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Coexpression cluster:C2367

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Full id: C2367_occipital_temporal_brain_postcentral_parietal_paracentral_insula



Phase1 CAGE Peaks

Hg19::chr16:2390672..2390686,-p4@ABCA3
Hg19::chr16:2390692..2390703,-p5@ABCA3
Hg19::chr16:2390704..2390762,-p1@ABCA3
Hg19::chr16:2390769..2390789,-p2@ABCA3


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>cell_data<br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
adult organism1.13e-33115
regional part of nervous system1.98e-2994
nervous system1.98e-2994
neural tube2.39e-2957
neural rod2.39e-2957
future spinal cord2.39e-2957
neural keel2.39e-2957
central nervous system1.28e-2882
neurectoderm1.69e-2790
neural plate1.99e-2786
presumptive neural plate1.99e-2786
brain3.27e-2469
future brain3.27e-2469
regional part of brain4.13e-2359
anterior neural tube1.29e-2242
regional part of forebrain2.19e-2241
forebrain2.19e-2241
future forebrain2.19e-2241
tube1.23e-21194
pre-chordal neural plate7.09e-2061
telencephalon2.54e-1934
gray matter3.33e-1934
brain grey matter3.33e-1934
regional part of telencephalon1.23e-1833
anatomical conduit2.47e-18241
anatomical cluster2.74e-18286
cerebral hemisphere3.63e-1832
cerebral cortex1.13e-1425
pallium1.13e-1425
regional part of cerebral cortex2.89e-1422
anterior region of body5.60e-14129
craniocervical region5.60e-14129
head2.70e-13123
neocortex3.89e-1320
ectoderm1.56e-12173
presumptive ectoderm1.56e-12173
ectoderm-derived structure3.51e-12169
epithelium4.54e-11309
cell layer6.34e-11312
organ part1.80e-10219
cavitated compound organ2.28e-0932
endothelium4.96e-0918
blood vessel endothelium4.96e-0918
cardiovascular system endothelium4.96e-0918
kidney7.96e-0927
kidney mesenchyme7.96e-0927
kidney rudiment7.96e-0927
kidney field7.96e-0927
simple squamous epithelium3.67e-0822
posterior neural tube7.07e-0815
chordal neural plate7.07e-0815
squamous epithelium2.09e-0725
multi-tissue structure3.32e-07347
segmental subdivision of nervous system7.51e-0713


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
ATF3#467422.46317452600873.92475754624726e-060.000127297438935564
BATF#10538424.35780179230362.83869198020713e-069.77803930477746e-05
BCLAF1#9774421.65264761012184.54636978835329e-060.00014148340712927
BHLHE40#8553444.87181354697742.46312701995675e-071.28302505155742e-05
CCNT2#90546.336201576962630.0006203100587215640.00511726399864309
CEBPB#105147.971147625824820.0002476385788090830.00267872869313742
CHD2#1106410.34402283411698.73193255208051e-050.00129007540501731
CTCF#1066445.360256373075030.001211145381643620.00816649315730378
CTCFL#140690419.74647435897446.5732084880439e-060.000192674521830709
E2F1#186944.907389214879320.001724022357361790.0106421875394827
E2F4#1874412.66806031528443.88145892637771e-050.000726089358430883
E2F6#187645.017155731697390.00157802193473060.00996294479756553
EGR1#195844.988179094810140.001615011500076050.0101376479178052
ELF1#199744.258097958807540.003041525565781240.0160772288978959
ETS1#211349.728760922202340.0001115955317418140.00154410780863583
GABPB1#255347.067683836182170.0004006876864423170.00390076633895872
GTF2F1#2962412.73966087675773.79492332235515e-050.000717224026173453
HEY1#2346244.040111043105710.00375304636917980.0185826771796695
HMGN3#932448.178547723350590.0002234570284440470.00247956104905098
IRF1#365947.63716375356390.0002938853996185490.00307207459220915
IRF4#3662210.95725634337210.01174530180688030.0428350586796374
JUN#3725412.51282919233634.07770316866756e-050.000742453349428994
JUNB#3726430.61063265982111.13787152942193e-064.65484389585967e-05
JUND#372746.994663941871030.000417684217818580.00391303570369166
MAX#414946.452555509007120.0005767613195645490.00485151219829268
MXI1#460149.96157162875930.0001015224754950450.00142263596111995
MYC#460945.22228187160940.001344309395272740.00886913006524885
NFKB1#479045.488063424193840.001102199566301980.00767468634609056
NR3C1#2908414.9730233311731.98868032687801e-050.00044247078112231
NRF1#4899412.21027944771094.49717228915276e-050.000793110734054078
PAX5#507946.669565531177830.0005052774169483260.00443525534952649
RAD21#5885410.35503389545638.6948481184721e-050.00129245835844735
RXRA#6256420.07461713913336.1537798808435e-060.000182066463732412
SETDB1#9869440.32002617801053.77887289069054e-071.85113370464742e-05
SIN3A#2594245.408884726815140.001168172384885160.00795479922442595
SMARCB1#6598418.25271578115749.00423392720929e-060.000241126458236875
SMC3#9126415.04493284493281.95092670935632e-050.000437425578785884
SP1#666745.69838137814090.0009482606065333980.00683662774304443
STAT1#6772420.70658749719925.43610708103893e-060.000165233290872126
TAF1#687243.343046285745290.008005664898701650.0321838267968552
TAF7#6879411.43306940492395.85061525419808e-050.000968202197010289
TBP#690843.706770687096390.005296377814784350.0243903347854078
TCF12#693837.975848676639820.003090920396013070.0162765408782942
TCF7L2#6934410.77017656313737.42969445082454e-050.00115314290199088
USF1#739146.361499277207960.0006105011399140830.00507563513385503
USF2#7392412.99219738506963.50833029870167e-050.000680926422720876
YY1#752844.911170749853860.00171871838055440.0106725268414722
ZBTB7A#5134147.35190930787590.000342223540015990.00346231563457618
ZNF143#7702413.50087655222793.00867915035614e-050.000620259458713077



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.