ISMARA results: Pbx1

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Pbx1_Pbx3

Z-value: 1.52

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Transcription factors associated with Pbx1_Pbx3

Gene Symbol	Gene ID	Gene Info
Pbx1 NCBI RGD Ensembl	ENSRNOG00000004693	PBX homeobox 1
Pbx3 NCBI RGD Ensembl	ENSRNOG00000022162	PBX homeobox 3

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Pbx1	rn6_v1_chr13_-_86451002_86451002	0.35	1.5e-10	Click!
Pbx3	rn6_v1_chr3_-_13525983_13525983	-0.04	5.2e-01	Click!

Activity profile of Pbx1_Pbx3 motif

Sorted Z-values of Pbx1_Pbx3 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr19_+_55669626 Show fit	121.20	ENSRNOT00000033352	Cdh15 NCBI RGD Ensembl Show fit	cadherin 15
chrX_+_107496072 Show fit	72.86	ENSRNOT00000003283	Plp1 NCBI RGD Ensembl Show fit	proteolipid protein 1
chr17_+_10384511 Show fit	55.99	ENSRNOT00000024357	Sncb NCBI RGD Ensembl Show fit	synuclein, beta
chrX_-_64726210 Show fit	52.67	ENSRNOT00000076012 ENSRNOT00000086265	Asb12 NCBI RGD Ensembl Show fit	ankyrin repeat and SOCS box-containing 12
chr17_+_41798783 Show fit	48.74	ENSRNOT00000023519	Nrsn1 NCBI RGD Ensembl Show fit	neurensin 1
chr6_+_58468155 Show fit	42.37	ENSRNOT00000091263	Etv1 NCBI RGD Ensembl Show fit	ets variant 1
chr5_+_58393603 Show fit	40.04	ENSRNOT00000080082	Dnajb5 NCBI RGD Ensembl Show fit	DnaJ heat shock protein family (Hsp40) member B5
chr5_+_43603043 Show fit	39.58	ENSRNOT00000009899	Epha7 NCBI RGD Ensembl Show fit	Eph receptor A7
chrX_-_64715823 Show fit	39.22	ENSRNOT00000076297	Asb12 NCBI RGD Ensembl Show fit	ankyrin repeat and SOCS box-containing 12
chr18_+_56193978 Show fit	37.58	ENSRNOT00000041533 ENSRNOT00000080177	Camk2a NCBI RGD Ensembl Show fit	calcium/calmodulin-dependent protein kinase II alpha

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Pbx1_Pbx3

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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
0.6	91.4	GO:0007156	homophilic cell adhesion via plasma membrane adhesion molecules(GO:0007156)
4.9	72.9	GO:0042759	long-chain fatty acid biosynthetic process(GO:0042759)
0.1	66.2	GO:0016567	protein ubiquitination(GO:0016567)
15.9	63.7	GO:0060354	negative regulation of cell adhesion molecule production(GO:0060354)
0.6	57.8	GO:0006986	response to unfolded protein(GO:0006986)
18.6	55.7	GO:0003065	positive regulation of heart rate by epinephrine(GO:0003065)
1.0	54.0	GO:0042417	dopamine metabolic process(GO:0042417)
7.0	48.9	GO:0043456	regulation of pentose-phosphate shunt(GO:0043456)
11.2	44.9	GO:0090361	platelet-derived growth factor production(GO:0090360) regulation of platelet-derived growth factor production(GO:0090361)
3.7	43.9	GO:0048935	peripheral nervous system neuron differentiation(GO:0048934) peripheral nervous system neuron development(GO:0048935)

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
2.0	176.1	GO:0031594	neuromuscular junction(GO:0031594)
0.7	155.3	GO:0030426	growth cone(GO:0030426)
13.1	91.6	GO:0005862	muscle thin filament tropomyosin(GO:0005862)
0.3	71.8	GO:0043209	myelin sheath(GO:0043209)
1.8	63.7	GO:0046930	pore complex(GO:0046930)
0.0	42.4	GO:0005829	cytosol(GO:0005829)
9.4	37.6	GO:0099522	region of cytosol(GO:0099522) postsynaptic cytosol(GO:0099524)
6.9	34.5	GO:0070695	FHF complex(GO:0070695)
5.5	33.3	GO:1990712	HFE-transferrin receptor complex(GO:1990712)
0.6	32.6	GO:0000315	organellar large ribosomal subunit(GO:0000315) mitochondrial large ribosomal subunit(GO:0005762)

Showing 1 to 10 of 79 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	105.1	GO:0005509	calcium ion binding(GO:0005509)
2.2	102.2	GO:0008307	structural constituent of muscle(GO:0008307)
6.7	80.7	GO:0019911	structural constituent of myelin sheath(GO:0019911)
0.8	74.7	GO:0051082	unfolded protein binding(GO:0051082)
4.6	63.7	GO:0015250	water channel activity(GO:0015250)
0.1	59.6	GO:0001228	transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001228)
5.6	56.0	GO:1903136	cuprous ion binding(GO:1903136)
12.2	48.9	GO:0004082	bisphosphoglycerate mutase activity(GO:0004082) phosphoglycerate mutase activity(GO:0004619) 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase activity(GO:0046538)
4.0	39.6	GO:0005004	GPI-linked ephrin receptor activity(GO:0005004)
3.3	39.6	GO:0009931	calcium-dependent protein serine/threonine kinase activity(GO:0009931)

Showing 1 to 10 of 101 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	45.2	PID BMP PATHWAY	BMP receptor signaling
1.6	42.4	PID P38 MK2 PATHWAY	p38 signaling mediated by MAPKAP kinases
1.4	37.6	ST WNT CA2 CYCLIC GMP PATHWAY	Wnt/Ca2+/cyclic GMP signaling.
0.8	33.8	PID ALPHA SYNUCLEIN PATHWAY	Alpha-synuclein signaling
1.1	31.6	PID EPHA FWDPATHWAY	EPHA forward signaling
0.2	28.0	NABA ECM AFFILIATED	Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins
1.4	25.8	PID LPA4 PATHWAY	LPA4-mediated signaling events
0.7	22.3	PID HDAC CLASSIII PATHWAY	Signaling events mediated by HDAC Class III
0.3	20.0	PID MYC REPRESS PATHWAY	Validated targets of C-MYC transcriptional repression
0.3	19.5	PID P53 REGULATION PATHWAY	p53 pathway

Showing 1 to 10 of 26 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
4.3	121.2	REACTOME ADHERENS JUNCTIONS INTERACTIONS	Genes involved in Adherens junctions interactions
0.4	97.0	REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION	Genes involved in Antigen processing: Ubiquitination & Proteasome degradation
3.4	91.6	REACTOME SMOOTH MUSCLE CONTRACTION	Genes involved in Smooth Muscle Contraction
5.3	63.7	REACTOME PASSIVE TRANSPORT BY AQUAPORINS	Genes involved in Passive Transport by Aquaporins
3.4	51.5	REACTOME CREB PHOSPHORYLATION THROUGH THE ACTIVATION OF CAMKII	Genes involved in CREB phosphorylation through the activation of CaMKII
1.8	49.6	REACTOME DARPP 32 EVENTS	Genes involved in DARPP-32 events
0.9	37.3	REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION	Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression
1.0	34.0	REACTOME GLYCOLYSIS	Genes involved in Glycolysis
2.7	32.6	REACTOME SYNTHESIS OF BILE ACIDS AND BILE SALTS VIA 24 HYDROXYCHOLESTEROL	Genes involved in Synthesis of bile acids and bile salts via 24-hydroxycholesterol
1.8	29.5	REACTOME FORMATION OF ATP BY CHEMIOSMOTIC COUPLING	Genes involved in Formation of ATP by chemiosmotic coupling

Showing 1 to 10 of 44 entries

Results for Pbx1_Pbx3

Z-value: 1.52

Motif logo

Transcription factors associated with Pbx1_Pbx3

Activity-expression correlation:

Activity profile of Pbx1_Pbx3 motif

Sorted Z-values of Pbx1_Pbx3 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Pbx1_Pbx3

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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: