ISMARA results: pdx1

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PRJDB7713: Age associated transcriptome analysis in 5 tissues of zebrafish

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Results for pdx1_pbx4

Z-value: 1.48

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Transcription factors associated with pdx1_pbx4

Gene Symbol	Gene ID	Gene Info
pdx1 NCBI UniProt	ENSDARG00000002779	pancreatic and duodenal homeobox 1
pdx1 NCBI UniProt	ENSDARG00000109275	pancreatic and duodenal homeobox 1
pbx4 NCBI UniProt	ENSDARG00000052150	pre-B-cell leukemia transcription factor 4

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
pbx4	dr11_v1_chr3_+_52999962_52999962	-0.19	7.2e-02	Click!
pdx1	dr11_v1_chr24_+_21684189_21684189	-0.16	1.2e-01	Click!

Activity profile of pdx1_pbx4 motif

Sorted Z-values of pdx1_pbx4 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr24_+_38301080 Show fit	271.69	ENSDART00000105672	mybpc2b NCBI UniProt Show fit	myosin binding protein C, fast type b
chr11_+_36243774 Show fit	24.48	ENSDART00000023323	zgc:172270 NCBI UniProt Show fit	zgc:172270
chr18_+_13792490 Show fit	20.10	ENSDART00000136754	cdh13 NCBI UniProt Show fit	cadherin 13, H-cadherin (heart)
chr3_-_32818607 Show fit	16.36	ENSDART00000075465	mylpfa NCBI UniProt Show fit	myosin light chain, phosphorylatable, fast skeletal muscle a
chr1_+_17676745 Show fit	12.12	ENSDART00000030665	slc25a4 NCBI UniProt Show fit	solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 4
chr7_+_29952719 Show fit	11.79	ENSDART00000173737	tpma NCBI UniProt Show fit	alpha-tropomyosin
chr3_+_33300522 Show fit	10.54	ENSDART00000114023	hspb9 NCBI UniProt Show fit	heat shock protein, alpha-crystallin-related, 9
chr9_-_22834860 Show fit	9.91	ENSDART00000146486	neb NCBI UniProt Show fit	nebulin
chr20_-_29420713 Show fit	9.17	ENSDART00000147464	ryr3 NCBI UniProt Show fit	ryanodine receptor 3
chr2_+_47623202 Show fit	8.16	ENSDART00000154465	si:ch211-165b10.3 NCBI UniProt Show fit	si:ch211-165b10.3

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of pdx1_pbx4

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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
0.8	283.4	GO:0060537	muscle tissue development(GO:0060537)
2.4	24.5	GO:0070836	membrane raft assembly(GO:0001765) plasma membrane raft assembly(GO:0044854) plasma membrane raft organization(GO:0044857) caveola assembly(GO:0070836)
2.5	20.1	GO:1902262	apoptotic process involved in patterning of blood vessels(GO:1902262)
0.5	13.7	GO:0051209	release of sequestered calcium ion into cytosol(GO:0051209)
3.0	12.1	GO:0051503	intracellular nucleoside transport(GO:0015859) purine nucleoside transmembrane transport(GO:0015860) purine nucleotide transport(GO:0015865) ATP transport(GO:0015867) purine ribonucleotide transport(GO:0015868) adenine nucleotide transport(GO:0051503) mitochondrial ATP transmembrane transport(GO:1990544)
0.4	11.5	GO:1901379	regulation of potassium ion transmembrane transport(GO:1901379)
0.1	10.1	GO:0061515	myeloid cell development(GO:0061515)
1.7	9.9	GO:0071691	cardiac muscle thin filament assembly(GO:0071691)
0.4	8.2	GO:0022010	central nervous system myelination(GO:0022010) axon ensheathment in central nervous system(GO:0032291)
0.1	7.6	GO:0016358	dendrite development(GO:0016358)

Showing 1 to 10 of 186 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.4	43.4	GO:0030018	Z disc(GO:0030018)
0.6	24.5	GO:0005901	caveola(GO:0005901) plasma membrane raft(GO:0044853)
0.4	20.5	GO:0016342	catenin complex(GO:0016342)
2.0	14.2	GO:0005790	smooth endoplasmic reticulum(GO:0005790)
0.2	12.7	GO:0034705	voltage-gated potassium channel complex(GO:0008076) potassium channel complex(GO:0034705)
0.2	10.8	GO:0005865	striated muscle thin filament(GO:0005865) myofilament(GO:0036379)
0.1	10.1	GO:0005884	actin filament(GO:0005884)
0.0	9.9	GO:0005743	mitochondrial inner membrane(GO:0005743)
0.1	8.2	GO:0005604	basement membrane(GO:0005604)
0.0	8.2	GO:0043005	neuron projection(GO:0043005)

Showing 1 to 10 of 65 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	34.6	GO:0042803	protein homodimerization activity(GO:0042803)
1.1	22.0	GO:0051393	muscle alpha-actinin binding(GO:0051371) alpha-actinin binding(GO:0051393)
0.1	19.6	GO:0060090	binding, bridging(GO:0060090)
2.8	14.2	GO:0048763	ryanodine-sensitive calcium-release channel activity(GO:0005219) calcium-induced calcium release activity(GO:0048763)
3.0	12.1	GO:0005471	ATP:ADP antiporter activity(GO:0005471)
0.6	10.9	GO:0008239	dipeptidyl-peptidase activity(GO:0008239)
0.2	8.1	GO:0004712	protein serine/threonine/tyrosine kinase activity(GO:0004712)
0.7	7.7	GO:0030172	troponin C binding(GO:0030172) troponin I binding(GO:0031013)
0.5	7.0	GO:0019911	structural constituent of myelin sheath(GO:0019911)
0.0	6.8	GO:0005516	calmodulin binding(GO:0005516)

Showing 1 to 10 of 133 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	7.5	NABA BASEMENT MEMBRANES	Genes encoding structural components of basement membranes
0.1	4.5	PID HIF1 TFPATHWAY	HIF-1-alpha transcription factor network
0.2	4.4	NABA COLLAGENS	Genes encoding collagen proteins
0.0	3.4	PID BETA CATENIN NUC PATHWAY	Regulation of nuclear beta catenin signaling and target gene transcription
0.1	3.0	PID P75 NTR PATHWAY	p75(NTR)-mediated signaling
0.1	1.8	PID PRL SIGNALING EVENTS PATHWAY	Signaling events mediated by PRL
0.0	1.5	PID ATM PATHWAY	ATM pathway
0.0	0.9	NABA PROTEOGLYCANS	Genes encoding proteoglycans
0.0	0.8	PID WNT SIGNALING PATHWAY	Wnt signaling network
0.0	0.7	PID IL8 CXCR1 PATHWAY	IL8- and CXCR1-mediated signaling events

Showing 1 to 10 of 16 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.8	20.1	REACTOME ADHERENS JUNCTIONS INTERACTIONS	Genes involved in Adherens junctions interactions
0.3	12.8	REACTOME INTERACTIONS OF VPR WITH HOST CELLULAR PROTEINS	Genes involved in Interactions of Vpr with host cellular proteins
0.4	9.9	REACTOME STRIATED MUSCLE CONTRACTION	Genes involved in Striated Muscle Contraction
0.2	7.1	REACTOME NCAM1 INTERACTIONS	Genes involved in NCAM1 interactions
0.2	4.4	REACTOME COLLAGEN FORMATION	Genes involved in Collagen formation
0.2	4.1	REACTOME GLYCOLYSIS	Genes involved in Glycolysis
0.2	3.8	REACTOME AMINO ACID TRANSPORT ACROSS THE PLASMA MEMBRANE	Genes involved in Amino acid transport across the plasma membrane
0.2	3.0	REACTOME BASIGIN INTERACTIONS	Genes involved in Basigin interactions
0.0	2.3	REACTOME PEPTIDE LIGAND BINDING RECEPTORS	Genes involved in Peptide ligand-binding receptors
0.1	1.8	REACTOME SIGNALING BY HIPPO	Genes involved in Signaling by Hippo

Showing 1 to 10 of 37 entries

Results for pdx1_pbx4

Z-value: 1.48

Motif logo

Transcription factors associated with pdx1_pbx4

Activity-expression correlation:

Activity profile of pdx1_pbx4 motif

Sorted Z-values of pdx1_pbx4 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of pdx1_pbx4

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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: