DNA methylation biomarkers for hepatocellular carcinoma

Table 1 Gene ontology analysis of aberrantly methylated-differentially expressed genes in hepatocellular carcinoma

Category	ID	Term	Gene count	False discovery rate
Hypomethylation and high expression
BP	GO.0051983	Regulation of chromosome segregation	13	3.94E−20
BP	GO.0030071	Regulation of mitotic metaphase/anaphase transition	12	4.44E−20
BP	GO.0007094	Mitotic spindle assembly checkpoint	11	1.30E−19
BP	GO.0007088	Regulation of mitotic nuclear division	14	3.88E−19
BP	GO.0010564	Regulation of cell cycle process	17	2.77E−15
CC	GO.0000793	Condensed chromosome	10	3.89E−10
CC	GO.0005819	Spindle	11	6.30E−10
CC	GO.0031461	Cullin-RING ubiquitin ligase complex	7	1.34E−07
CC	GO.0005813	Centrosome	8	0.00011
CC	GO.0044430	Cytoskeletal part	12	0.000143
MF	GO.0048495	Roundabout binding	3	0.000105
MF	GO.0035173	Histone kinase activity	3	0.0059
MF	GO.0005515	protein binding	21	0.0083
Hypermethylation and low expression
BP	GO.0042127	Regulation of cell proliferation	15	1.97E−06
BP	GO.0010468	Regulation of gene expression	19	0.000139
BP	GO.0009968	Negative regulation of signal transduction	10	0.000642
BP	GO.0000082	G1/S transition of mitotic cell cycle	5	0.00149
BP	GO.0051726	Regulation of cell cycle	9	0.00149
CC	GO.0097458	Neuron part	10	0.00143
CC	GO.0045202	Synapse	7	0.00802
CC	GO.0070013	Intracellular organelle lumen	16	0.0137
CC	GO.0005694	Chromosome	7	0.0138
CC	GO.0005654	Nucleoplasm	13	0.0149
MF	GO.0030332	Cyclin binding	4	4.14E−05
MF	GO.0005515	Protein binding	21	0.000265
MF	GO.0004871	Signal transducer activity	11	0.00462
MF	GO.0005102	Receptor binding	10	0.00462
MF	GO.0016538	Cyclin-dependent protein serine/threonine kinase regulator activity	3	0.00462

ISSN: 1475-2867