ISMARA results: Chd1

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avrg: GSE58827: Dynamics of the Mouse Liver

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Results for Chd1_Pml

Z-value: 1.63

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Transcription factors associated with Chd1_Pml

Gene Symbol	Gene ID	Gene Info
Chd1 Ensembl NCBI MGI UniProt	ENSMUSG00000023852.7	chromodomain helicase DNA binding protein 1
Pml Ensembl NCBI MGI UniProt	ENSMUSG00000036986.10	promyelocytic leukemia

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Pml	mm10_v2_chr9_-_58249660_58249672	-0.54	6.7e-04	Click!
Chd1	mm10_v2_chr17_+_15704963_15704994	0.36	3.3e-02	Click!

Activity profile of Chd1_Pml motif

Sorted Z-values of Chd1_Pml motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr16_+_44173271 Show fit	11.12	ENSMUST00000088356.4 ENSMUST00000169582.1	Gm608 Ensembl NCBI MGI UniProt Show fit	predicted gene 608
chr16_+_64851991 Show fit	10.94	ENSMUST00000067744.7	Cggbp1 Ensembl NCBI MGI UniProt Show fit	CGG triplet repeat binding protein 1
chr16_+_44173239 Show fit	10.31	ENSMUST00000119746.1	Gm608 Ensembl NCBI MGI UniProt Show fit	predicted gene 608
chr5_-_53213447 Show fit	9.72	ENSMUST00000031090.6	Sel1l3 Ensembl NCBI MGI UniProt Show fit	sel-1 suppressor of lin-12-like 3 (C. elegans)
chr8_-_84800344 Show fit	9.33	ENSMUST00000099070.3	Nfix Ensembl NCBI MGI UniProt Show fit	nuclear factor I/X
chr8_-_84800024 Show fit	9.19	ENSMUST00000126806.1 ENSMUST00000076715.6	Nfix Ensembl NCBI MGI UniProt Show fit	nuclear factor I/X
chr2_+_18677002 Show fit	9.15	ENSMUST00000028071.6	Bmi1 Ensembl NCBI MGI UniProt Show fit	Bmi1 polycomb ring finger oncogene
chr1_+_166254095 Show fit	8.89	ENSMUST00000111416.1	Ildr2 Ensembl NCBI MGI UniProt Show fit	immunoglobulin-like domain containing receptor 2
chrX_-_162888426 Show fit	8.75	ENSMUST00000033723.3	Syap1 Ensembl NCBI MGI UniProt Show fit	synapse associated protein 1
chr11_-_106920359 Show fit	8.43	ENSMUST00000167787.1 ENSMUST00000092517.2	Smurf2 Ensembl NCBI MGI UniProt Show fit	SMAD specific E3 ubiquitin protein ligase 2

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Chd1_Pml

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.4	28.9	GO:0070936	protein K48-linked ubiquitination(GO:0070936)
0.5	19.9	GO:0034243	regulation of transcription elongation from RNA polymerase II promoter(GO:0034243)
0.6	19.5	GO:0007214	gamma-aminobutyric acid signaling pathway(GO:0007214)
1.1	19.2	GO:0021684	cerebellar granular layer formation(GO:0021684) cerebellar granule cell differentiation(GO:0021707)
1.8	18.1	GO:0046449	creatinine metabolic process(GO:0046449)
0.2	17.9	GO:0042787	protein ubiquitination involved in ubiquitin-dependent protein catabolic process(GO:0042787)
0.4	16.4	GO:0046326	positive regulation of glucose import(GO:0046326)
3.2	16.1	GO:0071894	histone H2B conserved C-terminal lysine ubiquitination(GO:0071894)
1.0	16.0	GO:1900454	positive regulation of long term synaptic depression(GO:1900454)
2.5	15.1	GO:1900170	negative regulation of glucocorticoid mediated signaling pathway(GO:1900170)

Showing 1 to 10 of 1,119 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	87.2	GO:0005654	nucleoplasm(GO:0005654)
0.2	59.1	GO:0000151	ubiquitin ligase complex(GO:0000151)
0.1	36.7	GO:0005768	endosome(GO:0005768)
0.0	35.4	GO:0005783	endoplasmic reticulum(GO:0005783)
0.2	34.9	GO:0042579	peroxisome(GO:0005777) microbody(GO:0042579)
0.1	33.4	GO:0043235	receptor complex(GO:0043235)
0.1	23.2	GO:0045177	apical part of cell(GO:0045177)
1.0	22.0	GO:1990124	messenger ribonucleoprotein complex(GO:1990124)
1.0	21.9	GO:0030014	CCR4-NOT complex(GO:0030014)
0.0	21.5	GO:0005739	mitochondrion(GO:0005739)

Showing 1 to 10 of 363 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.3	73.6	GO:0061630	ubiquitin protein ligase activity(GO:0061630) ubiquitin-like protein ligase activity(GO:0061659)
0.2	25.3	GO:0017137	Rab GTPase binding(GO:0017137)
0.1	24.4	GO:0008270	zinc ion binding(GO:0008270)
0.3	22.5	GO:0004843	thiol-dependent ubiquitin-specific protease activity(GO:0004843)
0.3	20.8	GO:0035064	methylated histone binding(GO:0035064)
1.0	19.6	GO:0005161	platelet-derived growth factor receptor binding(GO:0005161)
1.2	18.7	GO:0004438	phosphatidylinositol-3-phosphatase activity(GO:0004438)
0.9	17.1	GO:0000900	translation repressor activity, nucleic acid binding(GO:0000900)
0.3	16.3	GO:0035035	histone acetyltransferase binding(GO:0035035)
5.4	16.2	GO:0004903	growth hormone receptor activity(GO:0004903)

Showing 1 to 10 of 635 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.8	74.9	PID AR TF PATHWAY	Regulation of Androgen receptor activity
0.7	34.3	PID IL1 PATHWAY	IL1-mediated signaling events
0.6	34.0	PID HNF3A PATHWAY	FOXA1 transcription factor network
0.6	30.3	PID BMP PATHWAY	BMP receptor signaling
0.4	27.8	PID MET PATHWAY	Signaling events mediated by Hepatocyte Growth Factor Receptor (c-Met)
0.3	22.2	PID P53 REGULATION PATHWAY	p53 pathway
0.4	19.8	PID PI3KCI AKT PATHWAY	Class I PI3K signaling events mediated by Akt
0.6	18.2	PID NECTIN PATHWAY	Nectin adhesion pathway
0.4	16.9	NABA BASEMENT MEMBRANES	Genes encoding structural components of basement membranes
0.3	16.9	PID LKB1 PATHWAY	LKB1 signaling events

Showing 1 to 10 of 100 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.2	36.9	REACTOME CIRCADIAN REPRESSION OF EXPRESSION BY REV ERBA	Genes involved in Circadian Repression of Expression by REV-ERBA
0.3	25.9	REACTOME NUCLEAR RECEPTOR TRANSCRIPTION PATHWAY	Genes involved in Nuclear Receptor transcription pathway
1.2	23.4	REACTOME PROLACTIN RECEPTOR SIGNALING	Genes involved in Prolactin receptor signaling
0.7	21.8	REACTOME SIGNALING BY BMP	Genes involved in Signaling by BMP
0.8	21.7	REACTOME SIGNALING BY CONSTITUTIVELY ACTIVE EGFR	Genes involved in Signaling by constitutively active EGFR
0.6	19.7	REACTOME SYNTHESIS OF PC	Genes involved in Synthesis of PC
0.2	15.7	REACTOME ANTIVIRAL MECHANISM BY IFN STIMULATED GENES	Genes involved in Antiviral mechanism by IFN-stimulated genes
0.9	15.6	REACTOME APOPTOTIC CLEAVAGE OF CELL ADHESION PROTEINS	Genes involved in Apoptotic cleavage of cell adhesion proteins
0.7	15.6	REACTOME ARMS MEDIATED ACTIVATION	Genes involved in ARMS-mediated activation
1.2	15.1	REACTOME GLUCURONIDATION	Genes involved in Glucuronidation

Showing 1 to 10 of 177 entries

Results for Chd1_Pml

Z-value: 1.63

Motif logo

Transcription factors associated with Chd1_Pml

Activity-expression correlation:

Activity profile of Chd1_Pml motif

Sorted Z-values of Chd1_Pml motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Chd1_Pml

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Gene overrepresentation in cellular component category:

Gene overrepresentation in molecular function category:

Gene overrepresentation in curated gene sets: canonical pathways category:

Gene overrepresentation in curated gene sets: REACTOME pathways category: