MCL coexpression mm9:1160

Phase1 CAGE Peaks

	Short description
Mm9::chr17:35576137..35576140,+	p1@H2-Q7 p1@H2-Q8 p1@H2-Q9 p1@LOC100044019 p1@LOC100044020
Mm9::chr18:80895129..80895141,-	p@chr18:80895129..80895141 -
Mm9::chr1:61034742..61034781,+	p1@Icos
Mm9::chr3:87650762..87650776,+	p3@Sh2d2a
Mm9::chr5:122682269..122682291,+	p@chr5:122682269..122682291 +
Mm9::chr7:132746957..132746988,+	p1@Il21r
Mm9::chr7:132746995..132747010,+	p3@Il21r

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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GO ID	GO name	FDR corrected p-value
GO:0005070	SH3/SH2 adaptor activity	0.0403155565721875
GO:0042612	MHC class I protein complex	0.0403155565721875
GO:0002474	antigen processing and presentation of peptide antigen via MHC class I	0.0403155565721875
GO:0030674	protein binding, bridging	0.0403155565721875
GO:0042611	MHC protein complex	0.0403155565721875
GO:0004907	interleukin receptor activity	0.0403155565721875
GO:0048002	antigen processing and presentation of peptide antigen	0.0403155565721875
GO:0019965	interleukin binding	0.0403155565721875
GO:0060090	molecular adaptor activity	0.0437708186230869
GO:0004896	hematopoietin/interferon-class (D200-domain) cytokine receptor activity	0.0463438870390452
GO:0019882	antigen processing and presentation	0.0463438870390452
GO:0019955	cytokine binding	0.049893815526705

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

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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 lineage restricted progenitor cell	5.22e-13	25
lymphoid lineage restricted progenitor cell	1.08e-11	12
T cell	6.31e-11	11
pro-T cell	6.31e-11	11
leukocyte	1.73e-10	17
nongranular leukocyte	1.73e-10	17
lymphocyte	2.13e-10	13
common lymphoid progenitor	2.13e-10	13
hematopoietic cell	4.05e-10	32
hematopoietic oligopotent progenitor cell	4.05e-10	32
hematopoietic stem cell	4.05e-10	32
angioblastic mesenchymal cell	4.05e-10	32
hematopoietic multipotent progenitor cell	4.05e-10	32
mature alpha-beta T cell	6.93e-10	9
alpha-beta T cell	6.93e-10	9
immature T cell	6.93e-10	9
mature T cell	6.93e-10	9
immature alpha-beta T cell	6.93e-10	9
CD4-positive, alpha-beta T cell	6.39e-09	8
nucleate cell	1.54e-07	16
thymocyte	4.60e-07	6
double negative thymocyte	4.60e-07	6
naive T cell	4.60e-07	6
double-positive, alpha-beta thymocyte	4.60e-07	6
CD4-positive, alpha-beta thymocyte	4.60e-07	6
naive thymus-derived CD4-positive, alpha-beta T cell	4.60e-07	6
DN4 thymocyte	4.60e-07	6
DN1 thymic pro-T cell	4.60e-07	6
DN2 thymocyte	4.60e-07	6
DN3 thymocyte	4.60e-07	6
immature single positive thymocyte	4.60e-07	6
early T lineage precursor	4.60e-07	6
mature CD4 single-positive thymocyte	4.60e-07	6
resting double-positive thymocyte	4.60e-07	6
double-positive blast	4.60e-07	6
CD69-positive double-positive thymocyte	4.60e-07	6
CD69-positive, CD4-positive single-positive thymocyte	4.60e-07	6
CD4-positive, CD8-intermediate double-positive thymocyte	4.60e-07	6
CD24-positive, CD4 single-positive thymocyte	4.60e-07	6

Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	3.86e-20	48
immune system	3.86e-20	48
hematopoietic system	6.46e-18	45
blood island	6.46e-18	45
mixed endoderm/mesoderm-derived structure	6.15e-17	35
hemopoietic organ	2.39e-16	29
immune organ	2.39e-16	29
gland of gut	1.80e-14	24
pharynx	4.81e-14	24
upper respiratory tract	4.81e-14	24
chordate pharynx	4.81e-14	24
pharyngeal arch system	4.81e-14	24
pharyngeal region of foregut	4.81e-14	24
thymus	9.20e-14	23
neck	9.20e-14	23
respiratory system epithelium	9.20e-14	23
hemolymphoid system gland	9.20e-14	23
pharyngeal epithelium	9.20e-14	23
thymic region	9.20e-14	23
pharyngeal gland	9.20e-14	23
entire pharyngeal arch endoderm	9.20e-14	23
thymus primordium	9.20e-14	23
early pharyngeal endoderm	9.20e-14	23
endoderm-derived structure	1.24e-12	118
endoderm	1.24e-12	118
presumptive endoderm	1.24e-12	118
foregut	1.41e-12	80
digestive system	4.24e-12	116
digestive tract	4.24e-12	116
primitive gut	4.24e-12	116
segment of respiratory tract	1.65e-11	27
respiratory system	3.59e-11	42
subdivision of digestive tract	3.87e-11	114
respiratory tract	1.45e-10	41
gland	5.04e-09	65
craniocervical region	8.43e-09	36
endo-epithelium	1.54e-08	69
lateral plate mesoderm	3.90e-08	87
gut epithelium	4.35e-08	55
organ segment	5.54e-08	35
endocrine gland	4.26e-07	60

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

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
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