ISMARA results: Tfeb_Usf1_Srebf1_Usf2_Bhlhe41

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Tfeb_Usf1_Srebf1_Usf2_Bhlhe41_Srebf2

Z-value: 1.15

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Transcription factors associated with Tfeb_Usf1_Srebf1_Usf2_Bhlhe41_Srebf2

Gene Symbol	Gene ID	Gene Info
Tfeb NCBI RGD Ensembl	ENSRNOG00000014666	transcription factor EB
Usf1 NCBI RGD Ensembl	ENSRNOG00000004255	upstream transcription factor 1
Srebf1 NCBI RGD Ensembl	ENSRNOG00000003463	sterol regulatory element binding transcription factor 1
Usf2 NCBI RGD Ensembl	ENSRNOG00000053725	upstream transcription factor 2, c-fos interacting
Bhlhe41 NCBI RGD Ensembl	ENSRNOG00000048961	basic helix-loop-helix family, member e41
Srebf2 NCBI RGD Ensembl	ENSRNOG00000007400	sterol regulatory element binding transcription factor 2

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Tfeb	rn6_v1_chr9_-_15214596_15214596	0.53	3.0e-24	Click!
Usf2	rn6_v1_chr1_-_89382463_89382463	0.37	1.2e-11	Click!
Usf1	rn6_v1_chr13_+_89797800_89797800	0.34	2.5e-10	Click!
Srebf2	rn6_v1_chr7_+_123381077_123381082	0.14	1.5e-02	Click!
Srebf1	rn6_v1_chr10_-_46593009_46593009	0.10	7.3e-02	Click!
Bhlhe41	rn6_v1_chr4_-_180234804_180234804	0.06	3.1e-01	Click!

Activity profile of Tfeb_Usf1_Srebf1_Usf2_Bhlhe41_Srebf2 motif

Sorted Z-values of Tfeb_Usf1_Srebf1_Usf2_Bhlhe41_Srebf2 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr3_+_161298962 Show fit	113.24	ENSRNOT00000066028	Ctsa NCBI RGD Ensembl Show fit	cathepsin A
chr10_+_84135116 Show fit	81.58	ENSRNOT00000031035	Hoxb7 NCBI RGD Ensembl Show fit	homeo box B7
chr3_-_161299024 Show fit	64.76	ENSRNOT00000021216	Neurl2 NCBI RGD Ensembl Show fit	neuralized E3 ubiquitin protein ligase 2
chr7_+_65616177 Show fit	59.56	ENSRNOT00000006566	Gns NCBI RGD Ensembl Show fit	glucosamine (N-acetyl)-6-sulfatase
chr5_-_164844586 Show fit	59.26	ENSRNOT00000011287	Clcn6 NCBI RGD Ensembl Show fit	chloride voltage-gated channel 6
chr7_+_63467216 Show fit	51.95	ENSRNOT00000064349	LOC100909505 NCBI RGD Ensembl Show fit	N-acetylglucosamine-6-sulfatase-like
chr1_+_48176106 Show fit	50.58	ENSRNOT00000021840	Igf2r NCBI RGD Ensembl Show fit	insulin-like growth factor 2 receptor
chr10_-_13536899 Show fit	49.83	ENSRNOT00000008537	Amdhd2 NCBI RGD Ensembl Show fit	amidohydrolase domain containing 2
chr10_+_56610051 Show fit	43.01	ENSRNOT00000024348	Dvl2 NCBI RGD Ensembl Show fit	dishevelled segment polarity protein 2
chrX_-_105417323 Show fit	40.88	ENSRNOT00000015494	Gla NCBI RGD Ensembl Show fit	galactosidase, alpha

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Tfeb_Usf1_Srebf1_Usf2_Bhlhe41_Srebf2

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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
18.9	113.2	GO:1904714	regulation of chaperone-mediated autophagy(GO:1904714)
3.1	81.6	GO:0090190	positive regulation of branching involved in ureteric bud morphogenesis(GO:0090190)
1.6	69.4	GO:1903959	regulation of anion transmembrane transport(GO:1903959)
13.5	67.3	GO:0015889	cobalamin transport(GO:0015889)
8.0	64.0	GO:0046477	glycosylceramide catabolic process(GO:0046477)
4.7	60.9	GO:0060272	embryonic skeletal joint morphogenesis(GO:0060272)
14.9	59.6	GO:0042339	keratan sulfate metabolic process(GO:0042339)
1.6	54.0	GO:0060441	epithelial tube branching involved in lung morphogenesis(GO:0060441)
12.8	51.4	GO:0019262	N-acetylneuraminate catabolic process(GO:0019262)
0.1	48.4	GO:0043547	positive regulation of GTPase activity(GO:0043547)

Showing 1 to 10 of 470 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.2	620.1	GO:0005764	lytic vacuole(GO:0000323) lysosome(GO:0005764)
0.1	326.0	GO:0070062	extracellular exosome(GO:0070062)
0.0	108.0	GO:0016021	integral component of membrane(GO:0016021)
0.2	100.7	GO:0016604	nuclear body(GO:0016604)
0.9	91.6	GO:0016605	PML body(GO:0016605)
0.5	75.6	GO:0005741	mitochondrial outer membrane(GO:0005741)
13.0	64.8	GO:0005927	muscle tendon junction(GO:0005927)
0.2	62.8	GO:0005740	mitochondrial envelope(GO:0005740)
0.3	58.4	GO:0031965	nuclear membrane(GO:0031965)
4.2	42.2	GO:0005641	nuclear envelope lumen(GO:0005641)

Showing 1 to 10 of 206 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.5	144.7	GO:0001077	transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001077)
31.3	125.2	GO:0004185	serine-type carboxypeptidase activity(GO:0004185)
0.2	97.0	GO:0003700	nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700)
3.5	66.9	GO:0005247	voltage-gated chloride channel activity(GO:0005247)
14.9	59.6	GO:0008449	N-acetylglucosamine-6-sulfatase activity(GO:0008449)
0.5	55.4	GO:0017124	SH3 domain binding(GO:0017124)
13.4	53.5	GO:0030984	kininogen binding(GO:0030984)
1.1	50.9	GO:0019213	deacetylase activity(GO:0019213)
0.7	48.2	GO:0032947	protein complex scaffold(GO:0032947)
1.1	48.0	GO:0048365	Rac GTPase binding(GO:0048365)

Showing 1 to 10 of 350 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.6	143.6	NABA ECM REGULATORS	Genes encoding enzymes and their regulators involved in the remodeling of the extracellular matrix
1.2	73.9	PID AP1 PATHWAY	AP-1 transcription factor network
1.0	65.5	PID RAC1 PATHWAY	RAC1 signaling pathway
1.1	47.0	PID FRA PATHWAY	Validated transcriptional targets of AP1 family members Fra1 and Fra2
0.8	41.6	PID LKB1 PATHWAY	LKB1 signaling events
1.7	36.6	PID BETA CATENIN DEG PATHWAY	Degradation of beta catenin
0.9	36.6	PID ECADHERIN STABILIZATION PATHWAY	Stabilization and expansion of the E-cadherin adherens junction
1.9	34.7	SA MMP CYTOKINE CONNECTION	Cytokines can induce activation of matrix metalloproteinases, which degrade extracellular matrix.
0.3	34.3	PID P53 DOWNSTREAM PATHWAY	Direct p53 effectors
0.7	33.7	PID IL12 2PATHWAY	IL12-mediated signaling events

Showing 1 to 10 of 75 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
5.4	209.5	REACTOME GLYCOSPHINGOLIPID METABOLISM	Genes involved in Glycosphingolipid metabolism
1.7	103.7	REACTOME TRANS GOLGI NETWORK VESICLE BUDDING	Genes involved in trans-Golgi Network Vesicle Budding
0.7	87.2	REACTOME MRNA SPLICING	Genes involved in mRNA Splicing
0.4	62.5	REACTOME SIGNALING BY RHO GTPASES	Genes involved in Signaling by Rho GTPases
0.6	61.3	REACTOME PEPTIDE CHAIN ELONGATION	Genes involved in Peptide chain elongation
5.4	59.6	REACTOME KERATAN SULFATE DEGRADATION	Genes involved in Keratan sulfate degradation
2.0	46.8	REACTOME SIGNALING BY HIPPO	Genes involved in Signaling by Hippo
2.2	40.9	REACTOME PROTEOLYTIC CLEAVAGE OF SNARE COMPLEX PROTEINS	Genes involved in Proteolytic cleavage of SNARE complex proteins
1.3	37.3	REACTOME SMAD2 SMAD3 SMAD4 HETEROTRIMER REGULATES TRANSCRIPTION	Genes involved in SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription
2.3	35.1	REACTOME REGULATION OF PYRUVATE DEHYDROGENASE PDH COMPLEX	Genes involved in Regulation of pyruvate dehydrogenase (PDH) complex

Showing 1 to 10 of 125 entries

Results for Tfeb_Usf1_Srebf1_Usf2_Bhlhe41_Srebf2

Z-value: 1.15

Motif logo

Transcription factors associated with Tfeb_Usf1_Srebf1_Usf2_Bhlhe41_Srebf2

Activity-expression correlation:

Activity profile of Tfeb_Usf1_Srebf1_Usf2_Bhlhe41_Srebf2 motif

Sorted Z-values of Tfeb_Usf1_Srebf1_Usf2_Bhlhe41_Srebf2 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Tfeb_Usf1_Srebf1_Usf2_Bhlhe41_Srebf2

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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: