ISMARA results: gfi1b

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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for gfi1b

Z-value: 0.81

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Transcription factors associated with gfi1b

Gene Symbol	Gene ID	Gene Info
gfi1b NCBI UniProt	ENSDARG00000079947	growth factor independent 1B transcription repressor

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
gfi1b	dr11_v1_chr21_-_17290941_17290941	-0.30	2.2e-01	Click!

Activity profile of gfi1b motif

Sorted Z-values of gfi1b motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr18_+_15937610 Show fit	1.96	ENSDART00000061134 ENSDART00000154505	itpr2 NCBI UniProt Show fit	inositol 1,4,5-trisphosphate receptor, type 2
chr21_+_7605803 Show fit	1.66	ENSDART00000121813	wdr41 NCBI UniProt Show fit	WD repeat domain 41
chr11_+_31121340 Show fit	1.50	ENSDART00000185172	stx10 NCBI UniProt Show fit	syntaxin 10
chr7_+_69187585 Show fit	1.48	ENSDART00000160499 ENSDART00000166258	marveld3 NCBI UniProt Show fit	MARVEL domain containing 3
chr3_-_36440705 Show fit	1.35	ENSDART00000162875	rogdi NCBI UniProt Show fit	rogdi homolog (Drosophila)
chr3_-_54607166 Show fit	1.27	ENSDART00000021977	dnmt1 NCBI UniProt Show fit	DNA (cytosine-5-)-methyltransferase 1
chr10_-_35257458 Show fit	1.26	ENSDART00000143890 ENSDART00000139107 ENSDART00000082445	prr11 NCBI UniProt Show fit	proline rich 11
chr25_-_17918536 Show fit	1.21	ENSDART00000148660	arntl1a NCBI UniProt Show fit	aryl hydrocarbon receptor nuclear translocator-like 1a
chr5_-_45958838 Show fit	1.20	ENSDART00000135072	poc5 NCBI UniProt Show fit	POC5 centriolar protein homolog (Chlamydomonas)
chr2_+_9821757 Show fit	1.17	ENSDART00000018408 ENSDART00000141227 ENSDART00000144681 ENSDART00000148227	anxa13l NCBI UniProt Show fit	annexin A13, like

Showing 1 to 10 of 179 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of gfi1b

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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	2.3	GO:0051209	release of sequestered calcium ion into cytosol(GO:0051209)
0.1	2.0	GO:0009648	photoperiodism(GO:0009648)
0.2	1.7	GO:2001256	regulation of store-operated calcium entry(GO:2001256)
0.0	1.6	GO:0010506	regulation of autophagy(GO:0010506)
0.5	1.5	GO:0010633	negative regulation of epithelial cell migration(GO:0010633)
0.0	1.5	GO:0048278	vesicle docking(GO:0048278)
0.0	1.5	GO:0006821	chloride transport(GO:0006821)
0.0	1.4	GO:0007050	cell cycle arrest(GO:0007050)
0.3	1.3	GO:0032776	DNA methylation on cytosine(GO:0032776)
0.1	1.3	GO:0032958	inositol phosphate biosynthetic process(GO:0032958)

Showing 1 to 10 of 56 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	2.0	GO:0034751	aryl hydrocarbon receptor complex(GO:0034751)
0.1	2.0	GO:0030667	secretory granule membrane(GO:0030667)
0.0	2.0	GO:0005871	kinesin complex(GO:0005871)
0.0	2.0	GO:0005923	bicellular tight junction(GO:0005923) occluding junction(GO:0070160)
0.1	1.5	GO:0098563	integral component of synaptic vesicle membrane(GO:0030285) intrinsic component of synaptic vesicle membrane(GO:0098563)
0.0	1.5	GO:0034707	chloride channel complex(GO:0034707)
0.0	1.5	GO:0014069	postsynaptic density(GO:0014069)
0.3	1.4	GO:0043291	RAVE complex(GO:0043291)
0.2	1.4	GO:0043527	tRNA methyltransferase complex(GO:0043527)
0.1	1.3	GO:0031209	SCAR complex(GO:0031209)

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	2.6	GO:0005544	calcium-dependent phospholipid binding(GO:0005544)
0.2	2.0	GO:0005220	inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity(GO:0005220)
0.3	1.7	GO:0035256	G-protein coupled glutamate receptor binding(GO:0035256)
0.2	1.5	GO:0072320	volume-sensitive chloride channel activity(GO:0072320)
0.0	1.5	GO:0019707	protein-cysteine S-palmitoyltransferase activity(GO:0019706) protein-cysteine S-acyltransferase activity(GO:0019707)
0.1	1.3	GO:0003886	DNA (cytosine-5-)-methyltransferase activity(GO:0003886)
0.1	1.3	GO:0000828	inositol hexakisphosphate kinase activity(GO:0000828)
0.0	1.3	GO:0003730	mRNA 3'-UTR binding(GO:0003730)
0.0	1.2	GO:0005484	SNAP receptor activity(GO:0005484)
0.3	1.1	GO:0051377	mannose-ethanolamine phosphotransferase activity(GO:0051377)

Showing 1 to 10 of 44 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	2.0	ST WNT CA2 CYCLIC GMP PATHWAY	Wnt/Ca2+/cyclic GMP signaling.
0.0	2.0	PID RB 1PATHWAY	Regulation of retinoblastoma protein
0.0	1.4	PID KIT PATHWAY	Signaling events mediated by Stem cell factor receptor (c-Kit)
0.0	0.7	PID ERB GENOMIC PATHWAY	Validated nuclear estrogen receptor beta network
0.0	0.7	PID ATM PATHWAY	ATM pathway
0.0	0.7	PID TELOMERASE PATHWAY	Regulation of Telomerase
0.0	0.6	PID HNF3B PATHWAY	FOXA2 and FOXA3 transcription factor networks
0.0	0.5	PID P38 MK2 PATHWAY	p38 signaling mediated by MAPKAP kinases
0.0	0.4	PID ECADHERIN NASCENT AJ PATHWAY	E-cadherin signaling in the nascent adherens junction
0.0	0.2	PID RET PATHWAY	Signaling events regulated by Ret tyrosine kinase

Showing 1 to 10 of 10 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	2.0	REACTOME ELEVATION OF CYTOSOLIC CA2 LEVELS	Genes involved in Elevation of cytosolic Ca2+ levels
0.1	1.5	REACTOME PROTEOLYTIC CLEAVAGE OF SNARE COMPLEX PROTEINS	Genes involved in Proteolytic cleavage of SNARE complex proteins
0.0	1.3	REACTOME DIABETES PATHWAYS	Genes involved in Diabetes pathways
0.1	1.1	REACTOME SYNTHESIS OF GLYCOSYLPHOSPHATIDYLINOSITOL GPI	Genes involved in Synthesis of glycosylphosphatidylinositol (GPI)
0.0	0.7	REACTOME YAP1 AND WWTR1 TAZ STIMULATED GENE EXPRESSION	Genes involved in YAP1- and WWTR1 (TAZ)-stimulated gene expression
0.0	0.7	REACTOME PROCESSING OF INTRONLESS PRE MRNAS	Genes involved in Processing of Intronless Pre-mRNAs
0.0	0.7	REACTOME HOMOLOGOUS RECOMBINATION REPAIR OF REPLICATION INDEPENDENT DOUBLE STRAND BREAKS	Genes involved in Homologous recombination repair of replication-independent double-strand breaks
0.0	0.7	REACTOME ION TRANSPORT BY P TYPE ATPASES	Genes involved in Ion transport by P-type ATPases
0.0	0.6	REACTOME REGULATION OF GENE EXPRESSION IN BETA CELLS	Genes involved in Regulation of gene expression in beta cells
0.0	0.6	REACTOME SIGNALING BY CONSTITUTIVELY ACTIVE EGFR	Genes involved in Signaling by constitutively active EGFR

Showing 1 to 10 of 17 entries

Results for gfi1b

Z-value: 0.81

Motif logo

Transcription factors associated with gfi1b

Activity-expression correlation:

Activity profile of gfi1b motif

Sorted Z-values of gfi1b motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of gfi1b

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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: