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MCL coexpression mm9:283: Difference between revisions

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{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0.170392729704821,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.268156494256252,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0257492958628459,0.0419359757688424,0,0.251003064477134,0.957334705435242,0.727144795436858,0.730195099592919,0.617459408669841,0.830493870128398,0,0,0,0,0,0,0.176782520138305,0.211404452182316,0.213207239280454,0.22471147363102,0.276299728348189,0,0,0,0.84460155691904,1.0988767235784,0.0818436986734574,0.0549981337564001,0.0829019901297716,0.698893021565912,0.747511468674003,0.0913591399907948,0.102603845937379,0,0.936423717425618,0.879491308113552,0.926403486308879,0.198769405569515,0.202491983556557,0.134782095605604,0.921717119016934,0.740528548855511,0.859408495130158,0.559802751830034,0.486226735707772,0.263975340478526,0.0612459843014792,0.146357843355171,0,0,0,0,0,0,0.107511441879825,0,0,0,0.281137647143802,0,0,0,0,0,0,0.127930999153497,0,0,0,0,0,0,0,0,0,0.00739082777234695,0,0.0651189800845078,0,0,0,0.673579267951729,0.683366598074928,0,0,0,0,0.883834173089126,0.745038093230261,0.265701947202526,0.674864995288752,0.604926981931773,0.924374830845126,0.826358136851318,0.0183522152083221,0.0509235292940968,0,0.0829439327499637,0.0151254526212569,0,0,0.00980415359512855,0.0806659819199616,0.117691287167579,0.102639062529946,0.240924129628619,0,0,0,0,0,0,0.00399716076969941,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.679901825188812,0.295990055251832,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0294389011296462,0.0266298923127834,0,0.0203374433126576,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.897205263477894,0.898888477169033,0,0,0.0762052928923888,0,0.0423637962789889,0.0813687477930447,0.123701151005011,0.150102906936704,0,0,0.144663790035931,0.671399244883394,0.0302723598887293,0.0711694759496908,0,0.0663147875126409,0,0,0,0,0,0,0,0,0,0,0,0,0.0226715997208885,0,0.0528318955547673,0,0,0.0712812415377886,0.0661577744756082,0.115432414129512,0,0,0,0,0,0.0254340553719351,0.0489745727197172,0,0,1.00766800204996,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.00783367562271745,0,0.034489466458534,0,0,0,0,0,0,0,0,0,0,0.0467638821472642,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0014862879492226,0,0,0,0.161019750956122,0.0747003483965965,0.0641992228021084,0,0,0.582490536396736,0.662720404307406,0.58709079061676,0.519827376468231,0.634320099813795,0.597788310825105,0.587134707003001,0.51209791841336,0.59517471100111,0.50637209555025,0.0294239251444808,0,0.0684580848992459,0.0478057196733518,0.0747852602253282,0,0.0871588832444397,0.081359932135904,0,0.0978461107777356,0.098117166361508,0.0783074239853372,0.104319901937896,0.102381024292777,0.0997261746927171,0,0.0905291472420136,0.0766073954291401,0.00407739031131768,0.112067779638927,0.128033729919821,0.0709519923534245,0.0830891835126099,0.0850981159724191,0.0748964051866952,0.0904676818124212,0.0538696871832051,0,0.0553034373508932,0,0.0486884105045233,0.0780974029773103,0,0.117229416500102,0.0716367820153586,0.0968441960560167,0.091291089277545,0.0845301845292944,0.0760168881589905,0.0865703124974023,0.0905641158318875
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000221!2.40e-21!44;CL:0000133!2.40e-21!44;CL:0002319!1.11e-20!43;CL:0000055!7.35e-18!49;CL:0000540!1.29e-13!33;CL:0000047!1.29e-13!33;CL:0000031!1.29e-13!33;CL:0000404!1.29e-13!33;CL:0000117!1.94e-13!23;CL:0000337!1.94e-13!23;CL:0000393!2.86e-11!39;CL:0000211!2.86e-11!39;CL:0002321!6.61e-09!70;CL:0000333!2.53e-08!10;CL:0000095!2.53e-08!10;CL:0000243!2.53e-08!10;CL:0000123!2.53e-08!10;CL:0000125!2.53e-08!10;CL:0000030!2.53e-08!10;CL:0000339!2.53e-08!10;CL:0002453!7.54e-08!8
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001016!1.09e-39!75;UBERON:0001017!9.30e-39!73;UBERON:0004121!6.39e-37!95;UBERON:0000924!6.39e-37!95;UBERON:0006601!6.39e-37!95;UBERON:0000073!2.32e-30!54;UBERON:0002346!6.40e-29!64;UBERON:0003075!6.40e-29!64;UBERON:0007284!6.40e-29!64;UBERON:0001049!1.97e-28!52;UBERON:0005068!1.97e-28!52;UBERON:0006241!1.97e-28!52;UBERON:0007135!1.97e-28!52;UBERON:0010371!7.39e-27!73;UBERON:0000955!2.17e-24!47;UBERON:0006238!2.17e-24!47;UBERON:0002616!1.37e-23!46;UBERON:0002020!2.30e-21!34;UBERON:0003056!1.74e-19!49;UBERON:0003080!1.20e-18!40;UBERON:0002780!8.68e-18!39;UBERON:0001890!8.68e-18!39;UBERON:0006240!8.68e-18!39;UBERON:0003528!1.05e-17!29;UBERON:0002791!1.05e-17!29;UBERON:0001893!1.05e-17!29;UBERON:0010314!7.51e-16!92;UBERON:0000956!3.90e-12!21;UBERON:0001869!3.90e-12!21;UBERON:0000203!3.90e-12!21;UBERON:0002619!1.01e-10!17;UBERON:0003076!1.53e-10!12;UBERON:0003057!1.53e-10!12;UBERON:0002021!3.67e-08!10;UBERON:0000411!3.67e-08!10;UBERON:0001950!3.67e-08!10;UBERON:0002420!7.43e-07!8;UBERON:0007245!7.43e-07!8;UBERON:0010009!7.43e-07!8;UBERON:0010011!7.43e-07!8;UBERON:0000454!7.43e-07!8
}}

Latest revision as of 15:01, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:112910501..112910517,-p1@Ckb
Mm9::chr12:120477061..120477075,-p9@Itgb8
Mm9::chr12:120477090..120477107,-p11@Itgb8
Mm9::chr12:81619544..81619562,+p3@Galntl1
Mm9::chr13:58909624..58909647,+p6@Ntrk2
Mm9::chr13:58910044..58910113,+p2@Ntrk2
Mm9::chr14:26588278..26588288,-p@chr14:26588278..26588288
-
Mm9::chr14:26588296..26588351,-p2@Zcchc24
Mm9::chr15:81767125..81767146,-p@chr15:81767125..81767146
-
Mm9::chr15:85408299..85408332,-p2@Wnt7b
Mm9::chr16:91225654..91225671,+p2@Olig2
Mm9::chr18:74023269..74023302,+p2@Mro
Mm9::chr18:74023346..74023367,+p3@Mro
Mm9::chr19:40439653..40439683,-p@chr19:40439653..40439683
-
Mm9::chr1:137271513..137271523,-p8@Shisa4
Mm9::chr2:25947296..25947311,-p10@Nacc2
Mm9::chr2:25947351..25947375,-p3@Nacc2
Mm9::chr2:25947434..25947443,-p11@Nacc2
Mm9::chr2:25947453..25947479,-p5@Nacc2
Mm9::chr2:25947481..25947508,-p2@Nacc2
Mm9::chr2:25947538..25947553,-p6@Nacc2
Mm9::chr2:25947568..25947579,-p8@Nacc2
Mm9::chr5:138199361..138199441,+p2@Tsc22d4
Mm9::chr7:125735998..125736019,+p2@uc009jkd.1
Mm9::chr7:149558115..149558197,-p1@6330512M04Rik
Mm9::chr7:149558226..149558241,-p4@6330512M04Rik
Mm9::chr7:31077020..31077031,+p10@Clip3
Mm9::chr7:4874446..4874498,+p1@Nat14
Mm9::chr9:37175212..37175241,+p1@Hepacam
Mm9::chr9:37175262..37175267,+p@chr9:37175262..37175267
+


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 system1.09e-3975
central nervous system9.30e-3973
ectoderm-derived structure6.39e-3795
ectoderm6.39e-3795
presumptive ectoderm6.39e-3795
regional part of nervous system2.32e-3054
neurectoderm6.40e-2964
neural plate6.40e-2964
presumptive neural plate6.40e-2964
neural tube1.97e-2852
neural rod1.97e-2852
future spinal cord1.97e-2852
neural keel1.97e-2852
ecto-epithelium7.39e-2773
brain2.17e-2447
future brain2.17e-2447
regional part of brain1.37e-2346
gray matter2.30e-2134
pre-chordal neural plate1.74e-1949
anterior neural tube1.20e-1840
regional part of forebrain8.68e-1839
forebrain8.68e-1839
future forebrain8.68e-1839
brain grey matter1.05e-1729
regional part of telencephalon1.05e-1729
telencephalon1.05e-1729
structure with developmental contribution from neural crest7.51e-1692
cerebral cortex3.90e-1221
cerebral hemisphere3.90e-1221
pallium3.90e-1221
regional part of cerebral cortex1.01e-1017
posterior neural tube1.53e-1012
chordal neural plate1.53e-1012
occipital lobe3.67e-0810
visual cortex3.67e-0810
neocortex3.67e-0810
basal ganglion7.43e-078
nuclear complex of neuraxis7.43e-078
aggregate regional part of brain7.43e-078
collection of basal ganglia7.43e-078
cerebral subcortex7.43e-078


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)
MA0003.10.677571
MA0004.10.0858689
MA0006.10.0253297
MA0007.10.572315
MA0009.10.377631
MA0014.10.730557
MA0017.10.565651
MA0019.10.238713
MA0024.10.342622
MA0025.10.57681
MA0027.11.94532
MA0028.10.519071
MA0029.10.869303
MA0030.10.330711
MA0031.10.303242
MA0038.10.957393
MA0040.10.387805
MA0041.10.0540602
MA0042.10.0492946
MA0043.10.457929
MA0046.10.407017
MA0048.12.53625
MA0050.10.104869
MA0051.10.170484
MA0052.10.394392
MA0055.11.44861
MA0056.10
MA0057.11.02207
MA0058.10.0469235
MA0059.10.0512607
MA0060.10.743697
MA0061.10.355607
MA0063.10
MA0066.11.4865
MA0067.10.677115
MA0068.10.396641
MA0069.10.39467
MA0070.10.386747
MA0071.10.104441
MA0072.10.379853
MA0073.10.000385658
MA0074.10.136938
MA0076.11.86323
MA0077.10.36238
MA0078.10.191654
MA0081.11.2432
MA0083.10.457256
MA0084.10.985399
MA0087.10.421024
MA0088.11.39221
MA0089.10
MA0090.13.10489
MA0091.10.092107
MA0092.10.248035
MA0093.10.0301253
MA0095.10
MA0098.10
MA0100.10.130363
MA0101.10.200807
MA0103.10.329394
MA0105.10.625989
MA0106.10.572177
MA0107.10.135394
MA0108.20.709125
MA0109.10
MA0111.10.560888
MA0113.10.178447
MA0114.11.2247
MA0115.10.460306
MA0116.14.32231
MA0117.10.433078
MA0119.11.18399
MA0122.10.449781
MA0124.10.628716
MA0125.10.562419
MA0130.10
MA0131.10.235509
MA0132.10
MA0133.10
MA0135.10.489063
MA0136.10.148556
MA0139.10.866511
MA0140.10.130298
MA0141.10.0414652
MA0142.10.794217
MA0143.10.553481
MA0144.10.181792
MA0145.10.965042
MA0146.10.0652892
MA0147.10.017186
MA0148.11.58531
MA0149.10.0566148
MA0062.20.143392
MA0035.20.132954
MA0039.20.390442
MA0138.20.650745
MA0002.20.103645
MA0137.20.157757
MA0104.20.00827606
MA0047.21.52347
MA0112.20.144952
MA0065.20.739729
MA0150.10.0789524
MA0151.10
MA0152.10.164506
MA0153.10.503426
MA0154.10.42185
MA0155.10.453979
MA0156.10.148468
MA0157.10.26838
MA0158.10
MA0159.11.3861
MA0160.10.095069
MA0161.10
MA0162.10.746666
MA0163.10.662029
MA0164.10.148771
MA0080.20.0338537
MA0018.20.469233
MA0099.21.86521
MA0079.21.94074
MA0102.21.03585
MA0258.10.0588775
MA0259.10.601643
MA0442.10
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