ISMARA results: lhx3+lhx4

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PRJDB7713: Age associated transcriptome analysis in 5 tissues of zebrafish

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Results for lhx3+lhx4

Z-value: 1.13

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Transcription factors associated with lhx3+lhx4

Gene Symbol	Gene ID	Gene Info
lhx3 NCBI UniProt	ENSDARG00000003803	LIM homeobox 3
lhx4 NCBI UniProt	ENSDARG00000039458	LIM homeobox 4

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
lhx4	dr11_v1_chr8_-_14484599_14484599	0.41	4.5e-05	Click!
LHX3	dr11_v1_chr5_+_71802014_71802014	-0.05	6.3e-01	Click!

Activity profile of lhx3+lhx4 motif

Sorted Z-values of lhx3+lhx4 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr4_+_9669717 Show fit	25.69	ENSDART00000004604	si:dkey-153k10.9 NCBI UniProt Show fit	si:dkey-153k10.9
chr21_-_20939488 Show fit	21.29	ENSDART00000039043	rgs7bpb NCBI UniProt Show fit	regulator of G protein signaling 7 binding protein b
chr20_+_34933183 Show fit	20.37	ENSDART00000062738	snap25a NCBI UniProt Show fit	synaptosomal-associated protein, 25a
chr8_-_34052019 Show fit	18.77	ENSDART00000040126 ENSDART00000159208 ENSDART00000048994 ENSDART00000098822	pbx3b NCBI UniProt Show fit	pre-B-cell leukemia homeobox 3b
chr9_+_34641237 Show fit	18.70	ENSDART00000133996	shox NCBI UniProt Show fit	short stature homeobox
chr16_+_46111849 Show fit	14.07	ENSDART00000172232	sv2a NCBI UniProt Show fit	synaptic vesicle glycoprotein 2A
chr3_+_29714775 Show fit	13.67	ENSDART00000041388	cacng2a NCBI UniProt Show fit	calcium channel, voltage-dependent, gamma subunit 2a
chr9_-_31278048 Show fit	12.62	ENSDART00000022204	zic5 NCBI UniProt Show fit	zic family member 5 (odd-paired homolog, Drosophila)
chr15_-_44601331 Show fit	12.55	ENSDART00000161514	zgc:165508 NCBI UniProt Show fit	zgc:165508
chr10_-_27049170 Show fit	12.31	ENSDART00000143451	cnih2 NCBI UniProt Show fit	cornichon family AMPA receptor auxiliary protein 2

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of lhx3+lhx4

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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
0.0	54.3	GO:0030182	neuron differentiation(GO:0030182)
0.3	22.2	GO:0033339	pectoral fin development(GO:0033339)
0.7	20.4	GO:0016082	synaptic vesicle priming(GO:0016082)
0.2	19.3	GO:0006836	neurotransmitter transport(GO:0006836)
5.7	17.1	GO:1900620	acetylcholine biosynthetic process(GO:0008292) acetate ester biosynthetic process(GO:1900620)
0.4	16.9	GO:0014059	dopamine secretion(GO:0014046) regulation of dopamine secretion(GO:0014059)
2.0	15.9	GO:2000650	negative regulation of sodium ion transmembrane transporter activity(GO:2000650)
0.2	15.6	GO:0006165	nucleoside diphosphate phosphorylation(GO:0006165)
0.8	13.7	GO:0098943	neurotransmitter receptor transport, postsynaptic endosome to lysosome(GO:0098943)
1.8	12.6	GO:0033278	cell proliferation in midbrain(GO:0033278)

Showing 1 to 10 of 151 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	133.8	GO:0005634	nucleus(GO:0005634)
0.1	51.2	GO:0043005	neuron projection(GO:0043005)
3.4	20.4	GO:0070032	synaptobrevin 2-SNAP-25-syntaxin-1a-complexin I complex(GO:0070032)
0.3	13.7	GO:0032281	AMPA glutamate receptor complex(GO:0032281)
0.2	13.4	GO:0099501	synaptic vesicle membrane(GO:0030672) exocytic vesicle membrane(GO:0099501)
0.1	10.6	GO:0005635	nuclear envelope(GO:0005635)
0.1	10.1	GO:0048786	presynaptic active zone(GO:0048786)
0.2	8.0	GO:0017053	transcriptional repressor complex(GO:0017053)
0.6	7.6	GO:0031045	dense core granule(GO:0031045)
0.1	7.6	GO:0043025	neuronal cell body(GO:0043025)

Showing 1 to 10 of 69 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	96.3	GO:0000981	RNA polymerase II transcription factor activity, sequence-specific DNA binding(GO:0000981)
0.0	27.1	GO:0004842	ubiquitin-protein transferase activity(GO:0004842)
0.7	26.9	GO:0017075	syntaxin-1 binding(GO:0017075)
1.2	18.1	GO:0005504	fatty acid binding(GO:0005504)
1.3	17.1	GO:0016413	O-acetyltransferase activity(GO:0016413)
0.2	16.8	GO:0005245	voltage-gated calcium channel activity(GO:0005245)
0.3	16.3	GO:0001786	phosphatidylserine binding(GO:0001786)
0.2	15.3	GO:0003727	single-stranded RNA binding(GO:0003727)
0.4	11.1	GO:0004550	nucleoside diphosphate kinase activity(GO:0004550)
0.1	10.2	GO:0003714	transcription corepressor activity(GO:0003714)

Showing 1 to 10 of 109 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.3	9.4	PID EPHA FWDPATHWAY	EPHA forward signaling
0.2	7.3	PID FOXM1 PATHWAY	FOXM1 transcription factor network
0.2	6.0	PID TRKR PATHWAY	Neurotrophic factor-mediated Trk receptor signaling
0.6	5.5	PID THROMBIN PAR4 PATHWAY	PAR4-mediated thrombin signaling events
0.1	5.2	PID LKB1 PATHWAY	LKB1 signaling events
0.3	4.2	PID RET PATHWAY	Signaling events regulated by Ret tyrosine kinase
0.1	3.9	PID ERA GENOMIC PATHWAY	Validated nuclear estrogen receptor alpha network
0.1	3.7	PID PI3K PLC TRK PATHWAY	Trk receptor signaling mediated by PI3K and PLC-gamma
0.1	3.0	PID NCADHERIN PATHWAY	N-cadherin signaling events
0.1	1.8	PID LPA4 PATHWAY	LPA4-mediated signaling events

Showing 1 to 10 of 20 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.5	11.1	REACTOME SYNTHESIS AND INTERCONVERSION OF NUCLEOTIDE DI AND TRIPHOSPHATES	Genes involved in Synthesis and interconversion of nucleotide di- and triphosphates
0.7	9.8	REACTOME NA CL DEPENDENT NEUROTRANSMITTER TRANSPORTERS	Genes involved in Na+/Cl- dependent neurotransmitter transporters
0.6	7.4	REACTOME TRAFFICKING AND PROCESSING OF ENDOSOMAL TLR	Genes involved in Trafficking and processing of endosomal TLR
0.5	7.3	REACTOME RESOLUTION OF AP SITES VIA THE SINGLE NUCLEOTIDE REPLACEMENT PATHWAY	Genes involved in Resolution of AP sites via the single-nucleotide replacement pathway
0.2	7.3	REACTOME RNA POL II TRANSCRIPTION PRE INITIATION AND PROMOTER OPENING	Genes involved in RNA Polymerase II Transcription Pre-Initiation And Promoter Opening
0.3	6.6	REACTOME GLUCONEOGENESIS	Genes involved in Gluconeogenesis
1.4	5.6	REACTOME ROLE OF SECOND MESSENGERS IN NETRIN1 SIGNALING	Genes involved in Role of second messengers in netrin-1 signaling
0.1	5.6	REACTOME GLYCEROPHOSPHOLIPID BIOSYNTHESIS	Genes involved in Glycerophospholipid biosynthesis
0.6	5.5	REACTOME REGULATION OF INSULIN SECRETION BY ACETYLCHOLINE	Genes involved in Regulation of Insulin Secretion by Acetylcholine
0.5	5.4	REACTOME ACTIVATION OF BH3 ONLY PROTEINS	Genes involved in Activation of BH3-only proteins

Showing 1 to 10 of 40 entries

Results for lhx3+lhx4

Z-value: 1.13

Motif logo

Transcription factors associated with lhx3+lhx4

Activity-expression correlation:

Activity profile of lhx3+lhx4 motif

Sorted Z-values of lhx3+lhx4 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of lhx3+lhx4

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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: