ISMARA results: Hoxa1

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Hoxa1

Z-value: 1.37

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Transcription factors associated with Hoxa1

Gene Symbol	Gene ID	Gene Info
Hoxa1 NCBI RGD Ensembl	ENSRNOG00000005628	homeo box A1

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Hoxa1	rn6_v1_chr4_-_82127051_82127066	0.14	1.3e-02	Click!

Activity profile of Hoxa1 motif

Sorted Z-values of Hoxa1 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr10_-_96131880 Show fit	78.49	ENSRNOT00000004578	Cacng5 NCBI RGD Ensembl Show fit	calcium voltage-gated channel auxiliary subunit gamma 5
chr4_-_184096806 Show fit	74.49	ENSRNOT00000055433	LOC100362344 NCBI RGD Ensembl Show fit	mKIAA1238 protein-like
chr9_-_88256115 Show fit	73.28	ENSRNOT00000076472	Col4a4 NCBI RGD Ensembl Show fit	collagen type IV alpha 4 chain
chr8_+_13796021 Show fit	72.75	ENSRNOT00000013927	Vstm5 NCBI RGD Ensembl Show fit	V-set and transmembrane domain containing 5
chr3_+_154863072 Show fit	58.49	ENSRNOT00000055200	Snhg11 NCBI RGD Ensembl Show fit	small nucleolar RNA host gene 11
chr11_-_64421248 Show fit	54.15	ENSRNOT00000066997	Igsf11 NCBI RGD Ensembl Show fit	immunoglobulin superfamily, member 11
chr3_+_51883559 Show fit	42.63	ENSRNOT00000007197	Csrnp3 NCBI RGD Ensembl Show fit	cysteine and serine rich nuclear protein 3
chr15_-_88036354 Show fit	41.88	ENSRNOT00000014747	Ednrb NCBI RGD Ensembl Show fit	endothelin receptor type B
chr1_-_170397191 Show fit	41.19	ENSRNOT00000090181	Apbb1 NCBI RGD Ensembl Show fit	amyloid beta precursor protein binding family B member 1
chr4_-_155275161 Show fit	40.17	ENSRNOT00000032690	Rimklb NCBI RGD Ensembl Show fit	ribosomal modification protein rimK-like family member B

Showing 1 to 10 of 90 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Hoxa1

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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
6.4	82.9	GO:0032836	glomerular basement membrane development(GO:0032836)
0.0	79.1	GO:0036211	cellular protein modification process(GO:0006464) protein modification process(GO:0036211)
2.9	78.5	GO:2000311	regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity(GO:2000311)
0.1	43.4	GO:0040008	regulation of growth(GO:0040008)
0.5	42.6	GO:0010923	negative regulation of phosphatase activity(GO:0010923)
10.5	41.9	GO:0014826	vein smooth muscle contraction(GO:0014826)
0.7	41.2	GO:0045739	positive regulation of DNA repair(GO:0045739)
2.8	39.1	GO:0006705	mineralocorticoid biosynthetic process(GO:0006705)
1.6	35.7	GO:0060992	response to fungicide(GO:0060992)
0.8	35.2	GO:1901381	positive regulation of potassium ion transmembrane transport(GO:1901381)

Showing 1 to 10 of 51 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	92.1	GO:0070062	extracellular exosome(GO:0070062)
2.8	85.7	GO:0032281	AMPA glutamate receptor complex(GO:0032281)
0.0	82.1	GO:0005737	cytoplasm(GO:0005737)
0.0	78.9	GO:0016021	integral component of membrane(GO:0016021)
9.4	75.2	GO:0098645	collagen type IV trimer(GO:0005587) network-forming collagen trimer(GO:0098642) collagen network(GO:0098645)
0.1	51.5	GO:0098857	membrane raft(GO:0045121) membrane microdomain(GO:0098857)
0.1	43.2	GO:0005789	endoplasmic reticulum membrane(GO:0005789)
10.3	41.2	GO:1990761	growth cone lamellipodium(GO:1990761) growth cone filopodium(GO:1990812)
0.1	40.8	GO:0014069	postsynaptic density(GO:0014069)
6.0	35.7	GO:0032983	kainate selective glutamate receptor complex(GO:0032983)

Showing 1 to 10 of 34 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
38.2	114.7	GO:0072590	N-acetyl-L-aspartate-L-glutamate ligase activity(GO:0072590)
1.4	91.3	GO:0005201	extracellular matrix structural constituent(GO:0005201)
1.4	78.5	GO:0005245	voltage-gated calcium channel activity(GO:0005245)
12.4	61.8	GO:0004971	AMPA glutamate receptor activity(GO:0004971)
8.4	41.9	GO:0004962	endothelin receptor activity(GO:0004962)
2.0	41.2	GO:0048156	tau protein binding(GO:0048156)
1.4	39.1	GO:0008395	steroid hydroxylase activity(GO:0008395)
0.1	36.3	GO:0001228	transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001228)
3.4	33.9	GO:0008239	dipeptidyl-peptidase activity(GO:0008239)
0.3	28.0	GO:0005178	integrin binding(GO:0005178)

Showing 1 to 10 of 46 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.5	75.0	PID SYNDECAN 1 PATHWAY	Syndecan-1-mediated signaling events
0.7	41.9	PID ARF6 TRAFFICKING PATHWAY	Arf6 trafficking events
0.5	41.2	PID ERA GENOMIC PATHWAY	Validated nuclear estrogen receptor alpha network
0.1	28.0	NABA ECM GLYCOPROTEINS	Genes encoding structural ECM glycoproteins
0.4	25.4	PID AJDISS 2PATHWAY	Posttranslational regulation of adherens junction stability and dissassembly
0.4	16.3	PID EPHB FWD PATHWAY	EPHB forward signaling
0.6	16.2	PID RHODOPSIN PATHWAY	Visual signal transduction: Rods
0.2	15.6	PID MYC REPRESS PATHWAY	Validated targets of C-MYC transcriptional repression
0.4	15.3	PID FRA PATHWAY	Validated transcriptional targets of AP1 family members Fra1 and Fra2
0.4	15.1	PID REELIN PATHWAY	Reelin signaling pathway

Showing 1 to 10 of 17 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.7	75.0	REACTOME NCAM1 INTERACTIONS	Genes involved in NCAM1 interactions
3.5	63.2	REACTOME UNBLOCKING OF NMDA RECEPTOR GLUTAMATE BINDING AND ACTIVATION	Genes involved in Unblocking of NMDA receptor, glutamate binding and activation
0.3	45.3	REACTOME G ALPHA Q SIGNALLING EVENTS	Genes involved in G alpha (q) signalling events
0.4	20.6	REACTOME NETRIN1 SIGNALING	Genes involved in Netrin-1 signaling
0.7	16.2	REACTOME G BETA GAMMA SIGNALLING THROUGH PLC BETA	Genes involved in G beta:gamma signalling through PLC beta
0.2	12.9	REACTOME AMINO ACID AND OLIGOPEPTIDE SLC TRANSPORTERS	Genes involved in Amino acid and oligopeptide SLC transporters
0.2	11.9	REACTOME GLUCOSE TRANSPORT	Genes involved in Glucose transport
0.1	8.6	REACTOME RESPONSE TO ELEVATED PLATELET CYTOSOLIC CA2	Genes involved in Response to elevated platelet cytosolic Ca2+
0.1	8.4	REACTOME G ALPHA I SIGNALLING EVENTS	Genes involved in G alpha (i) signalling events
0.2	4.8	REACTOME REGULATION OF INSULIN LIKE GROWTH FACTOR IGF ACTIVITY BY INSULIN LIKE GROWTH FACTOR BINDING PROTEINS IGFBPS	Genes involved in Regulation of Insulin-like Growth Factor (IGF) Activity by Insulin-like Growth Factor Binding Proteins (IGFBPs)

Showing 1 to 10 of 15 entries

Results for Hoxa1

Z-value: 1.37

Motif logo

Transcription factors associated with Hoxa1

Activity-expression correlation:

Activity profile of Hoxa1 motif

Sorted Z-values of Hoxa1 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Hoxa1

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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: