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{{Coexpression_clusters
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5,0.161573,0.280842,0.335456,0.416632,0.0158255,0.545676,0.467154,0.600528,0.249647,0.43669,0.446356,0.248584,0.092053,0.390152,0.537963,0.540199,0.488863,0.342785,0.119442,0.20487,0.603936,0.449548,0.103672,0.209566,0.189123,0.588995,0.355645,0.0625263,0.522124,0.158122,0.0387004,0.220023,0.444217,0.363335,0.329186,0.00274698,0.148874,0.416144,0.648861|tfbs_overrepresentation_for_novel_motifs=0.392069,0.100351,0.384703,0.529489,0.343148,0.52784,0.604235,0.226729,0.224331,0.200685,0.497563,0.647852,0.184039,0.592674,0.341795,0.365029,0.827563,0.28906,0.19568,0.32524,1.77222,0.0646572,0.520063,0.338096,0.430372,0.670692,0.164928,0.517892,0.346214,0.150685,0.475674,0.864517,0.257226,0.546594,0.309012,0.442372,0.825031,0.529001,0.282922,0.207499,0.829015,0.459366,0.0729319,0.340293,0.0257952,0.415364,0.60533,0.486696,0.511111,0.346342,0.684981,0.617179,0.752493,0.941629,1.09491,0.595623,0.350547,0.562713,0.459282,0.561701,0.905643,0.60771,0.224801,0.799729,0.625758,0.76514,1.18348,1.55228,0.854088,1.38987,0.4462,0.232216,0.115253,1.0929,0.531388,0.168304,0.156354,0.782748,0.850825,0.424224,0.580264,0.798651,0.625403,0.229431,1.04131,0.0324537,3.57827,0.146388,0.711163,1.65172,1.27705,1.01423,2.04389,0.73028,0.343884,0.277058,0.194299,0.924148,0.715799,0.413337,0.28424,0.875714,0.918549,0.831244,0.753567,0.493026,0.815341,0.589207,0.43012,0.327379,1.02467,0.915771,0.379203,0.507004,1.22894,0.304323,0.155979,0.474472,0.762789,0.736663,1.0846,1.68811,0.525076,0.636741,1.33983,0.783512,0.597853,0.886402,1.12733,0.27799,1.01492,0.47854,1.14174,0.633392,1.28996,0.854586,0.469685,0.518459,1.24743,2.10682,1.70417,1.21002,0.59959,0.920609,0.755332,0.554217,0.738579,1.94751,1.15519,0.26104,0.345641,0.0685123,1.0153,0.216774,0.607223,1.42052,0.694887,0.329354,0.430431,0.401655,1.2088,0.996724,0.850033,0.404861,0.7715,0.624608,0.24928,0.602897,0.00626991|tfbs_overrepresentation_jaspar=MA0003.1;0.00215847,MA0004.1;0.502801,MA0006.1;0.341337,MA0007.1;0.483857,MA0009.1;0.973289,MA0014.1;0.0156227,MA0017.1;0.380797,MA0019.1;0.652951,MA0024.1;0.867125,MA0025.1;1.10816,MA0027.1;2.59001,MA0028.1;0.35747,MA0029.1;2.05477,MA0030.1;0.875089,MA0031.1;0.809638,MA0038.1;0.60704,MA0040.1;0.892629,MA0041.1;1.29551,MA0042.1;2.12523,MA0043.1;0.973609,MA0046.1;0.962263,MA0048.1;0.120314,MA0050.1;0.490116,MA0051.1;0.602745,MA0052.1;0.896548,MA0055.1;0.0407081,MA0056.1;0,MA0057.1;0.115382,MA0058.1;0.406232,MA0059.1;0.404929,MA0060.1;0.224688,MA0061.1;0.198335,MA0063.1;0,MA0066.1;2.51191,MA0067.1;1.29359,MA0068.1;0.162298,MA0069.1;0.958358,MA0070.1;0.947018,MA0071.1;0.567661,MA0072.1;0.942461,MA0073.1;0.215865,MA0074.1;0.60198,MA0076.1;0.422297,MA0077.1;0.934645,MA0078.1;0.703614,MA0081.1;1.04478,MA0083.1;0.980893,MA0084.1;1.48179,MA0087.1;0.939982,MA0088.1;0.0723293,MA0089.1;0,MA0090.1;0.436918,MA0091.1;0.505453,MA0092.1;1.17914,MA0093.1;0.344385,MA0095.1;0,MA0098.1;0,MA0100.1;0.621149,MA0101.1;0.347695,MA0103.1;0.332048,MA0105.1;0.104569,MA0106.1;0.648997,MA0107.1;0.752965,MA0108.2;0.806528,MA0109.1;0,MA0111.1;0.45062,MA0113.1;0.665691,MA0114.1;0.741402,MA0115.1;1.21667,MA0116.1;0.277571,MA0117.1;1.01134,MA0119.1;0.388712,MA0122.1;1.03753,MA0124.1;1.17486,MA0125.1;1.0901,MA0130.1;0,MA0131.1;0.722072,MA0132.1;0,MA0133.1;0,MA0135.1;1.00402,MA0136.1;0.614215,MA0139.1;0.186511,MA0140.1;0.564957,MA0141.1;0.403171,MA0142.1;0.777365,MA0143.1;1.59899,MA0144.1;0.254954,MA0145.1;0.276317,MA0146.1;0.0127148,MA0147.1;0.281049,MA0148.1;0.528066,MA0149.1;1.36656,MA0062.2;0.193221,MA0035.2;0.564239,MA0039.2;0.00276064,MA0138.2;0.704862,MA0002.2;0.611548,MA0137.2;0.36398,MA0104.2;0.223944,MA0047.2;0.636643,MA0112.2;0.944394,MA0065.2;0.282161,MA0150.1;0.430951,MA0151.1;0,MA0152.1;0.571637,MA0153.1;1.07307,MA0154.1;0.335384,MA0155.1;0.071478,MA0156.1;0.36627,MA0157.1;0.749547,MA0158.1;0,MA0159.1;0.770207,MA0160.1;0.543522,MA0161.1;0,MA0162.1;0.0249953,MA0163.1;0.0167306,MA0164.1;0.678332,MA0080.2;0.344472,MA0018.2;0.650405,MA0099.2;0.572,MA0079.2;0.000432051,MA0102.2;1.51913,MA0258.1;2.75937,MA0259.1;0.289405,MA0442.1;0}}
|full_id=C1106_pineal_occipital_middle_parietal_olfactory_amygdala_caudate
|id=C1106
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001049!4.41e-47!57;UBERON:0005068!4.41e-47!57;UBERON:0006241!4.41e-47!57;UBERON:0007135!4.41e-47!57;UBERON:0007023!5.12e-42!115;UBERON:0001017!5.31e-42!82;UBERON:0000955!7.02e-42!69;UBERON:0006238!7.02e-42!69;UBERON:0002780!8.51e-41!41;UBERON:0001890!8.51e-41!41;UBERON:0006240!8.51e-41!41;UBERON:0005743!2.40e-40!86;UBERON:0000073!1.37e-39!94;UBERON:0001016!1.37e-39!94;UBERON:0003080!2.13e-39!42;UBERON:0002346!9.83e-39!90;UBERON:0002616!1.14e-38!59;UBERON:0003075!1.15e-37!86;UBERON:0007284!1.15e-37!86;UBERON:0002020!2.27e-34!34;UBERON:0003528!2.27e-34!34;UBERON:0001893!5.87e-34!34;UBERON:0002791!5.60e-33!33;UBERON:0001869!9.91e-33!32;UBERON:0003056!1.82e-29!61;UBERON:0000956!1.20e-25!25;UBERON:0000203!1.20e-25!25;UBERON:0002619!2.55e-24!22;UBERON:0000153!3.68e-24!129;UBERON:0007811!3.68e-24!129;UBERON:0000924!6.25e-24!173;UBERON:0006601!6.25e-24!173;UBERON:0000033!3.30e-23!123;UBERON:0004121!7.74e-23!169;UBERON:0001950!2.93e-22!20;UBERON:0000025!1.09e-11!194;UBERON:0002420!2.98e-10!9;UBERON:0007245!2.98e-10!9;UBERON:0010009!2.98e-10!9;UBERON:0010011!2.98e-10!9;UBERON:0000454!2.98e-10!9;UBERON:0002308!4.40e-10!9;UBERON:0000125!4.40e-10!9;UBERON:0001871!1.86e-09!7;UBERON:0000064!3.09e-09!219;UBERON:0003076!4.46e-09!15;UBERON:0003057!4.46e-09!15;UBERON:0004111!5.64e-09!241;UBERON:0009663!3.52e-08!7;UBERON:0001894!3.83e-08!7;UBERON:0006222!3.83e-08!7;UBERON:0000200!1.17e-07!6;UBERON:0000483!1.26e-07!309;UBERON:0000477!1.68e-07!286;UBERON:0004732!2.06e-07!13;UBERON:0000119!2.62e-07!312
}}

Latest revision as of 11:37, 17 September 2013


Full id: C1106_pineal_occipital_middle_parietal_olfactory_amygdala_caudate



Phase1 CAGE Peaks

Hg19::chr10:115802982..115802997,+p@chr10:115802982..115802997
+
Hg19::chr4:21056328..21056331,-p@chr4:21056328..21056331
-
Hg19::chr4:21418996..21419012,-p@chr4:21418996..21419012
-
Hg19::chr4:21419073..21419100,-p@chr4:21419073..21419100
-
Hg19::chr4:21594781..21594810,-p@chr4:21594781..21594810
-
Hg19::chr4:21867081..21867096,-p1@AK057907
Hg19::chr8:105265029..105265058,+p@chr8:105265029..105265058
+


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

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

No GOStat results

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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
neural tube6.08e-11156
neural rod6.08e-11156
future spinal cord6.08e-11156
neural keel6.08e-11156
regional part of nervous system1.16e-10653
regional part of brain1.16e-10653
brain3.67e-9368
future brain3.67e-9368
regional part of forebrain4.86e-8941
forebrain4.86e-8941
anterior neural tube4.86e-8941
future forebrain4.86e-8941
central nervous system9.71e-8981
neural plate2.04e-8482
presumptive neural plate2.04e-8482
neurectoderm4.62e-8086
nervous system4.85e-7989
brain grey matter1.33e-7634
gray matter1.33e-7634
cerebral hemisphere1.22e-7532
telencephalon6.54e-7134
regional part of telencephalon4.71e-7032
pre-chordal neural plate3.03e-6561
ecto-epithelium1.44e-64104
regional part of cerebral cortex3.95e-6022
adult organism1.09e-55114
neocortex3.13e-5320
cerebral cortex1.39e-5225
pallium1.39e-5225
structure with developmental contribution from neural crest1.99e-51132
ectoderm-derived structure1.28e-40171
ectoderm1.28e-40171
presumptive ectoderm1.28e-40171
organ system subdivision2.46e-27223
tube3.34e-27192
basal ganglion1.16e-259
nuclear complex of neuraxis1.16e-259
aggregate regional part of brain1.16e-259
collection of basal ganglia1.16e-259
cerebral subcortex1.16e-259
neural nucleus3.49e-259
nucleus of brain3.49e-259
posterior neural tube3.70e-2215
chordal neural plate3.70e-2215
gyrus3.93e-226
anatomical conduit9.24e-20240
diencephalon4.42e-197
future diencephalon4.42e-197
limbic system9.60e-195
telencephalic nucleus1.03e-187
segmental subdivision of hindbrain3.30e-1812
hindbrain3.30e-1812
presumptive hindbrain3.30e-1812
parietal lobe3.44e-185
segmental subdivision of nervous system1.05e-1613
organ part2.69e-16218
regional part of diencephalon3.23e-164
corpus striatum2.44e-154
striatum2.44e-154
ventral part of telencephalon2.44e-154
future corpus striatum2.44e-154
epithelium3.11e-15306
cell layer5.51e-15309
brainstem1.30e-146
regional part of metencephalon2.35e-149
metencephalon2.35e-149
future metencephalon2.35e-149
anatomical cluster6.93e-14373
temporal lobe2.22e-136
caudate-putamen2.37e-123
dorsal striatum2.37e-123
frontal cortex3.33e-123
occipital lobe3.59e-125
multi-tissue structure1.04e-11342
pons1.88e-113
gland of diencephalon2.58e-094
neuroendocrine gland2.58e-094
pineal body3.24e-092
regional part of epithalamus3.24e-092
secretory circumventricular organ3.24e-092
circumventricular organ3.24e-092
epithalamus3.24e-092
middle frontal gyrus6.26e-092
amygdala7.87e-092
middle temporal gyrus9.16e-092
caudate nucleus9.16e-092
future caudate nucleus9.16e-092
dorsal plus ventral thalamus1.03e-082
thalamic complex1.03e-082
Ammon's horn1.24e-082
lobe parts of cerebral cortex1.24e-082
hippocampal formation1.24e-082
limbic lobe1.24e-082
globus pallidus2.51e-082
pallidum2.51e-082
locus ceruleus2.81e-082
brainstem nucleus2.81e-082
hindbrain nucleus2.81e-082
organ4.57e-08503


Overrepresented TFBS (DNA) motifs on this co-expression cluster<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)
MA0003.10.00215847
MA0004.10.502801
MA0006.10.341337
MA0007.10.483857
MA0009.10.973289
MA0014.10.0156227
MA0017.10.380797
MA0019.10.652951
MA0024.10.867125
MA0025.11.10816
MA0027.12.59001
MA0028.10.35747
MA0029.12.05477
MA0030.10.875089
MA0031.10.809638
MA0038.10.60704
MA0040.10.892629
MA0041.11.29551
MA0042.12.12523
MA0043.10.973609
MA0046.10.962263
MA0048.10.120314
MA0050.10.490116
MA0051.10.602745
MA0052.10.896548
MA0055.10.0407081
MA0056.10
MA0057.10.115382
MA0058.10.406232
MA0059.10.404929
MA0060.10.224688
MA0061.10.198335
MA0063.10
MA0066.12.51191
MA0067.11.29359
MA0068.10.162298
MA0069.10.958358
MA0070.10.947018
MA0071.10.567661
MA0072.10.942461
MA0073.10.215865
MA0074.10.60198
MA0076.10.422297
MA0077.10.934645
MA0078.10.703614
MA0081.11.04478
MA0083.10.980893
MA0084.11.48179
MA0087.10.939982
MA0088.10.0723293
MA0089.10
MA0090.10.436918
MA0091.10.505453
MA0092.11.17914
MA0093.10.344385
MA0095.10
MA0098.10
MA0100.10.621149
MA0101.10.347695
MA0103.10.332048
MA0105.10.104569
MA0106.10.648997
MA0107.10.752965
MA0108.20.806528
MA0109.10
MA0111.10.45062
MA0113.10.665691
MA0114.10.741402
MA0115.11.21667
MA0116.10.277571
MA0117.11.01134
MA0119.10.388712
MA0122.11.03753
MA0124.11.17486
MA0125.11.0901
MA0130.10
MA0131.10.722072
MA0132.10
MA0133.10
MA0135.11.00402
MA0136.10.614215
MA0139.10.186511
MA0140.10.564957
MA0141.10.403171
MA0142.10.777365
MA0143.11.59899
MA0144.10.254954
MA0145.10.276317
MA0146.10.0127148
MA0147.10.281049
MA0148.10.528066
MA0149.11.36656
MA0062.20.193221
MA0035.20.564239
MA0039.20.00276064
MA0138.20.704862
MA0002.20.611548
MA0137.20.36398
MA0104.20.223944
MA0047.20.636643
MA0112.20.944394
MA0065.20.282161
MA0150.10.430951
MA0151.10
MA0152.10.571637
MA0153.11.07307
MA0154.10.335384
MA0155.10.071478
MA0156.10.36627
MA0157.10.749547
MA0158.10
MA0159.10.770207
MA0160.10.543522
MA0161.10
MA0162.10.0249953
MA0163.10.0167306
MA0164.10.678332
MA0080.20.344472
MA0018.20.650405
MA0099.20.572
MA0079.20.000432051
MA0102.21.51913
MA0258.12.75937
MA0259.10.289405
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

This analysis result is provided for C0 - C305 clusters.

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