ISMARA results: ctcf

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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for ctcf

Z-value: 0.87

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Transcription factors associated with ctcf

Gene Symbol	Gene ID	Gene Info
ctcf NCBI UniProt	ENSDARG00000056621	CCCTC-binding factor (zinc finger protein)
ctcf NCBI UniProt	ENSDARG00000113285	CCCTC-binding factor (zinc finger protein)

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
ctcf	dr11_v1_chr18_+_22287084_22287188	0.23	3.5e-01	Click!

Activity profile of ctcf motif

Sorted Z-values of ctcf motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr22_-_28777557 Show fit	2.48	ENSDART00000135214 ENSDART00000131761 ENSDART00000005112	si:dkeyp-34c12.1 NCBI UniProt Show fit	si:dkeyp-34c12.1
chr22_-_28777374 Show fit	2.32	ENSDART00000188206	si:dkeyp-34c12.1 NCBI UniProt Show fit	si:dkeyp-34c12.1
chr21_-_19918286 Show fit	2.27	ENSDART00000180816	ppp1r3b NCBI UniProt Show fit	protein phosphatase 1, regulatory subunit 3B
chr5_-_29514689 Show fit	2.26	ENSDART00000126018 ENSDART00000125175	ehmt1a NCBI UniProt Show fit	euchromatic histone-lysine N-methyltransferase 1a
chr14_-_41468892 Show fit	2.14	ENSDART00000173099 ENSDART00000003170	mid1ip1l NCBI UniProt Show fit	MID1 interacting protein 1, like
chr23_-_43595956 Show fit	1.81	ENSDART00000162186	itchb NCBI UniProt Show fit	itchy E3 ubiquitin protein ligase b
chr14_+_22129096 Show fit	1.75	ENSDART00000132514	ccng1 NCBI UniProt Show fit	cyclin G1
chr12_+_31783066 Show fit	1.68	ENSDART00000105584	lrrc59 NCBI UniProt Show fit	leucine rich repeat containing 59
chr11_-_25257595 Show fit	1.66	ENSDART00000123567	snai1a NCBI UniProt Show fit	snail family zinc finger 1a
chr25_+_8921425 Show fit	1.65	ENSDART00000128591	accs NCBI UniProt Show fit	1-aminocyclopropane-1-carboxylate synthase homolog (Arabidopsis)(non-functional)

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of ctcf

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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	2.5	GO:0070936	protein K48-linked ubiquitination(GO:0070936)
0.8	2.3	GO:0005981	regulation of glycogen catabolic process(GO:0005981)
0.0	2.3	GO:0034968	histone lysine methylation(GO:0034968)
0.0	2.2	GO:0032259	methylation(GO:0032259)
0.0	2.1	GO:0046890	regulation of lipid biosynthetic process(GO:0046890)
0.3	1.9	GO:0035092	spermatid nucleus differentiation(GO:0007289) sperm chromatin condensation(GO:0035092) spermatogenesis, exchange of chromosomal proteins(GO:0035093)
0.0	1.8	GO:0009062	fatty acid catabolic process(GO:0009062)
0.1	1.7	GO:0008078	mesodermal cell migration(GO:0008078)
0.0	1.7	GO:0051057	positive regulation of Ras protein signal transduction(GO:0046579) positive regulation of small GTPase mediated signal transduction(GO:0051057)
0.0	1.7	GO:1904029	regulation of cyclin-dependent protein serine/threonine kinase activity(GO:0000079) regulation of cyclin-dependent protein kinase activity(GO:1904029)

Showing 1 to 10 of 98 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	4.7	GO:0030659	cytoplasmic vesicle membrane(GO:0030659)
0.0	4.0	GO:0000323	lytic vacuole(GO:0000323)
0.1	2.3	GO:0000164	protein phosphatase type 1 complex(GO:0000164)
0.0	2.3	GO:0016607	nuclear speck(GO:0016607)
0.5	1.9	GO:1990111	spermatoproteasome complex(GO:1990111)
0.0	1.7	GO:0000307	cyclin-dependent protein kinase holoenzyme complex(GO:0000307)
0.0	1.6	GO:0030173	integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228)
0.2	1.5	GO:0032133	chromosome passenger complex(GO:0032133)
0.2	1.5	GO:0005784	Sec61 translocon complex(GO:0005784)
0.0	1.5	GO:0000786	nucleosome(GO:0000786)

Showing 1 to 10 of 46 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	2.3	GO:2001069	glycogen binding(GO:2001069)
0.1	2.3	GO:0002039	p53 binding(GO:0002039)
0.1	2.3	GO:0009982	pseudouridine synthase activity(GO:0009982)
0.1	2.0	GO:0022884	macromolecule transmembrane transporter activity(GO:0022884)
0.2	1.9	GO:0016504	peptidase activator activity(GO:0016504)
0.4	1.7	GO:0051059	NF-kappaB binding(GO:0051059)
0.0	1.7	GO:0016538	cyclin-dependent protein serine/threonine kinase regulator activity(GO:0016538)
0.3	1.6	GO:0008349	MAP kinase kinase kinase kinase activity(GO:0008349)
0.1	1.6	GO:0030544	Hsp70 protein binding(GO:0030544)
0.2	1.5	GO:0035173	histone kinase activity(GO:0035173)

Showing 1 to 10 of 65 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	2.7	PID TELOMERASE PATHWAY	Regulation of Telomerase
0.0	1.8	PID TNF PATHWAY	TNF receptor signaling pathway
0.1	1.7	PID ATR PATHWAY	ATR signaling pathway
0.1	1.6	PID BARD1 PATHWAY	BARD1 signaling events
0.1	1.5	PID AURORA A PATHWAY	Aurora A signaling
0.0	1.4	PID VEGFR1 2 PATHWAY	Signaling events mediated by VEGFR1 and VEGFR2
0.1	1.2	PID INTEGRIN5 PATHWAY	Beta5 beta6 beta7 and beta8 integrin cell surface interactions
0.1	1.2	SA TRKA RECEPTOR	The TrkA receptor binds nerve growth factor to activate MAP kinase pathways and promote cell growth.
0.0	1.1	PID RHOA REG PATHWAY	Regulation of RhoA activity
0.0	1.0	PID MET PATHWAY	Signaling events mediated by Hepatocyte Growth Factor Receptor (c-Met)

Showing 1 to 10 of 15 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	1.8	REACTOME FANCONI ANEMIA PATHWAY	Genes involved in Fanconi Anemia pathway
0.0	1.6	REACTOME TELOMERE MAINTENANCE	Genes involved in Telomere Maintenance
0.0	1.5	REACTOME APC C CDH1 MEDIATED DEGRADATION OF CDC20 AND OTHER APC C CDH1 TARGETED PROTEINS IN LATE MITOSIS EARLY G1	Genes involved in APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1
0.0	1.4	REACTOME METABOLISM OF VITAMINS AND COFACTORS	Genes involved in Metabolism of vitamins and cofactors
0.1	1.3	REACTOME PRE NOTCH PROCESSING IN GOLGI	Genes involved in Pre-NOTCH Processing in Golgi
0.2	1.2	REACTOME NEGATIVE REGULATION OF THE PI3K AKT NETWORK	Genes involved in Negative regulation of the PI3K/AKT network
0.1	1.2	REACTOME PECAM1 INTERACTIONS	Genes involved in PECAM1 interactions
0.1	1.2	REACTOME PACKAGING OF TELOMERE ENDS	Genes involved in Packaging Of Telomere Ends
0.0	1.1	REACTOME SMOOTH MUSCLE CONTRACTION	Genes involved in Smooth Muscle Contraction
0.0	0.8	REACTOME GLOBAL GENOMIC NER GG NER	Genes involved in Global Genomic NER (GG-NER)

Showing 1 to 10 of 21 entries

Results for ctcf

Z-value: 0.87

Motif logo

Transcription factors associated with ctcf

Activity-expression correlation:

Activity profile of ctcf motif

Sorted Z-values of ctcf motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of ctcf

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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: