ISMARA results: rcor1+rcor2+rcor3

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PRJEB1986: zebrafish developmental stages transcriptome

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Results for rcor1+rcor2+rcor3

Z-value: 0.83

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Transcription factors associated with rcor1+rcor2+rcor3

Gene Symbol	Gene ID	Gene Info
rcor3 NCBI UniProt	ENSDARG00000004502	REST corepressor 3
rcor2 NCBI UniProt	ENSDARG00000008278	REST corepressor 2
rcor1 NCBI UniProt	ENSDARG00000031434	REST corepressor 1

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
rcor2	dr11_v1_chr7_-_24995631_24995640	0.68	1.5e-03	Click!
rcor3	dr11_v1_chr22_+_38276024_38276024	0.65	2.5e-03	Click!
rcor1	dr11_v1_chr17_-_29271359_29271359	0.52	2.3e-02	Click!

Activity profile of rcor1+rcor2+rcor3 motif

Sorted Z-values of rcor1+rcor2+rcor3 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr2_-_56095275 Show fit	0.86	ENSDART00000154701	si:ch211-178n15.1 NCBI UniProt Show fit	si:ch211-178n15.1
chr3_+_41917499 Show fit	0.80	ENSDART00000028673	lfng NCBI UniProt Show fit	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase
chr3_-_62527675 Show fit	0.78	ENSDART00000155048 ENSDART00000064500	sox9b NCBI UniProt Show fit	SRY (sex determining region Y)-box 9b
chr1_-_59571758 Show fit	0.71	ENSDART00000193546 ENSDART00000167087	wfikkn1 NCBI UniProt Show fit	WAP, follistatin/kazal, immunoglobulin, kunitz and netrin domain containing 1
chr7_+_21752168 Show fit	0.68	ENSDART00000173641	kdm6ba NCBI UniProt Show fit	lysine (K)-specific demethylase 6B, a
chr8_-_36554675 Show fit	0.68	ENSDART00000132804 ENSDART00000078746	ccdc157 NCBI UniProt Show fit	coiled-coil domain containing 157
chr11_+_14937904 Show fit	0.68	ENSDART00000185103	CR550302.3 NCBI UniProt Show fit
chr17_+_1514711 Show fit	0.67	ENSDART00000165641	akt1 NCBI UniProt Show fit	v-akt murine thymoma viral oncogene homolog 1
chr22_+_569565 Show fit	0.66	ENSDART00000037069	usp49 NCBI UniProt Show fit	ubiquitin specific peptidase 49
chr5_+_22098591 Show fit	0.64	ENSDART00000143676	zc3h12b NCBI UniProt Show fit	zinc finger CCCH-type containing 12B

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of rcor1+rcor2+rcor3

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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	1.0	GO:0031047	gene silencing by RNA(GO:0031047)
0.2	0.8	GO:0061032	visceral serous pericardium development(GO:0061032)
0.2	0.8	GO:0007412	axon target recognition(GO:0007412)
0.1	0.8	GO:0055016	hypochord development(GO:0055016)
0.0	0.8	GO:0031122	cytoplasmic microtubule organization(GO:0031122)
0.1	0.7	GO:0071557	histone H3-K27 demethylation(GO:0071557)
0.0	0.7	GO:0043491	protein kinase B signaling(GO:0043491)
0.2	0.6	GO:0010610	regulation of mRNA stability involved in response to stress(GO:0010610) regulation of mRNA stability involved in response to oxidative stress(GO:2000815)
0.1	0.6	GO:1901881	positive regulation of protein depolymerization(GO:1901881)
0.0	0.6	GO:0044154	histone H3-K14 acetylation(GO:0044154)

Showing 1 to 10 of 77 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.8	GO:0030173	integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228)
0.0	0.7	GO:0044666	MLL3/4 complex(GO:0044666)
0.1	0.6	GO:0031332	RISC complex(GO:0016442) RNAi effector complex(GO:0031332)
0.0	0.6	GO:0071014	post-mRNA release spliceosomal complex(GO:0071014)
0.0	0.6	GO:0070775	H3 histone acetyltransferase complex(GO:0070775) MOZ/MORF histone acetyltransferase complex(GO:0070776)
0.0	0.6	GO:0035861	site of double-strand break(GO:0035861)
0.2	0.5	GO:0031213	RSF complex(GO:0031213)
0.1	0.5	GO:0070209	ASTRA complex(GO:0070209)
0.1	0.5	GO:0035060	brahma complex(GO:0035060)
0.0	0.5	GO:0071144	SMAD2-SMAD3 protein complex(GO:0071144)

Showing 1 to 10 of 28 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	1.0	GO:0004521	endoribonuclease activity(GO:0004521)
0.2	0.8	GO:0033829	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity(GO:0033829)
0.1	0.7	GO:0071558	histone demethylase activity (H3-K27 specific)(GO:0071558)
0.1	0.7	GO:0008191	metalloendopeptidase inhibitor activity(GO:0008191)
0.0	0.7	GO:0031491	nucleosome binding(GO:0031491)
0.1	0.6	GO:0019215	intermediate filament binding(GO:0019215)
0.0	0.6	GO:0043994	H3 histone acetyltransferase activity(GO:0010484) histone acetyltransferase activity (H3-K23 specific)(GO:0043994)
0.1	0.5	GO:0061731	ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor(GO:0004748) oxidoreductase activity, acting on CH or CH2 groups, disulfide as acceptor(GO:0016728) ribonucleoside-diphosphate reductase activity(GO:0061731)
0.0	0.5	GO:0070411	I-SMAD binding(GO:0070411)
0.0	0.5	GO:0004707	MAP kinase activity(GO:0004707)

Showing 1 to 10 of 47 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Total log-likelihood	Term	Description
1.2	NABA COLLAGENS	Genes encoding collagen proteins
1.0	PID HEDGEHOG 2PATHWAY	Signaling events mediated by the Hedgehog family
1.0	PID CMYB PATHWAY	C-MYB transcription factor network
0.4	PID NFAT TFPATHWAY	Calcineurin-regulated NFAT-dependent transcription in lymphocytes
0.3	PID HIF1A PATHWAY	Hypoxic and oxygen homeostasis regulation of HIF-1-alpha
0.2	PID S1P S1P4 PATHWAY	S1P4 pathway
0.2	PID INTEGRIN4 PATHWAY	Alpha6 beta4 integrin-ligand interactions
0.2	PID A6B1 A6B4 INTEGRIN PATHWAY	a6b1 and a6b4 Integrin signaling

Showing 1 to 8 of 8 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	1.2	REACTOME COLLAGEN FORMATION	Genes involved in Collagen formation
0.0	0.8	REACTOME PRE NOTCH PROCESSING IN GOLGI	Genes involved in Pre-NOTCH Processing in Golgi
0.1	0.7	REACTOME NEGATIVE REGULATION OF THE PI3K AKT NETWORK	Genes involved in Negative regulation of the PI3K/AKT network
0.0	0.5	REACTOME SYNTHESIS AND INTERCONVERSION OF NUCLEOTIDE DI AND TRIPHOSPHATES	Genes involved in Synthesis and interconversion of nucleotide di- and triphosphates
0.0	0.4	REACTOME DOWNREGULATION OF TGF BETA RECEPTOR SIGNALING	Genes involved in Downregulation of TGF-beta receptor signaling
0.0	0.4	REACTOME EFFECTS OF PIP2 HYDROLYSIS	Genes involved in Effects of PIP2 hydrolysis
0.0	0.3	REACTOME ACTIVATION OF BH3 ONLY PROTEINS	Genes involved in Activation of BH3-only proteins
0.0	0.3	REACTOME INTERACTION BETWEEN L1 AND ANKYRINS	Genes involved in Interaction between L1 and Ankyrins
0.0	0.3	REACTOME BILE SALT AND ORGANIC ANION SLC TRANSPORTERS	Genes involved in Bile salt and organic anion SLC transporters
0.0	0.3	REACTOME YAP1 AND WWTR1 TAZ STIMULATED GENE EXPRESSION	Genes involved in YAP1- and WWTR1 (TAZ)-stimulated gene expression

Showing 1 to 10 of 20 entries

Results for rcor1+rcor2+rcor3

Z-value: 0.83

Motif logo

Transcription factors associated with rcor1+rcor2+rcor3

Activity-expression correlation:

Activity profile of rcor1+rcor2+rcor3 motif

Sorted Z-values of rcor1+rcor2+rcor3 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of rcor1+rcor2+rcor3

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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: