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Coexpression cluster:C213

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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

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

GO IDGO nameFDR corrected p-value
GO:0004337geranyltranstransferase activity0.0141261637694952
GO:0004161dimethylallyltranstransferase activity0.0141261637694952
GO:0031616spindle pole centrosome0.0141261637694952
GO:0031229intrinsic to nuclear inner membrane0.0141261637694952
GO:0005639integral to nuclear inner membrane0.0141261637694952
GO:0004311farnesyltranstransferase activity0.0141261637694952
GO:0051298centrosome duplication0.0211845680019452
GO:0007098centrosome cycle0.0346376062360266
GO:0005637nuclear inner membrane0.0346376062360266
GO:0051297centrosome organization and biogenesis0.0346376062360266
GO:0031023microtubule organizing center organization and biogenesis0.0346376062360266
GO:0004659prenyltransferase activity0.0370348186593884



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>

Cell Type
Ontology termp-valuen
leukocyte2.68e-85136
classical monocyte8.11e-8242
CD14-positive, CD16-negative classical monocyte8.11e-8242
defensive cell5.60e-7048
phagocyte5.60e-7048
myeloid leukocyte2.70e-6972
hematopoietic stem cell2.81e-67168
angioblastic mesenchymal cell2.81e-67168
hematopoietic lineage restricted progenitor cell5.92e-67120
nongranular leukocyte7.79e-66115
hematopoietic cell1.04e-64177
granulocyte monocyte progenitor cell2.93e-6267
macrophage dendritic cell progenitor5.50e-6061
hematopoietic oligopotent progenitor cell1.14e-58161
hematopoietic multipotent progenitor cell1.14e-58161
myeloid lineage restricted progenitor cell1.58e-5766
monopoietic cell2.59e-5659
monocyte2.59e-5659
monoblast2.59e-5659
promonocyte2.59e-5659
myeloid cell3.16e-47108
common myeloid progenitor3.16e-47108
stuff accumulating cell9.94e-3587
mesenchymal cell2.22e-22354
connective tissue cell1.46e-21361
intermediate monocyte7.81e-199
CD14-positive, CD16-positive monocyte7.81e-199
motile cell1.12e-18386
stem cell1.35e-15441
multi fate stem cell3.66e-15427
somatic stem cell1.11e-14433
CD4-positive, alpha-beta T cell1.45e-136
mature alpha-beta T cell4.88e-1118
alpha-beta T cell4.88e-1118
immature T cell4.88e-1118
mature T cell4.88e-1118
immature alpha-beta T cell4.88e-1118
lymphoid lineage restricted progenitor cell6.08e-1152
lymphocyte1.22e-1053
common lymphoid progenitor1.22e-1053
granulocyte2.44e-108
nucleate cell4.49e-1055
blood cell1.66e-0911
natural killer cell1.42e-083
pro-NK cell1.42e-083
basophil2.35e-083
single nucleate cell8.04e-083
mononuclear cell8.04e-083
T cell2.55e-0725
pro-T cell2.55e-0725
naive T cell4.32e-073
plasmacytoid dendritic cell6.89e-073
Uber Anatomy
Ontology termp-valuen
bone marrow9.78e-5676
hematopoietic system5.87e-5198
blood island5.87e-5198
bone element1.16e-5082
immune system2.83e-4593
skeletal element6.00e-4590
hemolymphoid system7.36e-45108
skeletal system4.35e-39100
connective tissue1.92e-20371
musculoskeletal system4.80e-18167
lateral plate mesoderm4.81e-17203
mesoderm8.12e-07315
mesoderm-derived structure8.12e-07315
presumptive mesoderm8.12e-07315


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#46792.929979286001140.003459886809897840.0175820902364208
BATF#10538103.530116201783140.000500576618975510.00441179084465682
BCL11A#53335135.344969802128877.78734682833008e-073.41723830001666e-05
BHLHE40#855363.901896830171950.004421081584707160.0209421870294463
CEBPB#1051212.426001451337997.2620952890207e-050.0011415502256021
CTCF#10664231.786752124358340.002638113981790680.0145832840811008
E2F1#1869231.635796404959770.008155161400387650.0322022345455437
E2F4#1874132.38673600143040.002661923841356910.0146876935792199
E2F6#1876251.817810047716440.001213672086548960.00816876323046252
EBF1#1879283.614218430491773.90933375729495e-103.86635329808833e-08
EGR1#1958251.807311266235560.001322498807340150.00885047116107895
ELF1#1997342.098193197093572.75192663684192e-069.529458422584e-05
ELK4#2005133.058896544349050.0002701899502686620.00288472380046093
EP300#2033262.55249978089572.49064759389749e-068.77896537492609e-05
FOS#2353283.651344183319473.08733315870661e-103.11233578921003e-08
GATA1#2623193.733997894669693.80272468776927e-071.8602002982011e-05
GATA2#2624183.324764800057564.34737858923899e-060.0001362652678516
GATA3#262593.552589090070350.0009336924735302280.00676709980867616
HEY1#23462261.52236068290940.01169692738502120.0427018805636264
JUN#3725193.445561661657831.28287902208559e-065.12753931066196e-05
JUNB#372683.54905885910970.001833710439933230.0108535497101834
JUND#3727181.824694941357660.007161862100750310.0297418472281308
MAX#4149211.963821241871730.001339801479468540.00887583423496444
MEF2A#4205133.531333359788016.50117161038365e-050.00105611426631958
MEF2C#420874.191006977512590.001410684529980280.0091703275007227
MYC#4609241.816445868385880.001616258123115010.0101266052024722
NFKB1#4790372.94287458978514.02509809901318e-114.5892709646598e-09
NR3C1#2908122.604004057595310.001932706526537830.0113577502208578
PAX5#5079282.706490360477962.38113751652828e-071.24966643763164e-05
PBX3#509092.858414698270970.00406795865392320.0194574551800818
POLR2A#5430611.898473098116563.50287982970031e-135.17450164828954e-11
POU2F2#5452222.903401873483122.57629888629826e-069.0564146545306e-05
RAD21#5885152.25109432509920.002133102817068560.0123273088264621
REST#5978152.097832329593050.004195809344863610.0199847736657186
SIN3A#25942302.351689011658751.52938356902323e-065.86155194734741e-05
SMARCB1#659892.380789014933580.0128126164679720.0460981414943683
SMARCC1#659974.429616162861160.001027128930739080.00727664620794048
SMC3#9126112.398467554989290.005628901278100250.0254437057166636
SPI1#6688252.972580981348812.47925120131832e-071.29013710121816e-05
SRF#6722132.599468368234520.001245295201009280.00837405096247557
STAT3#6774203.049120289030214.11662223410668e-060.000130679607753151
TAF1#6872341.647298169787540.0005685007896298530.0048464332681538
TBP#6908371.987688629312552.55545666710079e-068.98919969199526e-05
TCF12#6938162.465962875869320.000553963844172540.00472945556458235
TCF7L2#6934162.49743224652460.0004817039444533670.00438419854072028
TFAP2A#7020122.872805977920860.0008346481064406040.0062974868941302
USF2#7392152.824390735884690.0002029817813352380.00241037114961579
WRNIP1#5689746.366374744891370.003703875293557920.0186837824470583
YY1#7528261.850586079655080.0006916200882168230.00557518604455671
ZNF263#10127192.263985378307290.0004374597961148270.00407745324823172



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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