Coexpression cluster:C75

Full id: C75_Eosinophils_Natural_CD8_Basophils_CD14_CD4_Peripheral

Phase1 CAGE Peaks

Copy Excel CSV PDF

Show 102550All entries

Search:

Hg19::chr10:11208955..11208966,-	p@chr10:11208955..11208966 -
Hg19::chr10:121028416..121028441,-	p@chr10:121028416..121028441 -
Hg19::chr10:126406690..126406702,-	p@chr10:126406690..126406702 -
Hg19::chr10:15139747..15139782,+	p5@RPP38
Hg19::chr10:22291850..22291865,+	p@chr10:22291850..22291865 +
Hg19::chr10:3826854..3826861,-	p@chr10:3826854..3826861 -
Hg19::chr10:43634395..43634406,-	p@chr10:43634395..43634406 -
Hg19::chr11:102187923..102187941,-	p@chr11:102187923..102187941 -
Hg19::chr11:30344926..30344961,+	p@chr11:30344926..30344961 +
Hg19::chr11:58345474..58345491,-	p3@LPXN
Id	Short description

Showing 1 to 10 of 238 entries

Previous12345…24Next

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

---

Copy Excel CSV PDF

Show 1050All entries

Search:

p.value	FDR	nGenes	nPathway	Name

p.value	FDR	nGenes	nPathway	Name
6.83e-5	4.32e-2	3	84	Ribosome biogenesis in eukaryotes (KEGG)

Showing 1 to 1 of 1 entries

Previous1Next

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>

---

Show 1050All entries

Search:

Cell Type

Ontology term	p-value	n

Ontology term	p-value	n
naive T cell	1.08e-07	3
connective tissue cell	1.17e-19	361
multi fate stem cell	1.26e-13	427
mature alpha-beta T cell	1.30e-13	18
alpha-beta T cell	1.30e-13	18
immature T cell	1.30e-13	18
mature T cell	1.30e-13	18
immature alpha-beta T cell	1.30e-13	18
natural killer cell	1.39e-08	3
pro-NK cell	1.39e-08	3
nucleate cell	1.44e-11	55
lymphoid lineage restricted progenitor cell	1.50e-12	52
classical monocyte	1.59e-70	42
CD14-positive, CD16-negative classical monocyte	1.59e-70	42
mesenchymal cell	1.96e-20	354
granulocyte monocyte progenitor cell	2.29e-54	67
monopoietic cell	2.31e-48	59
monocyte	2.31e-48	59
monoblast	2.31e-48	59
promonocyte	2.31e-48	59
myeloid cell	2.34e-42	108
common myeloid progenitor	2.34e-42	108
CD4-positive, alpha-beta T cell	2.40e-14	6
hematopoietic oligopotent progenitor cell	3.05e-56	161
hematopoietic multipotent progenitor cell	3.05e-56	161
hematopoietic cell	3.06e-62	177
hematopoietic lineage restricted progenitor cell	3.24e-63	120
lymphocyte	3.28e-12	53
common lymphoid progenitor	3.28e-12	53
basophil	3.35e-08	3
defensive cell	3.37e-60	48
phagocyte	3.37e-60	48
somatic stem cell	3.59e-13	433
leukocyte	4.23e-82	136
T cell	4.71e-09	25
pro-T cell	4.71e-09	25
intermediate monocyte	4.74e-19	9
CD14-positive, CD16-positive monocyte	4.74e-19	9
stem cell	4.94e-14	441
nongranular leukocyte	5.37e-62	115
blood cell	5.78e-13	11
stuff accumulating cell	5.94e-28	87
motile cell	6.16e-17	386
myeloid lineage restricted progenitor cell	6.26e-50	66
macrophage dendritic cell progenitor	7.32e-52	61
myeloid leukocyte	7.91e-65	72
hematopoietic stem cell	8.77e-65	168
angioblastic mesenchymal cell	8.77e-65	168
granulocyte	9.07e-15	8
single nucleate cell	9.22e-08	3
mononuclear cell	9.22e-08	3
plasmacytoid dendritic cell	9.44e-07	3

Showing 1 to 52 of 52 entries

Show 1050All entries

Search:

Uber Anatomy

Ontology term	p-value	n

Ontology term	p-value	n
connective tissue	1.33e-18	371
immune system	1.84e-41	93
lateral plate mesoderm	2.40e-15	203
musculoskeletal system	2.48e-15	167
bone element	2.63e-44	82
skeletal element	3.24e-39	90
hemolymphoid system	3.35e-41	108
skeletal system	5.31e-34	100
hematopoietic system	6.99e-47	98
blood island	6.99e-47	98
bone marrow	7.99e-49	76

Showing 1 to 11 of 11 entries

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

Copy Excel CSV PDF

Show 1050All entries

Search:

Motifs	-log10(p-value)

Motifs	-log10(p-value)
motif136_GTCTGCGTCTCT	2.99
motif38_TCGNCA	2.87
motif114_AAACCCGCTC	1.96
motif107_CGTCTGCGTA	1.88
motif112_CGYGYAWT	1.83
motif119_TCAAAANCG	1.82
motif99_GYGTSANACG	1.77
motif46_CGNAGT	1.74
motif111_WWAATYCGCTCC	1.69
motif92_GCGKWWNAA	1.60

Showing 1 to 10 of 169 entries

Previous12345…17Next

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	#promoters	Enrichment	p-value	q-value
ATF3#467	27	2.54834332858082	9.51208162015812e-06	0.000252717449078528
BATF#10538	34	3.47968597032909	3.19429701252526e-10	3.2139613265041e-08
BCL11A#53335	47	5.60237138600644	8.46810614496016e-22	2.32736983598288e-19
BCL3#602	44	6.38685934186759	1.38259004291854e-22	3.94525468558387e-20
BCLAF1#9774	24	2.18346026320556	0.000314169664094454	0.00323043866775236
BHLHE40#8553	12	2.26244438051987	0.00768710624266591	0.0316574798453385
BRCA1#672	36	3.05307690401704	2.9225362610217e-09	2.45754238780069e-07
CCNT2#905	94	2.50253339594322	1.18087893923067e-18	2.74066256742914e-16
CEBPB#1051	66	2.2104863164052	2.84883517768062e-10	2.89425580857769e-08
CHD2#1106	70	3.04235965709319	1.0470261680827e-17	2.25000753021376e-15
CTBP2#1488	13	3.42571850592969	0.000138479688849908	0.00180851322043211
CTCF#10664	68	1.53150182087858	0.000129073137602827	0.00171526522688658
E2F1#1869	97	2.00007039429956	6.3522457590317e-13	9.1759639671855e-11
E2F4#1874	37	1.96940433472909	6.06132888394657e-05	0.000994875259013823
E2F6#1876	97	2.0448071679607	1.60416810763934e-13	2.45656470665316e-11
EBF1#1879	100	3.74221296074328	8.94743498663488e-34	4.17170161861232e-31
EGR1#1958	127	2.6617594329449	5.773326609236e-30	2.31019332468199e-27
ELF1#1997	147	2.63000168043995	2.78750345720923e-36	1.43410873678559e-33
ELK4#2005	41	2.79690314284533	2.52033438299484e-09	2.1278997787033e-07
EP300#2033	94	2.6754223624579	1.2050754047878e-20	3.14642175501581e-18
ESR1#2099	21	2.7148767614254	4.02594400921874e-05	0.000738436189636102
ETS1#2113	52	2.12561163006101	1.34385543635067e-07	7.65272180572668e-06
FOS#2353	70	2.64645744379247	1.29619278171863e-14	2.22653088700513e-12
FOSL1#8061	17	2.83668426545522	0.000132534359765676	0.00174153950673974
FOSL2#2355	38	2.70314127299724	2.58286662292781e-08	1.79356387787206e-06
FOXA1#3169	61	2.8401958181198	5.38956527973375e-14	8.72683423643586e-12
FOXA2#3170	30	3.1046803049578	4.86678344148894e-08	3.1492069135419e-06
GABPB1#2553	84	2.4944766480643	2.66908122667861e-16	5.23977771114826e-14
GATA1#2623	52	2.96275640116648	1.30025880979469e-12	1.80342270698736e-10
GATA2#2624	31	1.66005413336207	0.0038636586614318	0.0190544764103166
GATA3#2625	19	2.17434374280216	0.00139702399598343	0.00909057876115348
GTF2B#2959	19	2.55013768383261	0.000208821118563912	0.00243214774190882
GTF2F1#2962	36	1.92700752757679	0.000118995954696583	0.00161568103387369
HDAC2#3066	37	2.08562163342509	1.80530930199864e-05	0.000411220715793754
HEY1#23462	117	1.98610500858558	4.05012303428591e-16	7.89161939510796e-14
HMGN3#9324	74	2.5429097963359	1.32371244219662e-14	2.2663476024684e-12
HNF4G#3174	18	2.17462859443715	0.00185521951558689	0.0109448834089352
IRF1#3659	65	2.08578001672964	4.31593082279074e-09	3.52424940736077e-07
IRF3#3661	11	2.17143476607725	0.0138599750970546	0.0487463188806628
IRF4#3662	36	3.31480023833104	3.34321486752837e-10	3.36055839797685e-08
JUN#3725	52	2.73389545378777	2.55593740006293e-11	3.01626605791156e-09
JUNB#3726	29	3.72986700476812	1.56896950038446e-09	1.38279835992112e-07
JUND#3727	68	1.99847541196315	9.46056406362997e-09	7.21205730103249e-07
MAX#4149	93	2.52137673251119	1.22433452170818e-18	2.82894409541329e-16
MEF2A#4205	47	3.70139433929946	7.61943467234818e-15	1.32627689624229e-12
MEF2C#4208	28	4.86015935207342	8.29234177656483e-12	1.04342636482248e-09
MXI1#4601	72	3.01358469441458	5.00537449900914e-18	1.10519303869348e-15
MYC#4609	95	2.08452427648275	1.05090881016951e-13	1.64059589275476e-11
NFE2#4778	8	2.59510119837409	0.0131256435803536	0.0465445161581065
NFKB1#4790	143	3.29744987251983	1.60497834339093e-46	1.05422851072582e-43
NFYA#4800	28	2.16771537645065	0.000110134605912001	0.00153099269357693
NFYB#4801	32	2.25341758030742	1.61674496988943e-05	0.00037381276933868
NR3C1#2908	36	2.26482705849676	4.00309224580791e-06	0.000129356111095276
NRF1#4899	40	2.05214780633797	1.14090479994695e-05	0.000291047768445674
PAX5#5079	114	3.19466584266501	4.04972610664319e-33	1.83891019500743e-30
PBX3#5090	49	4.51181143550614	7.54137959948611e-19	1.77390572970885e-16
POLR2A#5430	218	1.96699492642714	9.27805069476543e-50	6.82387560922962e-47
POU2F2#5452	95	3.63479741800647	8.33401639558418e-31	3.42675723755282e-28
POU5F1#5460	4	5.63763363784715	0.00588548199259803	0.0264023819348372
PRDM1#639	8	4.43129263117515	0.000526582691870707	0.00455904582245584
RAD21#5885	37	1.60981619383145	0.00267333487192937	0.0147389759113885
RFX5#5993	55	2.78418107351147	2.87649191062555e-12	3.83675528293515e-10
RXRA#6256	38	3.20519097179439	2.59523186831108e-10	2.64690840912637e-08
SIN3A#25942	131	2.97715924038984	2.12231021559628e-36	1.10274605276945e-33
SMARCB1#6598	41	3.14437540767838	8.12321878611607e-11	8.90221245333868e-09
SMARCC1#6599	15	2.75189239409442	0.000449296099964044	0.00417994257831327
SMC3#9126	33	2.08606211715455	5.38538125805291e-05	0.000913354714533595
SP1#6667	110	2.63370567897268	1.94160877300782e-24	6.05312473564667e-22
SP2#6668	19	2.08788688816407	0.00219954250912168	0.0126747969603928
SPI1#6688	89	3.06800332881732	2.31740644593553e-23	6.95481643123737e-21
SREBF1#6720	16	3.16005710524291	6.13756268894141e-05	0.00100612291582225
SRF#6722	49	2.84059552456396	2.93020137546429e-11	3.41167560147285e-09
STAT1#6772	26	2.2620641803663	0.00010055600581205	0.00141497826610142
STAT2#6773	12	3.29061031192138	0.00035686076470975	0.00356891519731127
STAT3#6774	63	2.78456426395259	4.45548649866383e-14	7.27072741303049e-12
TAF1#6872	154	2.16314759665872	1.70369662082267e-28	6.28736294636391e-26
TAF7#6879	36	1.7293718427616	0.000903495548360029	0.00658112509242384
TBP#6908	155	2.4140733466384	1.23733402194197e-34	5.9826818480369e-32
TCF12#6938	82	3.66397530243398	2.91301923408745e-26	9.78240565237488e-24
TCF7L2#6934	56	2.53415919132643	6.68623085532168e-11	7.38945253226392e-09
TFAP2A#7020	28	1.94336874976999	0.000633673105022648	0.00520080042557645
TFAP2C#7022	53	2.40709712740585	1.52937598858826e-09	1.3524682376983e-07
USF1#7391	77	2.05813211909669	1.48164129397133e-10	1.56779265553264e-08
USF2#7392	35	1.91061726251023	0.000175968042816047	0.00213995417136296
WRNIP1#56897	7	3.22999895145224	0.00657976484280025	0.0281137364651317
YY1#7528	90	1.8571654096086	4.44531929018325e-10	4.33892244249952e-08
ZBTB7A#51341	82	2.53301076994043	2.99748112731943e-16	5.8734321098708e-14
ZEB1#6935	50	3.54798991965207	4.58067211392096e-15	8.0810948463816e-13
ZNF263#10127	54	1.86545986722091	4.21278743626431e-06	0.000133529379986649

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

---