Personal tools

Coexpression cluster:C1412

From FANTOM5_SSTAR

Jump to: navigation, search


Full id: C1412_lymphangiectasia_xeroderma_B_b_splenic_myeloma_CD19



Phase1 CAGE Peaks

  Short description
Hg19::chr15:78358512..78358549,- p6@TBC1D2B
Hg19::chr2:25643953..25643972,+ p1@ENST00000352271
Hg19::chr5:150521192..150521229,- p3@ANXA6
Hg19::chr5:150521234..150521251,- p4@ANXA6
Hg19::chr5:150521260..150521277,- p5@ANXA6
Hg19::chr8:62010032..62010041,+ p@chr8:62010032..62010041
+


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data


Cell Type
Ontology termp-valuen
lymphocyte1.28e-5653
common lymphoid progenitor1.28e-5653
lymphoid lineage restricted progenitor cell1.52e-5452
nucleate cell3.91e-5455
lymphocyte of B lineage3.58e-4724
pro-B cell3.58e-4724
B cell5.33e-2914
leukocyte3.71e-26136
nongranular leukocyte2.98e-25115
hematopoietic lineage restricted progenitor cell6.77e-21120
hematopoietic stem cell9.85e-19168
angioblastic mesenchymal cell9.85e-19168
hematopoietic cell3.85e-18177
hematopoietic oligopotent progenitor cell8.04e-17161
hematopoietic multipotent progenitor cell8.04e-17161
T cell2.55e-1025
pro-T cell2.55e-1025
mature alpha-beta T cell2.41e-0818
alpha-beta T cell2.41e-0818
immature T cell2.41e-0818
mature T cell2.41e-0818
immature alpha-beta T cell2.41e-0818
Langerhans cell5.58e-085
single nucleate cell1.44e-073
mononuclear cell1.44e-073
natural killer cell6.13e-073
pro-NK cell6.13e-073
Uber Anatomy
Ontology termp-valuen
blood8.24e-1415
haemolymphatic fluid8.24e-1415
organism substance8.24e-1415
hemopoietic organ5.35e-127
immune organ5.35e-127
spleen2.47e-083
gastrointestinal system mesentery2.47e-083
stomach region2.47e-083
mesentery2.47e-083
gastrointestinal system serosa2.47e-083
mesentery of stomach2.47e-083
gut mesentery2.47e-083
dorsal mesentery2.47e-083
dorsal mesogastrium2.47e-083
peritoneal cavity2.47e-083
spleen primordium2.47e-083
Disease
Ontology termp-valuen
lymphoma1.70e-1410


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.10.176622
MA0004.10.558729
MA0006.10.391183
MA0007.10.539222
MA0009.11.03681
MA0014.10.108006
MA0017.10.432438
MA0019.10.7124
MA0024.10.929647
MA0025.11.17262
MA0027.12.65688
MA0028.10.408079
MA0029.10.949428
MA0030.10.937696
MA0031.10.871496
MA0038.10.665566
MA0040.10.955415
MA0041.11.41501
MA0042.11.3446
MA0043.11.03713
MA0046.12.33832
MA0048.10.152639
MA0050.10.545671
MA0051.10.661179
MA0052.12.20326
MA0055.10.0586456
MA0056.10
MA0057.10.450439
MA0058.10.458909
MA0059.10.457555
MA0060.10.267412
MA0061.12.71441
MA0063.10
MA0066.10.66601
MA0067.11.35893
MA0068.10.199491
MA0069.11.02175
MA0070.11.01032
MA0071.10.625297
MA0072.11.00572
MA0073.10.00076337
MA0074.10.660398
MA0076.10.475586
MA0077.10.997832
MA0078.10.763954
MA0081.10.457725
MA0083.11.04447
MA0084.11.5477
MA0087.11.00322
MA0088.10.0971959
MA0089.10
MA0090.10.490736
MA0091.10.561458
MA0092.10.522012
MA0093.10.394379
MA0095.10
MA0098.10
MA0100.10.679972
MA0101.10.397846
MA0103.10.381434
MA0105.12.61648
MA0106.10.70837
MA0107.11.54633
MA0108.20.868347
MA0109.10
MA0111.10.504913
MA0113.10.725375
MA0114.10.845337
MA0115.11.28169
MA0116.10.323925
MA0117.11.07516
MA0119.10.440684
MA0122.11.10154
MA0124.11.23968
MA0125.11.15445
MA0130.10
MA0131.11.84113
MA0132.10
MA0133.10
MA0135.17.35405
MA0136.10.672893
MA0139.10.226048
MA0140.10.622527
MA0141.10.455728
MA0142.10.838805
MA0143.10.725558
MA0144.10.299851
MA0145.10.347815
MA0146.10.232472
MA0147.10.327615
MA0148.10.584698
MA0149.10.612449
MA0062.20.23336
MA0035.20.621793
MA0039.20.00570825
MA0138.23.01409
MA0002.21.3092
MA0137.20.414885
MA0104.20.735746
MA0047.20.695777
MA0112.20.332548
MA0065.20.718489
MA0150.10.484557
MA0151.10
MA0152.10.629368
MA0153.11.13732
MA0154.10.132326
MA0155.10.0961854
MA0156.10.417278
MA0157.10.810597
MA0158.10
MA0159.10.328286
MA0160.10.600559
MA0161.10
MA0162.10.347838
MA0163.10.0270301
MA0164.10.738243
MA0080.21.02158
MA0018.20.709805
MA0099.20.629739
MA0079.20.0146751
MA0102.21.58513
MA0258.10.788656
MA0259.10.893594
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


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

TF#promotersEnrichmentp-valueq-value
EBF1#187957.422055705474179.7002838805275e-050.00138004079580222
IRF4#3662310.95725634337210.001711753441810940.0106896566437032
MEF2A#4205515.619359091372.47611227471544e-068.73952990398803e-05
MEF2C#4208320.6556772463120.0002683563494060410.00286602605334057
NFKB1#479054.57338618682820.00102196259371130.00724496004104087
POLR2A#543062.147453176558070.01019570676818780.0380214746541015
POU2F2#545257.588436714785448.70203885493171e-050.00129040499214853
SP1#666743.79892091876060.01052246616798510.0389479672568115
SPI1#668845.469549005681820.00269730053614140.0148428985032969
TAF1#687263.343046285745290.0007162474284635620.0057312415860639
ZEB1#6935411.25895467836260.0001672700379805450.0020484891529843



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.