ISMARA results: lhx3+lhx4

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PRJNA195909:zebrafish embryo and larva development

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Results for lhx3+lhx4

Z-value: 1.43

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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	0.91	6.5e-04	Click!
LHX3	dr11_v1_chr5_+_71802014_71802014	0.87	2.2e-03	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
chr25_+_31276842 Show fit	5.09	ENSDART00000187238	tnni2a.4 NCBI UniProt Show fit	troponin I type 2a (skeletal, fast), tandem duplicate 4
chr9_+_34641237 Show fit	4.34	ENSDART00000133996	shox NCBI UniProt Show fit	short stature homeobox
chr4_+_9669717 Show fit	4.05	ENSDART00000004604	si:dkey-153k10.9 NCBI UniProt Show fit	si:dkey-153k10.9
chr9_-_22099536 Show fit	3.79	ENSDART00000101923	CR391987.1 NCBI UniProt Show fit
chr3_+_26145013 Show fit	2.99	ENSDART00000162546 ENSDART00000129561	atp2a1 NCBI UniProt Show fit	ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 1
chr17_+_15433518 Show fit	2.98	ENSDART00000026180	fabp7a NCBI UniProt Show fit	fatty acid binding protein 7, brain, a
chr13_+_24279021 Show fit	2.92	ENSDART00000058629	acta1b NCBI UniProt Show fit	actin, alpha 1b, skeletal muscle
chr20_-_48485354 Show fit	2.86	ENSDART00000124040 ENSDART00000148437	insm1a NCBI UniProt Show fit	insulinoma-associated 1a
chr17_+_15433671 Show fit	2.84	ENSDART00000149568	fabp7a NCBI UniProt Show fit	fatty acid binding protein 7, brain, a
chr14_+_46313396 Show fit	2.51	ENSDART00000047525	cryba1l1 NCBI UniProt Show fit	crystallin, beta A1, like 1

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
0.2	6.3	GO:0003009	skeletal muscle contraction(GO:0003009)
0.1	4.5	GO:0030282	bone mineralization(GO:0030282)
0.0	3.8	GO:0048747	muscle fiber development(GO:0048747)
0.7	3.0	GO:0014724	regulation of twitch skeletal muscle contraction(GO:0014724) regulation of fast-twitch skeletal muscle fiber contraction(GO:0031446) positive regulation of fast-twitch skeletal muscle fiber contraction(GO:0031448) negative regulation of striated muscle contraction(GO:0045988) relaxation of skeletal muscle(GO:0090076)
0.4	2.9	GO:0060221	retinal rod cell differentiation(GO:0060221)
0.1	2.9	GO:0055064	chloride ion homeostasis(GO:0055064)
0.3	2.7	GO:0030279	negative regulation of ossification(GO:0030279)
0.1	2.6	GO:0042149	cellular response to glucose starvation(GO:0042149)
0.1	2.3	GO:0014059	dopamine secretion(GO:0014046) regulation of dopamine secretion(GO:0014059)
0.0	2.2	GO:0006414	translational elongation(GO:0006414)

Showing 1 to 10 of 121 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	6.3	GO:0005861	troponin complex(GO:0005861)
0.7	3.0	GO:0031673	H zone(GO:0031673)
0.2	2.9	GO:0005869	dynactin complex(GO:0005869)
0.1	2.9	GO:0017053	transcriptional repressor complex(GO:0017053)
0.2	2.6	GO:0031588	nucleotide-activated protein kinase complex(GO:0031588)
0.0	2.2	GO:0005884	actin filament(GO:0005884)
0.0	2.1	GO:0005635	nuclear envelope(GO:0005635)
0.3	1.9	GO:0070032	synaptobrevin 2-SNAP-25-syntaxin-1a-complexin I complex(GO:0070032)
0.0	1.5	GO:0016605	PML body(GO:0016605)
0.0	1.5	GO:0005581	collagen trimer(GO:0005581)

Showing 1 to 10 of 41 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	26.8	GO:0000981	RNA polymerase II transcription factor activity, sequence-specific DNA binding(GO:0000981)
0.4	5.8	GO:0005504	fatty acid binding(GO:0005504)
0.4	3.1	GO:0036122	BMP binding(GO:0036122)
0.2	3.0	GO:0008553	hydrogen-exporting ATPase activity, phosphorylative mechanism(GO:0008553)
0.1	2.6	GO:0016208	AMP binding(GO:0016208)
0.0	2.5	GO:0005212	structural constituent of eye lens(GO:0005212)
0.0	2.5	GO:0001227	transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001227)
0.0	2.2	GO:0003746	translation elongation factor activity(GO:0003746)
0.0	2.0	GO:0042803	protein homodimerization activity(GO:0042803)
0.6	1.9	GO:0001605	adrenomedullin receptor activity(GO:0001605) calcitonin gene-related peptide receptor activity(GO:0001635)

Showing 1 to 10 of 91 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	2.1	NABA ECM AFFILIATED	Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
0.0	2.0	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.1	1.9	PID INTEGRIN2 PATHWAY	Beta2 integrin cell surface interactions
0.0	1.0	PID HIF1 TFPATHWAY	HIF-1-alpha transcription factor network
0.0	0.8	PID ATF2 PATHWAY	ATF-2 transcription factor network
0.0	0.7	PID GLYPICAN 1PATHWAY	Glypican 1 network
0.0	0.7	PID MYC ACTIV PATHWAY	Validated targets of C-MYC transcriptional activation
0.1	0.6	PID VEGF VEGFR PATHWAY	VEGF and VEGFR signaling network
0.0	0.4	PID EPHA FWDPATHWAY	EPHA forward signaling
0.0	0.3	SA FAS SIGNALING	The TNF-type receptor Fas induces apoptosis on ligand binding.

Showing 1 to 10 of 11 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	3.0	REACTOME PLATELET CALCIUM HOMEOSTASIS	Genes involved in Platelet calcium homeostasis
0.1	2.4	REACTOME AMINE COMPOUND SLC TRANSPORTERS	Genes involved in Amine compound SLC transporters
0.1	1.9	REACTOME AMYLOIDS	Genes involved in Amyloids
0.0	1.2	REACTOME CLASS B 2 SECRETIN FAMILY RECEPTORS	Genes involved in Class B/2 (Secretin family receptors)
0.0	1.0	REACTOME METAL ION SLC TRANSPORTERS	Genes involved in Metal ion SLC transporters
0.1	0.8	REACTOME P130CAS LINKAGE TO MAPK SIGNALING FOR INTEGRINS	Genes involved in p130Cas linkage to MAPK signaling for integrins
0.1	0.7	REACTOME FACILITATIVE NA INDEPENDENT GLUCOSE TRANSPORTERS	Genes involved in Facilitative Na+-independent glucose transporters
0.1	0.7	REACTOME ACTIVATION OF BH3 ONLY PROTEINS	Genes involved in Activation of BH3-only proteins
0.0	0.7	REACTOME NETRIN1 SIGNALING	Genes involved in Netrin-1 signaling
0.1	0.6	REACTOME VEGF LIGAND RECEPTOR INTERACTIONS	Genes involved in VEGF ligand-receptor interactions

Showing 1 to 10 of 22 entries

Results for lhx3+lhx4

Z-value: 1.43

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: