Coexpression cluster:C443

Full id: C443_CD4_CD8_Natural_Eosinophils_Neutrophils_Peripheral_blood

Phase1 CAGE Peaks

Hg19::chr11:117103208..117103288,-	p2@PCSK7
Hg19::chr12:46123273..46123329,+	p3@ARID2
Hg19::chr14:91884150..91884234,-	p1@CCDC88C
Hg19::chr15:34394292..34394326,+	p1@PGBD4
Hg19::chr17:38297024..38297041,-	p@chr17:38297024..38297041 -
Hg19::chr1:100818009..100818072,+	p1@CDC14A
Hg19::chr1:155533011..155533044,+	p1@LOC645676
Hg19::chr1:226926972..226927038,-	p1@ITPKB
Hg19::chr1:231473640..231473651,-	p3@EXOC8
Hg19::chr2:234160287..234160335,+	p1@ATG16L1
Hg19::chr4:54930662..54930701,-	p3@CHIC2
Hg19::chr4:78741344..78741385,-	p@chr4:78741344..78741385 -
Hg19::chr4:83351124..83351222,-	p4@HNRPDL
Hg19::chr6:12009042..12009092,+	p6@HIVEP1
Hg19::chr6:38607628..38607651,-	p3@BTBD9
Hg19::chr7:130791091..130791104,+	p@chr7:130791091..130791104 +
Hg19::chr7:35734730..35734777,-	p1@HERPUD2
Hg19::chr7:39989788..39989876,+	p1@CDK13
Hg19::chr8:29940544..29940555,-	p3@TMEM66
Hg19::chr8:29940569..29940596,-	p1@TMEM66
Hg19::chr8:41909898..41909910,-	p4@KAT6A
Hg19::chr8:41909982..41910009,-	p2@KAT6A

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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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>

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Cell Type

Ontology term	p-value	n
hematopoietic stem cell	1.83e-47	172
angioblastic mesenchymal cell	1.83e-47	172
leukocyte	5.40e-46	140
hematopoietic cell	7.52e-44	182
hematopoietic oligopotent progenitor cell	2.78e-43	165
hematopoietic multipotent progenitor cell	2.78e-43	165
hematopoietic lineage restricted progenitor cell	5.38e-37	124
nongranular leukocyte	4.98e-36	119
myeloid cell	9.08e-23	112
common myeloid progenitor	9.08e-23	112
myeloid leukocyte	5.34e-21	76
lymphoid lineage restricted progenitor cell	2.64e-19	52
lymphocyte	2.77e-19	53
common lymphoid progenitor	2.77e-19	53
CD14-positive, CD16-negative classical monocyte	1.19e-18	42
granulocyte monocyte progenitor cell	5.35e-18	71
myeloid lineage restricted progenitor cell	1.26e-16	70
classical monocyte	2.57e-16	45
macrophage dendritic cell progenitor	1.13e-15	65
monopoietic cell	6.64e-15	63
monocyte	6.64e-15	63
monoblast	6.64e-15	63
promonocyte	6.64e-15	63
mature alpha-beta T cell	2.19e-12	18
alpha-beta T cell	2.19e-12	18
immature T cell	2.19e-12	18
mature T cell	2.19e-12	18
immature alpha-beta T cell	2.19e-12	18
T cell	6.66e-12	25
pro-T cell	6.66e-12	25
CD8-positive, alpha-beta T cell	2.93e-08	11
B cell	3.31e-07	14
lymphocyte of B lineage	3.88e-07	24
pro-B cell	3.88e-07	24

Uber Anatomy

Ontology term	p-value	n
adult organism	2.10e-26	115
hematopoietic system	5.60e-22	102
blood island	5.60e-22	102
hemolymphoid system	2.64e-21	112
bone marrow	3.18e-13	80
bone element	8.11e-13	86
neural tube	2.83e-11	57
neural rod	2.83e-11	57
future spinal cord	2.83e-11	57
neural keel	2.83e-11	57
immune system	3.08e-11	115
anterior neural tube	9.54e-10	42
regional part of forebrain	1.39e-09	41
forebrain	1.39e-09	41
future forebrain	1.39e-09	41
regional part of brain	1.83e-08	59
blood	2.78e-08	15
haemolymphatic fluid	2.78e-08	15
organism substance	2.78e-08	15
gray matter	3.19e-08	34
brain grey matter	3.19e-08	34
telencephalon	3.48e-08	34
regional part of telencephalon	5.45e-08	33
skeletal element	8.53e-08	101
skeletal system	8.53e-08	101
cerebral hemisphere	1.15e-07	32
central nervous system	1.29e-07	82
brain	1.85e-07	69
future brain	1.85e-07	69

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
CCNT2#905	14	4.03212827624895	5.3255677989785e-07	2.48080720498446e-05
CHD2#1106	8	3.76146284876977	0.000700235837056063	0.00563073071961027
CTCF#10664	10	2.43648016957956	0.00363878588798199	0.0183936479045037
CTCFL#140690	6	5.3854020979021	0.000621370685670001	0.00511631449390486
E2F1#1869	17	3.79207348422493	1.62782457128445e-08	1.18307843006526e-06
E2F6#1876	14	3.19273546562561	9.67498624322738e-06	0.000254008518918156
EGR1#1958	16	3.62776661440737	1.4495292347058e-07	8.17426478096324e-06
ELF1#1997	17	3.29034842271492	1.51205004624337e-07	8.49472806775748e-06
EP300#2033	8	2.46325153680844	0.0103521497375695	0.0384415348068273
ESR1#2099	4	5.59429150839172	0.00510008340256216	0.0237196121517719
ETS1#2113	12	5.30659686665582	3.3208296738816e-07	1.65944559957187e-05
FOXA1#3169	6	3.02220538619603	0.0113197926332825	0.0415239304143651
GABPB1#2553	13	4.17635863047128	1.27824244751352e-06	5.11096336048486e-05
GTF2B#2959	6	8.71195361845206	4.54391450162014e-05	0.000799060257004051
GTF2F1#2962	7	4.05352846078653	0.00108633538107852	0.00759663748673984
HEY1#23462	20	3.67282822100519	1.00244780445966e-10	1.08604404823613e-08
HMGN3#9324	11	4.0892738616753	1.75075923090601e-05	0.000400016502552161
HNF4A#3172	4	4.20587097508249	0.0136681143238814	0.0482193011711881
HSF1#3297	2	14.9355151515152	0.00788709799225393	0.0323789554722095
IRF1#3659	11	3.81858187678195	3.37303442817872e-05	0.000669472334938345
MAX#4149	8	2.34638382145714	0.0137898248043718	0.0485093978491625
MYC#4609	10	2.37376448709518	0.00443372717261613	0.0209887604106996
NFKB1#4790	15	3.74186142558671	3.73038743635991e-07	1.83253966823138e-05
NRF1#4899	8	4.44010161734942	0.000226020221829457	0.00249448652093909
PAX5#5079	12	3.63794483518791	1.89263444381865e-05	0.000428774075223374
POLR2A#5430	22	2.14745317655807	4.97800844931664e-08	3.19151764541547e-06
POU2F2#5452	9	3.72523256907649	0.000301358325427908	0.00311065053858127
REST#5978	10	4.3863766891491	2.82986167844788e-05	0.00059682537123469
SIN3A#25942	18	4.42545114012148	2.15116950284204e-10	2.21345804637754e-08
SMC3#9126	5	3.41930291930292	0.0131467926667059	0.0466147641934509
SP1#6667	10	2.59017335370041	0.00227244139723483	0.0129026588608138
TAF1#6872	21	3.19108963639323	1.5427848500858e-10	1.63083913925214e-08
TAF7#6879	8	4.1574797836087	0.000355355544074331	0.00355795011672698
TBP#6908	16	2.69583322697919	1.01813841677941e-05	0.000266700170830261
TCF12#6938	8	3.86707814624961	0.000581203395695709	0.00487591786031522
TCF7L2#6934	6	2.93732088085564	0.0129351175719536	0.0464988381267775
TFAP2A#7020	8	6.00677613565271	2.66432781136025e-05	0.00057114066562121
YY1#7528	15	3.34852551126399	1.66506439304847e-06	6.30520885226935e-05
ZBTB33#10009	5	7.1965284159048	0.000526545434173682	0.00455910119380411
ZBTB7A#51341	10	3.34177695812541	0.00029067269204072	0.00308700074069969
ZNF263#10127	9	3.36348066968619	0.000649530304556622	0.00532132848114128

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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This analysis result is provided for C0 - C305 clusters.