Table 2

Pathways analysis between the ETS1 distal and promoter peaks.

Distal Peaks

Promoter peaks


T/B cell related

Gene Ontology

Leukocyte differentiation, GO:0002521

p < 0.001

p < 1

Lymphocyte activation, GO:0046649

p < 0.001

p < 1

Hemopoiesis, GO:0030097

p < 0.001

p < 1

Hemopoietic or lymphoid organ development, GO:0048534

p < 0.001

p < 1

Immune response, GO:0006955

p < 0.01

p < 1

Immune system development, GO:0002520

p < 0.01

p < 1

B cell proliferation, GO:0042100

p < 0.01

p < 1

B cell activation, GO:0042113

p < 0.001

p < 1


Others

Biopolymer catabolic process, GO:0043285

p < 1

p < 1e-29

RNA splicing, GO:0008380

p < 1

p < 1e-50

DNA metabolic process, GO:0006259

p < 1

p < 1e-29


T/B cell related

SignatureDB

Tcell_PIind_CalciumDefPtdown4x_Feske_Fig6

p < 1e-05

p < 1

CD40_upregulated_Burkitt_lymphoma

p < 0.001

p < 1

CD40_downregulated_Burkitt_lymphoma

p < 0.01

p < 1

Pax5_repressed

p < 0.01

p < 1

Tcell_PIind4x_Feske_Fig6

p < 1e-08

p < 1

Tcell_PIind_CsAdown4x

p < 1e-04

p < 1


Others

Ribosomal_protein

p < 1

p < 1e-06

Myeloma_PR_subgroup_up

p < 1

p < 1e-05


The table shows some of the pathways and lymphoma-related signatures that were found enriched in the distal peaks and the promoter peaks groups. The distal peaks group was highly associated with T cell and B cell related ontologies and signatures, while for the promoter peaks group more general and housekeeping categories were enriched. The Gene Ontology and the SignatureDB gene expression signatures were used for this analysis (ChIPseeqeriPAGE module). The p-values for each pathway for both groups are also shown.

Giannopoulou and Elemento BMC Bioinformatics 2011 12:277   doi:10.1186/1471-2105-12-277

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