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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0

Latest revision as of 11:56, 17 September 2013


Full id: C1976_Neutrophils_Whole_Eosinophils_CD8_CD19_CD4_blood



Phase1 CAGE Peaks

Hg19::chr6:24851973..24851977,-p@chr6:24851973..24851977
-
Hg19::chr6:24923083..24923087,-p@chr6:24923083..24923087
-
Hg19::chr6:24936170..24936199,-p1@FAM65B
Hg19::chr6:31548877..31548898,+p2@AK095821
Hg19::chr8:101963707..101963755,-p8@YWHAZ


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

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>

Cell Type
Ontology termp-valuen
leukocyte9.42e-70136
nongranular leukocyte2.27e-62115
hematopoietic lineage restricted progenitor cell1.15e-57120
hematopoietic stem cell6.31e-57168
angioblastic mesenchymal cell6.31e-57168
hematopoietic oligopotent progenitor cell1.15e-53161
hematopoietic multipotent progenitor cell1.15e-53161
hematopoietic cell5.73e-52177
lymphocyte6.09e-3953
common lymphoid progenitor6.09e-3953
lymphoid lineage restricted progenitor cell3.57e-3852
nucleate cell8.19e-3755
myeloid leukocyte7.41e-2772
classical monocyte3.31e-2142
CD14-positive, CD16-negative classical monocyte3.31e-2142
granulocyte monocyte progenitor cell6.52e-2167
macrophage dendritic cell progenitor1.22e-2061
monopoietic cell1.37e-2059
monocyte1.37e-2059
monoblast1.37e-2059
promonocyte1.37e-2059
myeloid lineage restricted progenitor cell2.76e-2066
myeloid cell1.47e-18108
common myeloid progenitor1.47e-18108
lymphocyte of B lineage1.68e-1824
pro-B cell1.68e-1824
mature alpha-beta T cell1.80e-1818
alpha-beta T cell1.80e-1818
immature T cell1.80e-1818
mature T cell1.80e-1818
immature alpha-beta T cell1.80e-1818
defensive cell3.59e-1848
phagocyte3.59e-1848
T cell5.57e-1825
pro-T cell5.57e-1825
B cell8.11e-1414
CD8-positive, alpha-beta T cell6.30e-1311
mesenchymal cell1.03e-10354
connective tissue cell6.48e-10361
motile cell1.65e-07386
granulocyte2.63e-078
CD4-positive, alpha-beta T cell6.77e-076
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.52e-3098
blood island1.52e-3098
hemolymphoid system4.07e-29108
immune system2.30e-2093
bone marrow1.49e-1776
bone element6.93e-1682
skeletal element3.84e-1390
skeletal system5.09e-11100
blood5.11e-1115
haemolymphatic fluid5.11e-1115
organism substance5.11e-1115
connective tissue7.57e-09371
lateral plate mesoderm5.02e-08203
adult organism6.49e-08114


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)
MA0003.10.737422
MA0004.10.626788
MA0006.10.452993
MA0007.10.606704
MA0009.11.11255
MA0014.11.02528
MA0017.10.496101
MA0019.10.784036
MA0024.11.00439
MA0025.11.24931
MA0027.12.73598
MA0028.10.470679
MA0029.11.02437
MA0030.11.01252
MA0031.10.945567
MA0038.10.736268
MA0040.11.03042
MA0041.10.64667
MA0042.10.612397
MA0043.11.11288
MA0046.11.10134
MA0048.10.569896
MA0050.10.613347
MA0051.10.731787
MA0052.11.03442
MA0055.10.0853006
MA0056.10
MA0057.10.189508
MA0058.10.523638
MA0059.10.522232
MA0060.10.321781
MA0061.10.791444
MA0063.10
MA0066.10.736721
MA0067.11.43651
MA0068.10.692739
MA0069.11.09737
MA0070.11.08584
MA0071.10.695094
MA0072.11.0812
MA0073.10.00220137
MA0074.10.730989
MA0076.10.540943
MA0077.11.07324
MA0078.10.836493
MA0081.10.522409
MA0083.11.12028
MA0084.11.62584
MA0087.11.07867
MA0088.10.132006
MA0089.10
MA0090.10.556637
MA0091.10.629594
MA0092.10.588959
MA0093.10.456342
MA0095.10
MA0098.10
MA0100.10.750974
MA0101.10.459973
MA0103.11.12656
MA0105.11.58771
MA0106.10.779931
MA0107.10.985964
MA0108.20.94238
MA0109.10
MA0111.10.5713
MA0113.10.797251
MA0114.10.372523
MA0115.11.35895
MA0116.10.994489
MA0117.11.1512
MA0119.10.504689
MA0122.11.17777
MA0124.11.31673
MA0125.11.23103
MA0130.10
MA0131.10.855546
MA0132.10
MA0133.10
MA0135.11.14377
MA0136.10.743749
MA0139.10.277033
MA0140.10.692258
MA0141.10.520334
MA0142.10.912455
MA0143.10.797437
MA0144.10.356507
MA0145.10.143698
MA0146.10.0359558
MA0147.10.386018
MA0148.10.653474
MA0149.10.681935
MA0062.21.41923
MA0035.20.691506
MA0039.20.15493
MA0138.20.837782
MA0002.20.30855
MA0137.20.47779
MA0104.20.320919
MA0047.20.767096
MA0112.20.839774
MA0065.20.146576
MA0150.10.550239
MA0151.10
MA0152.10.69926
MA0153.11.21379
MA0154.10.98952
MA0155.10.813062
MA0156.10.480289
MA0157.10.883854
MA0158.10
MA0159.10.386729
MA0160.10.669748
MA0161.10
MA0162.10.469165
MA0163.10.168633
MA0164.10.810347
MA0080.20.456437
MA0018.20.781393
MA0099.20.699641
MA0079.20.636989
MA0102.21.66336
MA0258.10.345771
MA0259.10.395396
MA0442.10



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

No analysis results for this cluster

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

This analysis result is provided for C0 - C305 clusters.

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