ISMARA results: tbr1b_tbx16+tbx16l+tbx2a+tbx2b

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PRJNA207719: Tissue specific transcriptome profiling

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Results for tbr1b_tbx16+tbx16l+tbx2a+tbx2b

Z-value: 1.85

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Transcription factors associated with tbr1b_tbx16+tbx16l+tbx2a+tbx2b

Gene Symbol	Gene ID	Gene Info
tbr1b NCBI UniProt	ENSDARG00000004712	T-box brain transcription factor 1b
tbx2b NCBI UniProt	ENSDARG00000006120	T-box transcription factor 2b
tbx16l NCBI UniProt	ENSDARG00000006939	T-box transcription factor 16, like
tbx16 NCBI UniProt	ENSDARG00000007329	T-box transcription factor 16
tbx2a NCBI UniProt	ENSDARG00000018025	T-box transcription factor 2a
tbx2a NCBI UniProt	ENSDARG00000109541	T-box transcription factor 2a
tbx2b NCBI UniProt	ENSDARG00000116135	T-box transcription factor 2b

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
tbr1b	dr11_v1_chr9_-_51436377_51436377	-0.95	1.1e-02	Click!
tbx16	dr11_v1_chr8_-_51753604_51753604	-0.95	1.4e-02	Click!
tbx2b	dr11_v1_chr15_+_27364394_27364394	-0.84	7.5e-02	Click!
tbx2a	dr11_v1_chr5_-_56513825_56513825	-0.47	4.3e-01	Click!
tbx6l	dr11_v1_chr5_+_42280372_42280372	-0.10	8.7e-01	Click!

Activity profile of tbr1b_tbx16+tbx16l+tbx2a+tbx2b motif

Sorted Z-values of tbr1b_tbx16+tbx16l+tbx2a+tbx2b motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr13_-_51846224 Show fit	2.59	ENSDART00000184663	LT631684.2 NCBI UniProt Show fit
chr17_+_26965351 Show fit	2.12	ENSDART00000114215 ENSDART00000147192	grhl3 NCBI UniProt Show fit	grainyhead-like transcription factor 3
chr6_+_56141852 Show fit	1.64	ENSDART00000149665	tfap2c NCBI UniProt Show fit	transcription factor AP-2 gamma (activating enhancer binding protein 2 gamma)
chr19_+_791538 Show fit	1.57	ENSDART00000146554 ENSDART00000138406	tmem79a NCBI UniProt Show fit	transmembrane protein 79a
chr23_+_23232136 Show fit	1.51	ENSDART00000126479 ENSDART00000187764	plekhn1 NCBI UniProt Show fit	pleckstrin homology domain containing, family N member 1
chr22_+_661711 Show fit	1.49	ENSDART00000113795	elf3 NCBI UniProt Show fit	E74-like factor 3 (ets domain transcription factor, epithelial-specific )
chr19_+_7735157 Show fit	1.46	ENSDART00000186717	tuft1b NCBI UniProt Show fit	tuftelin 1b
chr19_-_7420867 Show fit	1.44	ENSDART00000081741	rab25a NCBI UniProt Show fit	RAB25, member RAS oncogene family a
chr7_+_38750871 Show fit	1.37	ENSDART00000114238 ENSDART00000052325 ENSDART00000137001	f2 NCBI UniProt Show fit	coagulation factor II (thrombin)
chr2_+_36007449 Show fit	1.34	ENSDART00000161837	lamc2 NCBI UniProt Show fit	laminin, gamma 2

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of tbr1b_tbx16+tbx16l+tbx2a+tbx2b

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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
0.1	2.6	GO:0008078	mesodermal cell migration(GO:0008078)
0.1	2.1	GO:0048247	lymphocyte chemotaxis(GO:0048247)
0.1	2.0	GO:0060325	face morphogenesis(GO:0060325)
0.0	1.9	GO:0032355	response to estradiol(GO:0032355)
0.0	1.8	GO:0031101	fin regeneration(GO:0031101)
0.0	1.8	GO:0009617	response to bacterium(GO:0009617)
0.2	1.7	GO:0002526	acute inflammatory response(GO:0002526) acute-phase response(GO:0006953)
0.0	1.7	GO:0099515	vesicle transport along actin filament(GO:0030050) actin filament-based transport(GO:0099515)
0.1	1.6	GO:0014036	neural crest cell fate commitment(GO:0014034) neural crest cell fate specification(GO:0014036)
0.4	1.5	GO:0061158	3'-UTR-mediated mRNA destabilization(GO:0061158)

Showing 1 to 10 of 233 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	3.6	GO:0005882	intermediate filament(GO:0005882)
0.1	1.7	GO:0030057	desmosome(GO:0030057)
0.0	1.7	GO:0016324	apical plasma membrane(GO:0016324)
0.1	1.5	GO:0032588	trans-Golgi network membrane(GO:0032588)
0.0	1.4	GO:0022627	cytosolic small ribosomal subunit(GO:0022627)
0.0	1.3	GO:0005902	microvillus(GO:0005902)
0.0	1.3	GO:0005793	endoplasmic reticulum-Golgi intermediate compartment(GO:0005793)
0.0	1.3	GO:0022625	cytosolic large ribosomal subunit(GO:0022625)
0.0	1.0	GO:0030667	secretory granule membrane(GO:0030667)
0.0	0.9	GO:0031941	filamentous actin(GO:0031941)

Showing 1 to 10 of 74 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	5.9	GO:0030246	carbohydrate binding(GO:0030246)
0.0	4.6	GO:0004252	serine-type endopeptidase activity(GO:0004252)
0.0	2.8	GO:0001228	transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001228)
0.1	2.2	GO:0048020	CCR chemokine receptor binding(GO:0048020)
0.5	2.1	GO:0051059	NF-kappaB binding(GO:0051059)
0.0	2.1	GO:0003735	structural constituent of ribosome(GO:0003735)
0.0	1.9	GO:0000146	microfilament motor activity(GO:0000146)
0.0	1.9	GO:0004896	cytokine receptor activity(GO:0004896)
0.2	1.6	GO:0045735	nutrient reservoir activity(GO:0045735)
0.0	1.6	GO:0005164	tumor necrosis factor receptor binding(GO:0005164)

Showing 1 to 10 of 156 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	2.6	PID HNF3B PATHWAY	FOXA2 and FOXA3 transcription factor networks
0.1	2.5	PID TAP63 PATHWAY	Validated transcriptional targets of TAp63 isoforms
0.1	1.9	PID GLYPICAN 1PATHWAY	Glypican 1 network
0.1	1.6	PID ECADHERIN KERATINOCYTE PATHWAY	E-cadherin signaling in keratinocytes
0.2	1.4	PID THROMBIN PAR4 PATHWAY	PAR4-mediated thrombin signaling events
0.1	1.3	PID INTEGRIN4 PATHWAY	Alpha6 beta4 integrin-ligand interactions
0.0	1.2	PID REG GR PATHWAY	Glucocorticoid receptor regulatory network
0.0	1.2	PID TCR PATHWAY	TCR signaling in naïve CD4+ T cells
0.0	1.1	PID ATR PATHWAY	ATR signaling pathway
0.0	1.0	PID SMAD2 3NUCLEAR PATHWAY	Regulation of nuclear SMAD2/3 signaling

Showing 1 to 10 of 38 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	1.7	REACTOME REGULATION OF INSULIN LIKE GROWTH FACTOR IGF ACTIVITY BY INSULIN LIKE GROWTH FACTOR BINDING PROTEINS IGFBPS	Genes involved in Regulation of Insulin-like Growth Factor (IGF) Activity by Insulin-like Growth Factor Binding Proteins (IGFBPs)
0.0	1.5	REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX	Genes involved in Formation of the ternary complex, and subsequently, the 43S complex
0.2	1.3	REACTOME EXTRINSIC PATHWAY FOR APOPTOSIS	Genes involved in Extrinsic Pathway for Apoptosis
0.0	1.3	REACTOME PEPTIDE CHAIN ELONGATION	Genes involved in Peptide chain elongation
0.1	1.2	REACTOME REGULATION OF GENE EXPRESSION IN BETA CELLS	Genes involved in Regulation of gene expression in beta cells
0.0	1.2	REACTOME CELL JUNCTION ORGANIZATION	Genes involved in Cell junction organization
0.3	1.0	REACTOME APOPTOTIC CLEAVAGE OF CELL ADHESION PROTEINS	Genes involved in Apoptotic cleavage of cell adhesion proteins
0.0	1.0	REACTOME CYTOCHROME P450 ARRANGED BY SUBSTRATE TYPE	Genes involved in Cytochrome P450 - arranged by substrate type
0.0	1.0	REACTOME G0 AND EARLY G1	Genes involved in G0 and Early G1
0.1	0.9	REACTOME SIGNALING BY NODAL	Genes involved in Signaling by NODAL

Showing 1 to 10 of 45 entries

Results for tbr1b_tbx16+tbx16l+tbx2a+tbx2b

Z-value: 1.85

Motif logo

Transcription factors associated with tbr1b_tbx16+tbx16l+tbx2a+tbx2b

Activity-expression correlation:

Activity profile of tbr1b_tbx16+tbx16l+tbx2a+tbx2b motif

Sorted Z-values of tbr1b_tbx16+tbx16l+tbx2a+tbx2b motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of tbr1b_tbx16+tbx16l+tbx2a+tbx2b

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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: