MCL coexpression mm9:1287

Phase1 CAGE Peaks

	Short description
Mm9::chr11:48805759..48805781,-	p3@Tgtp1 p3@Tgtp2
Mm9::chr2:167766298..167766302,+	p@chr2:167766298..167766302 +
Mm9::chr4:149075690..149075711,-	p2@Pik3cd
Mm9::chr5:122683421..122683445,+	p@chr5:122683421..122683445 +
Mm9::chr8:90812977..90812990,+	p8@Adcy7
Mm9::chrX:50113602..50113611,+	p@chrX:50113602..50113611 +

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

---

GO ID	GO name	FDR corrected p-value
GO:0019932	second-messenger-mediated signaling	0.0041889307110198
GO:0046934	phosphatidylinositol-4,5-bisphosphate 3-kinase activity	0.0101825686755877
GO:0046854	phosphoinositide phosphorylation	0.0101825686755877
GO:0035004	phosphoinositide 3-kinase activity	0.0101825686755877
GO:0016303	1-phosphatidylinositol-3-kinase activity	0.0101825686755877
GO:0005942	phosphoinositide 3-kinase complex	0.0101825686755877
GO:0001782	B cell homeostasis	0.0101825686755877
GO:0046834	lipid phosphorylation	0.0101825686755877
GO:0004016	adenylate cyclase activity	0.0101825686755877
GO:0007190	adenylate cyclase activation	0.0101825686755877
GO:0031281	positive regulation of cyclase activity	0.0101825686755877
GO:0051349	positive regulation of lyase activity	0.0101825686755877
GO:0045762	positive regulation of adenylate cyclase activity	0.0101825686755877
GO:0045761	regulation of adenylate cyclase activity	0.0101825686755877
GO:0006171	cAMP biosynthetic process	0.0101825686755877
GO:0031279	regulation of cyclase activity	0.0101825686755877
GO:0051339	regulation of lyase activity	0.0101825686755877
GO:0002260	lymphocyte homeostasis	0.0101825686755877
GO:0046058	cAMP metabolic process	0.0101825686755877
GO:0001727	lipid kinase activity	0.0101825686755877
GO:0009975	cyclase activity	0.0101825686755877
GO:0016849	phosphorus-oxygen lyase activity	0.0101825686755877
GO:0030258	lipid modification	0.0101825686755877
GO:0001776	leukocyte homeostasis	0.0101825686755877
GO:0007242	intracellular signaling cascade	0.0101825686755877
GO:0009190	cyclic nucleotide biosynthetic process	0.0101825686755877
GO:0048872	homeostasis of number of cells	0.0101825686755877
GO:0004428	inositol or phosphatidylinositol kinase activity	0.0101825686755877
GO:0007189	G-protein signaling, adenylate cyclase activating pathway	0.0122869486827826
GO:0009187	cyclic nucleotide metabolic process	0.0125554027972597
GO:0048015	phosphoinositide-mediated signaling	0.0139948906204137
GO:0030384	phosphoinositide metabolic process	0.0139948906204137
GO:0007188	G-protein signaling, coupled to cAMP nucleotide second messenger	0.016860093186008
GO:0006650	glycerophospholipid metabolic process	0.016860093186008
GO:0007187	G-protein signaling, coupled to cyclic nucleotide second messenger	0.016860093186008
GO:0019933	cAMP-mediated signaling	0.0169560597719931
GO:0019935	cyclic-nucleotide-mediated signaling	0.0173212513502202
GO:0042113	B cell activation	0.0227412066789144
GO:0044445	cytosolic part	0.0244981950385326
GO:0006644	phospholipid metabolic process	0.0294582099803791
GO:0009165	nucleotide biosynthetic process	0.0302212702873356
GO:0043085	positive regulation of catalytic activity	0.0323928369149597
GO:0006643	membrane lipid metabolic process	0.0350565684588753
GO:0016829	lyase activity	0.0350565684588753
GO:0007166	cell surface receptor linked signal transduction	0.0374638801911031
GO:0009117	nucleotide metabolic process	0.0398981395349427
GO:0046649	lymphocyte activation	0.0407661960117566
GO:0055086	nucleobase, nucleoside and nucleotide metabolic process	0.040967261749857
GO:0045321	leukocyte activation	0.0425994543014596
GO:0001775	cell activation	0.0447688215167534

Relative expression of the co-expression cluster over median <br>Analyst:

---

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 term	p-value	n
lymphoid lineage restricted progenitor cell	3.30e-12	12
T cell	1.26e-11	11
pro-T cell	1.26e-11	11
lymphocyte	6.39e-11	13
common lymphoid progenitor	6.39e-11	13
hematopoietic cell	1.04e-10	32
hematopoietic oligopotent progenitor cell	1.04e-10	32
hematopoietic stem cell	1.04e-10	32
angioblastic mesenchymal cell	1.04e-10	32
hematopoietic multipotent progenitor cell	1.04e-10	32
hematopoietic lineage restricted progenitor cell	3.07e-10	25
mature alpha-beta T cell	1.51e-09	9
alpha-beta T cell	1.51e-09	9
immature T cell	1.51e-09	9
mature T cell	1.51e-09	9
immature alpha-beta T cell	1.51e-09	9
leukocyte	1.40e-08	17
nongranular leukocyte	1.40e-08	17
CD4-positive, alpha-beta T cell	1.74e-08	8
nucleate cell	4.60e-08	16

Uber Anatomy

Ontology term	p-value	n
hemopoietic organ	9.83e-20	29
immune organ	9.83e-20	29
hemolymphoid system	1.16e-19	48
immune system	1.16e-19	48
hematopoietic system	1.13e-17	45
blood island	1.13e-17	45
mixed endoderm/mesoderm-derived structure	4.99e-17	35
gland of gut	1.67e-16	24
thymus	1.03e-15	23
neck	1.03e-15	23
respiratory system epithelium	1.03e-15	23
hemolymphoid system gland	1.03e-15	23
pharyngeal epithelium	1.03e-15	23
thymic region	1.03e-15	23
pharyngeal gland	1.03e-15	23
entire pharyngeal arch endoderm	1.03e-15	23
thymus primordium	1.03e-15	23
early pharyngeal endoderm	1.03e-15	23
pharynx	1.01e-14	24
upper respiratory tract	1.01e-14	24
chordate pharynx	1.01e-14	24
pharyngeal arch system	1.01e-14	24
pharyngeal region of foregut	1.01e-14	24
segment of respiratory tract	3.24e-12	27
lateral plate mesoderm	2.24e-11	87
respiratory system	1.68e-10	42
respiratory tract	7.21e-10	41
organ segment	1.10e-08	35
endoderm-derived structure	1.11e-08	118
endoderm	1.11e-08	118
presumptive endoderm	1.11e-08	118
digestive system	1.41e-08	116
digestive tract	1.41e-08	116
primitive gut	1.41e-08	116
foregut	1.51e-08	80
craniocervical region	2.29e-08	36
subdivision of digestive tract	6.85e-08	114
mesoderm	9.70e-08	120
mesoderm-derived structure	9.70e-08	120
presumptive mesoderm	9.70e-08	120

TFBS overrepresentation<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)
MA0003.1	0.04894
MA0004.1	1.3269
MA0006.1	0.359699
MA0007.1	0.52077
MA0009.1	0.987341
MA0014.1	0.0315641
MA0017.1	0.387481
MA0019.1	0.800946
MA0024.1	0.942716
MA0025.1	1.22395
MA0027.1	2.64231
MA0028.1	0.370592
MA0029.1	0.920529
MA0030.1	0.927235
MA0031.1	0.890871
MA0038.1	0.686534
MA0040.1	1.00009
MA0041.1	0.457338
MA0042.1	1.97265
MA0043.1	1.08567
MA0046.1	1.02391
MA0048.1	0.161427
MA0050.1	1.41229
MA0051.1	0.695779
MA0052.1	1.00829
MA0055.1	0.212634
MA0056.1	0
MA0057.1	0.457693
MA0058.1	0.436487
MA0059.1	0.449345
MA0060.1	0.275911
MA0061.1	0.307097
MA0063.1	0
MA0066.1	0.675169
MA0067.1	1.33603
MA0068.1	0.911705
MA0069.1	1.00864
MA0070.1	0.998765
MA0071.1	0.575909
MA0072.1	0.990133
MA0073.1	0.0960184
MA0074.1	0.638014
MA0076.1	0.407465
MA0077.1	0.968053
MA0078.1	0.729877
MA0081.1	0.473489
MA0083.1	1.08487
MA0084.1	1.66561
MA0087.1	1.04109
MA0088.1	0.111145
MA0089.1	0
MA0090.1	1.25093
MA0091.1	0.55008
MA0092.1	0.501022
MA0093.1	0.988233
MA0095.1	0
MA0098.1	0
MA0100.1	0.626021
MA0101.1	0.458688
MA0103.1	0.398766
MA0105.1	0.199622
MA0106.1	0.737893
MA0107.1	1.0169
MA0108.2	0.824407
MA0109.1	0
MA0111.1	0.515457
MA0113.1	0.708789
MA0114.1	0.304661
MA0115.1	1.08851
MA0116.1	0.359483
MA0117.1	1.05576
MA0119.1	0.459301
MA0122.1	1.07591
MA0124.1	1.28237
MA0125.1	1.20757
MA0130.1	0
MA0131.1	0.796279
MA0132.1	0
MA0133.1	0
MA0135.1	1.1226
MA0136.1	0.658622
MA0139.1	0.243463
MA0140.1	0.625902
MA0141.1	0.419361
MA0142.1	0.876028
MA0143.1	0.725672
MA0144.1	2.2889
MA0145.1	0.761789
MA0146.1	0.353523
MA0147.1	0.858298
MA0148.1	0.553294
MA0149.1	0.464445
MA0062.2	0.204999
MA0035.2	0.630778
MA0039.2	0.181031
MA0138.2	0.788113
MA0002.2	2.76558
MA0137.2	1.88035
MA0104.2	0.261255
MA0047.2	0.685741
MA0112.2	0.119197
MA0065.2	0.119561
MA0150.1	0.520653
MA0151.1	0
MA0152.1	0.685852
MA0153.1	1.13945
MA0154.1	0.480757
MA0155.1	0.132921
MA0156.1	0.406559
MA0157.1	0.843181
MA0158.1	0
MA0159.1	0.331229
MA0160.1	0.556423
MA0161.1	0
MA0162.1	0.0465447
MA0163.1	0.0423021
MA0164.1	0.658997
MA0080.2	1.01893
MA0018.2	0.669032
MA0099.2	0.781628
MA0079.2	0.000341844
MA0102.2	1.7182
MA0258.1	0.290587
MA0259.1	0.309517
MA0442.1	0