBERON:0000203!4.69e-19!21;UBERON:0002619!7.85e-16!17;UBERON:0000025!8.41e-14!114;UBERON:0004111!1.28e-12!122;UBERON:0002021!1.26e-11!10;UBERON:0000411!1.26e-11!10;UBERON:0001950!1.26e-11!10;UBERON:0003076!2.84e-11!12;UBERON:0003057!2.84e-11!12;UBERON:0002420!5.11e-09!8;UBERON:0007245!5.11e-09!8;UBERON:0010009!5.11e-09!8;UBERON:0010011!5.11e-09!8;UBERON:0000454!5.11e-09!8;UBERON:0000119!4.39e-08!176;UBERON:0000483!9.14e-08!174;UBERON:0002240!9.86e-08!6;UBERON:0005174!9.86e-08!6;UBERON:0001137!9.86e-08!6;UBERON:0011216!1.40e-07!194;UBERON:0000477!5.14e-07!244
|tfbs_overrepresentation_for_novel_motifs=0.127785,1.18504,0.102364,0.175153,0.408896,0.376679,0.590982,0.226758,0.256053,0.32112,0.105392,0.30603,0.0771289,0.149459,0.175974,0,0.355532,0.13503,0.954375,0.213304,0.296727,1.92091,0.343973,0.0708464,0.109395,0.173906,0.881882,0.220871,0.051361,0.888925,0.202063,0.490847,0.131583,0.720478,0.924835,2.1861,0.0557784,0.551436,0.594887,3.03901,0.141144,0.208868,0.608949,1.53841,0.894012,0.545718,0.553802,1.08815,0.00916764,0.593556,0.333843,0.769969,0.367708,0.252482,0.264486,0.155633,0.630548,0.286142,0.805721,1.4136,0.152007,0.208872,1.0334,0.320137,0.376476,0.115764,0.364674,0.65879,0.149424,0.529753,0.187888,0.36685,0.102619,0.288114,0.202517,3.10538,0.550381,0.248614,0.86398,0.493929,3.1099,0.118521,0.207427,0.207994,0.21003,0.0426313,4.44688,0.890358,0.266545,0.806898,0.419685,0.213204,0.170701,0.0777629,0.574151,0.125808,0.332377,0.987808,0.0754333,0.685017,0.117954,0.490452,0.240695,0.334572,0.101687,0.208284,0.130904,0.0955773,0.0258355,0.00408139,1.30644,0.241891,0.168935,0.109111,0.425369,0.570312,0.206936,0.886127,0.35717,1.48783,0.291985,0.295261,0.0462411,0.247632,0.469715,0.872501,0.145968,0.166766,0.363503,0.638921,0.229415,1.17805,0.340907,0.167761,0.442922,1.88249,1.04427,1.78959,0.403256,1.15728,0.777417,0.36832,0.417194,0.505705,0.098734,0.0824539,2.56079,1.11892,0.486941,0.073862,0.0429454,0.0607702,0.253554,1.77317,0.043452,0.31152,0.442717,0.0418417,0.449883,0.136322,1.05732,0.209486,0.444923,0.431153,0.0972441,0.0413432,0.116242,1.26952,0.258315
}}
}}

Revision as of 17:55, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:116195461..116195493,-p@chr11:116195461..116195493
-
Mm9::chr11:94506584..94506586,+p@chr11:94506584..94506586
+
Mm9::chr12:112908837..112908848,-p@chr12:112908837..112908848
-
Mm9::chr14:34132927..34132930,+p5@Arhgap22
Mm9::chr14:56358439..56358450,-p5@Dhrs1
Mm9::chr14:56364361..56364479,-p1@Dhrs1
Mm9::chr15:88808353..88808379,-p@chr15:88808353..88808379
-
Mm9::chr15:88808972..88808994,-p1@Mlc1
Mm9::chr15:88809203..88809239,-p3@Mlc1
Mm9::chr16:15966748..15966763,-p@chr16:15966748..15966763
-
Mm9::chr16:18348434..18348445,+p6@Arvcf
Mm9::chr16:38902418..38902429,+p5@Igsf11
Mm9::chr17:66121975..66121990,-p1@Rab31
Mm9::chr18:69681228..69681237,+p44@Tcf4
Mm9::chr19:40457627..40457636,-p9@Sorbs1
Mm9::chr19:8788794..8788806,-p6@Slc3a2
Mm9::chr1:137268461..137268465,-p@chr1:137268461..137268465
-
Mm9::chr1:137268883..137268909,-p@chr1:137268883..137268909
-
Mm9::chr1:137270996..137271011,-p@chr1:137270996..137271011
-
Mm9::chr1:137271532..137271675,-p1@Shisa4
Mm9::chr1:174127882..174127895,-p@chr1:174127882..174127895
-
Mm9::chr1:174127976..174128005,-p@chr1:174127976..174128005
-
Mm9::chr1:174128019..174128042,-p@chr1:174128019..174128042
-
Mm9::chr1:174128178..174128192,-p@chr1:174128178..174128192
-
Mm9::chr1:174128194..174128210,-p@chr1:174128194..174128210
-
Mm9::chr1:174128305..174128333,-p@chr1:174128305..174128333
-
Mm9::chr1:174128350..174128367,+p@chr1:174128350..174128367
+
Mm9::chr1:174128464..174128474,-p@chr1:174128464..174128474
-
Mm9::chr1:174128636..174128647,-p@chr1:174128636..174128647
-
Mm9::chr1:174128672..174128690,-p@chr1:174128672..174128690
-
Mm9::chr1:174128738..174128756,+p@chr1:174128738..174128756
+
Mm9::chr1:174128785..174128802,+p@chr1:174128785..174128802
+
Mm9::chr1:174129273..174129299,-p@chr1:174129273..174129299
-
Mm9::chr1:174129325..174129338,-p@chr1:174129325..174129338
-
Mm9::chr1:174129353..174129380,-p@chr1:174129353..174129380
-
Mm9::chr1:174130672..174130686,-p@chr1:174130672..174130686
-
Mm9::chr1:174130688..174130720,-p@chr1:174130688..174130720
-
Mm9::chr1:174136785..174136796,-p3@Pea15a
Mm9::chr1:174136815..174136886,-p1@Pea15a
Mm9::chr1:174136906..174136917,-p2@Pea15a
Mm9::chr1:72873148..72873157,+p@chr1:72873148..72873157
+
Mm9::chr1:72873192..72873206,+p@chr1:72873192..72873206
+
Mm9::chr2:12932526..12932546,-p6@C1ql3
Mm9::chr4:122627466..122627472,-p@chr4:122627466..122627472
-
Mm9::chr4:153975408..153975411,+p1@ENSMUST00000132106
Mm9::chr5:109122987..109123024,-p@chr5:109122987..109123024
-
Mm9::chr5:109123052..109123064,-p@chr5:109123052..109123064
-
Mm9::chr5:93111808..93111831,+p@chr5:93111808..93111831
+
Mm9::chr6:17121579..17121621,-p1@ENSMUST00000150251
Mm9::chr6:92777773..92777784,+p4@ENSMUST00000133858
Mm9::chr7:25292141..25292158,+p2@Zfp428
Mm9::chr7:52151495..52151557,+p2@Fuz
Mm9::chr8:96676635..96676651,+p1@Mt3
Mm9::chr8:96677851..96677892,-p@chr8:96677851..96677892
-
Mm9::chr8:96677906..96677921,-p@chr8:96677906..96677921
-
Mm9::chr9:108998118..108998123,+p10@Plxnb1
Mm9::chr9:108999173..108999176,+p13@Plxnb1
Mm9::chr9:37174919..37174932,+p3@Hepacam
Mm9::chr9:37174939..37174963,+p2@Hepacam
Mm9::chrX:138740713..138740730,-p1@Kcne1l


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
nervous system2.46e-4775
central nervous system1.13e-4573
regional part of nervous system3.65e-4554
ectoderm-derived structure1.13e-4495
ectoderm1.13e-4495
presumptive ectoderm1.13e-4495
neurectoderm7.42e-4364
neural plate7.42e-4364
presumptive neural plate7.42e-4364
neural tube1.24e-4252
neural rod1.24e-4252
future spinal cord1.24e-4252
neural keel1.24e-4252
ecto-epithelium6.54e-3773
brain1.72e-3647
future brain1.72e-3647
regional part of brain1.61e-3546
pre-chordal neural plate4.86e-3449
gray matter1.16e-3234
anterior neural tube3.87e-3140
regional part of forebrain3.21e-3039
forebrain3.21e-3039
future forebrain3.21e-3039
brain grey matter4.91e-2729
regional part of telencephalon4.91e-2729
telencephalon4.91e-2729
structure with developmental contribution from neural crest1.23e-2592
cerebral cortex4.69e-1921
cerebral hemisphere4.69e-1921
pallium4.69e-1921
regional part of cerebral cortex7.85e-1617
tube8.41e-14114
anatomical conduit1.28e-12122
occipital lobe1.26e-1110
visual cortex1.26e-1110
neocortex1.26e-1110
posterior neural tube2.84e-1112
chordal neural plate2.84e-1112
basal ganglion5.11e-098
nuclear complex of neuraxis5.11e-098
aggregate regional part of brain5.11e-098
collection of basal ganglia5.11e-098
cerebral subcortex5.11e-098
cell layer4.39e-08176
epithelium9.14e-08174
spinal cord9.86e-086
dorsal region element9.86e-086
dorsum9.86e-086
organ system subdivision1.40e-07194
anatomical cluster5.14e-07244


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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