Worg
Enrichment pipeline

Enrichment pipeline

Current Inputs

input background
/home/nceglia/codebase/projects/breast-cancer/website/ts.txt background

The gene IDs converted to UNIPROT_ACCESSION are:

ARHGEF18 Q6P9R4
MPP5 Q9JLB2
WWOX Q91WL8

The background gene IDs converted to UNIPROT_ACCESSION are: 

N/A

Number of genes submitted: 

4

Number of genes matched to UNIPROT_ACCESSION: 

3

Number of background genes submited: 

N/A

Number of background genes matched to UNIPROT_ACCESSION: 

N/A

The gene ID type is 

OFFICIAL_GENE_SYMBOL

The genome build is 

mm9

The TFBS build is 

3kb_up_1kb_down_promoter_hits_BBLS_1_0_FDR_0_2_detailed.tsv

The TF enrichment cutoff is 

0.1

Enrichment analysis

GO enrichment

Genes with GO terms

ARHGEF18 Q6P9R4 Q6P9R4 ['GO:0005089', 'GO:0005543', 'GO:0005737', 'GO:0035023'] ['Alternative splicing', 'Coiled coil', 'Complete proteome', 'Cytoplasm', 'Guanine-nucleotide releasing factor', 'Phosphoprotein', 'Reference proteome']
MPP5 Q9JLB2 Q9JLB2 ['GO:0005923', 'GO:0012505', 'GO:0032287', 'GO:0035749', 'GO:0035750', 'GO:0043219', 'GO:0043220'] ['3D-structure', 'Cell junction', 'Cell membrane', 'Complete proteome', 'Membrane', 'Phosphoprotein', 'Reference proteome', 'Repeat', 'SH3 domain', 'Tight junction']
WWOX Q91WL8 Q91WL8 ['GO:0000166', 'GO:0001649', 'GO:0005634', 'GO:0005739', 'GO:0006915', 'GO:0006917', 'GO:0016055', 'GO:0016491', 'GO:0019899', 'GO:0030178', 'GO:0045944', 'GO:0048705', 'GO:0071560'] ['Alternative splicing', 'Apoptosis', 'Complete proteome', 'Cytoplasm', 'Mitochondrion', 'NADP', 'Nucleus', 'Oxidoreductase', 'Phosphoprotein', 'Reference proteome', 'Repeat', 'Tumor suppressor', 'Ubl conjugation', 'Wnt signaling pathway']

Genes with TF GO terms

GO keywords = ['Transcription factor']

DAVID Enrichment

id categoryName termName percent benjamini

Full DAVID report

TFs upstream of genes

  V1 V2 V3 names.targets.motifs.full.
3 Q9JLB2 MPP5 [] []
2 Q91WL8 WWOX ['uc009noc.2', 'uc009nod.2'] [('ETS2', -1652), ('ETS2', -1514), ('SOX5', -1356), ('SOX5', -239), ('RFX1', -218), ('HNF4', 622)]
1 Q6P9R4 ARHGEF18 ['uc009kri.1', 'uc009krj.1', 'uc009krk.1'] [('AP-1', -2525), ('AP-1', -2525), ('AP-1', -2525), ('NF-E2', -2524), ('MAFA', -2519), ('myogenin', -2025), ('HNF4', -2021), ('HNF4', -832), ('ETS2', -584), ('NF-Y', -229), ('NRF-1', -112), ('NRF-1', -95), ('NRF-1', -93), ('HNF4', 447), ('AP-1', 596), ('hbp1', 752)]

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TFBS enrichment

  TFBS.in.list TFBS.in.genome List.size..bp. Genome.size..bp. Motif.uniprot Motif.accession Odd.ratio Positive.enriched Negative.enriched pVal Pos..significant Neg..significant Target.uniprots Target.distances
AP-1 4 893 12003 113648405 P01101 M00517 42.417919576439 TRUE FALSE 3.09318586290126e-06 TRUE FALSE Q9JLB2, Q9JLB2, Q9JLB2, Q9JLB2 -2525, -2525, -2525, 596
NF-E2 1 145 12003 113648405 Q07279 M00037 65.2870017366911 TRUE FALSE 0.0153019971575957 TRUE FALSE Q9JLB2 -2524
NRF-1 3 5110 12003 113648405 Q9WU00 M00652 5.55857742000002 TRUE FALSE 0.0175991085612828 TRUE FALSE Q9JLB2, Q9JLB2, Q9JLB2 -112, -95, -93
hbp1 1 482 12003 113648405 Q8R316 M01661 19.6455056756911 TRUE FALSE 0.0497342469338624 TRUE FALSE Q9JLB2 752
RFX1 1 865 12003 113648405 P48377 M00281 10.9475253135018 TRUE FALSE 0.0874069372734771 TRUE FALSE Q91WL8 -218

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TFBS enrichment for TFs in list

  TFBS.in.list TFBS.in.genome List.size..bp. Genome.size..bp. Motif.uniprot Motif.accession Odd.ratio Positive.enriched Negative.enriched pVal Pos..significant Neg..significant Target.uniprots Target.distances

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Output Networks

Initial network

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TFs in network

TF connected network

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TF edges in network

Enriched TF connected network

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TF edges in network