Coexpression cluster:C213

Full id: C213_CD14_Natural_CD8_CD4_Basophils_Eosinophils_Peripheral

Phase1 CAGE Peaks

Hg19::chr10:102130575..102130607,+	p@chr10:102130575..102130607 +
Hg19::chr10:105881496..105881525,-	p@chr10:105881496..105881525 -
Hg19::chr10:127730695..127730726,+	p@chr10:127730695..127730726 +
Hg19::chr10:17248566..17248644,+	p@chr10:17248566..17248644 +
Hg19::chr10:17270419..17270434,-	p@chr10:17270419..17270434 -
Hg19::chr10:33269613..33269628,+	p@chr10:33269613..33269628 +
Hg19::chr10:33269657..33269672,+	p@chr10:33269657..33269672 +
Hg19::chr10:3825708..3825723,+	p@chr10:3825708..3825723 +
Hg19::chr10:3826863..3826874,-	p@chr10:3826863..3826874 -
Hg19::chr10:3847651..3847673,+	p@chr10:3847651..3847673 +
Hg19::chr10:3847675..3847688,+	p@chr10:3847675..3847688 +
Hg19::chr10:90753989..90754005,-	p@chr10:90753989..90754005 -
Hg19::chr11:102187946..102187979,-	p@chr11:102187946..102187979 -
Hg19::chr12:122224417..122224427,+	p@chr12:122224417..122224427 +
Hg19::chr12:122228022..122228041,+	p@chr12:122228022..122228041 +
Hg19::chr12:65563377..65563392,+	p2@LEMD3
Hg19::chr12:76478857..76478871,+	p@chr12:76478857..76478871 +
Hg19::chr12:96793473..96793491,+	p@chr12:96793473..96793491 +
Hg19::chr13:114896468..114896497,-	p@chr13:114896468..114896497 -
Hg19::chr13:47128179..47128209,-	p@chr13:47128179..47128209 -
Hg19::chr13:99934915..99934930,-	p@chr13:99934915..99934930 -
Hg19::chr14:70233907..70233918,+	p2@SRSF5
Hg19::chr14:77422765..77422782,-	p@chr14:77422765..77422782 -
Hg19::chr14:93049440..93049476,-	p@chr14:93049440..93049476 -
Hg19::chr15:42229070..42229082,+	p@chr15:42229070..42229082 +
Hg19::chr16:15737263..15737283,+	p2@NDE1
Hg19::chr17:2498730..2498733,+	p@chr17:2498730..2498733 +
Hg19::chr17:33570639..33570656,-	p@chr17:33570639..33570656 -
Hg19::chr17:7744740..7744755,-	p@chr17:7744740..7744755 -
Hg19::chr17:8867066..8867104,-	p@chr17:8867066..8867104 -
Hg19::chr18:11851090..11851103,+	p5@CHMP1B
Hg19::chr18:57572110..57572120,-	p@chr18:57572110..57572120 -
Hg19::chr19:14229527..14229543,-	p@chr19:14229527..14229543 -
Hg19::chr19:44099470..44099492,+	p@chr19:44099470..44099492 +
Hg19::chr1:15735925..15735938,-	p2@ENST00000427824
Hg19::chr1:171453206..171453207,-	p@chr1:171453206..171453207 -
Hg19::chr1:2187769..2187789,+	p@chr1:2187769..2187789 +
Hg19::chr1:235490525..235490573,+	p5@GGPS1
Hg19::chr1:54872206..54872236,+	p@chr1:54872206..54872236 +
Hg19::chr1:59250046..59250065,+	p@chr1:59250046..59250065 +
Hg19::chr1:59281989..59282008,-	p@chr1:59281989..59282008 -
Hg19::chr20:35201225..35201242,-	p@chr20:35201225..35201242 -
Hg19::chr20:56881907..56881918,-	p@chr20:56881907..56881918 -
Hg19::chr21:43653871..43653885,+	p@chr21:43653871..43653885 +
Hg19::chr21:43654826..43654849,-	p@chr21:43654826..43654849 -
Hg19::chr2:161263682..161263696,+	p@chr2:161263682..161263696 +
Hg19::chr2:178077094..178077105,-	p@chr2:178077094..178077105 -
Hg19::chr2:97203110..97203159,+	p4@ARID5A
Hg19::chr3:119013380..119013388,-	p@chr3:119013380..119013388 -
Hg19::chr3:119013997..119014002,+	p@chr3:119013997..119014002 +
Hg19::chr3:5018897..5018920,-	p@chr3:5018897..5018920 -
Hg19::chr3:5020060..5020082,-	p@chr3:5020060..5020082 -
Hg19::chr3:5020146..5020171,+	p@chr3:5020146..5020171 +
Hg19::chr4:103457066..103457069,+	p@chr4:103457066..103457069 +
Hg19::chr4:107237802..107237819,+	p@chr4:107237802..107237819 +
Hg19::chr4:107237829..107237840,+	p@chr4:107237829..107237840 +
Hg19::chr5:100237813..100237824,-	p@chr5:100237813..100237824 -
Hg19::chr5:133984176..133984203,-	p@chr5:133984176..133984203 -
Hg19::chr6:143265842..143265868,+	p@chr6:143265842..143265868 +
Hg19::chr6:150260042..150260087,-	p@chr6:150260042..150260087 -
Hg19::chr6:44094627..44094662,+	p3@TMEM63B
Hg19::chr7:104585602..104585616,-	p@chr7:104585602..104585616 -
Hg19::chr7:104652294..104652297,-	p@chr7:104652294..104652297 -
Hg19::chr7:105316500..105316514,+	p@chr7:105316500..105316514 +
Hg19::chr7:48128459..48128476,-	p@chr7:48128459..48128476 -
Hg19::chr8:141599124..141599145,+	p@chr8:141599124..141599145 +
Hg19::chr9:123688609..123688619,+	p@chr9:123688609..123688619 +
Hg19::chr9:128000415..128000420,-	p@chr9:128000415..128000420 -
Hg19::chr9:5437979..5437984,+	p@chr9:5437979..5437984 +

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

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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

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GO ID	GO name	FDR corrected p-value
GO:0004337	geranyltranstransferase activity	0.0141261637694952
GO:0004161	dimethylallyltranstransferase activity	0.0141261637694952
GO:0031616	spindle pole centrosome	0.0141261637694952
GO:0031229	intrinsic to nuclear inner membrane	0.0141261637694952
GO:0005639	integral to nuclear inner membrane	0.0141261637694952
GO:0004311	farnesyltranstransferase activity	0.0141261637694952
GO:0051298	centrosome duplication	0.0211845680019452
GO:0007098	centrosome cycle	0.0346376062360266
GO:0005637	nuclear inner membrane	0.0346376062360266
GO:0051297	centrosome organization and biogenesis	0.0346376062360266
GO:0031023	microtubule organizing center organization and biogenesis	0.0346376062360266
GO:0004659	prenyltransferase activity	0.0370348186593884

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>

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Cell Type

Ontology term	p-value	n
leukocyte	8.14e-44	140
hematopoietic lineage restricted progenitor cell	5.14e-34	124
nongranular leukocyte	1.20e-32	119
hematopoietic stem cell	8.80e-32	172
angioblastic mesenchymal cell	8.80e-32	172
hematopoietic cell	8.53e-31	182
hematopoietic oligopotent progenitor cell	3.04e-28	165
hematopoietic multipotent progenitor cell	3.04e-28	165
CD14-positive, CD16-negative classical monocyte	9.64e-25	42
classical monocyte	2.58e-23	45
lymphocyte	6.11e-19	53
common lymphoid progenitor	6.11e-19	53
lymphoid lineage restricted progenitor cell	6.20e-19	52
myeloid leukocyte	1.70e-18	76
granulocyte monocyte progenitor cell	1.27e-15	71
myeloid lineage restricted progenitor cell	3.02e-14	70
macrophage dendritic cell progenitor	2.09e-13	65
mesenchymal cell	6.65e-13	358
monopoietic cell	1.82e-12	63
monocyte	1.82e-12	63
monoblast	1.82e-12	63
promonocyte	1.82e-12	63
connective tissue cell	1.96e-12	365
myeloid cell	2.78e-11	112
common myeloid progenitor	2.78e-11	112
multi fate stem cell	3.60e-10	430
mature alpha-beta T cell	1.29e-09	18
alpha-beta T cell	1.29e-09	18
immature T cell	1.29e-09	18
mature T cell	1.29e-09	18
immature alpha-beta T cell	1.29e-09	18
T cell	2.53e-09	25
pro-T cell	2.53e-09	25
somatic stem cell	4.42e-09	436
lymphocyte of B lineage	5.01e-09	24
pro-B cell	5.01e-09	24
stem cell	7.51e-09	444
motile cell	1.83e-08	390

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	3.58e-20	102
blood island	3.58e-20	102
hemolymphoid system	1.15e-17	112
bone element	1.42e-14	86
bone marrow	1.63e-14	80
connective tissue	1.26e-11	375
skeletal element	1.32e-10	101
skeletal system	1.32e-10	101
immune system	8.08e-10	115

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

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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

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

TF	#promoters	Enrichment	p-value	q-value
ATF3#467	9	2.92997928600114	0.00345988680989784	0.0175820902364208
BATF#10538	10	3.53011620178314	0.00050057661897551	0.00441179084465682
BCL11A#53335	13	5.34496980212887	7.78734682833008e-07	3.41723830001666e-05
BHLHE40#8553	6	3.90189683017195	0.00442108158470716	0.0209421870294463
CEBPB#1051	21	2.42600145133799	7.2620952890207e-05	0.0011415502256021
CTCF#10664	23	1.78675212435834	0.00263811398179068	0.0145832840811008
E2F1#1869	23	1.63579640495977	0.00815516140038765	0.0322022345455437
E2F4#1874	13	2.3867360014304	0.00266192384135691	0.0146876935792199
E2F6#1876	25	1.81781004771644	0.00121367208654896	0.00816876323046252
EBF1#1879	28	3.61421843049177	3.90933375729495e-10	3.86635329808833e-08
EGR1#1958	25	1.80731126623556	0.00132249880734015	0.00885047116107895
ELF1#1997	34	2.09819319709357	2.75192663684192e-06	9.529458422584e-05
ELK4#2005	13	3.05889654434905	0.000270189950268662	0.00288472380046093
EP300#2033	26	2.5524997808957	2.49064759389749e-06	8.77896537492609e-05
FOS#2353	28	3.65134418331947	3.08733315870661e-10	3.11233578921003e-08
GATA1#2623	19	3.73399789466969	3.80272468776927e-07	1.8602002982011e-05
GATA2#2624	18	3.32476480005756	4.34737858923899e-06	0.0001362652678516
GATA3#2625	9	3.55258909007035	0.000933692473530228	0.00676709980867616
HEY1#23462	26	1.5223606829094	0.0116969273850212	0.0427018805636264
JUN#3725	19	3.44556166165783	1.28287902208559e-06	5.12753931066196e-05
JUNB#3726	8	3.5490588591097	0.00183371043993323	0.0108535497101834
JUND#3727	18	1.82469494135766	0.00716186210075031	0.0297418472281308
MAX#4149	21	1.96382124187173	0.00133980147946854	0.00887583423496444
MEF2A#4205	13	3.53133335978801	6.50117161038365e-05	0.00105611426631958
MEF2C#4208	7	4.19100697751259	0.00141068452998028	0.0091703275007227
MYC#4609	24	1.81644586838588	0.00161625812311501	0.0101266052024722
NFKB1#4790	37	2.9428745897851	4.02509809901318e-11	4.5892709646598e-09
NR3C1#2908	12	2.60400405759531	0.00193270652653783	0.0113577502208578
PAX5#5079	28	2.70649036047796	2.38113751652828e-07	1.24966643763164e-05
PBX3#5090	9	2.85841469827097	0.0040679586539232	0.0194574551800818
POLR2A#5430	61	1.89847309811656	3.50287982970031e-13	5.17450164828954e-11
POU2F2#5452	22	2.90340187348312	2.57629888629826e-06	9.0564146545306e-05
RAD21#5885	15	2.2510943250992	0.00213310281706856	0.0123273088264621
REST#5978	15	2.09783232959305	0.00419580934486361	0.0199847736657186
SIN3A#25942	30	2.35168901165875	1.52938356902323e-06	5.86155194734741e-05
SMARCB1#6598	9	2.38078901493358	0.012812616467972	0.0460981414943683
SMARCC1#6599	7	4.42961616286116	0.00102712893073908	0.00727664620794048
SMC3#9126	11	2.39846755498929	0.00562890127810025	0.0254437057166636
SPI1#6688	25	2.97258098134881	2.47925120131832e-07	1.29013710121816e-05
SRF#6722	13	2.59946836823452	0.00124529520100928	0.00837405096247557
STAT3#6774	20	3.04912028903021	4.11662223410668e-06	0.000130679607753151
TAF1#6872	34	1.64729816978754	0.000568500789629853	0.0048464332681538
TBP#6908	37	1.98768862931255	2.55545666710079e-06	8.98919969199526e-05
TCF12#6938	16	2.46596287586932	0.00055396384417254	0.00472945556458235
TCF7L2#6934	16	2.4974322465246	0.000481703944453367	0.00438419854072028
TFAP2A#7020	12	2.87280597792086	0.000834648106440604	0.0062974868941302
USF2#7392	15	2.82439073588469	0.000202981781335238	0.00241037114961579
WRNIP1#56897	4	6.36637474489137	0.00370387529355792	0.0186837824470583
YY1#7528	26	1.85058607965508	0.000691620088216823	0.00557518604455671
ZNF263#10127	19	2.26398537830729	0.000437459796114827	0.00407745324823172

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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