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Coexpression cluster:C105: Difference between revisions

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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C105_heart_skeletal_occipital_hippocampus_acute_Sebocyte_penis
|full_id=C105_heart_skeletal_occipital_hippocampus_acute_Sebocyte_penis
|gostat_on_coexpression_clusters=GO:0005332!gamma-aminobutyric acid:sodium symporter activity!0.013582317476148!6539$GO:0015185!L-gamma-aminobutyric acid transmembrane transporter activity!0.013582317476148!6539$GO:0005283!sodium:amino acid symporter activity!0.013582317476148!6539$GO:0005416!cation:amino acid symporter activity!0.013582317476148!6539$GO:0005100!Rho GTPase activator activity!0.0183740213959862!10395$GO:0005275!amine transmembrane transporter activity!0.0183740213959862!6539$GO:0015179!L-amino acid transmembrane transporter activity!0.0183740213959862!6539$GO:0005343!organic acid:sodium symporter activity!0.0183740213959862!6539$GO:0005328!neurotransmitter:sodium symporter activity!0.0183740213959862!6539$GO:0030308!negative regulation of cell growth!0.0183740213959862!10395$GO:0005326!neurotransmitter transporter activity!0.0183740213959862!6539$GO:0045792!negative regulation of cell size!0.0183740213959862!10395$GO:0045926!negative regulation of growth!0.0183740213959862!10395$GO:0015171!amino acid transmembrane transporter activity!0.0183740213959862!6539$GO:0030155!regulation of cell adhesion!0.0183740213959862!10395$GO:0006836!neurotransmitter transport!0.0203539814997523!6539$GO:0015370!solute:sodium symporter activity!0.021609489514765!6539$GO:0046943!carboxylic acid transmembrane transporter activity!0.0217481310394723!6539$GO:0005342!organic acid transmembrane transporter activity!0.0217481310394723!6539$GO:0015294!solute:cation symporter activity!0.0237858771763283!6539$GO:0001558!regulation of cell growth!0.0312736747295867!10395$GO:0005099!Ras GTPase activator activity!0.0312736747295867!10395$GO:0016049!cell growth!0.0343385594509565!10395$GO:0040008!regulation of growth!0.0343385594509565!10395$GO:0008361!regulation of cell size!0.0343385594509565!10395$GO:0015293!symporter activity!0.0387673400410537!6539
|gostat_on_coexpression_clusters=GO:0005332!gamma-aminobutyric acid:sodium symporter activity!0.013582317476148!6539$GO:0015185!L-gamma-aminobutyric acid transmembrane transporter activity!0.013582317476148!6539$GO:0005283!sodium:amino acid symporter activity!0.013582317476148!6539$GO:0005416!cation:amino acid symporter activity!0.013582317476148!6539$GO:0005100!Rho GTPase activator activity!0.0183740213959862!10395$GO:0005275!amine transmembrane transporter activity!0.0183740213959862!6539$GO:0015179!L-amino acid transmembrane transporter activity!0.0183740213959862!6539$GO:0005343!organic acid:sodium symporter activity!0.0183740213959862!6539$GO:0005328!neurotransmitter:sodium symporter activity!0.0183740213959862!6539$GO:0030308!negative regulation of cell growth!0.0183740213959862!10395$GO:0005326!neurotransmitter transporter activity!0.0183740213959862!6539$GO:0045792!negative regulation of cell size!0.0183740213959862!10395$GO:0045926!negative regulation of growth!0.0183740213959862!10395$GO:0015171!amino acid transmembrane transporter activity!0.0183740213959862!6539$GO:0030155!regulation of cell adhesion!0.0183740213959862!10395$GO:0006836!neurotransmitter transport!0.0203539814997523!6539$GO:0015370!solute:sodium symporter activity!0.021609489514765!6539$GO:0046943!carboxylic acid transmembrane transporter activity!0.0217481310394723!6539$GO:0005342!organic acid transmembrane transporter activity!0.0217481310394723!6539$GO:0015294!solute:cation symporter activity!0.0237858771763283!6539$GO:0001558!regulation of cell growth!0.0312736747295867!10395$GO:0005099!Ras GTPase activator activity!0.0312736747295867!10395$GO:0016049!cell growth!0.0343385594509565!10395$GO:0040008!regulation of growth!0.0343385594509565!10395$GO:0008361!regulation of cell size!0.0343385594509565!10395$GO:0015293!symporter activity!0.0387673400410537!6539

Revision as of 13:29, 12 September 2012


Full id: C105_heart_skeletal_occipital_hippocampus_acute_Sebocyte_penis



Phase1 CAGE Peaks

Hg19::chr12:323699..323719,-p1@SLC6A12
Hg19::chr17:22020689..22020720,+p@chr17:22020689..22020720
+
Hg19::chr17:22020726..22020758,-p@chr17:22020726..22020758
-
Hg19::chr17:22020770..22020781,-p@chr17:22020770..22020781
-
Hg19::chr17:22031915..22031917,-p@chr17:22031915..22031917
-
Hg19::chr4:129002899..129002914,-p@chr4:129002899..129002914
-
Hg19::chr4:65473912..65473913,-p@chr4:65473912..65473913
-
Hg19::chr5:134259906..134259937,-p1@ENST00000501056
Hg19::chr5:134263666..134263678,-p3@MTND4P12
Hg19::chr5:99387824..99387861,-p@chr5:99387824..99387861
-
Hg19::chr5:99388558..99388603,+p@chr5:99388558..99388603
+
Hg19::chr8:100508096..100508130,+p@chr8:100508096..100508130
+
Hg19::chr8:13357482..13357490,-p23@DLC1
Hg19::chrM:100..125,-p@chrM:100..125
-
Hg19::chrM:10041..10104,-p@chrM:10041..10104
-
Hg19::chrM:10113..10131,-p@chrM:10113..10131
-
Hg19::chrM:10138..10169,-p@chrM:10138..10169
-
Hg19::chrM:10175..10198,-p@chrM:10175..10198
-
Hg19::chrM:10219..10233,-p@chrM:10219..10233
-
Hg19::chrM:10235..10366,-p@chrM:10235..10366
-
Hg19::chrM:10371..10407,-p@chrM:10371..10407
-
Hg19::chrM:10600..10633,-p@chrM:10600..10633
-
Hg19::chrM:10660..10715,-p@chrM:10660..10715
-
Hg19::chrM:10807..10818,-p@chrM:10807..10818
-
Hg19::chrM:10826..10837,+p10@uc004cov.3
Hg19::chrM:10862..10891,-p@chrM:10862..10891
-
Hg19::chrM:10910..10956,-p@chrM:10910..10956
-
Hg19::chrM:11173..11190,-p@chrM:11173..11190
-
Hg19::chrM:11198..11226,-p@chrM:11198..11226
-
Hg19::chrM:11250..11434,-p@chrM:11250..11434
-
Hg19::chrM:11460..11479,-p@chrM:11460..11479
-
Hg19::chrM:11484..11500,-p@chrM:11484..11500
-
Hg19::chrM:11586..11598,-p@chrM:11586..11598
-
Hg19::chrM:11771..11794,-p@chrM:11771..11794
-
Hg19::chrM:11798..11820,-p@chrM:11798..11820
-
Hg19::chrM:11825..11838,-p@chrM:11825..11838
-
Hg19::chrM:11850..11887,-p@chrM:11850..11887
-
Hg19::chrM:11889..11901,-p@chrM:11889..11901
-
Hg19::chrM:11909..11930,-p@chrM:11909..11930
-
Hg19::chrM:12009..12047,-p@chrM:12009..12047
-
Hg19::chrM:12049..12060,-p@chrM:12049..12060
-
Hg19::chrM:12118..12142,-p@chrM:12118..12142
-
Hg19::chrM:12200..12224,-p@chrM:12200..12224
-
Hg19::chrM:12227..12244,-p@chrM:12227..12244
-
Hg19::chrM:12293..12317,-p@chrM:12293..12317
-
Hg19::chrM:12349..12391,-p@chrM:12349..12391
-
Hg19::chrM:12407..12424,-p@chrM:12407..12424
-
Hg19::chrM:12425..12491,-p@chrM:12425..12491
-
Hg19::chrM:12538..12581,-p@chrM:12538..12581
-
Hg19::chrM:12582..12596,-p@chrM:12582..12596
-
Hg19::chrM:12608..12692,-p@chrM:12608..12692
-
Hg19::chrM:12698..12719,-p@chrM:12698..12719
-
Hg19::chrM:12727..12771,-p@chrM:12727..12771
-
Hg19::chrM:129..155,-p@chrM:129..155
-
Hg19::chrM:12900..12911,-p@chrM:12900..12911
-
Hg19::chrM:12918..12928,-p@chrM:12918..12928
-
Hg19::chrM:12936..12986,-p@chrM:12936..12986
-
Hg19::chrM:13014..13040,-p@chrM:13014..13040
-
Hg19::chrM:13106..13131,-p@chrM:13106..13131
-
Hg19::chrM:13152..13172,-p@chrM:13152..13172
-
Hg19::chrM:13173..13215,-p@chrM:13173..13215
-
Hg19::chrM:13265..13314,-p@chrM:13265..13314
-
Hg19::chrM:13367..13411,-p@chrM:13367..13411
-
Hg19::chrM:13472..13515,-p@chrM:13472..13515
-
Hg19::chrM:13592..13599,-p@chrM:13592..13599
-
Hg19::chrM:13640..13698,-p@chrM:13640..13698
-
Hg19::chrM:13707..13718,+p@chrM:13707..13718
+
Hg19::chrM:13721..13732,-p@chrM:13721..13732
-
Hg19::chrM:13734..13739,-p@chrM:13734..13739
-
Hg19::chrM:13741..13762,-p@chrM:13741..13762
-
Hg19::chrM:13777..13788,-p@chrM:13777..13788
-
Hg19::chrM:13816..13827,-p@chrM:13816..13827
-
Hg19::chrM:13830..13849,-p@chrM:13830..13849
-
Hg19::chrM:13892..13906,-p@chrM:13892..13906
-
Hg19::chrM:14011..14030,-p@chrM:14011..14030
-
Hg19::chrM:14031..14055,-p@chrM:14031..14055
-
Hg19::chrM:14060..14073,-p@chrM:14060..14073
-
Hg19::chrM:14092..14104,-p@chrM:14092..14104
-
Hg19::chrM:14105..14119,-p@chrM:14105..14119
-
Hg19::chrM:14290..14295,-p@chrM:14290..14295
-
Hg19::chrM:14297..14310,-p@chrM:14297..14310
-
Hg19::chrM:14313..14352,-p@chrM:14313..14352
-
Hg19::chrM:14366..14421,-p@chrM:14366..14421
-
Hg19::chrM:14471..14537,-p@chrM:14471..14537
-
Hg19::chrM:14562..14596,-p@chrM:14562..14596
-
Hg19::chrM:14628..14668,+p2@uc004coy.2
Hg19::chrM:14741..14767,+p1@uc004coy.2
Hg19::chrM:14747..14817,-p@chrM:14747..14817
-
Hg19::chrM:14842..14851,-p@chrM:14842..14851
-
Hg19::chrM:14855..14894,-p@chrM:14855..14894
-
Hg19::chrM:14945..14983,-p@chrM:14945..14983
-
Hg19::chrM:15064..15075,-p@chrM:15064..15075
-
Hg19::chrM:15096..15105,-p@chrM:15096..15105
-
Hg19::chrM:15135..15147,-p@chrM:15135..15147
-
Hg19::chrM:15179..15191,-p@chrM:15179..15191
-
Hg19::chrM:15224..15235,-p22@BC006482
Hg19::chrM:15275..15296,-p13@BC006482
Hg19::chrM:15340..15352,-p17@BC006482
Hg19::chrM:15354..15374,-p9@BC006482
Hg19::chrM:15388..15399,+p4@AF391805
Hg19::chrM:15414..15419,-p24@BC006482
Hg19::chrM:15438..15462,-p5@BC006482
Hg19::chrM:15464..15549,-p1@BC006482
Hg19::chrM:15563..15579,-p16@BC006482
Hg19::chrM:15581..15592,-p20@BC006482
Hg19::chrM:15596..15616,-p14@BC006482
Hg19::chrM:15618..15638,-p12@BC006482
Hg19::chrM:15645..15705,-p2@BC006482
Hg19::chrM:15706..15711,-p25@BC006482
Hg19::chrM:15712..15759,-p3@BC006482
Hg19::chrM:15773..15795,-p10@BC006482
Hg19::chrM:15802..15811,-p23@BC006482
Hg19::chrM:15819..15846,-p7@BC006482
Hg19::chrM:15847..15868,-p8@BC006482
Hg19::chrM:15915..15965,-p4@BC006482
Hg19::chrM:15949..15963,+p5@uc004coz.1
Hg19::chrM:15983..15990,-p26@BC006482
Hg19::chrM:16003..16019,-p15@BC006482
Hg19::chrM:16023..16035,-p19@BC006482
Hg19::chrM:16090..16102,-p21@BC006482
Hg19::chrM:16152..16172,-p11@BC006482
Hg19::chrM:16173..16187,-p18@BC006482
Hg19::chrM:16197..16208,+p8@uc004coz.1
Hg19::chrM:16213..16268,-p@chrM:16213..16268
-
Hg19::chrM:16446..16467,-p@chrM:16446..16467
-
Hg19::chrM:16492..16561,-p@chrM:16492..16561
-
Hg19::chrM:165..176,-p@chrM:165..176
-
Hg19::chrM:1668..1680,+p1@uc004cos.3
Hg19::chrM:179..196,-p@chrM:179..196
-
Hg19::chrM:262..309,-p2@uc004coq.3
Hg19::chrM:2738..2749,-p@chrM:2738..2749
-
Hg19::chrM:3226..3246,+p1@AK074482
Hg19::chrM:3251..3270,-p@chrM:3251..3270
-
Hg19::chrM:3374..3393,-p@chrM:3374..3393
-
Hg19::chrM:3402..3418,-p@chrM:3402..3418
-
Hg19::chrM:3449..3493,-p@chrM:3449..3493
-
Hg19::chrM:3504..3515,-p@chrM:3504..3515
-
Hg19::chrM:3516..3532,-p@chrM:3516..3532
-
Hg19::chrM:3533..3576,-p@chrM:3533..3576
-
Hg19::chrM:3612..3632,-p@chrM:3612..3632
-
Hg19::chrM:3633..3659,-p@chrM:3633..3659
-
Hg19::chrM:3668..3694,-p@chrM:3668..3694
-
Hg19::chrM:3750..3757,-p@chrM:3750..3757
-
Hg19::chrM:3758..3774,-p@chrM:3758..3774
-
Hg19::chrM:3780..3796,-p@chrM:3780..3796
-
Hg19::chrM:3805..3823,-p@chrM:3805..3823
-
Hg19::chrM:3880..3914,-p@chrM:3880..3914
-
Hg19::chrM:3919..3947,-p@chrM:3919..3947
-
Hg19::chrM:4287..4313,+p1@S81656
Hg19::chrM:4431..4475,+p2@AK026903
Hg19::chrM:48..67,-p@chrM:48..67
-
Hg19::chrM:4909..4987,-p2@AK000561
Hg19::chrM:4991..5023,-p7@AK000561
Hg19::chrM:5348..5405,-p3@AK000561
Hg19::chrM:5403..5414,+p11@uc011mfh.1
Hg19::chrM:5421..5456,-p1@AK000561
Hg19::chrM:5471..5515,-p4@AK000561
Hg19::chrM:5526..5536,-p10@AK000561
Hg19::chrM:5824..5838,+p9@uc011mfh.1
Hg19::chrM:6238..6295,-p@chrM:6238..6295
-
Hg19::chrM:6372..6425,-p@chrM:6372..6425
-
Hg19::chrM:6451..6466,-p@chrM:6451..6466
-
Hg19::chrM:6505..6521,-p@chrM:6505..6521
-
Hg19::chrM:6936..6954,-p1@U85268
Hg19::chrM:7165..7184,-p3@U85268
Hg19::chrM:7708..7733,-p3@BC033150
Hg19::chrM:7808..7841,-p2@BC033150
Hg19::chrM:7884..7945,-p1@BC033150
Hg19::chrM:8112..8200,+p6@uc011mfi.1
Hg19::chrM:8145..8212,-p@chrM:8145..8212
-
Hg19::chrM:8456..8497,-p@chrM:8456..8497
-
Hg19::chrM:8483..8501,+p7@uc011mfi.1
Hg19::chrM:8534..8546,+p9@uc011mfi.1
Hg19::chrM:8667..8702,-p@chrM:8667..8702
-
Hg19::chrM:9134..9163,+p8@uc011mfi.1
Hg19::chrM:9324..9378,-p2@AF271776
Hg19::chrM:9485..9494,+p3@BC023992
Hg19::chrM:9495..9535,+p1@BC023992
Hg19::chrM:9781..9808,-p@chrM:9781..9808
-
Hg19::chrM:9833..9922,-p@chrM:9833..9922
-
Hg19::chrM:9933..9974,-p@chrM:9933..9974
-
Hg19::chrM:9984..10028,-p@chrM:9984..10028
-


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

GO IDGO nameFDR corrected p-value
GO:0005332gamma-aminobutyric acid:sodium symporter activity0.013582317476148
GO:0015185L-gamma-aminobutyric acid transmembrane transporter activity0.013582317476148
GO:0005283sodium:amino acid symporter activity0.013582317476148
GO:0005416cation:amino acid symporter activity0.013582317476148
GO:0005100Rho GTPase activator activity0.0183740213959862
GO:0005275amine transmembrane transporter activity0.0183740213959862
GO:0015179L-amino acid transmembrane transporter activity0.0183740213959862
GO:0005343organic acid:sodium symporter activity0.0183740213959862
GO:0005328neurotransmitter:sodium symporter activity0.0183740213959862
GO:0030308negative regulation of cell growth0.0183740213959862
GO:0005326neurotransmitter transporter activity0.0183740213959862
GO:0045792negative regulation of cell size0.0183740213959862
GO:0045926negative regulation of growth0.0183740213959862
GO:0015171amino acid transmembrane transporter activity0.0183740213959862
GO:0030155regulation of cell adhesion0.0183740213959862
GO:0006836neurotransmitter transport0.0203539814997523
GO:0015370solute:sodium symporter activity0.021609489514765
GO:0046943carboxylic acid transmembrane transporter activity0.0217481310394723
GO:0005342organic acid transmembrane transporter activity0.0217481310394723
GO:0015294solute:cation symporter activity0.0237858771763283
GO:0001558regulation of cell growth0.0312736747295867
GO:0005099Ras GTPase activator activity0.0312736747295867
GO:0016049cell growth0.0343385594509565
GO:0040008regulation of growth0.0343385594509565
GO:0008361regulation of cell size0.0343385594509565
GO:0015293symporter activity0.0387673400410537



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>disease_data<br>

Uber Anatomy
Ontology termp-valuen
neural tube1.58e-1857
neural rod1.58e-1857
future spinal cord1.58e-1857
neural keel1.58e-1857
central nervous system7.04e-1682
adult organism4.15e-15115
brain6.49e-1569
future brain6.49e-1569
regional part of forebrain6.73e-1541
forebrain6.73e-1541
future forebrain6.73e-1541
anterior neural tube8.77e-1542
regional part of nervous system1.64e-1494
nervous system1.64e-1494
regional part of brain8.01e-1459
gray matter1.08e-1234
brain grey matter1.08e-1234
neurectoderm1.86e-1290
telencephalon1.06e-1134
regional part of telencephalon1.59e-1133
cerebral hemisphere4.36e-1132
neural plate4.43e-1186
presumptive neural plate4.43e-1186
regional part of cerebral cortex3.92e-0922
ectoderm1.96e-08173
presumptive ectoderm1.96e-08173
neocortex6.04e-0820
cerebral cortex7.20e-0825
pallium7.20e-0825
pre-chordal neural plate1.27e-0761
ectoderm-derived structure1.80e-07169
nucleus of brain8.32e-079
neural nucleus8.32e-079
basal ganglion8.71e-079
nuclear complex of neuraxis8.71e-079
aggregate regional part of brain8.71e-079
collection of basal ganglia8.71e-079
cerebral subcortex8.71e-079
Disease
Ontology termp-valuen
disease of cellular proliferation2.29e-24239
cancer5.54e-24235
cell type cancer2.13e-12143
organ system cancer4.10e-11137
carcinoma6.65e-08106
hematologic cancer4.81e-0751
immune system cancer4.81e-0751


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)

{{{tfbs_overrepresentation_jaspar}}}



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

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