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Coexpression cluster:C178

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Full id: C178_spleen_liver_Hepatocyte_b_lymph_vein_thymus



Phase1 CAGE Peaks

Hg19::chr10:102890767..102890780,+p4@TLX1
Hg19::chr10:102891007..102891008,+p9@TLX1
Hg19::chr10:98014908..98014919,-p@chr10:98014908..98014919
-
Hg19::chr10:98014943..98014960,-p@chr10:98014943..98014960
-
Hg19::chr11:1891326..1891337,-p@chr11:1891326..1891337
-
Hg19::chr11:1891472..1891476,+p48@LSP1
Hg19::chr11:1891482..1891489,+p42@LSP1
Hg19::chr11:56859569..56859572,-p@chr11:56859569..56859572
-
Hg19::chr11:56859584..56859589,-p@chr11:56859584..56859589
-
Hg19::chr11:925449..925458,+p17@AP2A2
Hg19::chr12:101869096..101869118,+p1@SPIC
Hg19::chr12:101882023..101882028,+p@chr12:101882023..101882028
+
Hg19::chr12:120168462..120168466,-p@chr12:120168462..120168466
-
Hg19::chr12:57388270..57388282,+p1@GPR182
Hg19::chr12:57388297..57388302,+p3@GPR182
Hg19::chr12:57388350..57388361,+p2@GPR182
Hg19::chr12:72481040..72481051,+p19@TRHDE
Hg19::chr12:72481055..72481060,+p28@TRHDE
Hg19::chr14:24168655..24168686,+p@chr14:24168655..24168686
+
Hg19::chr14:75904485..75904519,+p12@JDP2
Hg19::chr14:81859777..81859783,-p@chr14:81859777..81859783
-
Hg19::chr15:94899297..94899314,+p16@MCTP2
Hg19::chr16:31404650..31404662,+p1@ITGAD
Hg19::chr17:72313080..72313103,-p@chr17:72313080..72313103
-
Hg19::chr17:72313399..72313408,-p@chr17:72313399..72313408
-
Hg19::chr17:73836893..73836935,-p@chr17:73836893..73836935
-
Hg19::chr17:78945208..78945214,-p1@ENST00000545206
p1@uc002jyv.1
Hg19::chr19:14223454..14223463,-p9@PRKACA
Hg19::chr1:157801226..157801230,-p8@CD5L
Hg19::chr1:157801262..157801284,-p10@CD5L
Hg19::chr1:157811525..157811541,-p3@CD5L
Hg19::chr1:157811550..157811559,-p5@CD5L
Hg19::chr1:157811563..157811585,-p2@CD5L
Hg19::chr1:157811590..157811604,-p1@CD5L
Hg19::chr1:157811612..157811617,-p6@CD5L
Hg19::chr1:157811628..157811640,-p4@CD5L
Hg19::chr1:157811772..157811796,-p7@CD5L
Hg19::chr1:25890126..25890172,+p9@LDLRAP1
Hg19::chr21:28820892..28820899,-p4@ENST00000420186
p4@uc002ymh.2
Hg19::chr21:28820911..28820933,-p1@ENST00000420186
p1@uc002ymh.2
Hg19::chr21:28820941..28820952,-p2@ENST00000420186
p2@uc002ymh.2
Hg19::chr21:28820954..28820963,-p3@ENST00000420186
p3@uc002ymh.2
Hg19::chr21:40181520..40181558,+p11@ETS2
Hg19::chr21:40364741..40364783,-p@chr21:40364741..40364783
-
Hg19::chr22:36718586..36718593,-p@chr22:36718586..36718593
-
Hg19::chr2:1098240..1098249,+p3@SNTG2
Hg19::chr2:128321491..128321509,+p@chr2:128321491..128321509
+
Hg19::chr2:1418171..1418194,+p2@TPO
Hg19::chr2:1418195..1418210,+p6@TPO
Hg19::chr2:1507506..1507512,+p16@TPO
Hg19::chr2:1508349..1508357,+p@chr2:1508349..1508357
+
Hg19::chr2:1545753..1545760,-p@chr2:1545753..1545760
-
Hg19::chr2:218142645..218142648,+p@chr2:218142645..218142648
+
Hg19::chr2:218142682..218142730,+p@chr2:218142682..218142730
+
Hg19::chr2:218844734..218844743,-p@chr2:218844734..218844743
-
Hg19::chr2:218844745..218844765,-p@chr2:218844745..218844765
-
Hg19::chr3:119466528..119466536,+p4@C3orf15
Hg19::chr3:119466639..119466644,+p@chr3:119466639..119466644
+
Hg19::chr3:119466654..119466656,+p@chr3:119466654..119466656
+
Hg19::chr3:119466669..119466679,+p@chr3:119466669..119466679
+
Hg19::chr3:46505137..46505149,-p4@LTF
Hg19::chr3:46620614..46620623,+p8@TDGF1
Hg19::chr4:185269050..185269068,-p1@ENST00000511465
Hg19::chr4:186854504..186854528,-p34@SORBS2
Hg19::chr4:76901930..76901942,+p1@ENST00000501239
Hg19::chr5:1501865..1501869,-p@chr5:1501865..1501869
-
Hg19::chr5:1501872..1501883,-p@chr5:1501872..1501883
-
Hg19::chr5:1501941..1501953,-p@chr5:1501941..1501953
-
Hg19::chr5:152069112..152069147,-p1@ENST00000506723
p1@uc003luw.1
Hg19::chr5:76249436..76249479,+p2@CRHBP
Hg19::chr5:76249493..76249508,+p6@CRHBP
Hg19::chr6:36172477..36172497,+p@chr6:36172477..36172497
+
Hg19::chr6:56707958..56707979,-p44@DST
Hg19::chr7:100420483..100420489,-p12@EPHB4
Hg19::chr7:151070957..151070988,+p@chr7:151070957..151070988
+
Hg19::chr7:22259740..22259751,-p19@RAPGEF5
Hg19::chr7:84736120..84736124,-p@chr7:84736120..84736124
-
Hg19::chr8:22424709..22424716,-p2@ENST00000517384
Hg19::chr8:22424743..22424759,-p1@ENST00000517384
Hg19::chr8:22436248..22436259,+p11@PDLIM2
Hg19::chr8:47834174..47834213,+p1@ENST00000524012
Hg19::chr9:124516729..124516752,+p@chr9:124516729..124516752
+
Hg19::chr9:126579213..126579224,-p@chr9:126579213..126579224
-
Hg19::chr9:127260615..127260651,-p@chr9:127260615..127260651
-
Hg19::chr9:127263337..127263341,-p9@NR5A1
Hg19::chr9:127267367..127267383,+p@chr9:127267367..127267383
+
Hg19::chr9:127269434..127269438,-p8@NR5A1
Hg19::chr9:127269462..127269484,-p2@NR5A1
Hg19::chr9:127269488..127269495,-p5@NR5A1
Hg19::chr9:133973310..133973321,+p18@AIF1L
Hg19::chr9:133973327..133973338,+p17@AIF1L
Hg19::chr9:138596697..138596714,+p@chr9:138596697..138596714
+
Hg19::chr9:79223787..79223821,+p@chr9:79223787..79223821
+
Hg19::chr9:79894775..79894780,+p12@VPS13A
Hg19::chr9:79894790..79894797,+p10@VPS13A
Hg19::chrX:69645652..69645664,+p7@GDPD2


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
7.1885277451996e-050.0455033806271134213{ETS1,13} (Static Module):NA



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:0030669clathrin-coated endocytic vesicle membrane0.000992071849670377
GO:0030128clathrin coat of endocytic vesicle0.000992071849670377
GO:0030122AP-2 adaptor complex0.000992071849670377
GO:0030666endocytic vesicle membrane0.00111553331382684
GO:0045334clathrin-coated endocytic vesicle0.0012487844173176
GO:0030132clathrin coat of coated pit0.00385392387092292
GO:0005886plasma membrane0.00578149704885549
GO:0030125clathrin vesicle coat0.00746363347430808
GO:0030139endocytic vesicle0.00746363347430808
GO:0030665clathrin coated vesicle membrane0.00746363347430808
GO:0048731system development0.00890381700236304
GO:0009986cell surface0.00896187838544101
GO:0044459plasma membrane part0.0108793621863433
GO:0005905coated pit0.0173244936324337
GO:0043565sequence-specific DNA binding0.0173244936324337
GO:0030120vesicle coat0.0173244936324337
GO:0030662coated vesicle membrane0.0173244936324337
GO:0048856anatomical structure development0.0173244936324337
GO:0035103sterol regulatory element binding protein cleavage0.0173244936324337
GO:0048645organ formation0.0173244936324337
GO:0006992sterol depletion response, sterol regulatory element binding protein cleavage0.0173244936324337
GO:0017047adrenocorticotropin-releasing hormone binding0.0173244936324337
GO:0030131clathrin adaptor complex0.0173244936324337
GO:0030119AP-type membrane coat adaptor complex0.0173244936324337
GO:0044464cell part0.0192221274731382
GO:0030118clathrin coat0.0228993724109768
GO:0006968cellular defense response0.0228993724109768
GO:0030967ER-nuclear sterol response pathway0.0228993724109768
GO:0007538primary sex determination0.0228993724109768
GO:0004447iodide peroxidase activity0.0228993724109768
GO:0016013syntrophin complex0.0228993724109768
GO:0016921pyroglutamyl-peptidase II activity0.0228993724109768
GO:0017034Rap guanyl-nucleotide exchange factor activity0.0228993724109768
GO:0015460transport accessory protein activity0.0228993724109768
GO:0007275multicellular organismal development0.0240168502532878
GO:0048513organ development0.025140756393618
GO:0042445hormone metabolic process0.0295648481646199
GO:0032933SREBP-mediated signaling pathway0.0299338749298829
GO:0006991response to sterol depletion0.0299338749298829
GO:0030659cytoplasmic vesicle membrane0.0361852549088417
GO:0048260positive regulation of receptor-mediated endocytosis0.0361852549088417
GO:0048536spleen development0.0361852549088417
GO:0016920pyroglutamyl-peptidase activity0.0361852549088417
GO:0044433cytoplasmic vesicle part0.0364903709871873
GO:0032502developmental process0.0373887191819808
GO:0012506vesicle membrane0.0373887191819808
GO:0030136clathrin-coated vesicle0.0373887191819808
GO:0030117membrane coat0.0373887191819808
GO:0048475coated membrane0.0373887191819808
GO:0030121AP-1 adaptor complex0.0373887191819808
GO:0050810regulation of steroid biosynthetic process0.0373887191819808
GO:0001784phosphotyrosine binding0.0373887191819808
GO:0007165signal transduction0.040892928832658
GO:0005856cytoskeleton0.0424029754600826
GO:0045309protein phosphorylated amino acid binding0.0424029754600826
GO:0003779actin binding0.0424971396615758
GO:0044421extracellular region part0.0424971396615758
GO:0007350blastoderm segmentation0.0424971396615758
GO:0008242omega peptidase activity0.0424971396615758
GO:0000578embryonic axis specification0.0424971396615758
GO:0008595determination of anterior/posterior axis, embryo0.0424971396615758
GO:0006895Golgi to endosome transport0.0424971396615758
GO:0007351tripartite regional subdivision0.0424971396615758
GO:0048259regulation of receptor-mediated endocytosis0.0424971396615758
GO:0005515protein binding0.0426672972879588
GO:0003700transcription factor activity0.044239107836448
GO:0030135coated vesicle0.0444686533011773
GO:0046890regulation of lipid biosynthetic process0.0450314997123685
GO:0004691cAMP-dependent protein kinase activity0.0450314997123685
GO:0048646anatomical structure formation0.0459858650514926
GO:0017046peptide hormone binding0.0485310207523525
GO:0006590thyroid hormone generation0.0485310207523525



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
adult organism8.71e-40115
neural tube3.77e-1757
neural rod3.77e-1757
future spinal cord3.77e-1757
neural keel3.77e-1757
regional part of brain9.13e-1659
anterior neural tube2.93e-1542
regional part of forebrain7.22e-1541
forebrain7.22e-1541
future forebrain7.22e-1541
telencephalon3.00e-1434
neural plate3.87e-1486
presumptive neural plate3.87e-1486
gray matter4.13e-1434
brain grey matter4.13e-1434
central nervous system7.40e-1482
regional part of telencephalon8.87e-1433
brain2.28e-1369
future brain2.28e-1369
cerebral hemisphere3.42e-1332
neurectoderm8.76e-1390
regional part of nervous system6.45e-1294
nervous system6.45e-1294
organ6.54e-11511
pre-chordal neural plate1.07e-1061
regional part of cerebral cortex1.13e-1022
cerebral cortex6.11e-1025
pallium6.11e-1025
neocortex9.03e-1020
anatomical system7.84e-08625
anatomical group9.94e-08626
multi-cellular organism1.07e-07659
anterior region of body1.13e-07129
craniocervical region1.13e-07129
immune system2.59e-07115
head4.43e-07123
ectoderm-derived structure6.31e-07169
embryo9.93e-07612


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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