ISMARA results: tbr1b_tbx16+tbx16l+tbx2a+tbx2b

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PRJNA195909:zebrafish embryo and larva development

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Results for tbr1b_tbx16+tbx16l+tbx2a+tbx2b

Z-value: 2.45

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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
tbx2b	dr11_v1_chr15_+_27364394_27364394	-0.93	2.7e-04	Click!
tbr1b	dr11_v1_chr9_-_51436377_51436377	-0.93	3.1e-04	Click!
tbx2a	dr11_v1_chr5_-_56513825_56513825	-0.91	7.0e-04	Click!
tbx16	dr11_v1_chr8_-_51753604_51753604	0.46	2.1e-01	Click!
tbx6l	dr11_v1_chr5_+_42280372_42280372	-0.18	6.5e-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	7.92	ENSDART00000184663	LT631684.2 NCBI UniProt Show fit
chr1_-_49521407 Show fit	5.27	ENSDART00000189845 ENSDART00000143474	zp3c NCBI UniProt Show fit	zona pellucida glycoprotein 3c
chr12_-_14143344 Show fit	4.42	ENSDART00000152742	buc2l NCBI UniProt Show fit	bucky ball 2-like
chr22_+_25715925 Show fit	4.10	ENSDART00000150650	si:dkeyp-98a7.7 NCBI UniProt Show fit	si:dkeyp-98a7.7
chr22_+_25681911 Show fit	4.06	ENSDART00000113381	si:dkeyp-98a7.3 NCBI UniProt Show fit	si:dkeyp-98a7.3
chr22_+_25704430 Show fit	3.98	ENSDART00000143776	si:dkeyp-98a7.3 NCBI UniProt Show fit	si:dkeyp-98a7.3
chr19_-_34999379 Show fit	3.88	ENSDART00000051751	zgc:113424 NCBI UniProt Show fit	zgc:113424
chr22_+_25693295 Show fit	3.86	ENSDART00000123888 ENSDART00000150783	si:dkeyp-98a7.4 NCBI UniProt Show fit si:dkeyp-98a7.3 NCBI UniProt Show fit	si:dkeyp-98a7.4 si:dkeyp-98a7.3
chr22_+_25687525 Show fit	3.85	ENSDART00000135717	si:dkeyp-98a7.3 NCBI UniProt Show fit	si:dkeyp-98a7.3
chr15_-_1590858 Show fit	3.83	ENSDART00000081875	nnr NCBI UniProt Show fit	nanor

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
0.0	8.8	GO:0006511	ubiquitin-dependent protein catabolic process(GO:0006511)
0.4	6.8	GO:0035803	binding of sperm to zona pellucida(GO:0007339) egg coat formation(GO:0035803) regulation of acrosome reaction(GO:0060046) positive regulation of acrosome reaction(GO:2000344)
1.0	6.1	GO:0097101	blood vessel endothelial cell fate specification(GO:0097101)
2.0	6.0	GO:0090008	hypoblast development(GO:0090008)
1.1	5.6	GO:0007344	karyogamy(GO:0000741) pronuclear fusion(GO:0007344)
0.0	5.4	GO:0008380	RNA splicing(GO:0008380)
0.2	5.0	GO:0035469	determination of pancreatic left/right asymmetry(GO:0035469)
0.0	4.6	GO:0016567	protein ubiquitination(GO:0016567)
0.2	4.2	GO:0008078	mesodermal cell migration(GO:0008078)
0.1	3.7	GO:0050821	protein stabilization(GO:0050821)

Showing 1 to 10 of 322 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	8.0	GO:0005730	nucleolus(GO:0005730)
0.0	5.7	GO:0010008	endosome membrane(GO:0010008)
0.0	5.2	GO:0009897	external side of plasma membrane(GO:0009897)
0.1	5.1	GO:0031965	nuclear membrane(GO:0031965)
0.1	4.2	GO:0010494	cytoplasmic stress granule(GO:0010494)
0.0	4.2	GO:0019005	SCF ubiquitin ligase complex(GO:0019005)
0.2	4.0	GO:0000164	protein phosphatase type 1 complex(GO:0000164)
0.7	3.6	GO:1990923	PET complex(GO:1990923)
0.7	3.6	GO:0033596	TSC1-TSC2 complex(GO:0033596)
0.0	3.6	GO:0016607	nuclear speck(GO:0016607)

Showing 1 to 10 of 132 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	31.8	GO:0030246	carbohydrate binding(GO:0030246)
0.0	9.1	GO:0046983	protein dimerization activity(GO:0046983)
0.0	9.0	GO:0004674	protein serine/threonine kinase activity(GO:0004674)
0.7	8.8	GO:0070697	activin receptor binding(GO:0070697)
0.4	6.8	GO:0032190	acrosin binding(GO:0032190)
0.1	4.4	GO:0001227	transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001227)
1.0	4.2	GO:0051059	NF-kappaB binding(GO:0051059)
0.2	4.1	GO:0002039	p53 binding(GO:0002039)
0.6	4.0	GO:0035613	RNA stem-loop binding(GO:0035613)
0.3	4.0	GO:2001069	glycogen binding(GO:2001069)

Showing 1 to 10 of 212 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	4.5	PID SMAD2 3NUCLEAR PATHWAY	Regulation of nuclear SMAD2/3 signaling
0.1	4.2	PID ATR PATHWAY	ATR signaling pathway
0.1	4.1	PID PLK1 PATHWAY	PLK1 signaling events
0.2	4.0	PID GLYPICAN 1PATHWAY	Glypican 1 network
0.3	3.8	PID LPA4 PATHWAY	LPA4-mediated signaling events
0.1	3.2	PID ECADHERIN KERATINOCYTE PATHWAY	E-cadherin signaling in keratinocytes
0.0	2.9	PID BETA CATENIN NUC PATHWAY	Regulation of nuclear beta catenin signaling and target gene transcription
0.1	2.4	PID HEDGEHOG GLI PATHWAY	Hedgehog signaling events mediated by Gli proteins
0.1	2.3	PID P38 MKK3 6PATHWAY	p38 MAPK signaling pathway
0.1	1.9	SA PTEN PATHWAY	PTEN is a tumor suppressor that dephosphorylates the lipid messenger phosphatidylinositol triphosphate.

Showing 1 to 10 of 48 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.7	7.2	REACTOME SIGNALING BY NODAL	Genes involved in Signaling by NODAL
0.0	7.2	REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION	Genes involved in Antigen processing: Ubiquitination & Proteasome degradation
0.3	3.8	REACTOME ADENYLATE CYCLASE ACTIVATING PATHWAY	Genes involved in Adenylate cyclase activating pathway
0.1	2.9	REACTOME ION TRANSPORT BY P TYPE ATPASES	Genes involved in Ion transport by P-type ATPases
0.1	2.8	REACTOME SMAD2 SMAD3 SMAD4 HETEROTRIMER REGULATES TRANSCRIPTION	Genes involved in SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription
0.1	2.1	REACTOME CDC6 ASSOCIATION WITH THE ORC ORIGIN COMPLEX	Genes involved in CDC6 association with the ORC:origin complex
0.1	1.8	REACTOME SYNTHESIS OF PIPS AT THE PLASMA MEMBRANE	Genes involved in Synthesis of PIPs at the plasma membrane
0.1	1.7	REACTOME SYNTHESIS OF PA	Genes involved in Synthesis of PA
0.0	1.6	REACTOME MYOGENESIS	Genes involved in Myogenesis
0.1	1.5	REACTOME N GLYCAN ANTENNAE ELONGATION IN THE MEDIAL TRANS GOLGI	Genes involved in N-glycan antennae elongation in the medial/trans-Golgi

Showing 1 to 10 of 64 entries

Results for tbr1b_tbx16+tbx16l+tbx2a+tbx2b

Z-value: 2.45

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: