ISMARA results: hoxa11b

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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for hoxa11b

Z-value: 1.17

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Transcription factors associated with hoxa11b

Gene Symbol	Gene ID	Gene Info
hoxa11b NCBI UniProt	ENSDARG00000007009	homeobox A11b

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
hoxa11b	dr11_v1_chr16_+_20904754_20904754	-0.71	8.6e-04	Click!

Activity profile of hoxa11b motif

Sorted Z-values of hoxa11b motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr6_+_28208973 Show fit	3.94	ENSDART00000171216 ENSDART00000171377 ENSDART00000167389 ENSDART00000166988	LSM2 (1 of many) NCBI UniProt Show fit	si:ch73-14h10.2
chr7_+_1473929 Show fit	3.89	ENSDART00000050687	lpcat4 NCBI UniProt Show fit	lysophosphatidylcholine acyltransferase 4
chr16_+_29509133 Show fit	3.13	ENSDART00000112116	ctss2.1 NCBI UniProt Show fit	cathepsin S, ortholog2, tandem duplicate 1
chr23_+_2666944 Show fit	3.00	ENSDART00000192861	CABZ01057928.1 NCBI UniProt Show fit
chr3_-_26184018 Show fit	2.94	ENSDART00000191604	si:ch211-11k18.4 NCBI UniProt Show fit	si:ch211-11k18.4
chr3_-_26183699 Show fit	2.85	ENSDART00000147517 ENSDART00000140731	si:ch211-11k18.4 NCBI UniProt Show fit	si:ch211-11k18.4
chr2_+_16597011 Show fit	2.80	ENSDART00000160641 ENSDART00000125413	xrn1 NCBI UniProt Show fit	5'-3' exoribonuclease 1
chr1_-_6028876 Show fit	2.69	ENSDART00000168117	si:ch1073-345a8.1 NCBI UniProt Show fit	si:ch1073-345a8.1
chr8_+_12951155 Show fit	2.67	ENSDART00000081601	cept1a NCBI UniProt Show fit	choline/ethanolamine phosphotransferase 1a
chr14_+_32918172 Show fit	2.64	ENSDART00000182867	lnx2b NCBI UniProt Show fit	ligand of numb-protein X 2b

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of hoxa11b

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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	5.3	GO:0007034	vacuolar transport(GO:0007034)
0.5	5.2	GO:0006659	phosphatidylserine biosynthetic process(GO:0006659)
0.5	5.2	GO:0009263	deoxyribonucleotide biosynthetic process(GO:0009263)
0.0	4.8	GO:0000398	RNA splicing, via transesterification reactions(GO:0000375) RNA splicing, via transesterification reactions with bulged adenosine as nucleophile(GO:0000377) mRNA splicing, via spliceosome(GO:0000398)
0.2	4.0	GO:0035459	cargo loading into vesicle(GO:0035459)
0.5	3.8	GO:0006646	phosphatidylethanolamine biosynthetic process(GO:0006646)
0.2	3.6	GO:0043001	Golgi to plasma membrane protein transport(GO:0043001)
0.3	3.4	GO:0072386	plus-end-directed vesicle transport along microtubule(GO:0072383) plus-end-directed organelle transport along microtubule(GO:0072386)
0.2	3.2	GO:0006491	N-glycan processing(GO:0006491)
0.2	3.0	GO:0016075	rRNA catabolic process(GO:0016075)

Showing 1 to 10 of 235 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	10.0	GO:0005764	lysosome(GO:0005764)
0.0	6.5	GO:0005789	endoplasmic reticulum membrane(GO:0005789)
0.1	4.0	GO:0000932	cytoplasmic mRNA processing body(GO:0000932)
0.1	3.8	GO:0070971	endoplasmic reticulum exit site(GO:0070971)
0.0	3.6	GO:0000139	Golgi membrane(GO:0000139)
0.2	3.1	GO:0034993	microtubule organizing center attachment site(GO:0034992) LINC complex(GO:0034993)
0.7	2.9	GO:0017177	glucosidase II complex(GO:0017177)
0.1	2.5	GO:0000164	protein phosphatase type 1 complex(GO:0000164)
0.0	2.5	GO:0005643	nuclear pore(GO:0005643)
0.1	2.3	GO:0031970	mitochondrial intermembrane space(GO:0005758) organelle envelope lumen(GO:0031970)

Showing 1 to 10 of 101 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	7.2	GO:0004197	cysteine-type endopeptidase activity(GO:0004197)
0.7	5.2	GO:0004748	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)
0.8	3.8	GO:0004142	diacylglycerol cholinephosphotransferase activity(GO:0004142) ethanolaminephosphotransferase activity(GO:0004307)
0.1	3.6	GO:0008408	3'-5' exonuclease activity(GO:0008408)
0.1	2.9	GO:0004198	calcium-dependent cysteine-type endopeptidase activity(GO:0004198)
0.7	2.8	GO:0004534	5'-3' exoribonuclease activity(GO:0004534)
0.4	2.6	GO:0000014	single-stranded DNA endodeoxyribonuclease activity(GO:0000014)
0.1	2.6	GO:0001540	beta-amyloid binding(GO:0001540)
0.2	2.5	GO:2001069	glycogen binding(GO:2001069)
0.3	2.4	GO:0046974	histone methyltransferase activity (H3-K9 specific)(GO:0046974)

Showing 1 to 10 of 179 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	4.9	PID E2F PATHWAY	E2F transcription factor network
0.1	4.0	PID FOXO PATHWAY	FoxO family signaling
0.1	3.3	PID ERA GENOMIC PATHWAY	Validated nuclear estrogen receptor alpha network
0.0	3.1	WNT SIGNALING	Genes related to Wnt-mediated signal transduction
0.1	2.8	PID AURORA B PATHWAY	Aurora B signaling
0.1	2.6	PID NCADHERIN PATHWAY	N-cadherin signaling events
0.1	2.6	PID RAC1 REG PATHWAY	Regulation of RAC1 activity
0.0	2.5	NABA SECRETED FACTORS	Genes encoding secreted soluble factors
0.1	2.3	PID RHOA REG PATHWAY	Regulation of RhoA activity
0.1	1.8	PID ATM PATHWAY	ATM pathway

Showing 1 to 10 of 31 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	5.2	REACTOME SYNTHESIS AND INTERCONVERSION OF NUCLEOTIDE DI AND TRIPHOSPHATES	Genes involved in Synthesis and interconversion of nucleotide di- and triphosphates
0.7	3.7	REACTOME ACYL CHAIN REMODELLING OF PS	Genes involved in Acyl chain remodelling of PS
0.2	3.0	REACTOME DESTABILIZATION OF MRNA BY BRF1	Genes involved in Destabilization of mRNA by Butyrate Response Factor 1 (BRF1)
0.3	2.9	REACTOME ADVANCED GLYCOSYLATION ENDPRODUCT RECEPTOR SIGNALING	Genes involved in Advanced glycosylation endproduct receptor signaling
0.1	2.4	REACTOME PTM GAMMA CARBOXYLATION HYPUSINE FORMATION AND ARYLSULFATASE ACTIVATION	Genes involved in PTM: gamma carboxylation, hypusine formation and arylsulfatase activation
0.1	2.4	REACTOME G1 PHASE	Genes involved in G1 Phase
0.2	2.0	REACTOME SYNTHESIS SECRETION AND INACTIVATION OF GLP1	Genes involved in Synthesis, Secretion, and Inactivation of Glucagon-like Peptide-1 (GLP-1)
0.2	1.8	REACTOME EARLY PHASE OF HIV LIFE CYCLE	Genes involved in Early Phase of HIV Life Cycle
0.1	1.8	REACTOME TRYPTOPHAN CATABOLISM	Genes involved in Tryptophan catabolism
0.1	1.6	REACTOME RECRUITMENT OF NUMA TO MITOTIC CENTROSOMES	Genes involved in Recruitment of NuMA to mitotic centrosomes

Showing 1 to 10 of 57 entries

Results for hoxa11b

Z-value: 1.17

Motif logo

Transcription factors associated with hoxa11b

Activity-expression correlation:

Activity profile of hoxa11b motif

Sorted Z-values of hoxa11b motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of hoxa11b

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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: