ISMARA results: SHOX2

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GNF SymAtlas + NCI-60 cancer cell lines, human (Su, 2004; Ross, 2000)

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Results for SHOX2_HOXC5

Z-value: 1.29

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Transcription factors associated with SHOX2_HOXC5

Gene Symbol	Gene ID	Gene Info
SHOX2 Ensembl NCBI GeneCards UniProt NextProt	ENSG00000168779.15	short stature homeobox 2
HOXC5 Ensembl NCBI GeneCards UniProt NextProt	ENSG00000172789.3	homeobox C5

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
SHOX2	hg19_v2_chr3_-_157824292_157824334	-0.40	9.7e-10	Click!
HOXC5	hg19_v2_chr12_+_54426637_54426637	-0.07	2.8e-01	Click!

Activity profile of SHOX2_HOXC5 motif

Sorted Z-values of SHOX2_HOXC5 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr2_-_89292422 Show fit	31.06	ENST00000495489.1	IGKV1-8 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin kappa variable 1-8
chr6_-_32557610 Show fit	30.36	ENST00000360004.5	HLA-DRB1 Ensembl NCBI GeneCards UniProt NextProt Show fit	major histocompatibility complex, class II, DR beta 1
chr2_+_90108504 Show fit	29.71	ENST00000390271.2	IGKV6D-41 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin kappa variable 6D-41 (non-functional)
chr2_+_90077680 Show fit	29.35	ENST00000390270.2	IGKV3D-20 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin kappa variable 3D-20
chr1_-_153518270 Show fit	24.44	ENST00000354332.4 ENST00000368716.4	S100A4 Ensembl NCBI GeneCards UniProt NextProt Show fit	S100 calcium binding protein A4
chr2_-_89385283 Show fit	23.93	ENST00000390252.2	IGKV3-15 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin kappa variable 3-15
chr2_-_89340242 Show fit	23.52	ENST00000480492.1	IGKV1-12 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin kappa variable 1-12
chr2_+_90198535 Show fit	23.50	ENST00000390276.2	IGKV1D-12 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin kappa variable 1D-12
chr2_-_89247338 Show fit	22.63	ENST00000496168.1	IGKV1-5 Ensembl NCBI GeneCards UniProt NextProt Show fit	immunoglobulin kappa variable 1-5
chr11_+_35201826 Show fit	22.53	ENST00000531873.1	CD44 Ensembl NCBI GeneCards UniProt NextProt Show fit	CD44 molecule (Indian blood group)

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of SHOX2_HOXC5

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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
2.2	332.4	GO:0006958	complement activation, classical pathway(GO:0006958)
1.0	161.8	GO:0002377	immunoglobulin production(GO:0002377)
0.4	56.9	GO:0006613	cotranslational protein targeting to membrane(GO:0006613)
1.0	45.8	GO:0070979	protein K11-linked ubiquitination(GO:0070979)
8.4	42.2	GO:0002399	MHC class II protein complex assembly(GO:0002399)
5.6	39.1	GO:0097577	intracellular sequestering of iron ion(GO:0006880) sequestering of iron ion(GO:0097577)
0.3	33.8	GO:0051225	spindle assembly(GO:0051225)
0.9	30.9	GO:0006376	mRNA splice site selection(GO:0006376)
3.4	30.4	GO:1903265	positive regulation of tumor necrosis factor-mediated signaling pathway(GO:1903265)
6.9	27.7	GO:0050717	positive regulation of interleukin-1 alpha secretion(GO:0050717)

Showing 1 to 10 of 368 entries

Gene overrepresentation in cellular_component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	133.6	GO:0005615	extracellular space(GO:0005615)
0.4	80.8	GO:0072562	blood microparticle(GO:0072562)
1.3	66.7	GO:0042571	immunoglobulin complex, circulating(GO:0042571)
9.3	55.6	GO:0072557	IPAF inflammasome complex(GO:0072557)
2.1	42.6	GO:0042613	MHC class II protein complex(GO:0042613)
0.4	41.2	GO:0022625	cytosolic large ribosomal subunit(GO:0022625)
0.2	39.3	GO:0101002	ficolin-1-rich granule(GO:0101002) ficolin-1-rich granule lumen(GO:1904813)
5.6	39.1	GO:0044326	dendritic spine neck(GO:0044326)
0.1	34.6	GO:0016607	nuclear speck(GO:0016607)
0.1	34.2	GO:0030529	intracellular ribonucleoprotein complex(GO:0030529)

Showing 1 to 10 of 207 entries

Gene overrepresentation in molecular_function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
2.2	503.8	GO:0003823	antigen binding(GO:0003823)
0.3	69.7	GO:0003735	structural constituent of ribosome(GO:0003735)
4.2	58.2	GO:0050700	CARD domain binding(GO:0050700)
1.1	49.8	GO:0061631	ubiquitin conjugating enzyme activity(GO:0061631) ubiquitin-like protein conjugating enzyme activity(GO:0061650)
1.0	37.7	GO:0004198	calcium-dependent cysteine-type endopeptidase activity(GO:0004198)
3.4	26.9	GO:0032137	guanine/thymine mispair binding(GO:0032137)
0.2	26.8	GO:0003729	mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822)
1.2	24.4	GO:0050786	RAGE receptor binding(GO:0050786)
0.6	22.1	GO:0017025	TBP-class protein binding(GO:0017025)
0.1	22.0	GO:0003714	transcription corepressor activity(GO:0003714)

Showing 1 to 10 of 255 entries

Gene overrepresentation in C2:CP category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.2	62.9	PID BARD1 PATHWAY	BARD1 signaling events
0.9	43.7	PID IL12 STAT4 PATHWAY	IL12 signaling mediated by STAT4
1.2	32.4	PID ANTHRAX PATHWAY	Cellular roles of Anthrax toxin
0.2	30.2	PID P53 DOWNSTREAM PATHWAY	Direct p53 effectors
0.8	22.5	SA MMP CYTOKINE CONNECTION	Cytokines can induce activation of matrix metalloproteinases, which degrade extracellular matrix.
0.5	21.4	NABA COLLAGENS	Genes encoding collagen proteins
0.3	20.8	PID TNF PATHWAY	TNF receptor signaling pathway
0.2	15.1	PID CDC42 PATHWAY	CDC42 signaling events
0.4	14.3	PID ATM PATHWAY	ATM pathway
0.1	11.4	PID CASPASE PATHWAY	Caspase cascade in apoptosis

Showing 1 to 10 of 66 entries

Gene overrepresentation in C2:CP:REACTOME category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.4	67.3	REACTOME NOD1 2 SIGNALING PATHWAY	Genes involved in NOD1/2 Signaling Pathway
0.6	61.7	REACTOME ACTIVATION OF THE MRNA UPON BINDING OF THE CAP BINDING COMPLEX AND EIFS AND SUBSEQUENT BINDING TO 43S	Genes involved in Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S
1.3	47.4	REACTOME OXYGEN DEPENDENT PROLINE HYDROXYLATION OF HYPOXIA INDUCIBLE FACTOR ALPHA	Genes involved in Oxygen-dependent Proline Hydroxylation of Hypoxia-inducible Factor Alpha
0.4	41.1	REACTOME ANTIGEN PROCESSING CROSS PRESENTATION	Genes involved in Antigen processing-Cross presentation
0.4	39.8	REACTOME 3 UTR MEDIATED TRANSLATIONAL REGULATION	Genes involved in 3' -UTR-mediated translational regulation
1.5	33.8	REACTOME TRANSLOCATION OF ZAP 70 TO IMMUNOLOGICAL SYNAPSE	Genes involved in Translocation of ZAP-70 to Immunological synapse
0.5	33.0	REACTOME MEIOTIC RECOMBINATION	Genes involved in Meiotic Recombination
1.2	23.6	REACTOME HYALURONAN UPTAKE AND DEGRADATION	Genes involved in Hyaluronan uptake and degradation
0.1	21.8	REACTOME SIGNALING BY RHO GTPASES	Genes involved in Signaling by Rho GTPases
0.3	20.8	REACTOME COLLAGEN FORMATION	Genes involved in Collagen formation

Showing 1 to 10 of 106 entries

Results for SHOX2_HOXC5

Z-value: 1.29

Motif logo

Transcription factors associated with SHOX2_HOXC5

Activity-expression correlation:

Activity profile of SHOX2_HOXC5 motif

Sorted Z-values of SHOX2_HOXC5 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of SHOX2_HOXC5

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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 C2:CP category:

Gene overrepresentation in C2:CP:REACTOME category: