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|ontology_enrichment_disease=DOID:305!8.29e-14!106;DOID:0050687!1.53e-08!143
|ontology_enrichment_disease=DOID:305!8.29e-14!106;DOID:0050687!1.53e-08!143
|ontology_enrichment_uberon=UBERON:0007023!1.36e-24!115;UBERON:0000062!5.79e-21!511;UBERON:0000922!3.54e-15!612;UBERON:0004921!5.60e-15!129;UBERON:0004185!5.60e-15!129;UBERON:0000468!1.37e-13!659;UBERON:0002050!4.53e-13!605;UBERON:0005423!4.53e-13!605;UBERON:0004119!7.22e-13!169;UBERON:0000925!7.22e-13!169;UBERON:0006595!7.22e-13!169;UBERON:0000923!1.01e-12!604;UBERON:0005291!1.01e-12!604;UBERON:0006598!1.01e-12!604;UBERON:0002532!1.01e-12!604;UBERON:0001007!1.65e-12!155;UBERON:0001555!1.65e-12!155;UBERON:0007026!1.65e-12!155;UBERON:0000077!6.10e-11!130;UBERON:0001041!9.17e-11!98;UBERON:0000467!6.70e-10!625;UBERON:0000480!1.01e-09!626;UBERON:0001049!1.88e-07!57;UBERON:0005068!1.88e-07!57;UBERON:0006241!1.88e-07!57;UBERON:0007135!1.88e-07!57;UBERON:0001004!2.35e-07!72;UBERON:0002405!3.07e-07!115;UBERON:0005177!6.77e-07!107;UBERON:0002371!9.02e-07!80
|ontology_enrichment_uberon=UBERON:0007023!1.36e-24!115;UBERON:0000062!5.79e-21!511;UBERON:0000922!3.54e-15!612;UBERON:0004921!5.60e-15!129;UBERON:0004185!5.60e-15!129;UBERON:0000468!1.37e-13!659;UBERON:0002050!4.53e-13!605;UBERON:0005423!4.53e-13!605;UBERON:0004119!7.22e-13!169;UBERON:0000925!7.22e-13!169;UBERON:0006595!7.22e-13!169;UBERON:0000923!1.01e-12!604;UBERON:0005291!1.01e-12!604;UBERON:0006598!1.01e-12!604;UBERON:0002532!1.01e-12!604;UBERON:0001007!1.65e-12!155;UBERON:0001555!1.65e-12!155;UBERON:0007026!1.65e-12!155;UBERON:0000077!6.10e-11!130;UBERON:0001041!9.17e-11!98;UBERON:0000467!6.70e-10!625;UBERON:0000480!1.01e-09!626;UBERON:0001049!1.88e-07!57;UBERON:0005068!1.88e-07!57;UBERON:0006241!1.88e-07!57;UBERON:0007135!1.88e-07!57;UBERON:0001004!2.35e-07!72;UBERON:0002405!3.07e-07!115;UBERON:0005177!6.77e-07!107;UBERON:0002371!9.02e-07!80
|pathway_enrichment=1.89711789408108e-05;0.0120087562695332;6;401;Transmembrane transport of small molecules (Reactome):REACT_15518
}}
}}

Revision as of 14:56, 13 July 2012


Full id: C190_colon_small_rectum_duodenum_appendix_temporal_oral



Phase1 CAGE Peaks

Hg19::chr10:112657988..112657991,+p35@PDCD4
Hg19::chr10:14574705..14574718,-p18@FAM107B
Hg19::chr11:114430588..114430608,-p1@FAM55A
Hg19::chr11:114466471..114466474,-p4@FAM55D
Hg19::chr11:114522262..114522267,-p@chr11:114522262..114522267
-
Hg19::chr11:118500762..118500765,+p11@PHLDB1
Hg19::chr11:130059981..130060005,+p5@ST14
Hg19::chr11:17036137..17036152,-p3@PLEKHA7
Hg19::chr11:46958029..46958041,+p4@C11orf49
Hg19::chr11:76746720..76746738,-p@chr11:76746720..76746738
-
Hg19::chr12:27849378..27849385,+p1@REP15
Hg19::chr14:47203595..47203635,-p@chr14:47203595..47203635
-
Hg19::chr15:40648362..40648364,+p@chr15:40648362..40648364
+
Hg19::chr15:41120932..41120960,-p2@PPP1R14D
Hg19::chr15:41224934..41224945,-p@chr15:41224934..41224945
-
Hg19::chr16:2034635..2034644,+p12@GFER
Hg19::chr16:25228264..25228273,+p1@AQP8
Hg19::chr16:29760335..29760341,+p@chr16:29760335..29760341
+
Hg19::chr16:29789573..29789606,+p1@ZG16
Hg19::chr16:67464830..67464845,-p@chr16:67464830..67464845
-
Hg19::chr16:67465190..67465197,+p4@HSD11B2
Hg19::chr16:67475274..67475285,-p7@ATP6V0D1
Hg19::chr16:79632234..79632245,-p@chr16:79632234..79632245
-
Hg19::chr16:79804394..79804433,-p@chr16:79804394..79804433
-
Hg19::chr17:26800296..26800314,+p4@SLC13A2
Hg19::chr17:42031300..42031313,-p1@PYY
Hg19::chr17:74639886..74639899,-p3@ST6GALNAC1
Hg19::chr19:3025659..3025672,-p6@TLE2
Hg19::chr19:39297150..39297157,-p@chr19:39297150..39297157
-
Hg19::chr19:39303110..39303129,-p@chr19:39303110..39303129
-
Hg19::chr19:42190911..42190925,-p@chr19:42190911..42190925
-
Hg19::chr19:42192156..42192171,-p2@CEACAM7
Hg19::chr19:42192189..42192207,-p1@CEACAM7
Hg19::chr19:56200410..56200417,+p@chr19:56200410..56200417
+
Hg19::chr19:7456079..7456083,-p@chr19:7456079..7456083
-
Hg19::chr1:149908217..149908248,-p4@MTMR11
Hg19::chr1:167059763..167059776,-p4@GPA33
Hg19::chr1:20141662..20141673,-p4@RNF186
Hg19::chr1:20141681..20141690,-p5@RNF186
Hg19::chr1:20141728..20141745,-p3@RNF186
Hg19::chr1:207241396..207241407,+p@chr1:207241396..207241407
+
Hg19::chr1:220100976..220100981,-p@chr1:220100976..220100981
-
Hg19::chr1:220101892..220101906,-p1@SLC30A10
Hg19::chr1:35150899..35150929,-p@chr1:35150899..35150929
-
Hg19::chr1:47905805..47905807,+p@chr1:47905805..47905807
+
Hg19::chr21:43733776..43733803,-p3@TFF3
Hg19::chr2:128375443..128375446,+p@chr2:128375443..128375446
+
Hg19::chr2:201242765..201242779,+p26@SPATS2L
Hg19::chr2:241625719..241625734,+p3@ENST00000407635
Hg19::chr2:241625749..241625758,+p6@ENST00000407635
Hg19::chr3:124355991..124356002,+p32@KALRN
Hg19::chr3:124646625..124646633,-p11@MUC13
Hg19::chr3:124646645..124646669,-p3@MUC13
Hg19::chr4:150822397..150822409,-p@chr4:150822397..150822409
-
Hg19::chr4:165675294..165675306,+p3@LOC100505989
Hg19::chr4:667307..667315,+p17@MYL5
Hg19::chr4:81974774..81974778,+p@chr4:81974774..81974778
+
Hg19::chr4:89708946..89708956,-p@chr4:89708946..89708956
-
Hg19::chr4:89730993..89730995,-p@chr4:89730993..89730995
-
Hg19::chr5:149340464..149340483,+p2@SLC26A2
Hg19::chr5:149363028..149363035,+p12@SLC26A2
Hg19::chr5:150829073..150829087,+p10@SLC36A1
Hg19::chr5:150829095..150829107,+p9@SLC36A1
Hg19::chr5:156496412..156496429,-p@chr5:156496412..156496429
-
Hg19::chr5:160112366..160112378,-p7@ATP10B
Hg19::chr5:160112386..160112405,-p3@ATP10B
Hg19::chr5:160112418..160112436,-p4@ATP10B
Hg19::chr5:160112447..160112454,-p9@ATP10B
Hg19::chr6:110887812..110887830,-p@chr6:110887812..110887830
-
Hg19::chr6:80340818..80340825,+p7@SH3BGRL2
Hg19::chr7:100612141..100612155,-p@chr7:100612141..100612155
-
Hg19::chr7:87856280..87856298,-p2@SRI
Hg19::chr7:87856303..87856312,-p3@SRI
Hg19::chr7:92848861..92848873,-p7@HEPACAM2
Hg19::chr7:92848878..92848889,-p2@HEPACAM2
Hg19::chr8:146253359..146253362,-p@chr8:146253359..146253362
-
Hg19::chr8:24262894..24262908,+p6@ADAMDEC1
Hg19::chr8:24262931..24262946,+p5@ADAMDEC1
Hg19::chr8:24262965..24262986,+p@chr8:24262965..24262986
+
Hg19::chr8:24262988..24262999,+p@chr8:24262988..24262999
+
Hg19::chr8:24263041..24263045,+p@chr8:24263041..24263045
+
Hg19::chr8:8559690..8559736,+p2@CLDN23
Hg19::chr9:139658967..139658975,-p1@LCN15
Hg19::chr9:139683392..139683395,-p@chr9:139683392..139683395
-
Hg19::chr9:139688064..139688089,+p@chr9:139688064..139688089
+
Hg19::chr9:26994531..26994535,-p@chr9:26994531..26994535
-
Hg19::chr9:27005657..27005675,-p1@LRRC19
Hg19::chrX:15620273..15620294,-p3@ACE2


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

p.valueFDRnGenesnPathwayName
1.89711789408108e-050.01200875626953326401Transmembrane transport of small molecules (Reactome):REACT_15518



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:0016021integral to membrane0.0208338023654932
GO:0031224intrinsic to membrane0.0208338023654932
GO:0044425membrane part0.0285712177267866
GO:0022804active transmembrane transporter activity0.0338759110886178
GO:0005886plasma membrane0.0338759110886178
GO:0006937regulation of muscle contraction0.0338759110886178
GO:0022857transmembrane transporter activity0.0338759110886178
GO:0015361low affinity sodium:dicarboxylate symporter activity0.0338759110886178
GO:0001665alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity0.0338759110886178
GO:0001977renal regulation of blood volume0.0338759110886178
GO:0002017aldosterone mediated regulation of blood volume0.0338759110886178
GO:000384511-beta-hydroxysteroid dehydrogenase activity0.0338759110886178
GO:0022892substrate-specific transporter activity0.0338759110886178
GO:0015075ion transmembrane transporter activity0.0338759110886178
GO:0005774vacuolar membrane0.0338759110886178
GO:0044437vacuolar part0.0338759110886178
GO:0032328alanine transport0.0338759110886178
GO:0001618viral receptor activity0.0338759110886178
GO:0015808L-alanine transport0.0338759110886178
GO:0015193L-proline transmembrane transporter activity0.0338759110886178
GO:0016972thiol oxidase activity0.0338759110886178
GO:0015180L-alanine transmembrane transporter activity0.0338759110886178
GO:0006880intracellular sequestering of iron ion0.0338759110886178
GO:0015816glycine transport0.0338759110886178
GO:0043508negative regulation of JNK activity0.0338759110886178
GO:0022858alanine transmembrane transporter activity0.0338759110886178
GO:0016020membrane0.0338759110886178
GO:0015824proline transport0.046281544289703
GO:0003071renal regulation of systemic arterial blood pressure0.046281544289703
GO:0022891substrate-specific transmembrane transporter activity0.0479725523165227



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>disease_data<br>

Uber Anatomy
Ontology termp-valuen
adult organism1.36e-24115
organ5.79e-21511
embryo3.54e-15612
subdivision of digestive tract5.60e-15129
endodermal part of digestive tract5.60e-15129
multi-cellular organism1.37e-13659
embryonic structure4.53e-13605
developing anatomical structure4.53e-13605
endoderm-derived structure7.22e-13169
endoderm7.22e-13169
presumptive endoderm7.22e-13169
germ layer1.01e-12604
embryonic tissue1.01e-12604
presumptive structure1.01e-12604
epiblast (generic)1.01e-12604
digestive system1.65e-12155
digestive tract1.65e-12155
primitive gut1.65e-12155
mixed endoderm/mesoderm-derived structure6.10e-11130
foregut9.17e-1198
anatomical system6.70e-10625
anatomical group1.01e-09626
neural tube1.88e-0757
neural rod1.88e-0757
future spinal cord1.88e-0757
neural keel1.88e-0757
respiratory system2.35e-0772
immune system3.07e-07115
trunk region element6.77e-07107
bone marrow9.02e-0780
Disease
Ontology termp-valuen
carcinoma8.29e-14106
cell type cancer1.53e-08143


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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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