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MCL coexpression mm9:2001

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Phase1 CAGE Peaks

 Short description
Mm9::chr11:84339016..84339044,-p1@Lhx1
Mm9::chr5:140019816..140019825,+p3@Uncx
Mm9::chr5:140019843..140019858,+p2@Uncx
Mm9::chr5:140019865..140019886,+p1@Uncx


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:0001706endoderm formation0.00751056046497468
GO:0005667transcription factor complex0.00751056046497468
GO:0021937Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation0.00751056046497468
GO:0044451nucleoplasm part0.00751056046497468
GO:0005654nucleoplasm0.00751056046497468
GO:0021692cerebellar Purkinje cell layer morphogenesis0.00751056046497468
GO:0021940positive regulation of granule cell precursor proliferation0.00751056046497468
GO:0021694cerebellar Purkinje cell layer formation0.00751056046497468
GO:0021936regulation of granule cell precursor proliferation0.00751056046497468
GO:0021702cerebellar Purkinje cell differentiation0.00751056046497468
GO:0021534cell proliferation in hindbrain0.00751056046497468
GO:0021930granule cell precursor proliferation0.00751056046497468
GO:0021924cell proliferation in the external granule layer0.00751056046497468
GO:0021697cerebellar cortex formation0.00751056046497468
GO:0021533cell differentiation in hindbrain0.00751056046497468
GO:0031981nuclear lumen0.00751056046497468
GO:0021680cerebellar Purkinje cell layer development0.00751056046497468
GO:0021696cerebellar cortex morphogenesis0.00751056046497468
GO:0031974membrane-enclosed lumen0.00751056046497468
GO:0043233organelle lumen0.00751056046497468
GO:0021587cerebellum morphogenesis0.00751056046497468
GO:0021575hindbrain morphogenesis0.00757002253337944
GO:0007492endoderm development0.00757002253337944
GO:0003700transcription factor activity0.00757002253337944
GO:0021695cerebellar cortex development0.00757002253337944
GO:0022037metencephalon development0.00895507505215965
GO:0021549cerebellum development0.00895507505215965
GO:0044428nuclear part0.00973301948905536
GO:0001704formation of primary germ layer0.00978640769926849
GO:0009791post-embryonic development0.0105101741671494
GO:0001702gastrulation with mouth forming second0.0105101741671494
GO:0030902hindbrain development0.0137904433531285
GO:0007369gastrulation0.0197296049695444
GO:0043234protein complex0.0205590795987763
GO:0006355regulation of transcription, DNA-dependent0.0258268232098056
GO:0006351transcription, DNA-dependent0.0258268232098056
GO:0032774RNA biosynthetic process0.0258268232098056
GO:0003677DNA binding0.0258268232098056
GO:0045449regulation of transcription0.0259339862375044
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0262942375471823
GO:0006350transcription0.0263286738552209
GO:0032991macromolecular complex0.0264238765307082
GO:0010468regulation of gene expression0.0268185410295017
GO:0031323regulation of cellular metabolic process0.0284016674325537
GO:0019222regulation of metabolic process0.0298621036708348
GO:0016070RNA metabolic process0.0307754304918284
GO:0044446intracellular organelle part0.0316054068440399
GO:0044422organelle part0.0316054068440399
GO:0008284positive regulation of cell proliferation0.0376007537088389
GO:0007420brain development0.0381683309718694
GO:0048646anatomical structure formation0.0381683309718694
GO:0010467gene expression0.0389882682277188
GO:0003676nucleic acid binding0.0401208433633189
GO:0007417central nervous system development0.0447136566776892
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0449011665679947



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>

Cell Type
Ontology termp-valuen
CNS neuron (sensu Vertebrata)5.12e-1523
neuroblast (sensu Vertebrata)5.12e-1523
neuron2.85e-0833
neuronal stem cell2.85e-0833
neuroblast2.85e-0833
electrically signaling cell2.85e-0833

Uber Anatomy
Ontology termp-valuen
regional part of nervous system4.45e-1054
cavitated compound organ1.19e-0921
neural tube6.65e-0952
neural rod6.65e-0952
future spinal cord6.65e-0952
neural keel6.65e-0952
neurectoderm3.37e-0864
neural plate3.37e-0864
presumptive neural plate3.37e-0864
central nervous system7.95e-0873
posterior neural tube2.16e-0712
chordal neural plate2.16e-0712
nervous system2.46e-0775


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)
MA0003.12.89651
MA0004.10.6888
MA0006.10.497533
MA0007.10.672186
MA0009.11.15569
MA0014.10.981995
MA0017.10.528196
MA0019.10.964875
MA0024.11.11019
MA0025.11.39562
MA0027.12.81824
MA0028.10.509589
MA0029.11.08753
MA0030.11.09438
MA0031.11.05719
MA0038.10.846479
MA0040.12.62831
MA0041.10.604221
MA0042.10.589368
MA0043.11.25564
MA0046.11.1929
MA0048.10.266382
MA0050.10.731539
MA0051.10.856094
MA0052.11.17701
MA0055.10.125758
MA0056.10
MA0057.10.251896
MA0058.10.581673
MA0059.10.59559
MA0060.11.83511
MA0061.10.438628
MA0063.10
MA0066.16.14006
MA0067.11.50873
MA0068.10.713436
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.216408
MA0074.10.795862
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.582815
MA0089.10
MA0090.10.650768
MA0091.10.703314
MA0092.10.651119
MA0093.10.519148
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.10.605676
MA0103.10.540576
MA0105.15.19185
MA0106.10.899777
MA0107.10.533522
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.10.43587
MA0115.11.25852
MA0116.10.497293
MA0117.11.22527
MA0119.10.606338
MA0122.11.24573
MA0124.11.45461
MA0125.11.37907
MA0130.10
MA0131.10.960068
MA0132.10
MA0133.10
MA0135.11.29308
MA0136.10.817395
MA0139.11.70536
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.10.887119
MA0144.10.439506
MA0145.10.21199
MA0146.10.0944145
MA0147.10.453952
MA0148.10.706718
MA0149.10.611881
MA0062.20.319836
MA0035.20.788288
MA0039.20.731226
MA0138.20.951653
MA0002.20.368961
MA0137.20.559766
MA0104.20.386166
MA0047.20.845655
MA0112.20.211985
MA0065.20.609584
MA0150.10.67206
MA0151.10
MA0152.11.97086
MA0153.11.31015
MA0154.10.263609
MA0155.10.230016
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.10.465802
MA0160.10.71003
MA0161.10
MA0162.10.704935
MA0163.12.23835
MA0164.10.817786
MA0080.20.534538
MA0018.24.61116
MA0099.20.944966
MA0079.22.99114
MA0102.21.8929
MA0258.10.419871
MA0259.10.441366
MA0442.10
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